
R version 2.10.1 (2009-12-14)
Copyright (C) 2009 The R Foundation for Statistical Computing
ISBN 3-900051-07-0

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> source("/xchip/tcga/gdac_prod/applications/process_mgmt/firehose_task_registry/tcga-gdac/Correlate_Clinical_Cnvsarms_onlysig/broadinstitute.org/cancer.genome.analysis/00498/19/CNV2ClinicalAnalysis_nozzle_onlysig_arm.R")
> result <- main("/xchip/tcga/gdac_prod/applications/process_mgmt/firehose_task_registry/tcga-gdac/Correlate_Clinical_Cnvsarms_onlysig/broadinstitute.org/cancer.genome.analysis/00498/19/", "-nF=/xchip/tcga/Tools/Nozzle/v1.current", "-iD=/xchip/cga/gdac-prod/tcga-gdac/jobResults/cnvarms2cluster/BLCA-TP/2860836/broad_values_by_arm.mutsig.cluster.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataPickerPipeline/BLCA-TP/2842833/1.GDAC_clinicalDataPicker.Finished/BLCA-TP.clin.merged.picked.txt", "-fF=", "-fC=3", "-fH=5", "-fW=9", "-fP=OUT", "-cP=1", "-cQ=0.25", "-MF=ONLYSIG", "-oT=BLCA-TP", "-nV=Nozzle.R1", "-OP=MUTSIG", "-iT=", "-iX=")
[1] "nver"          "-nV=Nozzle.R1"
[1] "nfn"                                 "/xchip/tcga/Tools/Nozzle/v1.current"
[1] "Nozzle.R1"
[1] "successfully load Nozzle.R1"
[1] "ofn"         "-oT=BLCA-TP"
[1] "opt"        "-OP=MUTSIG"
[1] "tl"   "-iT="
[1] "dx"   "-iX="
[1] "opt"    "MUTSIG"
[1] "dx" ""  

nPatients in clinical file=135, in cluster file=150, common to both=131
[1] "Reduce the number of clustering variables from 80 to 74."
[1]  74 131
[1] "1p gain mutation analysis"
[1] 3
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
               14               117 
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
               14               117 
[1] "1q gain mutation analysis"
[1] 3
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
               28               103 
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
               28               103 
[1] "2p gain mutation analysis"
[1] 3
  2P GAIN MUTATED 2P GAIN WILD-TYPE 
               23               108 
  2P GAIN MUTATED 2P GAIN WILD-TYPE 
               23               108 
[1] "2q gain mutation analysis"
[1] 3
  2Q GAIN MUTATED 2Q GAIN WILD-TYPE 
               10               121 
  2Q GAIN MUTATED 2Q GAIN WILD-TYPE 
               10               121 
[1] "3p gain mutation analysis"
[1] 3
  3P GAIN MUTATED 3P GAIN WILD-TYPE 
               28               103 
  3P GAIN MUTATED 3P GAIN WILD-TYPE 
               28               103 
[1] "3q gain mutation analysis"
[1] 3
  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
               37                94 
  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
               37                94 
[1] "4p gain mutation analysis"
[1] 3
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
                8               123 
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
                8               123 
[1] "4q gain mutation analysis"
[1] 3
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
                3               128 
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
                3               128 
[1] "5p gain mutation analysis"
[1] 3
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
               38                93 
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
               38                93 
[1] "5q gain mutation analysis"
[1] 3
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
               18               113 
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
               18               113 
[1] "6p gain mutation analysis"
[1] 3
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
                7               124 
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
                7               124 
[1] "6q gain mutation analysis"
[1] 3
  6Q GAIN MUTATED 6Q GAIN WILD-TYPE 
                4               127 
  6Q GAIN MUTATED 6Q GAIN WILD-TYPE 
                4               127 
[1] "7p gain mutation analysis"
[1] 3
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
               39                92 
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
               39                92 
[1] "7q gain mutation analysis"
[1] 3
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
               37                94 
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
               37                94 
[1] "8p gain mutation analysis"
[1] 3
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
               14               117 
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
               14               117 
[1] "8q gain mutation analysis"
[1] 3
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
               35                96 
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
               35                96 
[1] "9p gain mutation analysis"
[1] 3
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
               13               118 
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
               13               118 
[1] "9q gain mutation analysis"
[1] 3
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
               11               120 
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
               11               120 
[1] "10p gain mutation analysis"
[1] 3
  10P GAIN MUTATED 10P GAIN WILD-TYPE 
                26                105 
  10P GAIN MUTATED 10P GAIN WILD-TYPE 
                26                105 
[1] "10q gain mutation analysis"
[1] 3
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
                 7                124 
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
                 7                124 
[1] "11p gain mutation analysis"
[1] 3
  11P GAIN MUTATED 11P GAIN WILD-TYPE 
                 6                125 
  11P GAIN MUTATED 11P GAIN WILD-TYPE 
                 6                125 
[1] "11q gain mutation analysis"
[1] 3
  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
                 6                125 
  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
                 6                125 
[1] "12p gain mutation analysis"
[1] 3
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
                22                109 
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
                22                109 
[1] "12q gain mutation analysis"
[1] 3
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
                17                114 
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
                17                114 
[1] "13q gain mutation analysis"
[1] 3
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
                21                110 
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
                21                110 
[1] "14q gain mutation analysis"
[1] 3
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
                11                120 
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
                11                120 
[1] "15q gain mutation analysis"
[1] 3
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                 4                127 
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                 4                127 
[1] "16p gain mutation analysis"
[1] 3
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
                10                121 
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
                10                121 
[1] "16q gain mutation analysis"
[1] 3
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
                12                119 
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
                12                119 
[1] "17p gain mutation analysis"
[1] 3
  17P GAIN MUTATED 17P GAIN WILD-TYPE 
                 8                123 
  17P GAIN MUTATED 17P GAIN WILD-TYPE 
                 8                123 
[1] "17q gain mutation analysis"
[1] 3
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
                23                108 
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
                23                108 
[1] "18p gain mutation analysis"
[1] 3
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
                23                108 
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
                23                108 
[1] "18q gain mutation analysis"
[1] 3
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
                 7                124 
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
                 7                124 
[1] "19p gain mutation analysis"
[1] 3
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
                13                118 
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
                13                118 
[1] "19q gain mutation analysis"
[1] 3
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
                26                105 
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
                26                105 
[1] "20p gain mutation analysis"
[1] 3
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
                48                 83 
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
                48                 83 
[1] "20q gain mutation analysis"
[1] 3
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
                52                 79 
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
                52                 79 
[1] "21q gain mutation analysis"
[1] 3
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
                24                107 
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
                24                107 
[1] "22q gain mutation analysis"
[1] 3
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
                11                120 
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
                11                120 
[1] "Xq gain mutation analysis"
[1] 3
  XQ GAIN MUTATED XQ GAIN WILD-TYPE 
                6               125 
  XQ GAIN MUTATED XQ GAIN WILD-TYPE 
                6               125 
[1] "2p loss mutation analysis"
[1] 3
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
                7               124 
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
                7               124 
[1] "2q loss mutation analysis"
[1] 3
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
               15               116 
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
               15               116 
[1] "3p loss mutation analysis"
[1] 3
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
                9               122 
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
                9               122 
[1] "4p loss mutation analysis"
[1] 3
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
               25               106 
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
               25               106 
[1] "4q loss mutation analysis"
[1] 3
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
               23               108 
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
               23               108 
[1] "5p loss mutation analysis"
[1] 3
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
               12               119 
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
               12               119 
[1] "5q loss mutation analysis"
[1] 3
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
               32                99 
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
               32                99 
[1] "6p loss mutation analysis"
[1] 3
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
               16               115 
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
               16               115 
[1] "6q loss mutation analysis"
[1] 3
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
               27               104 
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
               27               104 
[1] "8p loss mutation analysis"
[1] 3
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
               47                84 
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
               47                84 
[1] "8q loss mutation analysis"
[1] 3
  8Q LOSS MUTATED 8Q LOSS WILD-TYPE 
                5               126 
  8Q LOSS MUTATED 8Q LOSS WILD-TYPE 
                5               126 
[1] "9p loss mutation analysis"
[1] 3
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
               38                93 
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
               38                93 
[1] "9q loss mutation analysis"
[1] 3
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
               36                95 
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
               36                95 
[1] "10p loss mutation analysis"
[1] 3
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
                18                113 
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
                18                113 
[1] "10q loss mutation analysis"
[1] 3
  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
                26                105 
  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
                26                105 
[1] "11p loss mutation analysis"
[1] 3
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
                43                 88 
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
                43                 88 
[1] "11q loss mutation analysis"
[1] 3
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
                32                 99 
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
                32                 99 
[1] "12p loss mutation analysis"
[1] 3
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
                 5                126 
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
                 5                126 
[1] "12q loss mutation analysis"
[1] 3
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
                 8                123 
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
                 8                123 
[1] "13q loss mutation analysis"
[1] 3
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
                18                113 
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
                18                113 
[1] "14q loss mutation analysis"
[1] 3
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
                22                109 
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
                22                109 
[1] "15q loss mutation analysis"
[1] 3
  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
                15                116 
  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
                15                116 
[1] "16p loss mutation analysis"
[1] 3
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
                14                117 
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
                14                117 
[1] "16q loss mutation analysis"
[1] 3
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
                15                116 
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
                15                116 
[1] "17p loss mutation analysis"
[1] 3
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
                36                 95 
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
                36                 95 
[1] "17q loss mutation analysis"
[1] 3
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
                 5                126 
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
                 5                126 
[1] "18p loss mutation analysis"
[1] 3
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
                19                112 
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
                19                112 
[1] "18q loss mutation analysis"
[1] 3
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
                36                 95 
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
                36                 95 
[1] "19p loss mutation analysis"
[1] 3
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
                 8                123 
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
                 8                123 
[1] "19q loss mutation analysis"
[1] 3
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
                 3                128 
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
                 3                128 
[1] "20p loss mutation analysis"
[1] 3
  20P LOSS MUTATED 20P LOSS WILD-TYPE 
                 5                126 
  20P LOSS MUTATED 20P LOSS WILD-TYPE 
                 5                126 
[1] "21q loss mutation analysis"
[1] 3
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
                14                117 
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
                14                117 
[1] "22q loss mutation analysis"
[1] 3
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
                25                106 
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
                25                106 
[1] "Xq loss mutation analysis"
[1] 3
  XQ LOSS MUTATED XQ LOSS WILD-TYPE 
                4               127 
  XQ LOSS MUTATED XQ LOSS WILD-TYPE 
                4               127 
[1] "data2feature, selection="
 [1] "YEARSTOBIRTH"                          
 [2] "DAYSTODEATH"                           
 [3] "DAYSTOLASTFOLLOWUP"                    
 [4] "VITALSTATUS"                           
 [5] "DCCUPLOADDATE"                         
 [6] "PRIMARYSITEOFDESEASE"                  
 [7] "GENDER"                                
 [8] "DATEOFINITIALPATHOLOGICDIAGNOSIS"      
 [9] "DAYSTOLASTKNOWNALIVE"                  
[10] "RADIATIONTHERAPY"                      
[11] "KARNOFSKYPERFORMANCESCORE"             
[12] "RADIATIONS.RADIATION.REGIMENINDICATION"
[13] "NUMBERPACKYEARSSMOKED"                 
[14] "TOBACCOSMOKINGHISTORYINDICATOR"        
[15] "DISTANT.METASTASIS"                    
[16] "LYMPH.NODE.METASTASIS"                 
[17] "NUMBER.OF.LYMPH.NODES"                 
[18] "TUMOR.STAGECODE"                       
[19] "NEOPLASM.DISEASESTAGE"                 
[20] "BATCHNUMBER"                           

Input Data has 20 rows and 131 columns.

[1] "Batch" "20"   
[1] "Last Follow UP"
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
         389           NA           NA           NA           NA          363 
TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R 
          NA           NA           NA           NA           NA           NA 
TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LA 
          NA           NA           NA           NA           NA          179 
TCGA-BT-A2LD TCGA-BT-A3PH TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR 
         111           NA           NA           59           61           14 
TCGA-CF-A1HS TCGA-CF-A27C TCGA-CF-A3MF TCGA-CF-A3MG TCGA-CF-A3MH TCGA-CF-A3MI 
          13           21           NA           NA           NA           NA 
TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3KJ TCGA-CU-A3QU TCGA-CU-A3YL 
          NA           NA          219          166          158          246 
TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB 
          77           NA          955          273          214          271 
TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX 
        3616         3056          218          178          202           55 
TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IK TCGA-DK-A3IL 
         322           NA         3767         2291           67          121 
TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT TCGA-DK-A3IU 
         238           NA          319         1151          168          350 
TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E5-A2PC TCGA-E7-A3X6 
          NA          252           NA         3989         1108           NA 
TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 
           3          268          253           NA          209           NA 
TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SL 
         336          272          242          974           NA          334 
TCGA-FD-A3SM TCGA-FD-A3SN TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR 
         186          207           NA          138           NA           NA 
TCGA-FD-A3SS TCGA-FD-A43N TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-FT-A3EE 
          59          240          208          461          124           71 
TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES 
        1518          806          172           NA          997          525 
TCGA-G2-A3IB TCGA-G2-A3IE TCGA-G2-A3VY TCGA-GC-A3BM TCGA-GC-A3I6 TCGA-GC-A3OO 
         214           NA           25           87           68           40 
TCGA-GC-A3RB TCGA-GC-A3RC TCGA-GC-A3RD TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GD-A2C5 
         137           42           31           76           33          234 
TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GD-A3OS TCGA-GU-A42P TCGA-GU-A42Q TCGA-GU-A42R 
          64           95          177          194          230           98 
TCGA-GV-A3JV TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-GV-A3QF TCGA-GV-A3QG 
         133          195          187          173          232           NA 
TCGA-GV-A3QH TCGA-GV-A3QI TCGA-GV-A3QK TCGA-GV-A40E TCGA-GV-A40G TCGA-H4-A2HO 
         237          125          202          194          162           46 
TCGA-H4-A2HQ TCGA-HQ-A2OE TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A3WV 
         204           NA          265          104          141 
Variable 1:'AGE':	nDistinctValues=43,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'DAYSTODEATH':	nDistinctValues=31,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 3:'DAYSTOLASTFOLLOWUP':	nDistinctValues=89,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 4:'VITALSTATUS':	nDistinctValues=2,	numeric=TRUE,	binary=TRUE,	exclude=FALSE.
Variable 5:'DCCUPLOADDAY':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 6:'PRIMARY.SITE.OF.DISEASE':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 7:'GENDER':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'DAYOFINITIALPATHOLOGICDIAGNOSIS':	nDistinctValues=13,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 9:'DAYSTOLASTKNOWNALIVE':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 10:'RADIATION.THERAPY':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 11:'KARNOFSKY.PERFORMANCE.SCORE':	nDistinctValues=7,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 12:'RADIATIONS.RADIATION.REGIMENINDICATION':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 13:'NUMBERPACKYEARSSMOKED':	nDistinctValues=35,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 14:'TOBACCOSMOKINGHISTORYINDICATOR':	nDistinctValues=5,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 15:'DISTANT.METASTASIS':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 16:'LYMPH.NODE.METASTASIS':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 17:'NUMBER.OF.LYMPH.NODES':	nDistinctValues=13,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 18:'TUMOR.STAGECODE':	nDistinctValues=9,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 19:'NEOPLASM.DISEASESTAGE':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 20:'BATCH.NUMBER':	nDistinctValues=14,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "rownames(nsurv.mat)"
 [1] "AGE"                            "GENDER"                        
 [3] "KARNOFSKY.PERFORMANCE.SCORE"    "NUMBERPACKYEARSSMOKED"         
 [5] "TOBACCOSMOKINGHISTORYINDICATOR" "DISTANT.METASTASIS"            
 [7] "LYMPH.NODE.METASTASIS"          "NUMBER.OF.LYMPH.NODES"         
 [9] "TUMOR.STAGECODE"                "NEOPLASM.DISEASESTAGE"         
[1] "TUMOR.?STAGE" "9"           
[1] "stage2"
vv
 T1  T2 T2A T2B  T3 T3A T3B  T4 T4A 
  1   6   4  20  24  22  19   2  18 
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T"
[1] "PATHOLOGY.N"
Output Data has 131 columns, 1 survival variables, and 10 non-survival variables.
AGE, nv=43, binary=FALSE, numeric=TRUE
GENDER, nv=2, binary=FALSE, numeric=FALSE
KARNOFSKY.PERFORMANCE.SCORE, nv=7, binary=FALSE, numeric=TRUE
NUMBERPACKYEARSSMOKED, nv=35, binary=FALSE, numeric=TRUE
TOBACCOSMOKINGHISTORYINDICATOR, nv=5, binary=FALSE, numeric=TRUE
DISTANT.METASTASIS, nv=3, binary=FALSE, numeric=FALSE
LYMPH.NODE.METASTASIS, nv=5, binary=FALSE, numeric=FALSE
NUMBER.OF.LYMPH.NODES, nv=13, binary=FALSE, numeric=TRUE
TUMOR.STAGECODE, nv=0, binary=FALSE, numeric=TRUE
NEOPLASM.DISEASESTAGE, nv=4, binary=FALSE, numeric=FALSE

Clustering(1) Variable = 1p gain mutation analysis
D1V1, survival
                   sevent
clus2                0  1
  1P GAIN MUTATED    9  5
  1P GAIN WILD-TYPE 83 27
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
               14               110 
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
                5                27 
$`1P GAIN MUTATED`
TCGA-BT-A20T TCGA-BT-A2LA TCGA-C4-A0EZ TCGA-CU-A0YN TCGA-DK-A2I1 TCGA-DK-A2I2 
       14.89         5.88         8.98        12.92        10.59         7.76 
TCGA-DK-A3IM TCGA-FD-A3SO TCGA-FT-A3EE TCGA-GC-A3RB TCGA-GD-A3OS TCGA-GU-A42P 
        7.82         5.49         2.33         4.50         5.82         6.38 
TCGA-GV-A3JZ TCGA-GV-A3QF 
        5.69         7.63 

$`1P GAIN WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
       12.79         7.33         2.66         6.74         6.58        11.93 
TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R 
       19.00        26.10        12.16        17.85        19.46         5.06 
TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LD TCGA-BT-A3PH 
        8.61         5.06         8.35         8.25         3.65         4.64 
TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YO 
        1.94         2.01         0.46         0.43         0.69         4.90 
TCGA-CU-A0YR TCGA-CU-A3KJ TCGA-CU-A3QU TCGA-CU-A3YL TCGA-DK-A1A3 TCGA-DK-A1A5 
        7.20         5.46         5.19         8.09         2.53         2.14 
TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AC TCGA-DK-A1AD 
       31.40         8.98         7.04         8.91       118.88       100.47 
TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I4 TCGA-DK-A2I6 
        7.17         5.85         6.64         1.81       123.85        75.32 
TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT 
        2.20         3.98         8.22        10.49        37.84         5.52 
TCGA-DK-A3IU TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E5-A2PC 
       11.51         9.67         8.28        10.55       131.15        36.43 
TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 
        0.10         8.81         8.32         8.94         6.87         4.01 
TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SL 
       11.05         8.94         7.96        32.02        24.30        10.98 
TCGA-FD-A3SM TCGA-FD-A3SN TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A3SS 
        6.12         6.81         4.54        46.78        19.79         1.94 
TCGA-FD-A43N TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-G2-A2EF TCGA-G2-A2EJ 
        7.89         6.84        15.16         4.08        49.91        26.50 
TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE 
        5.65        26.93        32.78        17.26         7.04        20.12 
TCGA-G2-A3VY TCGA-GC-A3BM TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RC TCGA-GC-A3RD 
        0.82         2.86         2.24         1.32         1.38         1.02 
TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GU-A42Q 
        2.50         1.08         7.69         2.10         3.12         7.56 
TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3QH TCGA-GV-A3QI 
        3.22         4.37         6.41         6.15         7.79         4.11 
TCGA-GV-A3QK TCGA-GV-A40E TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-K4-A3WS 
        6.64         6.38         5.33         1.51         6.71         8.71 
TCGA-K4-A3WU TCGA-K4-A3WV 
        3.42         4.64 

  1P GAIN MUTATED 1P GAIN WILD-TYPE 
             2.33              0.10 
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
            14.89            131.15 
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
            7.005             6.955 
[1] "2.3 - 14.9 (7.0)"  "0.1 - 131.2 (7.0)"
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
  "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"1P GAIN WILD-TYPE"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
  "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "1P GAIN MUTATED"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
  "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"1P GAIN WILD-TYPE"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"1P GAIN WILD-TYPE"   "1P GAIN MUTATED"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
  "1P GAIN MUTATED"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
  "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"1P GAIN WILD-TYPE"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
  "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "1P GAIN MUTATED"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
  "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"1P GAIN WILD-TYPE"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"1P GAIN WILD-TYPE"   "1P GAIN MUTATED"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
  "1P GAIN MUTATED"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
  "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"1P GAIN WILD-TYPE"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
  "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "1P GAIN MUTATED"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
  "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"1P GAIN WILD-TYPE"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"1P GAIN WILD-TYPE"   "1P GAIN MUTATED"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
  "1P GAIN MUTATED"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
[1] "hr=" "2.3"
D1V2, continuous
D1V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1P GAIN MUTATED      5    9
  1P GAIN WILD-TYPE   28   89
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  FEMALE               5                28
  MALE                 9                89
D1V4, continuous
D1V5, continuous
D1V6, continuous
                   vv
clus                M0 M1 MX
  1P GAIN MUTATED    8  1  5
  1P GAIN WILD-TYPE 67  3 46
D1V7, multiclass
    clus
vv   1P GAIN MUTATED 1P GAIN WILD-TYPE
  M0               8                67
  M1               1                 3
  MX               5                46
                   vv
clus                N0 N1 N2 N3 NX
  1P GAIN MUTATED    6  4  1  2  1
  1P GAIN WILD-TYPE 68 10 25  2  9
D1V8, multiclass
D1V9, continuous
D1V10, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV
  1P GAIN MUTATED         0        2         5        7
  1P GAIN WILD-TYPE       1       34        38       39
D1V11, multiclass
           clus
vv          1P GAIN MUTATED 1P GAIN WILD-TYPE
  STAGE I                 0                 1
  STAGE II                2                34
  STAGE III               5                38
  STAGE IV                7                39

Clustering(2) Variable = 1q gain mutation analysis
D2V1, survival
                   sevent
clus2                0  1
  1Q GAIN MUTATED   17  8
  1Q GAIN WILD-TYPE 75 24
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
               25                99 
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
                8                24 
$`1Q GAIN MUTATED`
TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A20T TCGA-BT-A20V TCGA-BT-A2LA TCGA-C4-A0EZ 
        2.66         6.74        14.89         5.06         5.88         8.98 
TCGA-CU-A0YN TCGA-DK-A1A3 TCGA-DK-A1AD TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A3IM 
       12.92         2.53       100.47        10.59         7.76         7.82 
TCGA-E7-A3Y1 TCGA-FD-A3SM TCGA-FD-A3SO TCGA-FT-A3EE TCGA-GC-A3RB TCGA-GC-A3WC 
        0.10         6.12         5.49         2.33         4.50         2.50 
TCGA-GD-A2C5 TCGA-GD-A3OS TCGA-GU-A42P TCGA-GV-A3JV TCGA-GV-A3JX TCGA-GV-A3JZ 
        7.69         5.82         6.38         4.37         6.15         5.69 
TCGA-GV-A3QI 
        4.11 

$`1Q GAIN WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BT-A0S7 TCGA-BT-A0YX TCGA-BT-A20J TCGA-BT-A20N 
       12.79         7.33         6.58        11.93        19.00        26.10 
TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A20U TCGA-BT-A20W 
       12.16        17.85        19.46         5.06         8.61         8.35 
TCGA-BT-A20X TCGA-BT-A2LD TCGA-BT-A3PH TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR 
        8.25         3.65         4.64         1.94         2.01         0.46 
TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3KJ TCGA-CU-A3QU 
        0.43         0.69         4.90         7.20         5.46         5.19 
TCGA-CU-A3YL TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB 
        8.09         2.14        31.40         8.98         7.04         8.91 
TCGA-DK-A1AC TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I4 
      118.88         7.17         5.85         6.64         1.81       123.85 
TCGA-DK-A2I6 TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS 
       75.32         2.20         3.98         8.22        10.49        37.84 
TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY 
        5.52        11.51         9.67         8.28        10.55       131.15 
TCGA-E5-A2PC TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 
       36.43         8.81         8.32         8.94         6.87         4.01 
TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SL 
       11.05         8.94         7.96        32.02        24.30        10.98 
TCGA-FD-A3SN TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A3SS TCGA-FD-A43N 
        6.81         4.54        46.78        19.79         1.94         7.89 
TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK 
        6.84        15.16         4.08        49.91        26.50         5.65 
TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-G2-A3VY 
       26.93        32.78        17.26         7.04        20.12         0.82 
TCGA-GC-A3BM TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RC TCGA-GC-A3RD TCGA-GC-A3YS 
        2.86         2.24         1.32         1.38         1.02         1.08 
TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JW TCGA-GV-A3QF 
        2.10         3.12         7.56         3.22         6.41         7.63 
TCGA-GV-A3QH TCGA-GV-A3QK TCGA-GV-A40E TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ 
        7.79         6.64         6.38         5.33         1.51         6.71 
TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A3WV 
        8.71         3.42         4.64 

  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
             0.10              0.43 
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
           100.47            131.15 
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
             5.88              7.33 
[1] "0.1 - 100.5 (5.9)" "0.4 - 131.2 (7.3)"
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED"   "1Q GAIN MUTATED" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
  "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
  "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
  "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "1Q GAIN MUTATED"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
  "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
  "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
  "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED"   "1Q GAIN MUTATED" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
  "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
  "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
  "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "1Q GAIN MUTATED"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
  "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
  "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
  "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED"   "1Q GAIN MUTATED" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
  "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
  "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
  "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "1Q GAIN MUTATED"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
  "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
  "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
  "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
[1] "hr=" "2.4"
D2V2, continuous
D2V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1Q GAIN MUTATED      8   20
  1Q GAIN WILD-TYPE   25   78
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  FEMALE               8                25
  MALE                20                78
D2V4, continuous
D2V5, continuous
D2V6, continuous
                   vv
clus                M0 M1 MX
  1Q GAIN MUTATED   16  2 10
  1Q GAIN WILD-TYPE 59  2 41
D2V7, multiclass
    clus
vv   1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  M0              16                59
  M1               2                 2
  MX              10                41
                   vv
clus                N0 N1 N2 N3 NX
  1Q GAIN MUTATED   12  5  7  2  2
  1Q GAIN WILD-TYPE 62  9 19  2  8
D2V8, multiclass
D2V9, continuous
D2V10, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV
  1Q GAIN MUTATED         0        5         9       13
  1Q GAIN WILD-TYPE       1       31        34       33
D2V11, multiclass
           clus
vv          1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  STAGE I                 0                 1
  STAGE II                5                31
  STAGE III               9                34
  STAGE IV               13                33

Clustering(3) Variable = 2p gain mutation analysis
D3V1, survival
                   sevent
clus2                0  1
  2P GAIN MUTATED   17  4
  2P GAIN WILD-TYPE 75 28
  2P GAIN MUTATED 2P GAIN WILD-TYPE 
               21               103 
  2P GAIN MUTATED 2P GAIN WILD-TYPE 
                4                28 
$`2P GAIN MUTATED`
TCGA-BT-A0YX TCGA-BT-A20V TCGA-BT-A20W TCGA-BT-A2LD TCGA-C4-A0EZ TCGA-C4-A0F6 
       11.93         5.06         8.35         3.65         8.98         2.01 
TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AC TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I6 
       31.40         8.98       118.88        10.59         7.76        75.32 
TCGA-FJ-A3ZF TCGA-FT-A3EE TCGA-G2-A3VY TCGA-GD-A2C5 TCGA-GD-A3OS TCGA-GV-A3QF 
        4.08         2.33         0.82         7.69         5.82         7.63 
TCGA-GV-A3QH TCGA-GV-A3QK TCGA-K4-A3WV 
        7.79         6.64         4.64 

$`2P GAIN WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A20J 
       12.79         7.33         2.66         6.74         6.58        19.00 
TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A20T 
       26.10        12.16        17.85        19.46         5.06        14.89 
TCGA-BT-A20U TCGA-BT-A20X TCGA-BT-A2LA TCGA-BT-A3PH TCGA-C4-A0F0 TCGA-CF-A1HR 
        8.61         8.25         5.88         4.64         1.94         0.46 
TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3KJ 
        0.43         0.69        12.92         4.90         7.20         5.46 
TCGA-CU-A3QU TCGA-CU-A3YL TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1AA TCGA-DK-A1AB 
        5.19         8.09         2.53         2.14         7.04         8.91 
TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I4 
      100.47         7.17         5.85         6.64         1.81       123.85 
TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS 
        2.20         3.98         7.82         8.22        10.49        37.84 
TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY 
        5.52        11.51         9.67         8.28        10.55       131.15 
TCGA-E5-A2PC TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 
       36.43         0.10         8.81         8.32         8.94         6.87 
TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ 
        4.01        11.05         8.94         7.96        32.02        24.30 
TCGA-FD-A3SL TCGA-FD-A3SM TCGA-FD-A3SN TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ 
       10.98         6.12         6.81         5.49         4.54        46.78 
TCGA-FD-A3SR TCGA-FD-A3SS TCGA-FD-A43N TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-G2-A2EF 
       19.79         1.94         7.89         6.84        15.16        49.91 
TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB 
       26.50         5.65        26.93        32.78        17.26         7.04 
TCGA-G2-A3IE TCGA-GC-A3BM TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RC 
       20.12         2.86         2.24         1.32         4.50         1.38 
TCGA-GC-A3RD TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GU-A42P 
        1.02         2.50         1.08         2.10         3.12         6.38 
TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ 
        7.56         3.22         4.37         6.41         6.15         5.69 
TCGA-GV-A3QI TCGA-GV-A40E TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-K4-A3WS 
        4.11         6.38         5.33         1.51         6.71         8.71 
TCGA-K4-A3WU 
        3.42 

  2P GAIN MUTATED 2P GAIN WILD-TYPE 
             0.82              0.10 
  2P GAIN MUTATED 2P GAIN WILD-TYPE 
           118.88            131.15 
  2P GAIN MUTATED 2P GAIN WILD-TYPE 
             7.69              6.84 
[1] "0.8 - 118.9 (7.7)" "0.1 - 131.2 (6.8)"
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED"   "2P GAIN MUTATED" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
  "2P GAIN MUTATED" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED"   "2P GAIN MUTATED" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "2P GAIN MUTATED"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
  "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"2P GAIN WILD-TYPE"   "2P GAIN MUTATED"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
  "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED"   "2P GAIN MUTATED" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
  "2P GAIN MUTATED" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED"   "2P GAIN MUTATED" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "2P GAIN MUTATED"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
  "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"2P GAIN WILD-TYPE"   "2P GAIN MUTATED"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
  "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED"   "2P GAIN MUTATED" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
  "2P GAIN MUTATED" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED"   "2P GAIN MUTATED" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "2P GAIN MUTATED"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
  "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"2P GAIN WILD-TYPE"   "2P GAIN MUTATED"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
  "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED" 
[1] "hr=" "1.5"
D3V2, continuous
D3V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  2P GAIN MUTATED     13   10
  2P GAIN WILD-TYPE   20   88
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  FEMALE              13                20
  MALE                10                88
D3V4, continuous
D3V5, continuous
D3V6, continuous
                   vv
clus                M0 M1 MX
  2P GAIN MUTATED   14  1  7
  2P GAIN WILD-TYPE 61  3 44
D3V7, multiclass
    clus
vv   2P GAIN MUTATED 2P GAIN WILD-TYPE
  M0              14                61
  M1               1                 3
  MX               7                44
                   vv
clus                N0 N1 N2 N3 NX
  2P GAIN MUTATED    9  4  6  1  2
  2P GAIN WILD-TYPE 65 10 20  3  8
D3V8, multiclass
D3V9, continuous
D3V10, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV
  2P GAIN MUTATED         0        7         5       10
  2P GAIN WILD-TYPE       1       29        38       36
D3V11, multiclass
           clus
vv          2P GAIN MUTATED 2P GAIN WILD-TYPE
  STAGE I                 0                 1
  STAGE II                7                29
  STAGE III               5                38
  STAGE IV               10                36

Clustering(4) Variable = 2q gain mutation analysis
D4V1, survival
                   sevent
clus2                0  1
  2Q GAIN MUTATED    8  1
  2Q GAIN WILD-TYPE 84 31
  2Q GAIN MUTATED 2Q GAIN WILD-TYPE 
                9               115 
  2Q GAIN MUTATED 2Q GAIN WILD-TYPE 
                1                31 
$`2Q GAIN MUTATED`
TCGA-DK-A1A6 TCGA-DK-A2I2 TCGA-FJ-A3ZF TCGA-G2-A3VY TCGA-GD-A3OS TCGA-GV-A3QF 
       31.40         7.76         4.08         0.82         5.82         7.63 
TCGA-GV-A3QH TCGA-GV-A40G TCGA-K4-A3WV 
        7.79         5.33         4.64 

$`2Q GAIN WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
       12.79         7.33         2.66         6.74         6.58        11.93 
TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R 
       19.00        26.10        12.16        17.85        19.46         5.06 
TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LA 
       14.89         8.61         5.06         8.35         8.25         5.88 
TCGA-BT-A2LD TCGA-BT-A3PH TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR 
        3.65         4.64         8.98         1.94         2.01         0.46 
TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3KJ 
        0.43         0.69        12.92         4.90         7.20         5.46 
TCGA-CU-A3QU TCGA-CU-A3YL TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A7 TCGA-DK-A1AA 
        5.19         8.09         2.53         2.14         8.98         7.04 
TCGA-DK-A1AB TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG 
        8.91       118.88       100.47         7.17         5.85         6.64 
TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IK TCGA-DK-A3IL 
        1.81        10.59       123.85        75.32         2.20         3.98 
TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT TCGA-DK-A3IU 
        7.82         8.22        10.49        37.84         5.52        11.51 
TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E5-A2PC TCGA-E7-A3Y1 
        9.67         8.28        10.55       131.15        36.43         0.10 
TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 
        8.81         8.32         8.94         6.87         4.01        11.05 
TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SM 
        8.94         7.96        32.02        24.30        10.98         6.12 
TCGA-FD-A3SN TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A3SS 
        6.81         5.49         4.54        46.78        19.79         1.94 
TCGA-FD-A43N TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ 
        7.89         6.84        15.16         2.33        49.91        26.50 
TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE 
        5.65        26.93        32.78        17.26         7.04        20.12 
TCGA-GC-A3BM TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RC TCGA-GC-A3RD 
        2.86         2.24         1.32         4.50         1.38         1.02 
TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GU-A42P 
        2.50         1.08         7.69         2.10         3.12         6.38 
TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ 
        7.56         3.22         4.37         6.41         6.15         5.69 
TCGA-GV-A3QI TCGA-GV-A3QK TCGA-GV-A40E TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-K4-A3WS 
        4.11         6.64         6.38         1.51         6.71         8.71 
TCGA-K4-A3WU 
        3.42 

  2Q GAIN MUTATED 2Q GAIN WILD-TYPE 
             0.82              0.10 
  2Q GAIN MUTATED 2Q GAIN WILD-TYPE 
            31.40            131.15 
  2Q GAIN MUTATED 2Q GAIN WILD-TYPE 
             5.82              7.04 
[1] "0.8 - 31.4 (5.8)"  "0.1 - 131.2 (7.0)"
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED"   "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED"   "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED"   "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" 
[1] "hr=" "1.6"
D4V2, continuous
D4V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  2Q GAIN MUTATED      3    7
  2Q GAIN WILD-TYPE   30   91
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  FEMALE               3                30
  MALE                 7                91
D4V4, continuous
D4V5, continuous
D4V6, continuous
                   vv
clus                M0 M1 MX
  2Q GAIN MUTATED    4  0  5
  2Q GAIN WILD-TYPE 71  4 46
D4V7, multiclass
    clus
vv   2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  M0               4                71
  M1               0                 4
  MX               5                46
                   vv
clus                N0 N1 N2 N3 NX
  2Q GAIN MUTATED    4  1  1  1  2
  2Q GAIN WILD-TYPE 70 13 25  3  8
D4V8, multiclass
D4V9, continuous
D4V10, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV
  2Q GAIN MUTATED         0        6         1        3
  2Q GAIN WILD-TYPE       1       30        42       43
D4V11, multiclass
           clus
vv          2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  STAGE I                 0                 1
  STAGE II                6                30
  STAGE III               1                42
  STAGE IV                3                43

Clustering(5) Variable = 3p gain mutation analysis
D5V1, survival
                   sevent
clus2                0  1
  3P GAIN MUTATED   21  4
  3P GAIN WILD-TYPE 71 28
  3P GAIN MUTATED 3P GAIN WILD-TYPE 
               25                99 
  3P GAIN MUTATED 3P GAIN WILD-TYPE 
                4                28 
$`3P GAIN MUTATED`
TCGA-BL-A13J TCGA-BT-A3PH TCGA-CF-A1HR TCGA-CU-A0YR TCGA-CU-A3YL TCGA-DK-A1A3 
        2.66         4.64         0.46         7.20         8.09         2.53 
TCGA-DK-A1A5 TCGA-DK-A1AD TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I6 TCGA-E5-A2PC 
        2.14       100.47         1.81        10.59        75.32        36.43 
TCGA-FD-A3SJ TCGA-FT-A3EE TCGA-GC-A3OO TCGA-GC-A3RD TCGA-GD-A3OP TCGA-GD-A3OS 
       24.30         2.33         1.32         1.02         2.10         5.82 
TCGA-GU-A42P TCGA-GV-A3JV TCGA-GV-A3JW TCGA-GV-A3QF TCGA-GV-A3QK TCGA-GV-A40G 
        6.38         4.37         6.41         7.63         6.64         5.33 
TCGA-K4-A3WV 
        4.64 

$`3P GAIN WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX TCGA-BT-A20J 
       12.79         7.33         6.74         6.58        11.93        19.00 
TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A20T 
       26.10        12.16        17.85        19.46         5.06        14.89 
TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LA TCGA-BT-A2LD 
        8.61         5.06         8.35         8.25         5.88         3.65 
TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YN 
        8.98         1.94         2.01         0.43         0.69        12.92 
TCGA-CU-A0YO TCGA-CU-A3KJ TCGA-CU-A3QU TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA 
        4.90         5.46         5.19        31.40         8.98         7.04 
TCGA-DK-A1AB TCGA-DK-A1AC TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2I2 
        8.91       118.88         7.17         5.85         6.64         7.76 
TCGA-DK-A2I4 TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IQ 
      123.85         2.20         3.98         7.82         8.22        10.49 
TCGA-DK-A3IS TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX 
       37.84         5.52        11.51         9.67         8.28        10.55 
TCGA-DK-A3WY TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 
      131.15         0.10         8.81         8.32         8.94         6.87 
TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SL 
        4.01        11.05         8.94         7.96        32.02        10.98 
TCGA-FD-A3SM TCGA-FD-A3SN TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR 
        6.12         6.81         5.49         4.54        46.78        19.79 
TCGA-FD-A3SS TCGA-FD-A43N TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-G2-A2EF 
        1.94         7.89         6.84        15.16         4.08        49.91 
TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB 
       26.50         5.65        26.93        32.78        17.26         7.04 
TCGA-G2-A3IE TCGA-G2-A3VY TCGA-GC-A3BM TCGA-GC-A3I6 TCGA-GC-A3RB TCGA-GC-A3RC 
       20.12         0.82         2.86         2.24         4.50         1.38 
TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GD-A3OQ TCGA-GU-A42Q TCGA-GU-A42R 
        2.50         1.08         7.69         3.12         7.56         3.22 
TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-GV-A3QH TCGA-GV-A3QI TCGA-GV-A40E TCGA-H4-A2HO 
        6.15         5.69         7.79         4.11         6.38         1.51 
TCGA-H4-A2HQ TCGA-K4-A3WS TCGA-K4-A3WU 
        6.71         8.71         3.42 

  3P GAIN MUTATED 3P GAIN WILD-TYPE 
             0.46              0.10 
  3P GAIN MUTATED 3P GAIN WILD-TYPE 
           100.47            131.15 
  3P GAIN MUTATED 3P GAIN WILD-TYPE 
             5.33              7.56 
[1] "0.5 - 100.5 (5.3)" "0.1 - 131.2 (7.6)"
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
  "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
  "3P GAIN MUTATED"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
  "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
  "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
  "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"3P GAIN WILD-TYPE"   "3P GAIN MUTATED"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"3P GAIN WILD-TYPE"   "3P GAIN MUTATED"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"3P GAIN WILD-TYPE"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
  "3P GAIN MUTATED" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
  "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
  "3P GAIN MUTATED"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
  "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
  "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
  "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"3P GAIN WILD-TYPE"   "3P GAIN MUTATED"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"3P GAIN WILD-TYPE"   "3P GAIN MUTATED"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"3P GAIN WILD-TYPE"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
  "3P GAIN MUTATED" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
  "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
  "3P GAIN MUTATED"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
  "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
  "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
  "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"3P GAIN WILD-TYPE"   "3P GAIN MUTATED"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"3P GAIN WILD-TYPE"   "3P GAIN MUTATED"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"3P GAIN WILD-TYPE"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
  "3P GAIN MUTATED" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" 
[1] "hr=" "1.4"
D5V2, continuous
D5V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  3P GAIN MUTATED      9   19
  3P GAIN WILD-TYPE   24   79
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  FEMALE               9                24
  MALE                19                79
D5V4, continuous
D5V5, continuous
D5V6, continuous
                   vv
clus                M0 M1 MX
  3P GAIN MUTATED   16  0 12
  3P GAIN WILD-TYPE 59  4 39
D5V7, multiclass
    clus
vv   3P GAIN MUTATED 3P GAIN WILD-TYPE
  M0              16                59
  M1               0                 4
  MX              12                39
                   vv
clus                N0 N1 N2 N3 NX
  3P GAIN MUTATED   11  4 11  0  2
  3P GAIN WILD-TYPE 63 10 15  4  8
D5V8, multiclass
D5V9, continuous
D5V10, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV
  3P GAIN MUTATED         0        8         4       14
  3P GAIN WILD-TYPE       1       28        39       32
D5V11, multiclass
           clus
vv          3P GAIN MUTATED 3P GAIN WILD-TYPE
  STAGE I                 0                 1
  STAGE II                8                28
  STAGE III               4                39
  STAGE IV               14                32

Clustering(6) Variable = 3q gain mutation analysis
D6V1, survival
                   sevent
clus2                0  1
  3Q GAIN MUTATED   30  4
  3Q GAIN WILD-TYPE 62 28
  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
               34                90 
  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
                4                28 
$`3Q GAIN MUTATED`
TCGA-BL-A0C8 TCGA-BL-A13J TCGA-BT-A0YX TCGA-BT-A20V TCGA-BT-A2LA TCGA-BT-A3PH 
       12.79         2.66        11.93         5.06         5.88         4.64 
TCGA-CF-A1HR TCGA-CU-A0YR TCGA-CU-A3KJ TCGA-CU-A3YL TCGA-DK-A1A3 TCGA-DK-A1A6 
        0.46         7.20         5.46         8.09         2.53        31.40 
TCGA-DK-A1A7 TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-E5-A2PC TCGA-FD-A3N5 TCGA-FD-A3SJ 
        8.98         1.81        10.59        36.43         8.94        24.30 
TCGA-FD-A3SL TCGA-G2-A2EJ TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RD TCGA-GC-A3WC 
       10.98        26.50         2.24         1.32         1.02         2.50 
TCGA-GD-A3OS TCGA-GU-A42P TCGA-GV-A3JV TCGA-GV-A3JW TCGA-GV-A3QF TCGA-GV-A3QH 
        5.82         6.38         4.37         6.41         7.63         7.79 
TCGA-GV-A3QK TCGA-GV-A40G TCGA-H4-A2HQ TCGA-K4-A3WV 
        6.64         5.33         6.71         4.64 

$`3Q GAIN WILD-TYPE`
TCGA-BL-A13I TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O 
        7.33         6.74         6.58        19.00        26.10        12.16 
TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20W 
       17.85        19.46         5.06        14.89         8.61         8.35 
TCGA-BT-A20X TCGA-BT-A2LD TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HS 
        8.25         3.65         8.98         1.94         2.01         0.43 
TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A3QU TCGA-DK-A1A5 TCGA-DK-A1AA 
        0.69        12.92         4.90         5.19         2.14         7.04 
TCGA-DK-A1AB TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG 
        8.91       118.88       100.47         7.17         5.85         6.64 
TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IM 
        7.76       123.85        75.32         2.20         3.98         7.82 
TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3IV 
        8.22        10.49        37.84         5.52        11.51         9.67 
TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 
        8.28        10.55       131.15         0.10         8.81         8.32 
TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3N6 TCGA-FD-A3NA 
        8.94         6.87         4.01        11.05         7.96        32.02 
TCGA-FD-A3SM TCGA-FD-A3SN TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR 
        6.12         6.81         5.49         4.54        46.78        19.79 
TCGA-FD-A3SS TCGA-FD-A43N TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-FT-A3EE 
        1.94         7.89         6.84        15.16         4.08         2.33 
TCGA-G2-A2EF TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB 
       49.91         5.65        26.93        32.78        17.26         7.04 
TCGA-G2-A3IE TCGA-G2-A3VY TCGA-GC-A3BM TCGA-GC-A3RB TCGA-GC-A3RC TCGA-GC-A3YS 
       20.12         0.82         2.86         4.50         1.38         1.08 
TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JX 
        7.69         2.10         3.12         7.56         3.22         6.15 
TCGA-GV-A3JZ TCGA-GV-A3QI TCGA-GV-A40E TCGA-H4-A2HO TCGA-K4-A3WS TCGA-K4-A3WU 
        5.69         4.11         6.38         1.51         8.71         3.42 

  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
             0.46              0.10 
  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
            36.43            131.15 
  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
            6.395             7.250 
[1] "0.5 - 36.4 (6.4)"  "0.1 - 131.2 (7.2)"
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
  "3Q GAIN MUTATED"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED"   "3Q GAIN MUTATED" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
  "3Q GAIN MUTATED"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED"   "3Q GAIN MUTATED" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
  "3Q GAIN MUTATED"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED"   "3Q GAIN MUTATED" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" 
[1] "hr=" "2"  
D6V2, continuous
D6V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  3Q GAIN MUTATED     13   24
  3Q GAIN WILD-TYPE   20   74
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  FEMALE              13                20
  MALE                24                74
D6V4, continuous
D6V5, continuous
D6V6, continuous
                   vv
clus                M0 M1 MX
  3Q GAIN MUTATED   22  2 13
  3Q GAIN WILD-TYPE 53  2 38
D6V7, multiclass
    clus
vv   3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  M0              22                53
  M1               2                 2
  MX              13                38
                   vv
clus                N0 N1 N2 N3 NX
  3Q GAIN MUTATED   16  4 12  0  5
  3Q GAIN WILD-TYPE 58 10 14  4  5
D6V8, multiclass
D6V9, continuous
D6V10, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV
  3Q GAIN MUTATED         1       10         8       16
  3Q GAIN WILD-TYPE       0       26        35       30
D6V11, multiclass
           clus
vv          3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  STAGE I                 1                 0
  STAGE II               10                26
  STAGE III               8                35
  STAGE IV               16                30

Clustering(7) Variable = 4p gain mutation analysis
D7V1, survival
                   sevent
clus2                0  1
  4P GAIN MUTATED    7  1
  4P GAIN WILD-TYPE 85 31
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
                8               116 
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
                1                31 
$`4P GAIN MUTATED`
TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CU-A3KJ TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1AC 
        1.94         2.01         5.46         2.14        31.40       118.88 
TCGA-FD-A3NA TCGA-G2-A2EF 
       32.02        49.91 

$`4P GAIN WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
       12.79         7.33         2.66         6.74         6.58        11.93 
TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R 
       19.00        26.10        12.16        17.85        19.46         5.06 
TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LA 
       14.89         8.61         5.06         8.35         8.25         5.88 
TCGA-BT-A2LD TCGA-BT-A3PH TCGA-C4-A0EZ TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CF-A27C 
        3.65         4.64         8.98         0.46         0.43         0.69 
TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3QU TCGA-CU-A3YL TCGA-DK-A1A3 
       12.92         4.90         7.20         5.19         8.09         2.53 
TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF 
        8.98         7.04         8.91       100.47         7.17         5.85 
TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A2I6 
        6.64         1.81        10.59         7.76       123.85        75.32 
TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS 
        2.20         3.98         7.82         8.22        10.49        37.84 
TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY 
        5.52        11.51         9.67         8.28        10.55       131.15 
TCGA-E5-A2PC TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 
       36.43         0.10         8.81         8.32         8.94         6.87 
TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3SJ TCGA-FD-A3SL 
        4.01        11.05         8.94         7.96        24.30        10.98 
TCGA-FD-A3SM TCGA-FD-A3SN TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR 
        6.12         6.81         5.49         4.54        46.78        19.79 
TCGA-FD-A3SS TCGA-FD-A43N TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-FT-A3EE 
        1.94         7.89         6.84        15.16         4.08         2.33 
TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB 
       26.50         5.65        26.93        32.78        17.26         7.04 
TCGA-G2-A3IE TCGA-G2-A3VY TCGA-GC-A3BM TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RB 
       20.12         0.82         2.86         2.24         1.32         4.50 
TCGA-GC-A3RC TCGA-GC-A3RD TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GD-A3OP 
        1.38         1.02         2.50         1.08         7.69         2.10 
TCGA-GD-A3OQ TCGA-GD-A3OS TCGA-GU-A42P TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JV 
        3.12         5.82         6.38         7.56         3.22         4.37 
TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-GV-A3QF TCGA-GV-A3QH TCGA-GV-A3QI 
        6.41         6.15         5.69         7.63         7.79         4.11 
TCGA-GV-A3QK TCGA-GV-A40E TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-K4-A3WS 
        6.64         6.38         5.33         1.51         6.71         8.71 
TCGA-K4-A3WU TCGA-K4-A3WV 
        3.42         4.64 

  4P GAIN MUTATED 4P GAIN WILD-TYPE 
             1.94              0.10 
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
           118.88            131.15 
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
           18.430             6.955 
[1] "1.9 - 118.9 (18.4)" "0.1 - 131.2 (7.0)" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"4P GAIN WILD-TYPE"   "4P GAIN MUTATED"   "4P GAIN MUTATED" "4P GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"4P GAIN WILD-TYPE"   "4P GAIN MUTATED" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"4P GAIN WILD-TYPE"   "4P GAIN MUTATED"   "4P GAIN MUTATED" "4P GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE"   "4P GAIN MUTATED" "4P GAIN WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE"   "4P GAIN MUTATED" "4P GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"4P GAIN WILD-TYPE"   "4P GAIN MUTATED" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"4P GAIN WILD-TYPE"   "4P GAIN MUTATED"   "4P GAIN MUTATED" "4P GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"4P GAIN WILD-TYPE"   "4P GAIN MUTATED" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"4P GAIN WILD-TYPE"   "4P GAIN MUTATED"   "4P GAIN MUTATED" "4P GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE"   "4P GAIN MUTATED" "4P GAIN WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE"   "4P GAIN MUTATED" "4P GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"4P GAIN WILD-TYPE"   "4P GAIN MUTATED" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"4P GAIN WILD-TYPE"   "4P GAIN MUTATED"   "4P GAIN MUTATED" "4P GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"4P GAIN WILD-TYPE"   "4P GAIN MUTATED" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"4P GAIN WILD-TYPE"   "4P GAIN MUTATED"   "4P GAIN MUTATED" "4P GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE"   "4P GAIN MUTATED" "4P GAIN WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE"   "4P GAIN MUTATED" "4P GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"4P GAIN WILD-TYPE"   "4P GAIN MUTATED" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
[1] "hr=" "4.8"
D7V2, continuous
D7V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  4P GAIN MUTATED      1    7
  4P GAIN WILD-TYPE   32   91
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  FEMALE               1                32
  MALE                 7                91
D7V4, continuous
[1] "Remove cluster labels:" "4P GAIN MUTATED"       
clus
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
                1                36 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CF-A3MF        TCGA-CF-A3MG 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-CF-A3MH        TCGA-CF-A3MI        TCGA-DK-A2HX        TCGA-DK-A3IN 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WX        TCGA-E5-A2PC        TCGA-G2-A2EJ 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-GC-A3I6        TCGA-GC-A3OO        TCGA-GC-A3RC        TCGA-GC-A3RD 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-GC-A3YS        TCGA-GD-A3OS        TCGA-GV-A3JV        TCGA-GV-A3JW 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-GV-A3QI        TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
D7V5, continuous
D7V6, continuous
                   vv
clus                M0 M1 MX
  4P GAIN MUTATED    7  0  1
  4P GAIN WILD-TYPE 68  4 50
D7V7, multiclass
    clus
vv   4P GAIN MUTATED 4P GAIN WILD-TYPE
  M0               7                68
  M1               0                 4
  MX               1                50
                   vv
clus                N0 N1 N2 N3 NX
  4P GAIN MUTATED    7  1  0  0  0
  4P GAIN WILD-TYPE 67 13 26  4 10
D7V8, multiclass
D7V9, continuous
D7V10, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV
  4P GAIN MUTATED         0        4         3        1
  4P GAIN WILD-TYPE       1       32        40       45
D7V11, multiclass
           clus
vv          4P GAIN MUTATED 4P GAIN WILD-TYPE
  STAGE I                 0                 1
  STAGE II                4                32
  STAGE III               3                40
  STAGE IV                1                45

Clustering(8) Variable = 4q gain mutation analysis
D8V1, survival
                   sevent
clus2                0  1
  4Q GAIN MUTATED    3  0
  4Q GAIN WILD-TYPE 89 32
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
                3               121 
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
                0                32 
$`4Q GAIN MUTATED`
TCGA-C4-A0F6 TCGA-CU-A3KJ TCGA-FD-A3NA 
        2.01         5.46        32.02 

$`4Q GAIN WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
       12.79         7.33         2.66         6.74         6.58        11.93 
TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R 
       19.00        26.10        12.16        17.85        19.46         5.06 
TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LA 
       14.89         8.61         5.06         8.35         8.25         5.88 
TCGA-BT-A2LD TCGA-BT-A3PH TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-CF-A1HR TCGA-CF-A1HS 
        3.65         4.64         8.98         1.94         0.46         0.43 
TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3QU TCGA-CU-A3YL 
        0.69        12.92         4.90         7.20         5.19         8.09 
TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB 
        2.53         2.14        31.40         8.98         7.04         8.91 
TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX 
      118.88       100.47         7.17         5.85         6.64         1.81 
TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IK TCGA-DK-A3IL 
       10.59         7.76       123.85        75.32         2.20         3.98 
TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT TCGA-DK-A3IU 
        7.82         8.22        10.49        37.84         5.52        11.51 
TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E5-A2PC TCGA-E7-A3Y1 
        9.67         8.28        10.55       131.15        36.43         0.10 
TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 
        8.81         8.32         8.94         6.87         4.01        11.05 
TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SM TCGA-FD-A3SN 
        8.94         7.96        24.30        10.98         6.12         6.81 
TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A3SS TCGA-FD-A43N 
        5.49         4.54        46.78        19.79         1.94         7.89 
TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ 
        6.84        15.16         4.08         2.33        49.91        26.50 
TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE 
        5.65        26.93        32.78        17.26         7.04        20.12 
TCGA-G2-A3VY TCGA-GC-A3BM TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RC 
        0.82         2.86         2.24         1.32         4.50         1.38 
TCGA-GC-A3RD TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ 
        1.02         2.50         1.08         7.69         2.10         3.12 
TCGA-GD-A3OS TCGA-GU-A42P TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JW 
        5.82         6.38         7.56         3.22         4.37         6.41 
TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-GV-A3QF TCGA-GV-A3QH TCGA-GV-A3QI TCGA-GV-A3QK 
        6.15         5.69         7.63         7.79         4.11         6.64 
TCGA-GV-A40E TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-K4-A3WS TCGA-K4-A3WU 
        6.38         5.33         1.51         6.71         8.71         3.42 
TCGA-K4-A3WV 
        4.64 

  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
             2.01              0.10 
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
            32.02            131.15 
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
             5.46              7.04 
[1] "2.0 - 32.0 (5.5)"  "0.1 - 131.2 (7.0)"
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE"   "4Q GAIN MUTATED" "4Q GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"4Q GAIN WILD-TYPE"   "4Q GAIN MUTATED" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE"   "4Q GAIN MUTATED" "4Q GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE"   "4Q GAIN MUTATED" "4Q GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"4Q GAIN WILD-TYPE"   "4Q GAIN MUTATED" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE"   "4Q GAIN MUTATED" "4Q GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE"   "4Q GAIN MUTATED" "4Q GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"4Q GAIN WILD-TYPE"   "4Q GAIN MUTATED" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE"   "4Q GAIN MUTATED" "4Q GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
[1] "hr="     "2.6e+07"
D8V2, continuous
D8V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  4Q GAIN MUTATED      1    2
  4Q GAIN WILD-TYPE   32   96
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  FEMALE               1                32
  MALE                 2                96
D8V4, continuous
D8V5, continuous
D8V6, continuous
                   vv
clus                M0 M1 MX
  4Q GAIN MUTATED    2  0  1
  4Q GAIN WILD-TYPE 73  4 50
D8V7, multiclass
    clus
vv   4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  M0               2                73
  M1               0                 4
  MX               1                50
                   vv
clus                N0 N1 N2 N3 NX
  4Q GAIN MUTATED    3  0  0  0  0
  4Q GAIN WILD-TYPE 71 14 26  4 10
D8V8, multiclass
D8V9, continuous
[1] "Remove cluster labels:" "4Q GAIN MUTATED"       
clus
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
                2                96 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20T 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-BT-A20V        TCGA-BT-A20W        TCGA-BT-A20X        TCGA-BT-A2LA 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-BT-A2LD        TCGA-BT-A3PH        TCGA-CU-A0YN        TCGA-CU-A0YO 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3QU        TCGA-CU-A3YL        TCGA-DK-A1A3 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6        TCGA-DK-A3IK 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN        TCGA-DK-A3IQ 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU        TCGA-DK-A3WW 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DK-A3WX        TCGA-DK-A3WY        TCGA-E5-A2PC        TCGA-FD-A3B3 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3SJ 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FT-A3EE 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-GC-A3BM        TCGA-GC-A3I6        TCGA-GC-A3OO        TCGA-GC-A3RB 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-GC-A3RC        TCGA-GC-A3RD        TCGA-GC-A3WC        TCGA-GC-A3YS 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-GD-A2C5        TCGA-GD-A3OP        TCGA-GD-A3OQ        TCGA-GU-A42P 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-GU-A42Q        TCGA-GV-A3JV        TCGA-GV-A3JX        TCGA-GV-A3JZ 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-GV-A3QF        TCGA-GV-A3QG        TCGA-GV-A3QI        TCGA-GV-A3QK 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-GV-A40G        TCGA-H4-A2HO        TCGA-K4-A3WS        TCGA-K4-A3WV 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
D8V10, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV
  4Q GAIN MUTATED         0        1         2        0
  4Q GAIN WILD-TYPE       1       35        41       46
D8V11, multiclass
           clus
vv          4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  STAGE I                 0                 1
  STAGE II                1                35
  STAGE III               2                41
  STAGE IV                0                46

Clustering(9) Variable = 5p gain mutation analysis
D9V1, survival
                   sevent
clus2                0  1
  5P GAIN MUTATED   25  9
  5P GAIN WILD-TYPE 67 23
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
               34                90 
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
                9                23 
$`5P GAIN MUTATED`
TCGA-BL-A0C8 TCGA-BL-A3JM TCGA-BT-A20N TCGA-BT-A20V TCGA-BT-A20W TCGA-BT-A2LA 
       12.79         6.74        26.10         5.06         8.35         5.88 
TCGA-CF-A1HS TCGA-CU-A0YN TCGA-CU-A0YR TCGA-CU-A3QU TCGA-DK-A1A3 TCGA-DK-A2I4 
        0.43        12.92         7.20         5.19         2.53       123.85 
TCGA-DK-A2I6 TCGA-DK-A3IU TCGA-DK-A3IV TCGA-DK-A3WX TCGA-FD-A3B3 TCGA-FD-A3B4 
       75.32        11.51         9.67        10.55         8.81         8.32 
TCGA-FD-A3B5 TCGA-FD-A3N5 TCGA-FD-A3SO TCGA-FT-A3EE TCGA-G2-A2EO TCGA-GC-A3I6 
        8.94         8.94         5.49         2.33        32.78         2.24 
TCGA-GC-A3OO TCGA-GC-A3YS TCGA-GD-A3OS TCGA-GU-A42P TCGA-GV-A3JV TCGA-GV-A3QH 
        1.32         1.08         5.82         6.38         4.37         7.79 
TCGA-GV-A3QI TCGA-GV-A40E TCGA-GV-A40G TCGA-H4-A2HQ 
        4.11         6.38         5.33         6.71 

$`5P GAIN WILD-TYPE`
TCGA-BL-A13I TCGA-BL-A13J TCGA-BT-A0S7 TCGA-BT-A0YX TCGA-BT-A20J TCGA-BT-A20O 
        7.33         2.66         6.58        11.93        19.00        12.16 
TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20X 
       17.85        19.46         5.06        14.89         8.61         8.25 
TCGA-BT-A2LD TCGA-BT-A3PH TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR 
        3.65         4.64         8.98         1.94         2.01         0.46 
TCGA-CF-A27C TCGA-CU-A0YO TCGA-CU-A3KJ TCGA-CU-A3YL TCGA-DK-A1A5 TCGA-DK-A1A6 
        0.69         4.90         5.46         8.09         2.14        31.40 
TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A1AE 
        8.98         7.04         8.91       118.88       100.47         7.17 
TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A3IK 
        5.85         6.64         1.81        10.59         7.76         2.20 
TCGA-DK-A3IL TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT 
        3.98         7.82         8.22        10.49        37.84         5.52 
TCGA-DK-A3WW TCGA-DK-A3WY TCGA-E5-A2PC TCGA-E7-A3Y1 TCGA-FD-A3B6 TCGA-FD-A3B7 
        8.28       131.15        36.43         0.10         6.87         4.01 
TCGA-FD-A3B8 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SM 
       11.05         7.96        32.02        24.30        10.98         6.12 
TCGA-FD-A3SN TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A3SS TCGA-FD-A43N 
        6.81         4.54        46.78        19.79         1.94         7.89 
TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK 
        6.84        15.16         4.08        49.91        26.50         5.65 
TCGA-G2-A2EL TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-G2-A3VY TCGA-GC-A3BM 
       26.93        17.26         7.04        20.12         0.82         2.86 
TCGA-GC-A3RB TCGA-GC-A3RC TCGA-GC-A3RD TCGA-GC-A3WC TCGA-GD-A2C5 TCGA-GD-A3OP 
        4.50         1.38         1.02         2.50         7.69         2.10 
TCGA-GD-A3OQ TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ 
        3.12         7.56         3.22         6.41         6.15         5.69 
TCGA-GV-A3QF TCGA-GV-A3QK TCGA-H4-A2HO TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A3WV 
        7.63         6.64         1.51         8.71         3.42         4.64 

  5P GAIN MUTATED 5P GAIN WILD-TYPE 
             0.43              0.10 
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
           123.85            131.15 
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
            6.725             7.040 
[1] "0.4 - 123.8 (6.7)" "0.1 - 131.2 (7.0)"
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
  "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED"   "5P GAIN MUTATED" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
  "5P GAIN MUTATED" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
  "5P GAIN MUTATED" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
  "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED"   "5P GAIN MUTATED" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
  "5P GAIN MUTATED" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED"   "5P GAIN MUTATED" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
  "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
  "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
  "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
  "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"5P GAIN WILD-TYPE"   "5P GAIN MUTATED"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED"   "5P GAIN MUTATED" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"5P GAIN WILD-TYPE"   "5P GAIN MUTATED"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
  "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
  "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED"   "5P GAIN MUTATED" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
  "5P GAIN MUTATED" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
  "5P GAIN MUTATED" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
  "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED"   "5P GAIN MUTATED" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
  "5P GAIN MUTATED" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED"   "5P GAIN MUTATED" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
  "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
  "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
  "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
  "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"5P GAIN WILD-TYPE"   "5P GAIN MUTATED"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED"   "5P GAIN MUTATED" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"5P GAIN WILD-TYPE"   "5P GAIN MUTATED"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
  "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
  "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED"   "5P GAIN MUTATED" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
  "5P GAIN MUTATED" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
  "5P GAIN MUTATED" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
  "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED"   "5P GAIN MUTATED" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
  "5P GAIN MUTATED" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED"   "5P GAIN MUTATED" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
  "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
  "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
  "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
  "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"5P GAIN WILD-TYPE"   "5P GAIN MUTATED"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED"   "5P GAIN MUTATED" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"5P GAIN WILD-TYPE"   "5P GAIN MUTATED"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
  "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
[1] "hr=" "1.1"
D9V2, continuous
D9V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5P GAIN MUTATED      8   30
  5P GAIN WILD-TYPE   25   68
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  FEMALE               8                25
  MALE                30                68
D9V4, continuous
D9V5, continuous
D9V6, continuous
                   vv
clus                M0 M1 MX
  5P GAIN MUTATED   23  1 14
  5P GAIN WILD-TYPE 52  3 37
D9V7, multiclass
    clus
vv   5P GAIN MUTATED 5P GAIN WILD-TYPE
  M0              23                52
  M1               1                 3
  MX              14                37
                   vv
clus                N0 N1 N2 N3 NX
  5P GAIN MUTATED   21  7  3  0  7
  5P GAIN WILD-TYPE 53  7 23  4  3
D9V8, multiclass
D9V9, continuous
D9V10, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV
  5P GAIN MUTATED         1       12        13       11
  5P GAIN WILD-TYPE       0       24        30       35
D9V11, multiclass
           clus
vv          5P GAIN MUTATED 5P GAIN WILD-TYPE
  STAGE I                 1                 0
  STAGE II               12                24
  STAGE III              13                30
  STAGE IV               11                35

Clustering(10) Variable = 5q gain mutation analysis
D10V1, survival
                   sevent
clus2                0  1
  5Q GAIN MUTATED   13  3
  5Q GAIN WILD-TYPE 79 29
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
               16               108 
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
                3                29 
$`5Q GAIN MUTATED`
TCGA-BL-A0C8 TCGA-BL-A3JM TCGA-BT-A20N TCGA-CF-A1HS TCGA-DK-A2I4 TCGA-DK-A2I6 
       12.79         6.74        26.10         0.43       123.85        75.32 
TCGA-DK-A3WX TCGA-FT-A3EE TCGA-G2-A2EO TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3YS 
       10.55         2.33        32.78         2.24         1.32         1.08 
TCGA-GV-A3JV TCGA-GV-A3QH TCGA-GV-A3QI TCGA-GV-A40E 
        4.37         7.79         4.11         6.38 

$`5Q GAIN WILD-TYPE`
TCGA-BL-A13I TCGA-BL-A13J TCGA-BT-A0S7 TCGA-BT-A0YX TCGA-BT-A20J TCGA-BT-A20O 
        7.33         2.66         6.58        11.93        19.00        12.16 
TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20V 
       17.85        19.46         5.06        14.89         8.61         5.06 
TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LA TCGA-BT-A2LD TCGA-BT-A3PH TCGA-C4-A0EZ 
        8.35         8.25         5.88         3.65         4.64         8.98 
TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO 
        1.94         2.01         0.46         0.69        12.92         4.90 
TCGA-CU-A0YR TCGA-CU-A3KJ TCGA-CU-A3QU TCGA-CU-A3YL TCGA-DK-A1A3 TCGA-DK-A1A5 
        7.20         5.46         5.19         8.09         2.53         2.14 
TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AC TCGA-DK-A1AD 
       31.40         8.98         7.04         8.91       118.88       100.47 
TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I2 
        7.17         5.85         6.64         1.81        10.59         7.76 
TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS 
        2.20         3.98         7.82         8.22        10.49        37.84 
TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WY TCGA-E5-A2PC 
        5.52        11.51         9.67         8.28       131.15        36.43 
TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 
        0.10         8.81         8.32         8.94         6.87         4.01 
TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SL 
       11.05         8.94         7.96        32.02        24.30        10.98 
TCGA-FD-A3SM TCGA-FD-A3SN TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR 
        6.12         6.81         5.49         4.54        46.78        19.79 
TCGA-FD-A3SS TCGA-FD-A43N TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-G2-A2EF 
        1.94         7.89         6.84        15.16         4.08        49.91 
TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE 
       26.50         5.65        26.93        17.26         7.04        20.12 
TCGA-G2-A3VY TCGA-GC-A3BM TCGA-GC-A3RB TCGA-GC-A3RC TCGA-GC-A3RD TCGA-GC-A3WC 
        0.82         2.86         4.50         1.38         1.02         2.50 
TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GD-A3OS TCGA-GU-A42P TCGA-GU-A42Q 
        7.69         2.10         3.12         5.82         6.38         7.56 
TCGA-GU-A42R TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-GV-A3QF TCGA-GV-A3QK 
        3.22         6.41         6.15         5.69         7.63         6.64 
TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A3WV 
        5.33         1.51         6.71         8.71         3.42         4.64 

  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
             0.43              0.10 
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
           123.85            131.15 
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
             6.56              7.04 
[1] "0.4 - 123.8 (6.6)" "0.1 - 131.2 (7.0)"
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
  "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
  "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED"   "5Q GAIN MUTATED" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
  "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
  "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED"   "5Q GAIN MUTATED" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
  "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
  "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED"   "5Q GAIN MUTATED" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
  "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
  "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED"   "5Q GAIN MUTATED" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
  "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
  "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED"   "5Q GAIN MUTATED" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
  "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
  "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED"   "5Q GAIN MUTATED" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
[1] "hr=" "1.9"
D10V2, continuous
D10V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5Q GAIN MUTATED      3   15
  5Q GAIN WILD-TYPE   30   83
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  FEMALE               3                30
  MALE                15                83
D10V4, continuous
D10V5, continuous
D10V6, continuous
                   vv
clus                M0 M1 MX
  5Q GAIN MUTATED   11  0  7
  5Q GAIN WILD-TYPE 64  4 44
D10V7, multiclass
    clus
vv   5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  M0              11                64
  M1               0                 4
  MX               7                44
                   vv
clus                N0 N1 N2 N3 NX
  5Q GAIN MUTATED   12  3  0  0  3
  5Q GAIN WILD-TYPE 62 11 26  4  7
D10V8, multiclass
D10V9, continuous
D10V10, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV
  5Q GAIN MUTATED         1        4         9        3
  5Q GAIN WILD-TYPE       0       32        34       43
D10V11, multiclass
           clus
vv          5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  STAGE I                 1                 0
  STAGE II                4                32
  STAGE III               9                34
  STAGE IV                3                43

Clustering(11) Variable = 6p gain mutation analysis
D11V1, survival
                   sevent
clus2                0  1
  6P GAIN MUTATED    7  0
  6P GAIN WILD-TYPE 85 32
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
                7               117 
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
                0                32 
$`6P GAIN MUTATED`
TCGA-DK-A1AC TCGA-FT-A3EE TCGA-GC-A3I6 TCGA-GC-A3RC TCGA-GC-A3YS TCGA-GD-A2C5 
      118.88         2.33         2.24         1.38         1.08         7.69 
TCGA-GU-A42P 
        6.38 

$`6P GAIN WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
       12.79         7.33         2.66         6.74         6.58        11.93 
TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R 
       19.00        26.10        12.16        17.85        19.46         5.06 
TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LA 
       14.89         8.61         5.06         8.35         8.25         5.88 
TCGA-BT-A2LD TCGA-BT-A3PH TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR 
        3.65         4.64         8.98         1.94         2.01         0.46 
TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3KJ 
        0.43         0.69        12.92         4.90         7.20         5.46 
TCGA-CU-A3QU TCGA-CU-A3YL TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 
        5.19         8.09         2.53         2.14        31.40         8.98 
TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG 
        7.04         8.91       100.47         7.17         5.85         6.64 
TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IK 
        1.81        10.59         7.76       123.85        75.32         2.20 
TCGA-DK-A3IL TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT 
        3.98         7.82         8.22        10.49        37.84         5.52 
TCGA-DK-A3IU TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E5-A2PC 
       11.51         9.67         8.28        10.55       131.15        36.43 
TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 
        0.10         8.81         8.32         8.94         6.87         4.01 
TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SL 
       11.05         8.94         7.96        32.02        24.30        10.98 
TCGA-FD-A3SM TCGA-FD-A3SN TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR 
        6.12         6.81         5.49         4.54        46.78        19.79 
TCGA-FD-A3SS TCGA-FD-A43N TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-G2-A2EF 
        1.94         7.89         6.84        15.16         4.08        49.91 
TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB 
       26.50         5.65        26.93        32.78        17.26         7.04 
TCGA-G2-A3IE TCGA-G2-A3VY TCGA-GC-A3BM TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RD 
       20.12         0.82         2.86         1.32         4.50         1.02 
TCGA-GC-A3WC TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GD-A3OS TCGA-GU-A42Q TCGA-GU-A42R 
        2.50         2.10         3.12         5.82         7.56         3.22 
TCGA-GV-A3JV TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-GV-A3QF TCGA-GV-A3QH 
        4.37         6.41         6.15         5.69         7.63         7.79 
TCGA-GV-A3QI TCGA-GV-A3QK TCGA-GV-A40E TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ 
        4.11         6.64         6.38         5.33         1.51         6.71 
TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A3WV 
        8.71         3.42         4.64 

  6P GAIN MUTATED 6P GAIN WILD-TYPE 
             1.08              0.10 
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
           118.88            131.15 
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
             2.33              7.04 
[1] "1.1 - 118.9 (2.3)" "0.1 - 131.2 (7.0)"
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
  "6P GAIN MUTATED" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"6P GAIN WILD-TYPE"   "6P GAIN MUTATED"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
  "6P GAIN MUTATED" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"6P GAIN WILD-TYPE"   "6P GAIN MUTATED"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
  "6P GAIN MUTATED" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"6P GAIN WILD-TYPE"   "6P GAIN MUTATED"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
[1] "hr="     "2.6e+07"
D11V2, continuous
D11V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  6P GAIN MUTATED      2    5
  6P GAIN WILD-TYPE   31   93
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  FEMALE               2                31
  MALE                 5                93
D11V4, continuous
D11V5, continuous
D11V6, continuous
                   vv
clus                M0 M1 MX
  6P GAIN MUTATED    4  0  3
  6P GAIN WILD-TYPE 71  4 48
D11V7, multiclass
    clus
vv   6P GAIN MUTATED 6P GAIN WILD-TYPE
  M0               4                71
  M1               0                 4
  MX               3                48
                   vv
clus                N0 N1 N2 N3 NX
  6P GAIN MUTATED    4  2  1  0  0
  6P GAIN WILD-TYPE 70 12 25  4 10
D11V8, multiclass
D11V9, continuous
D11V10, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV
  6P GAIN MUTATED         0        1         3        3
  6P GAIN WILD-TYPE       1       35        40       43
D11V11, multiclass
           clus
vv          6P GAIN MUTATED 6P GAIN WILD-TYPE
  STAGE I                 0                 1
  STAGE II                1                35
  STAGE III               3                40
  STAGE IV                3                43

Clustering(12) Variable = 6q gain mutation analysis
D12V1, survival
                   sevent
clus2                0  1
  6Q GAIN MUTATED    4  0
  6Q GAIN WILD-TYPE 88 32
  6Q GAIN MUTATED 6Q GAIN WILD-TYPE 
                4               120 
  6Q GAIN MUTATED 6Q GAIN WILD-TYPE 
                0                32 
$`6Q GAIN MUTATED`
TCGA-BT-A2LA TCGA-DK-A1AC TCGA-GC-A3YS TCGA-GU-A42P 
        5.88       118.88         1.08         6.38 

$`6Q GAIN WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
       12.79         7.33         2.66         6.74         6.58        11.93 
TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R 
       19.00        26.10        12.16        17.85        19.46         5.06 
TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LD 
       14.89         8.61         5.06         8.35         8.25         3.65 
TCGA-BT-A3PH TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A1HS 
        4.64         8.98         1.94         2.01         0.46         0.43 
TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3KJ TCGA-CU-A3QU 
        0.69        12.92         4.90         7.20         5.46         5.19 
TCGA-CU-A3YL TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA 
        8.09         2.53         2.14        31.40         8.98         7.04 
TCGA-DK-A1AB TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX 
        8.91       100.47         7.17         5.85         6.64         1.81 
TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IK TCGA-DK-A3IL 
       10.59         7.76       123.85        75.32         2.20         3.98 
TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT TCGA-DK-A3IU 
        7.82         8.22        10.49        37.84         5.52        11.51 
TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E5-A2PC TCGA-E7-A3Y1 
        9.67         8.28        10.55       131.15        36.43         0.10 
TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 
        8.81         8.32         8.94         6.87         4.01        11.05 
TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SM 
        8.94         7.96        32.02        24.30        10.98         6.12 
TCGA-FD-A3SN TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A3SS 
        6.81         5.49         4.54        46.78        19.79         1.94 
TCGA-FD-A43N TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-FT-A3EE TCGA-G2-A2EF 
        7.89         6.84        15.16         4.08         2.33        49.91 
TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB 
       26.50         5.65        26.93        32.78        17.26         7.04 
TCGA-G2-A3IE TCGA-G2-A3VY TCGA-GC-A3BM TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RB 
       20.12         0.82         2.86         2.24         1.32         4.50 
TCGA-GC-A3RC TCGA-GC-A3RD TCGA-GC-A3WC TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ 
        1.38         1.02         2.50         7.69         2.10         3.12 
TCGA-GD-A3OS TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JW TCGA-GV-A3JX 
        5.82         7.56         3.22         4.37         6.41         6.15 
TCGA-GV-A3JZ TCGA-GV-A3QF TCGA-GV-A3QH TCGA-GV-A3QI TCGA-GV-A3QK TCGA-GV-A40E 
        5.69         7.63         7.79         4.11         6.64         6.38 
TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A3WV 
        5.33         1.51         6.71         8.71         3.42         4.64 

  6Q GAIN MUTATED 6Q GAIN WILD-TYPE 
             1.08              0.10 
  6Q GAIN MUTATED 6Q GAIN WILD-TYPE 
           118.88            131.15 
  6Q GAIN MUTATED 6Q GAIN WILD-TYPE 
             6.13              7.04 
[1] "1.1 - 118.9 (6.1)" "0.1 - 131.2 (7.0)"
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"6Q GAIN WILD-TYPE"   "6Q GAIN MUTATED" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE"   "6Q GAIN MUTATED" "6Q GAIN WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"6Q GAIN WILD-TYPE"   "6Q GAIN MUTATED" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE"   "6Q GAIN MUTATED" "6Q GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"6Q GAIN WILD-TYPE"   "6Q GAIN MUTATED" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE"   "6Q GAIN MUTATED" "6Q GAIN WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"6Q GAIN WILD-TYPE"   "6Q GAIN MUTATED" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE"   "6Q GAIN MUTATED" "6Q GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"6Q GAIN WILD-TYPE"   "6Q GAIN MUTATED" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE"   "6Q GAIN MUTATED" "6Q GAIN WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"6Q GAIN WILD-TYPE"   "6Q GAIN MUTATED" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE"   "6Q GAIN MUTATED" "6Q GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
[1] "hr="     "2.6e+07"
D12V2, continuous
D12V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  6Q GAIN MUTATED      0    4
  6Q GAIN WILD-TYPE   33   94
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  FEMALE               0                33
  MALE                 4                94
D12V4, continuous
[1] "Remove cluster labels:" "6Q GAIN MUTATED"       
clus
  6Q GAIN MUTATED 6Q GAIN WILD-TYPE 
                1                36 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CF-A3MF        TCGA-CF-A3MG 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-CF-A3MH        TCGA-CF-A3MI        TCGA-DK-A2HX        TCGA-DK-A3IN 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WX        TCGA-E5-A2PC        TCGA-G2-A2EF 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-G2-A2EJ        TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-G2-A2ES        TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-G2-A3VY 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-GC-A3BM        TCGA-GC-A3I6        TCGA-GC-A3OO        TCGA-GC-A3RC 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-GC-A3RD        TCGA-GD-A3OS        TCGA-GV-A3JV        TCGA-GV-A3JW 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-GV-A3QI        TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
D12V5, continuous
D12V6, continuous
                   vv
clus                M0 M1 MX
  6Q GAIN MUTATED    3  0  1
  6Q GAIN WILD-TYPE 72  4 50
D12V7, multiclass
    clus
vv   6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  M0               3                72
  M1               0                 4
  MX               1                50
                   vv
clus                N0 N1 N2 N3 NX
  6Q GAIN MUTATED    2  2  0  0  0
  6Q GAIN WILD-TYPE 72 12 26  4 10
D12V8, multiclass
D12V9, continuous
D12V10, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV
  6Q GAIN MUTATED         0        0         2        2
  6Q GAIN WILD-TYPE       1       36        41       44
D12V11, multiclass
           clus
vv          6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  STAGE I                 0                 1
  STAGE II                0                36
  STAGE III               2                41
  STAGE IV                2                44

Clustering(13) Variable = 7p gain mutation analysis
D13V1, survival
                   sevent
clus2                0  1
  7P GAIN MUTATED   27  8
  7P GAIN WILD-TYPE 65 24
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
               35                89 
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
                8                24 
$`7P GAIN MUTATED`
TCGA-BL-A0C8 TCGA-BL-A13J TCGA-BT-A0S7 TCGA-BT-A20N TCGA-BT-A2LA TCGA-BT-A2LD 
       12.79         2.66         6.58        26.10         5.88         3.65 
TCGA-C4-A0F6 TCGA-CF-A1HS TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A3KJ TCGA-DK-A1A3 
        2.01         0.43        12.92         4.90         5.46         2.53 
TCGA-DK-A1AC TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A3IK TCGA-DK-A3IL TCGA-FD-A3B5 
      118.88        10.59         7.76         2.20         3.98         8.94 
TCGA-FD-A3B7 TCGA-FD-A3N5 TCGA-FD-A43N TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-FT-A3EE 
        4.01         8.94         7.89        15.16         4.08         2.33 
TCGA-G2-A2EO TCGA-G2-A3VY TCGA-GC-A3I6 TCGA-GC-A3RC TCGA-GC-A3RD TCGA-GD-A2C5 
       32.78         0.82         2.24         1.38         1.02         7.69 
TCGA-GD-A3OS TCGA-GU-A42Q TCGA-GV-A3JZ TCGA-GV-A3QK TCGA-GV-A40E 
        5.82         7.56         5.69         6.64         6.38 

$`7P GAIN WILD-TYPE`
TCGA-BL-A13I TCGA-BL-A3JM TCGA-BT-A0YX TCGA-BT-A20J TCGA-BT-A20O TCGA-BT-A20P 
        7.33         6.74        11.93        19.00        12.16        17.85 
TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20W 
       19.46         5.06        14.89         8.61         5.06         8.35 
TCGA-BT-A20X TCGA-BT-A3PH TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-CF-A1HR TCGA-CF-A27C 
        8.25         4.64         8.98         1.94         0.46         0.69 
TCGA-CU-A0YR TCGA-CU-A3QU TCGA-CU-A3YL TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 
        7.20         5.19         8.09         2.14        31.40         8.98 
TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG 
        7.04         8.91       100.47         7.17         5.85         6.64 
TCGA-DK-A2HX TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IQ 
        1.81       123.85        75.32         7.82         8.22        10.49 
TCGA-DK-A3IS TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX 
       37.84         5.52        11.51         9.67         8.28        10.55 
TCGA-DK-A3WY TCGA-E5-A2PC TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B6 
      131.15        36.43         0.10         8.81         8.32         6.87 
TCGA-FD-A3B8 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SM 
       11.05         7.96        32.02        24.30        10.98         6.12 
TCGA-FD-A3SN TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A3SS 
        6.81         5.49         4.54        46.78        19.79         1.94 
TCGA-FD-A43U TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2ES 
        6.84        49.91        26.50         5.65        26.93        17.26 
TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GC-A3BM TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3WC 
        7.04        20.12         2.86         1.32         4.50         2.50 
TCGA-GC-A3YS TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GU-A42P TCGA-GU-A42R TCGA-GV-A3JV 
        1.08         2.10         3.12         6.38         3.22         4.37 
TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3QF TCGA-GV-A3QH TCGA-GV-A3QI TCGA-GV-A40G 
        6.41         6.15         7.63         7.79         4.11         5.33 
TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A3WV 
        1.51         6.71         8.71         3.42         4.64 

  7P GAIN MUTATED 7P GAIN WILD-TYPE 
             0.43              0.10 
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
           118.88            131.15 
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
             5.82              7.33 
[1] "0.4 - 118.9 (5.8)" "0.1 - 131.2 (7.3)"
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
  "7P GAIN MUTATED" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
  "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
  "7P GAIN MUTATED" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED"   "7P GAIN MUTATED" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
  "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "7P GAIN MUTATED"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
  "7P GAIN MUTATED"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
  "7P GAIN MUTATED" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
  "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
  "7P GAIN MUTATED" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED"   "7P GAIN MUTATED" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
  "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED"   "7P GAIN MUTATED" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
  "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
  "7P GAIN MUTATED"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
  "7P GAIN MUTATED" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
  "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
  "7P GAIN MUTATED" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED"   "7P GAIN MUTATED" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
  "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "7P GAIN MUTATED"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
  "7P GAIN MUTATED"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
  "7P GAIN MUTATED" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
  "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
  "7P GAIN MUTATED" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED"   "7P GAIN MUTATED" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
  "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED"   "7P GAIN MUTATED" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
  "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
  "7P GAIN MUTATED"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
  "7P GAIN MUTATED" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
  "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
  "7P GAIN MUTATED" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED"   "7P GAIN MUTATED" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
  "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "7P GAIN MUTATED"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
  "7P GAIN MUTATED"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
  "7P GAIN MUTATED" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
  "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
  "7P GAIN MUTATED" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED"   "7P GAIN MUTATED" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
  "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED"   "7P GAIN MUTATED" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
  "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
  "7P GAIN MUTATED"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
[1] "hr=" "1.3"
D13V2, continuous
D13V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  7P GAIN MUTATED     11   28
  7P GAIN WILD-TYPE   22   70
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  FEMALE              11                22
  MALE                28                70
D13V4, continuous
D13V5, continuous
D13V6, continuous
                   vv
clus                M0 M1 MX
  7P GAIN MUTATED   23  0 15
  7P GAIN WILD-TYPE 52  4 36
D13V7, multiclass
    clus
vv   7P GAIN MUTATED 7P GAIN WILD-TYPE
  M0              23                52
  M1               0                 4
  MX              15                36
                   vv
clus                N0 N1 N2 N3 NX
  7P GAIN MUTATED   21  2  9  3  3
  7P GAIN WILD-TYPE 53 12 17  1  7
D13V8, multiclass
D13V9, continuous
D13V10, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV
  7P GAIN MUTATED         1        8        15       13
  7P GAIN WILD-TYPE       0       28        28       33
D13V11, multiclass
           clus
vv          7P GAIN MUTATED 7P GAIN WILD-TYPE
  STAGE I                 1                 0
  STAGE II                8                28
  STAGE III              15                28
  STAGE IV               13                33

Clustering(14) Variable = 7q gain mutation analysis
D14V1, survival
                   sevent
clus2                0  1
  7Q GAIN MUTATED   27  7
  7Q GAIN WILD-TYPE 65 25
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
               34                90 
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
                7                25 
$`7Q GAIN MUTATED`
TCGA-BL-A0C8 TCGA-BL-A13J TCGA-BT-A0S7 TCGA-BT-A20N TCGA-BT-A2LA TCGA-BT-A2LD 
       12.79         2.66         6.58        26.10         5.88         3.65 
TCGA-C4-A0F6 TCGA-CF-A1HS TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A3KJ TCGA-DK-A1AD 
        2.01         0.43        12.92         4.90         5.46       100.47 
TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A3IL TCGA-FD-A3B4 TCGA-FD-A3B7 
        1.81        10.59         7.76         3.98         8.32         4.01 
TCGA-FD-A3N5 TCGA-FD-A43N TCGA-FJ-A3ZF TCGA-FT-A3EE TCGA-G2-A2EO TCGA-G2-A3VY 
        8.94         7.89         4.08         2.33        32.78         0.82 
TCGA-GC-A3I6 TCGA-GC-A3RC TCGA-GC-A3RD TCGA-GD-A2C5 TCGA-GD-A3OS TCGA-GV-A3JZ 
        2.24         1.38         1.02         7.69         5.82         5.69 
TCGA-GV-A3QF TCGA-GV-A3QK TCGA-GV-A40E TCGA-K4-A3WV 
        7.63         6.64         6.38         4.64 

$`7Q GAIN WILD-TYPE`
TCGA-BL-A13I TCGA-BL-A3JM TCGA-BT-A0YX TCGA-BT-A20J TCGA-BT-A20O TCGA-BT-A20P 
        7.33         6.74        11.93        19.00        12.16        17.85 
TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20W 
       19.46         5.06        14.89         8.61         5.06         8.35 
TCGA-BT-A20X TCGA-BT-A3PH TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-CF-A1HR TCGA-CF-A27C 
        8.25         4.64         8.98         1.94         0.46         0.69 
TCGA-CU-A0YR TCGA-CU-A3QU TCGA-CU-A3YL TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A6 
        7.20         5.19         8.09         2.53         2.14        31.40 
TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AC TCGA-DK-A1AE TCGA-DK-A1AF 
        8.98         7.04         8.91       118.88         7.17         5.85 
TCGA-DK-A1AG TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IK TCGA-DK-A3IM TCGA-DK-A3IN 
        6.64       123.85        75.32         2.20         7.82         8.22 
TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3IV TCGA-DK-A3WW 
       10.49        37.84         5.52        11.51         9.67         8.28 
TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E5-A2PC TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B5 
       10.55       131.15        36.43         0.10         8.81         8.94 
TCGA-FD-A3B6 TCGA-FD-A3B8 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SL 
        6.87        11.05         7.96        32.02        24.30        10.98 
TCGA-FD-A3SM TCGA-FD-A3SN TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR 
        6.12         6.81         5.49         4.54        46.78        19.79 
TCGA-FD-A3SS TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK 
        1.94         6.84        15.16        49.91        26.50         5.65 
TCGA-G2-A2EL TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GC-A3BM TCGA-GC-A3OO 
       26.93        17.26         7.04        20.12         2.86         1.32 
TCGA-GC-A3RB TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GU-A42P 
        4.50         2.50         1.08         2.10         3.12         6.38 
TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3QH 
        7.56         3.22         4.37         6.41         6.15         7.79 
TCGA-GV-A3QI TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-K4-A3WS TCGA-K4-A3WU 
        4.11         5.33         1.51         6.71         8.71         3.42 

  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
             0.43              0.10 
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
           100.47            131.15 
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
            5.755             7.445 
[1] "0.4 - 100.5 (5.8)" "0.1 - 131.2 (7.4)"
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
  "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
  "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
  "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "7Q GAIN MUTATED"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
  "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
  "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
  "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
  "7Q GAIN MUTATED"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
  "7Q GAIN MUTATED"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
  "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
  "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
  "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "7Q GAIN MUTATED"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
  "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
  "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
  "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
  "7Q GAIN MUTATED"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
  "7Q GAIN MUTATED"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
  "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
  "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
  "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "7Q GAIN MUTATED"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
  "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
  "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
  "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
  "7Q GAIN MUTATED"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
  "7Q GAIN MUTATED"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
[1] "hr=" "1.2"
D14V2, continuous
D14V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  7Q GAIN MUTATED     14   23
  7Q GAIN WILD-TYPE   19   75
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  FEMALE              14                19
  MALE                23                75
D14V4, continuous
D14V5, continuous
D14V6, continuous
                   vv
clus                M0 M1 MX
  7Q GAIN MUTATED   20  0 16
  7Q GAIN WILD-TYPE 55  4 35
D14V7, multiclass
    clus
vv   7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  M0              20                55
  M1               0                 4
  MX              16                35
                   vv
clus                N0 N1 N2 N3 NX
  7Q GAIN MUTATED   20  1  9  3  3
  7Q GAIN WILD-TYPE 54 13 17  1  7
D14V8, multiclass
D14V9, continuous
D14V10, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV
  7Q GAIN MUTATED         1        8        14       12
  7Q GAIN WILD-TYPE       0       28        29       34
D14V11, multiclass
           clus
vv          7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  STAGE I                 1                 0
  STAGE II                8                28
  STAGE III              14                29
  STAGE IV               12                34

Clustering(15) Variable = 8p gain mutation analysis
D15V1, survival
                   sevent
clus2                0  1
  8P GAIN MUTATED    9  3
  8P GAIN WILD-TYPE 83 29
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
               12               112 
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
                3                29 
$`8P GAIN MUTATED`
TCGA-BL-A3JM TCGA-BT-A20N TCGA-BT-A20V TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-DK-A1A6 
        6.74        26.10         5.06         1.94         2.01        31.40 
TCGA-DK-A1AE TCGA-FD-A3N6 TCGA-G2-A2ES TCGA-GC-A3I6 TCGA-GV-A3JV TCGA-GV-A3QI 
        7.17         7.96        17.26         2.24         4.37         4.11 

$`8P GAIN WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BT-A0S7 TCGA-BT-A0YX TCGA-BT-A20J 
       12.79         7.33         2.66         6.58        11.93        19.00 
TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A20T TCGA-BT-A20U 
       12.16        17.85        19.46         5.06        14.89         8.61 
TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LA TCGA-BT-A2LD TCGA-BT-A3PH TCGA-C4-A0EZ 
        8.35         8.25         5.88         3.65         4.64         8.98 
TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR 
        0.46         0.43         0.69        12.92         4.90         7.20 
TCGA-CU-A3KJ TCGA-CU-A3QU TCGA-CU-A3YL TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A7 
        5.46         5.19         8.09         2.53         2.14         8.98 
TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A1AF TCGA-DK-A1AG 
        7.04         8.91       118.88       100.47         5.85         6.64 
TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IK 
        1.81        10.59         7.76       123.85        75.32         2.20 
TCGA-DK-A3IL TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT 
        3.98         7.82         8.22        10.49        37.84         5.52 
TCGA-DK-A3IU TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E5-A2PC 
       11.51         9.67         8.28        10.55       131.15        36.43 
TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 
        0.10         8.81         8.32         8.94         6.87         4.01 
TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SM 
       11.05         8.94        32.02        24.30        10.98         6.12 
TCGA-FD-A3SN TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A3SS 
        6.81         5.49         4.54        46.78        19.79         1.94 
TCGA-FD-A43N TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-FT-A3EE TCGA-G2-A2EF 
        7.89         6.84        15.16         4.08         2.33        49.91 
TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A3IB TCGA-G2-A3IE 
       26.50         5.65        26.93        32.78         7.04        20.12 
TCGA-G2-A3VY TCGA-GC-A3BM TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RC TCGA-GC-A3RD 
        0.82         2.86         1.32         4.50         1.38         1.02 
TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GD-A3OS 
        2.50         1.08         7.69         2.10         3.12         5.82 
TCGA-GU-A42P TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ 
        6.38         7.56         3.22         6.41         6.15         5.69 
TCGA-GV-A3QF TCGA-GV-A3QH TCGA-GV-A3QK TCGA-GV-A40E TCGA-GV-A40G TCGA-H4-A2HO 
        7.63         7.79         6.64         6.38         5.33         1.51 
TCGA-H4-A2HQ TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A3WV 
        6.71         8.71         3.42         4.64 

  8P GAIN MUTATED 8P GAIN WILD-TYPE 
             1.94              0.10 
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
            31.40            131.15 
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
             5.90              7.04 
[1] "1.9 - 31.4 (5.9)"  "0.1 - 131.2 (7.0)"
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"8P GAIN WILD-TYPE"   "8P GAIN MUTATED"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
  "8P GAIN MUTATED" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"8P GAIN WILD-TYPE"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"8P GAIN WILD-TYPE"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"8P GAIN WILD-TYPE"   "8P GAIN MUTATED"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
  "8P GAIN MUTATED" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"8P GAIN WILD-TYPE"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"8P GAIN WILD-TYPE"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"8P GAIN WILD-TYPE"   "8P GAIN MUTATED"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
  "8P GAIN MUTATED" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"8P GAIN WILD-TYPE"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"8P GAIN WILD-TYPE"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
[1] "hr=" "1.1"
D15V2, continuous
D15V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8P GAIN MUTATED      3   11
  8P GAIN WILD-TYPE   30   87
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  FEMALE               3                30
  MALE                11                87
D15V4, continuous
D15V5, continuous
D15V6, continuous
                   vv
clus                M0 M1 MX
  8P GAIN MUTATED    9  0  5
  8P GAIN WILD-TYPE 66  4 46
D15V7, multiclass
    clus
vv   8P GAIN MUTATED 8P GAIN WILD-TYPE
  M0               9                66
  M1               0                 4
  MX               5                46
                   vv
clus                N0 N1 N2 N3 NX
  8P GAIN MUTATED   10  2  2  0  0
  8P GAIN WILD-TYPE 64 12 24  4 10
D15V8, multiclass
D15V9, continuous
D15V10, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV
  8P GAIN MUTATED         0        4         6        3
  8P GAIN WILD-TYPE       1       32        37       43
D15V11, multiclass
           clus
vv          8P GAIN MUTATED 8P GAIN WILD-TYPE
  STAGE I                 0                 1
  STAGE II                4                32
  STAGE III               6                37
  STAGE IV                3                43

Clustering(16) Variable = 8q gain mutation analysis
D16V1, survival
                   sevent
clus2                0  1
  8Q GAIN MUTATED   24  8
  8Q GAIN WILD-TYPE 68 24
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
               32                92 
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
                8                24 
$`8Q GAIN MUTATED`
TCGA-BL-A0C8 TCGA-BL-A3JM TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20V TCGA-BT-A20W 
       12.79         6.74        19.00        26.10         5.06         8.35 
TCGA-BT-A20X TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CU-A0YN TCGA-CU-A3KJ TCGA-DK-A1A6 
        8.25         1.94         2.01        12.92         5.46        31.40 
TCGA-DK-A1A7 TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A2I1 TCGA-FD-A3B6 TCGA-FD-A3N6 
        8.98       100.47         7.17        10.59         6.87         7.96 
TCGA-FD-A3SQ TCGA-FD-A43N TCGA-FT-A3EE TCGA-G2-A2EK TCGA-G2-A2ES TCGA-GC-A3I6 
       46.78         7.89         2.33         5.65        17.26         2.24 
TCGA-GC-A3RB TCGA-GC-A3RD TCGA-GD-A3OP TCGA-GD-A3OS TCGA-GV-A3JV TCGA-GV-A3JZ 
        4.50         1.02         2.10         5.82         4.37         5.69 
TCGA-GV-A3QH TCGA-GV-A3QI 
        7.79         4.11 

$`8Q GAIN WILD-TYPE`
TCGA-BL-A13I TCGA-BL-A13J TCGA-BT-A0S7 TCGA-BT-A0YX TCGA-BT-A20O TCGA-BT-A20P 
        7.33         2.66         6.58        11.93        12.16        17.85 
TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A2LA TCGA-BT-A2LD 
       19.46         5.06        14.89         8.61         5.88         3.65 
TCGA-BT-A3PH TCGA-C4-A0EZ TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YO 
        4.64         8.98         0.46         0.43         0.69         4.90 
TCGA-CU-A0YR TCGA-CU-A3QU TCGA-CU-A3YL TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1AA 
        7.20         5.19         8.09         2.53         2.14         7.04 
TCGA-DK-A1AB TCGA-DK-A1AC TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I2 
        8.91       118.88         5.85         6.64         1.81         7.76 
TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IM TCGA-DK-A3IN 
      123.85        75.32         2.20         3.98         7.82         8.22 
TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3IV TCGA-DK-A3WW 
       10.49        37.84         5.52        11.51         9.67         8.28 
TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E5-A2PC TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 
       10.55       131.15        36.43         0.10         8.81         8.32 
TCGA-FD-A3B5 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3NA TCGA-FD-A3SJ 
        8.94         4.01        11.05         8.94        32.02        24.30 
TCGA-FD-A3SL TCGA-FD-A3SM TCGA-FD-A3SN TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SR 
       10.98         6.12         6.81         5.49         4.54        19.79 
TCGA-FD-A3SS TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-G2-A2EF TCGA-G2-A2EJ 
        1.94         6.84        15.16         4.08        49.91        26.50 
TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A3IB TCGA-G2-A3IE TCGA-G2-A3VY TCGA-GC-A3BM 
       26.93        32.78         7.04        20.12         0.82         2.86 
TCGA-GC-A3OO TCGA-GC-A3RC TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GD-A3OQ 
        1.32         1.38         2.50         1.08         7.69         3.12 
TCGA-GU-A42P TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3QF 
        6.38         7.56         3.22         6.41         6.15         7.63 
TCGA-GV-A3QK TCGA-GV-A40E TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-K4-A3WS 
        6.64         6.38         5.33         1.51         6.71         8.71 
TCGA-K4-A3WU TCGA-K4-A3WV 
        3.42         4.64 

  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
             1.02              0.10 
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
           100.47            131.15 
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
             7.02              6.94 
[1] "1.0 - 100.5 (7.0)" "0.1 - 131.2 (6.9)"
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED"   "8Q GAIN MUTATED" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED"   "8Q GAIN MUTATED" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED"   "8Q GAIN MUTATED" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED"   "8Q GAIN MUTATED" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED"   "8Q GAIN MUTATED" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED"   "8Q GAIN MUTATED" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED"   "8Q GAIN MUTATED" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED"   "8Q GAIN MUTATED" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED"   "8Q GAIN MUTATED" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED"   "8Q GAIN MUTATED" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED"   "8Q GAIN MUTATED" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED"   "8Q GAIN MUTATED" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
[1] "hr=" "1"  
D16V2, continuous
D16V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8Q GAIN MUTATED      9   26
  8Q GAIN WILD-TYPE   24   72
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  FEMALE               9                24
  MALE                26                72
D16V4, continuous
D16V5, continuous
D16V6, continuous
                   vv
clus                M0 M1 MX
  8Q GAIN MUTATED   21  0 14
  8Q GAIN WILD-TYPE 54  4 37
D16V7, multiclass
    clus
vv   8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  M0              21                54
  M1               0                 4
  MX              14                37
                   vv
clus                N0 N1 N2 N3 NX
  8Q GAIN MUTATED   22  2  7  1  3
  8Q GAIN WILD-TYPE 52 12 19  3  7
D16V8, multiclass
D16V9, continuous
D16V10, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV
  8Q GAIN MUTATED         1       12        12        9
  8Q GAIN WILD-TYPE       0       24        31       37
D16V11, multiclass
           clus
vv          8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  STAGE I                 1                 0
  STAGE II               12                24
  STAGE III              12                31
  STAGE IV                9                37

Clustering(17) Variable = 9p gain mutation analysis
D17V1, survival
                   sevent
clus2                0  1
  9P GAIN MUTATED   12  1
  9P GAIN WILD-TYPE 80 31
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
               13               111 
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
                1                31 
$`9P GAIN MUTATED`
TCGA-BL-A0C8 TCGA-BL-A3JM TCGA-BT-A2LA TCGA-CU-A3QU TCGA-DK-A1AC TCGA-DK-A1AD 
       12.79         6.74         5.88         5.19       118.88       100.47 
TCGA-DK-A3IM TCGA-FD-A3N5 TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-GC-A3I6 TCGA-GV-A3JZ 
        7.82         8.94        49.91        26.50         2.24         5.69 
TCGA-GV-A3QI 
        4.11 

$`9P GAIN WILD-TYPE`
TCGA-BL-A13I TCGA-BL-A13J TCGA-BT-A0S7 TCGA-BT-A0YX TCGA-BT-A20J TCGA-BT-A20N 
        7.33         2.66         6.58        11.93        19.00        26.10 
TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A20T TCGA-BT-A20U 
       12.16        17.85        19.46         5.06        14.89         8.61 
TCGA-BT-A20V TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LD TCGA-BT-A3PH TCGA-C4-A0EZ 
        5.06         8.35         8.25         3.65         4.64         8.98 
TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YN 
        1.94         2.01         0.46         0.43         0.69        12.92 
TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3KJ TCGA-CU-A3YL TCGA-DK-A1A3 TCGA-DK-A1A5 
        4.90         7.20         5.46         8.09         2.53         2.14 
TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AE TCGA-DK-A1AF 
       31.40         8.98         7.04         8.91         7.17         5.85 
TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A2I6 
        6.64         1.81        10.59         7.76       123.85        75.32 
TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT 
        2.20         3.98         8.22        10.49        37.84         5.52 
TCGA-DK-A3IU TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E5-A2PC 
       11.51         9.67         8.28        10.55       131.15        36.43 
TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 
        0.10         8.81         8.32         8.94         6.87         4.01 
TCGA-FD-A3B8 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SM 
       11.05         7.96        32.02        24.30        10.98         6.12 
TCGA-FD-A3SN TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A3SS 
        6.81         5.49         4.54        46.78        19.79         1.94 
TCGA-FD-A43N TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-FT-A3EE TCGA-G2-A2EK 
        7.89         6.84        15.16         4.08         2.33         5.65 
TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-G2-A3VY 
       26.93        32.78        17.26         7.04        20.12         0.82 
TCGA-GC-A3BM TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RC TCGA-GC-A3RD TCGA-GC-A3WC 
        2.86         1.32         4.50         1.38         1.02         2.50 
TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GD-A3OS TCGA-GU-A42P 
        1.08         7.69         2.10         3.12         5.82         6.38 
TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3QF 
        7.56         3.22         4.37         6.41         6.15         7.63 
TCGA-GV-A3QH TCGA-GV-A3QK TCGA-GV-A40E TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ 
        7.79         6.64         6.38         5.33         1.51         6.71 
TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A3WV 
        8.71         3.42         4.64 

  9P GAIN MUTATED 9P GAIN WILD-TYPE 
             2.24              0.10 
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
           118.88            131.15 
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
             7.82              6.87 
[1] "2.2 - 118.9 (7.8)" "0.1 - 131.2 (6.9)"
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
  "9P GAIN MUTATED" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE"   "9P GAIN MUTATED" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"9P GAIN WILD-TYPE"   "9P GAIN MUTATED" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE"   "9P GAIN MUTATED" "9P GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE"   "9P GAIN MUTATED"   "9P GAIN MUTATED" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE"   "9P GAIN MUTATED" "9P GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
  "9P GAIN MUTATED" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"9P GAIN WILD-TYPE"   "9P GAIN MUTATED"   "9P GAIN MUTATED" "9P GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE"   "9P GAIN MUTATED" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
  "9P GAIN MUTATED" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE"   "9P GAIN MUTATED" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
  "9P GAIN MUTATED" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE"   "9P GAIN MUTATED" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"9P GAIN WILD-TYPE"   "9P GAIN MUTATED" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE"   "9P GAIN MUTATED" "9P GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE"   "9P GAIN MUTATED"   "9P GAIN MUTATED" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE"   "9P GAIN MUTATED" "9P GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
  "9P GAIN MUTATED" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"9P GAIN WILD-TYPE"   "9P GAIN MUTATED"   "9P GAIN MUTATED" "9P GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE"   "9P GAIN MUTATED" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
  "9P GAIN MUTATED" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE"   "9P GAIN MUTATED" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
  "9P GAIN MUTATED" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE"   "9P GAIN MUTATED" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"9P GAIN WILD-TYPE"   "9P GAIN MUTATED" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE"   "9P GAIN MUTATED" "9P GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE"   "9P GAIN MUTATED"   "9P GAIN MUTATED" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE"   "9P GAIN MUTATED" "9P GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
  "9P GAIN MUTATED" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"9P GAIN WILD-TYPE"   "9P GAIN MUTATED"   "9P GAIN MUTATED" "9P GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE"   "9P GAIN MUTATED" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
  "9P GAIN MUTATED" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE"   "9P GAIN MUTATED" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
[1] "hr=" "6.4"
D17V2, continuous
D17V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  9P GAIN MUTATED      1   12
  9P GAIN WILD-TYPE   32   86
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  FEMALE               1                32
  MALE                12                86
D17V4, continuous
D17V5, continuous
D17V6, continuous
                   vv
clus                M0 M1 MX
  9P GAIN MUTATED   10  0  3
  9P GAIN WILD-TYPE 65  4 48
D17V7, multiclass
    clus
vv   9P GAIN MUTATED 9P GAIN WILD-TYPE
  M0              10                65
  M1               0                 4
  MX               3                48
                   vv
clus                N0 N1 N2 N3 NX
  9P GAIN MUTATED    9  1  1  1  1
  9P GAIN WILD-TYPE 65 13 25  3  9
D17V8, multiclass
D17V9, continuous
D17V10, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV
  9P GAIN MUTATED         1        3         6        3
  9P GAIN WILD-TYPE       0       33        37       43
D17V11, multiclass
           clus
vv          9P GAIN MUTATED 9P GAIN WILD-TYPE
  STAGE I                 1                 0
  STAGE II                3                33
  STAGE III               6                37
  STAGE IV                3                43

Clustering(18) Variable = 9q gain mutation analysis
D18V1, survival
                   sevent
clus2                0  1
  9Q GAIN MUTATED   10  1
  9Q GAIN WILD-TYPE 82 31
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
               11               113 
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
                1                31 
$`9Q GAIN MUTATED`
TCGA-BL-A0C8 TCGA-BL-A3JM TCGA-BT-A2LA TCGA-DK-A1AC TCGA-DK-A2I1 TCGA-DK-A3IM 
       12.79         6.74         5.88       118.88        10.59         7.82 
TCGA-FD-A3B4 TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-GC-A3I6 TCGA-GC-A3WC 
        8.32        49.91        26.50         2.24         2.50 

$`9Q GAIN WILD-TYPE`
TCGA-BL-A13I TCGA-BL-A13J TCGA-BT-A0S7 TCGA-BT-A0YX TCGA-BT-A20J TCGA-BT-A20N 
        7.33         2.66         6.58        11.93        19.00        26.10 
TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A20T TCGA-BT-A20U 
       12.16        17.85        19.46         5.06        14.89         8.61 
TCGA-BT-A20V TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LD TCGA-BT-A3PH TCGA-C4-A0EZ 
        5.06         8.35         8.25         3.65         4.64         8.98 
TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YN 
        1.94         2.01         0.46         0.43         0.69        12.92 
TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3KJ TCGA-CU-A3QU TCGA-CU-A3YL TCGA-DK-A1A3 
        4.90         7.20         5.46         5.19         8.09         2.53 
TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AD 
        2.14        31.40         8.98         7.04         8.91       100.47 
TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I2 TCGA-DK-A2I4 
        7.17         5.85         6.64         1.81         7.76       123.85 
TCGA-DK-A2I6 TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS 
       75.32         2.20         3.98         8.22        10.49        37.84 
TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY 
        5.52        11.51         9.67         8.28        10.55       131.15 
TCGA-E5-A2PC TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 
       36.43         0.10         8.81         8.94         6.87         4.01 
TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SL 
       11.05         8.94         7.96        32.02        24.30        10.98 
TCGA-FD-A3SM TCGA-FD-A3SN TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR 
        6.12         6.81         5.49         4.54        46.78        19.79 
TCGA-FD-A3SS TCGA-FD-A43N TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-FT-A3EE 
        1.94         7.89         6.84        15.16         4.08         2.33 
TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE 
        5.65        26.93        32.78        17.26         7.04        20.12 
TCGA-G2-A3VY TCGA-GC-A3BM TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RC TCGA-GC-A3RD 
        0.82         2.86         1.32         4.50         1.38         1.02 
TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GD-A3OS TCGA-GU-A42P 
        1.08         7.69         2.10         3.12         5.82         6.38 
TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ 
        7.56         3.22         4.37         6.41         6.15         5.69 
TCGA-GV-A3QF TCGA-GV-A3QH TCGA-GV-A3QI TCGA-GV-A3QK TCGA-GV-A40E TCGA-GV-A40G 
        7.63         7.79         4.11         6.64         6.38         5.33 
TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A3WV 
        1.51         6.71         8.71         3.42         4.64 

  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
             2.24              0.10 
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
           118.88            131.15 
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
             8.32              6.84 
[1] "2.2 - 118.9 (8.3)" "0.1 - 131.2 (6.8)"
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
  "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE"   "9Q GAIN MUTATED" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"9Q GAIN WILD-TYPE"   "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE"   "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE"   "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE"   "9Q GAIN MUTATED" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"9Q GAIN WILD-TYPE"   "9Q GAIN MUTATED"   "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE"   "9Q GAIN MUTATED" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
  "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
  "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE"   "9Q GAIN MUTATED" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"9Q GAIN WILD-TYPE"   "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE"   "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE"   "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE"   "9Q GAIN MUTATED" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"9Q GAIN WILD-TYPE"   "9Q GAIN MUTATED"   "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE"   "9Q GAIN MUTATED" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
  "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
  "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE"   "9Q GAIN MUTATED" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"9Q GAIN WILD-TYPE"   "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE"   "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE"   "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE"   "9Q GAIN MUTATED" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"9Q GAIN WILD-TYPE"   "9Q GAIN MUTATED"   "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE"   "9Q GAIN MUTATED" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
  "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
[1] "hr=" "4.9"
D18V2, continuous
D18V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  9Q GAIN MUTATED      4    7
  9Q GAIN WILD-TYPE   29   91
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  FEMALE               4                29
  MALE                 7                91
D18V4, continuous
D18V5, continuous
D18V6, continuous
                   vv
clus                M0 M1 MX
  9Q GAIN MUTATED    9  0  2
  9Q GAIN WILD-TYPE 66  4 49
D18V7, multiclass
    clus
vv   9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  M0               9                66
  M1               0                 4
  MX               2                49
                   vv
clus                N0 N1 N2 N3 NX
  9Q GAIN MUTATED   10  0  0  0  1
  9Q GAIN WILD-TYPE 64 14 26  4  9
D18V8, multiclass
D18V9, continuous
D18V10, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV
  9Q GAIN MUTATED         1        3         7        0
  9Q GAIN WILD-TYPE       0       33        36       46
D18V11, multiclass
           clus
vv          9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  STAGE I                 1                 0
  STAGE II                3                33
  STAGE III               7                36
  STAGE IV                0                46

Clustering(19) Variable = 10p gain mutation analysis
D19V1, survival
                    sevent
clus2                 0  1
  10P GAIN MUTATED   16  7
  10P GAIN WILD-TYPE 76 25
  10P GAIN MUTATED 10P GAIN WILD-TYPE 
                23                101 
  10P GAIN MUTATED 10P GAIN WILD-TYPE 
                 7                 25 
$`10P GAIN MUTATED`
TCGA-BL-A0C8 TCGA-BL-A13J TCGA-BT-A20N TCGA-BT-A20R TCGA-BT-A20V TCGA-CF-A1HS 
       12.79         2.66        26.10         5.06         5.06         0.43 
TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1AD TCGA-DK-A2I6 TCGA-DK-A3IL 
        2.53         2.14        31.40       100.47        75.32         3.98 
TCGA-DK-A3IN TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FT-A3EE TCGA-G2-A2ES TCGA-GC-A3RB 
        8.22        32.02        24.30         2.33        17.26         4.50 
TCGA-GD-A3OS TCGA-GU-A42P TCGA-GV-A3JZ TCGA-GV-A3QF TCGA-GV-A40E 
        5.82         6.38         5.69         7.63         6.38 

$`10P GAIN WILD-TYPE`
TCGA-BL-A13I TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX TCGA-BT-A20J TCGA-BT-A20O 
        7.33         6.74         6.58        11.93        19.00        12.16 
TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20W TCGA-BT-A20X 
       17.85        19.46        14.89         8.61         8.35         8.25 
TCGA-BT-A2LA TCGA-BT-A2LD TCGA-BT-A3PH TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 
        5.88         3.65         4.64         8.98         1.94         2.01 
TCGA-CF-A1HR TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3KJ 
        0.46         0.69        12.92         4.90         7.20         5.46 
TCGA-CU-A3QU TCGA-CU-A3YL TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AC 
        5.19         8.09         8.98         7.04         8.91       118.88 
TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I2 
        7.17         5.85         6.64         1.81        10.59         7.76 
TCGA-DK-A2I4 TCGA-DK-A3IK TCGA-DK-A3IM TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT 
      123.85         2.20         7.82        10.49        37.84         5.52 
TCGA-DK-A3IU TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E5-A2PC 
       11.51         9.67         8.28        10.55       131.15        36.43 
TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 
        0.10         8.81         8.32         8.94         6.87         4.01 
TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3SL TCGA-FD-A3SM TCGA-FD-A3SN 
       11.05         8.94         7.96        10.98         6.12         6.81 
TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A3SS TCGA-FD-A43N 
        5.49         4.54        46.78        19.79         1.94         7.89 
TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK 
        6.84        15.16         4.08        49.91        26.50         5.65 
TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A3IB TCGA-G2-A3IE TCGA-G2-A3VY TCGA-GC-A3BM 
       26.93        32.78         7.04        20.12         0.82         2.86 
TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RC TCGA-GC-A3RD TCGA-GC-A3WC TCGA-GC-A3YS 
        2.24         1.32         1.38         1.02         2.50         1.08 
TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JV 
        7.69         2.10         3.12         7.56         3.22         4.37 
TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3QH TCGA-GV-A3QI TCGA-GV-A3QK TCGA-GV-A40G 
        6.41         6.15         7.79         4.11         6.64         5.33 
TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A3WV 
        1.51         6.71         8.71         3.42         4.64 

  10P GAIN MUTATED 10P GAIN WILD-TYPE 
              0.43               0.10 
  10P GAIN MUTATED 10P GAIN WILD-TYPE 
            100.47             131.15 
  10P GAIN MUTATED 10P GAIN WILD-TYPE 
              6.38               7.04 
[1] "0.4 - 100.5 (6.4)" "0.1 - 131.2 (7.0)"
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
  "10P GAIN MUTATED" "10P GAIN WILD-TYPE"   "10P GAIN MUTATED" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"10P GAIN WILD-TYPE"   "10P GAIN MUTATED" "10P GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE"   "10P GAIN MUTATED" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE"   "10P GAIN MUTATED" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
  "10P GAIN MUTATED" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE"   "10P GAIN MUTATED" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
  "10P GAIN MUTATED"   "10P GAIN MUTATED" "10P GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
  "10P GAIN MUTATED" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE"   "10P GAIN MUTATED" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"10P GAIN WILD-TYPE"   "10P GAIN MUTATED" "10P GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
  "10P GAIN MUTATED" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"10P GAIN WILD-TYPE"   "10P GAIN MUTATED"   "10P GAIN MUTATED" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
  "10P GAIN MUTATED" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
  "10P GAIN MUTATED" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"10P GAIN WILD-TYPE"   "10P GAIN MUTATED" "10P GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
  "10P GAIN MUTATED"   "10P GAIN MUTATED" "10P GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"10P GAIN WILD-TYPE"   "10P GAIN MUTATED"   "10P GAIN MUTATED" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
  "10P GAIN MUTATED" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"10P GAIN WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
  "10P GAIN MUTATED" "10P GAIN WILD-TYPE"   "10P GAIN MUTATED" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"10P GAIN WILD-TYPE"   "10P GAIN MUTATED" "10P GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE"   "10P GAIN MUTATED" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE"   "10P GAIN MUTATED" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
  "10P GAIN MUTATED" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE"   "10P GAIN MUTATED" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
  "10P GAIN MUTATED"   "10P GAIN MUTATED" "10P GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
  "10P GAIN MUTATED" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE"   "10P GAIN MUTATED" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"10P GAIN WILD-TYPE"   "10P GAIN MUTATED" "10P GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
  "10P GAIN MUTATED" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"10P GAIN WILD-TYPE"   "10P GAIN MUTATED"   "10P GAIN MUTATED" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
  "10P GAIN MUTATED" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
  "10P GAIN MUTATED" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"10P GAIN WILD-TYPE"   "10P GAIN MUTATED" "10P GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
  "10P GAIN MUTATED"   "10P GAIN MUTATED" "10P GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"10P GAIN WILD-TYPE"   "10P GAIN MUTATED"   "10P GAIN MUTATED" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
  "10P GAIN MUTATED" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"10P GAIN WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
  "10P GAIN MUTATED" "10P GAIN WILD-TYPE"   "10P GAIN MUTATED" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"10P GAIN WILD-TYPE"   "10P GAIN MUTATED" "10P GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE"   "10P GAIN MUTATED" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE"   "10P GAIN MUTATED" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
  "10P GAIN MUTATED" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE"   "10P GAIN MUTATED" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
  "10P GAIN MUTATED"   "10P GAIN MUTATED" "10P GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
  "10P GAIN MUTATED" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE"   "10P GAIN MUTATED" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"10P GAIN WILD-TYPE"   "10P GAIN MUTATED" "10P GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
  "10P GAIN MUTATED" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"10P GAIN WILD-TYPE"   "10P GAIN MUTATED"   "10P GAIN MUTATED" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
  "10P GAIN MUTATED" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
  "10P GAIN MUTATED" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"10P GAIN WILD-TYPE"   "10P GAIN MUTATED" "10P GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
  "10P GAIN MUTATED"   "10P GAIN MUTATED" "10P GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"10P GAIN WILD-TYPE"   "10P GAIN MUTATED"   "10P GAIN MUTATED" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
  "10P GAIN MUTATED" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"10P GAIN WILD-TYPE" 
[1] "hr=" "1.1"
D19V2, continuous
D19V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  10P GAIN MUTATED      6   20
  10P GAIN WILD-TYPE   27   78
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  FEMALE                6                 27
  MALE                 20                 78
D19V4, continuous
D19V5, continuous
D19V6, continuous
                    vv
clus                 M0 M1 MX
  10P GAIN MUTATED   17  0  9
  10P GAIN WILD-TYPE 58  4 42
D19V7, multiclass
    clus
vv   10P GAIN MUTATED 10P GAIN WILD-TYPE
  M0               17                 58
  M1                0                  4
  MX                9                 42
                    vv
clus                 N0 N1 N2 N3 NX
  10P GAIN MUTATED   10  4  8  1  3
  10P GAIN WILD-TYPE 64 10 18  3  7
D19V8, multiclass
D19V9, continuous
D19V10, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  10P GAIN MUTATED         1        6         5       12
  10P GAIN WILD-TYPE       0       30        38       34
D19V11, multiclass
           clus
vv          10P GAIN MUTATED 10P GAIN WILD-TYPE
  STAGE I                  1                  0
  STAGE II                 6                 30
  STAGE III                5                 38
  STAGE IV                12                 34

Clustering(20) Variable = 10q gain mutation analysis
D20V1, survival
                    sevent
clus2                 0  1
  10Q GAIN MUTATED    3  2
  10Q GAIN WILD-TYPE 89 30
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
                 5                119 
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
                 2                 30 
$`10Q GAIN MUTATED`
TCGA-BT-A20R TCGA-BT-A20V TCGA-DK-A1A3 TCGA-DK-A1A6 TCGA-GC-A3RB 
        5.06         5.06         2.53        31.40         4.50 

$`10Q GAIN WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
       12.79         7.33         2.66         6.74         6.58        11.93 
TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20T 
       19.00        26.10        12.16        17.85        19.46        14.89 
TCGA-BT-A20U TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LA TCGA-BT-A2LD TCGA-BT-A3PH 
        8.61         8.35         8.25         5.88         3.65         4.64 
TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CF-A27C 
        8.98         1.94         2.01         0.46         0.43         0.69 
TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3KJ TCGA-CU-A3QU TCGA-CU-A3YL 
       12.92         4.90         7.20         5.46         5.19         8.09 
TCGA-DK-A1A5 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AC TCGA-DK-A1AD 
        2.14         8.98         7.04         8.91       118.88       100.47 
TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I2 
        7.17         5.85         6.64         1.81        10.59         7.76 
TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IM TCGA-DK-A3IN 
      123.85        75.32         2.20         3.98         7.82         8.22 
TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3IV TCGA-DK-A3WW 
       10.49        37.84         5.52        11.51         9.67         8.28 
TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E5-A2PC TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 
       10.55       131.15        36.43         0.10         8.81         8.32 
TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3N6 
        8.94         6.87         4.01        11.05         8.94         7.96 
TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SM TCGA-FD-A3SN TCGA-FD-A3SO 
       32.02        24.30        10.98         6.12         6.81         5.49 
TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A3SS TCGA-FD-A43N TCGA-FD-A43U 
        4.54        46.78        19.79         1.94         7.89         6.84 
TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK 
       15.16         4.08         2.33        49.91        26.50         5.65 
TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-G2-A3VY 
       26.93        32.78        17.26         7.04        20.12         0.82 
TCGA-GC-A3BM TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RC TCGA-GC-A3RD TCGA-GC-A3WC 
        2.86         2.24         1.32         1.38         1.02         2.50 
TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GD-A3OS TCGA-GU-A42P 
        1.08         7.69         2.10         3.12         5.82         6.38 
TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ 
        7.56         3.22         4.37         6.41         6.15         5.69 
TCGA-GV-A3QF TCGA-GV-A3QH TCGA-GV-A3QI TCGA-GV-A3QK TCGA-GV-A40E TCGA-GV-A40G 
        7.63         7.79         4.11         6.64         6.38         5.33 
TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A3WV 
        1.51         6.71         8.71         3.42         4.64 

  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
              2.53               0.10 
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
             31.40             131.15 
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
              5.06               7.04 
[1] "2.5 - 31.4 (5.1)"  "0.1 - 131.2 (7.0)"
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE"   "10Q GAIN MUTATED" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE"   "10Q GAIN MUTATED" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE"   "10Q GAIN MUTATED" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"10Q GAIN WILD-TYPE"   "10Q GAIN MUTATED" "10Q GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"10Q GAIN WILD-TYPE"   "10Q GAIN MUTATED" "10Q GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"10Q GAIN WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE"   "10Q GAIN MUTATED" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE"   "10Q GAIN MUTATED" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE"   "10Q GAIN MUTATED" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"10Q GAIN WILD-TYPE"   "10Q GAIN MUTATED" "10Q GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"10Q GAIN WILD-TYPE"   "10Q GAIN MUTATED" "10Q GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"10Q GAIN WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE"   "10Q GAIN MUTATED" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE"   "10Q GAIN MUTATED" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE"   "10Q GAIN MUTATED" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"10Q GAIN WILD-TYPE"   "10Q GAIN MUTATED" "10Q GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"10Q GAIN WILD-TYPE"   "10Q GAIN MUTATED" "10Q GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"10Q GAIN WILD-TYPE" 
[1] "hr=" "1.9"
D20V2, continuous
D20V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  10Q GAIN MUTATED      2    5
  10Q GAIN WILD-TYPE   31   93
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  FEMALE                2                 31
  MALE                  5                 93
D20V4, continuous
[1] "Remove cluster labels:" "10Q GAIN MUTATED"      
clus
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
                 1                 36 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CF-A3MG 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-CF-A3MH         TCGA-CF-A3MI         TCGA-DK-A2HX 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IV         TCGA-DK-A3WX 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RC         TCGA-GC-A3RD 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-GC-A3YS         TCGA-GD-A3OS         TCGA-GV-A3JV 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-GV-A3QF         TCGA-GV-A3QH         TCGA-GV-A3QI 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-GV-A3QK         TCGA-GV-A40E         TCGA-GV-A40G 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
D20V5, continuous
D20V6, continuous
                    vv
clus                 M0 M1 MX
  10Q GAIN MUTATED    6  0  1
  10Q GAIN WILD-TYPE 69  4 50
D20V7, multiclass
    clus
vv   10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  M0                6                 69
  M1                0                  4
  MX                1                 50
                    vv
clus                 N0 N1 N2 N3 NX
  10Q GAIN MUTATED    2  2  3  0  0
  10Q GAIN WILD-TYPE 72 12 23  4 10
D20V8, multiclass
D20V9, continuous
D20V10, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  10Q GAIN MUTATED         0        0         2        4
  10Q GAIN WILD-TYPE       1       36        41       42
D20V11, multiclass
           clus
vv          10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  STAGE I                  0                  1
  STAGE II                 0                 36
  STAGE III                2                 41
  STAGE IV                 4                 42

Clustering(21) Variable = 11p gain mutation analysis
D21V1, survival
                    sevent
clus2                 0  1
  11P GAIN MUTATED    4  2
  11P GAIN WILD-TYPE 88 30
  11P GAIN MUTATED 11P GAIN WILD-TYPE 
                 6                118 
  11P GAIN MUTATED 11P GAIN WILD-TYPE 
                 2                 30 
$`11P GAIN MUTATED`
TCGA-BL-A13J TCGA-DK-A3IV TCGA-FD-A3B6 TCGA-GC-A3RC TCGA-GV-A3JZ TCGA-GV-A3QI 
        2.66         9.67         6.87         1.38         5.69         4.11 

$`11P GAIN WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX TCGA-BT-A20J 
       12.79         7.33         6.74         6.58        11.93        19.00 
TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A20T 
       26.10        12.16        17.85        19.46         5.06        14.89 
TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LA TCGA-BT-A2LD 
        8.61         5.06         8.35         8.25         5.88         3.65 
TCGA-BT-A3PH TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A1HS 
        4.64         8.98         1.94         2.01         0.46         0.43 
TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3KJ TCGA-CU-A3QU 
        0.69        12.92         4.90         7.20         5.46         5.19 
TCGA-CU-A3YL TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA 
        8.09         2.53         2.14        31.40         8.98         7.04 
TCGA-DK-A1AB TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG 
        8.91       118.88       100.47         7.17         5.85         6.64 
TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IK 
        1.81        10.59         7.76       123.85        75.32         2.20 
TCGA-DK-A3IL TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT 
        3.98         7.82         8.22        10.49        37.84         5.52 
TCGA-DK-A3IU TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E5-A2PC TCGA-E7-A3Y1 
       11.51         8.28        10.55       131.15        36.43         0.10 
TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3N5 
        8.81         8.32         8.94         4.01        11.05         8.94 
TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SM TCGA-FD-A3SN 
        7.96        32.02        24.30        10.98         6.12         6.81 
TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A3SS TCGA-FD-A43N 
        5.49         4.54        46.78        19.79         1.94         7.89 
TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ 
        6.84        15.16         4.08         2.33        49.91        26.50 
TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE 
        5.65        26.93        32.78        17.26         7.04        20.12 
TCGA-G2-A3VY TCGA-GC-A3BM TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RD 
        0.82         2.86         2.24         1.32         4.50         1.02 
TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GD-A3OS 
        2.50         1.08         7.69         2.10         3.12         5.82 
TCGA-GU-A42P TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JW TCGA-GV-A3JX 
        6.38         7.56         3.22         4.37         6.41         6.15 
TCGA-GV-A3QF TCGA-GV-A3QH TCGA-GV-A3QK TCGA-GV-A40E TCGA-GV-A40G TCGA-H4-A2HO 
        7.63         7.79         6.64         6.38         5.33         1.51 
TCGA-H4-A2HQ TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A3WV 
        6.71         8.71         3.42         4.64 

  11P GAIN MUTATED 11P GAIN WILD-TYPE 
              1.38               0.10 
  11P GAIN MUTATED 11P GAIN WILD-TYPE 
              9.67             131.15 
  11P GAIN MUTATED 11P GAIN WILD-TYPE 
             4.900              7.105 
[1] "1.4 - 9.7 (4.9)"   "0.1 - 131.2 (7.1)"
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE"   "11P GAIN MUTATED" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE"   "11P GAIN MUTATED" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE"   "11P GAIN MUTATED" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE"   "11P GAIN MUTATED" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"11P GAIN WILD-TYPE"   "11P GAIN MUTATED" "11P GAIN WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"11P GAIN WILD-TYPE"   "11P GAIN MUTATED" "11P GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"11P GAIN WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE"   "11P GAIN MUTATED" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE"   "11P GAIN MUTATED" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE"   "11P GAIN MUTATED" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE"   "11P GAIN MUTATED" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"11P GAIN WILD-TYPE"   "11P GAIN MUTATED" "11P GAIN WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"11P GAIN WILD-TYPE"   "11P GAIN MUTATED" "11P GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"11P GAIN WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE"   "11P GAIN MUTATED" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE"   "11P GAIN MUTATED" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE"   "11P GAIN MUTATED" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE"   "11P GAIN MUTATED" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"11P GAIN WILD-TYPE"   "11P GAIN MUTATED" "11P GAIN WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"11P GAIN WILD-TYPE"   "11P GAIN MUTATED" "11P GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"11P GAIN WILD-TYPE" 
[1] "hr=" "3.8"
D21V2, continuous
D21V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  11P GAIN MUTATED      0    6
  11P GAIN WILD-TYPE   33   92
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  FEMALE                0                 33
  MALE                  6                 92
D21V4, continuous
D21V5, continuous
D21V6, continuous
                    vv
clus                 M0 M1 MX
  11P GAIN MUTATED    3  0  3
  11P GAIN WILD-TYPE 72  4 48
D21V7, multiclass
    clus
vv   11P GAIN MUTATED 11P GAIN WILD-TYPE
  M0                3                 72
  M1                0                  4
  MX                3                 48
                    vv
clus                 N0 N1 N2 N3 NX
  11P GAIN MUTATED    3  0  1  1  1
  11P GAIN WILD-TYPE 71 14 25  3  9
D21V8, multiclass
D21V9, continuous
D21V10, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  11P GAIN MUTATED         0        3         1        2
  11P GAIN WILD-TYPE       1       33        42       44
D21V11, multiclass
           clus
vv          11P GAIN MUTATED 11P GAIN WILD-TYPE
  STAGE I                  0                  1
  STAGE II                 3                 33
  STAGE III                1                 42
  STAGE IV                 2                 44

Clustering(22) Variable = 11q gain mutation analysis
D22V1, survival
                    sevent
clus2                 0  1
  11Q GAIN MUTATED    5  1
  11Q GAIN WILD-TYPE 87 31
  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
                 6                118 
  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
                 1                 31 
$`11Q GAIN MUTATED`
TCGA-BL-A13J TCGA-DK-A1A3 TCGA-FD-A3B6 TCGA-GC-A3I6 TCGA-GC-A3RC TCGA-GV-A3QF 
        2.66         2.53         6.87         2.24         1.38         7.63 

$`11Q GAIN WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX TCGA-BT-A20J 
       12.79         7.33         6.74         6.58        11.93        19.00 
TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A20T 
       26.10        12.16        17.85        19.46         5.06        14.89 
TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LA TCGA-BT-A2LD 
        8.61         5.06         8.35         8.25         5.88         3.65 
TCGA-BT-A3PH TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A1HS 
        4.64         8.98         1.94         2.01         0.46         0.43 
TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3KJ TCGA-CU-A3QU 
        0.69        12.92         4.90         7.20         5.46         5.19 
TCGA-CU-A3YL TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB 
        8.09         2.14        31.40         8.98         7.04         8.91 
TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX 
      118.88       100.47         7.17         5.85         6.64         1.81 
TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IK TCGA-DK-A3IL 
       10.59         7.76       123.85        75.32         2.20         3.98 
TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT TCGA-DK-A3IU 
        7.82         8.22        10.49        37.84         5.52        11.51 
TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E5-A2PC TCGA-E7-A3Y1 
        9.67         8.28        10.55       131.15        36.43         0.10 
TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3N5 
        8.81         8.32         8.94         4.01        11.05         8.94 
TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SM TCGA-FD-A3SN 
        7.96        32.02        24.30        10.98         6.12         6.81 
TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A3SS TCGA-FD-A43N 
        5.49         4.54        46.78        19.79         1.94         7.89 
TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ 
        6.84        15.16         4.08         2.33        49.91        26.50 
TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE 
        5.65        26.93        32.78        17.26         7.04        20.12 
TCGA-G2-A3VY TCGA-GC-A3BM TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RD TCGA-GC-A3WC 
        0.82         2.86         1.32         4.50         1.02         2.50 
TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GD-A3OS TCGA-GU-A42P 
        1.08         7.69         2.10         3.12         5.82         6.38 
TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ 
        7.56         3.22         4.37         6.41         6.15         5.69 
TCGA-GV-A3QH TCGA-GV-A3QI TCGA-GV-A3QK TCGA-GV-A40E TCGA-GV-A40G TCGA-H4-A2HO 
        7.79         4.11         6.64         6.38         5.33         1.51 
TCGA-H4-A2HQ TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A3WV 
        6.71         8.71         3.42         4.64 

  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
              1.38               0.10 
  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
              7.63             131.15 
  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
             2.595              7.105 
[1] "1.4 - 7.6 (2.6)"   "0.1 - 131.2 (7.1)"
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE"   "11Q GAIN MUTATED" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE"   "11Q GAIN MUTATED" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE"   "11Q GAIN MUTATED" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE"   "11Q GAIN MUTATED" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE"   "11Q GAIN MUTATED" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE"   "11Q GAIN MUTATED" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"11Q GAIN WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE"   "11Q GAIN MUTATED" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE"   "11Q GAIN MUTATED" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE"   "11Q GAIN MUTATED" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE"   "11Q GAIN MUTATED" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE"   "11Q GAIN MUTATED" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE"   "11Q GAIN MUTATED" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"11Q GAIN WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE"   "11Q GAIN MUTATED" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE"   "11Q GAIN MUTATED" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE"   "11Q GAIN MUTATED" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE"   "11Q GAIN MUTATED" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE"   "11Q GAIN MUTATED" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE"   "11Q GAIN MUTATED" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"11Q GAIN WILD-TYPE" 
[1] "hr=" "3.7"
D22V2, continuous
D22V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  11Q GAIN MUTATED      0    6
  11Q GAIN WILD-TYPE   33   92
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  FEMALE                0                 33
  MALE                  6                 92
D22V4, continuous
D22V5, continuous
D22V6, continuous
                    vv
clus                 M0 M1 MX
  11Q GAIN MUTATED    4  0  2
  11Q GAIN WILD-TYPE 71  4 49
D22V7, multiclass
    clus
vv   11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  M0                4                 71
  M1                0                  4
  MX                2                 49
                    vv
clus                 N0 N1 N2 N3 NX
  11Q GAIN MUTATED    3  0  3  0  0
  11Q GAIN WILD-TYPE 71 14 23  4 10
D22V8, multiclass
D22V9, continuous
D22V10, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  11Q GAIN MUTATED         0        2         1        3
  11Q GAIN WILD-TYPE       1       34        42       43
D22V11, multiclass
           clus
vv          11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  STAGE I                  0                  1
  STAGE II                 2                 34
  STAGE III                1                 42
  STAGE IV                 3                 43

Clustering(23) Variable = 12p gain mutation analysis
D23V1, survival
                    sevent
clus2                 0  1
  12P GAIN MUTATED   15  5
  12P GAIN WILD-TYPE 77 27
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
                20                104 
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
                 5                 27 
$`12P GAIN MUTATED`
TCGA-BL-A0C8 TCGA-BL-A3JM TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20P TCGA-BT-A20V 
       12.79         6.74        19.00        26.10        17.85         5.06 
TCGA-BT-A2LD TCGA-CU-A0YR TCGA-DK-A1A6 TCGA-DK-A3IM TCGA-FD-A3B6 TCGA-FD-A3NA 
        3.65         7.20        31.40         7.82         6.87        32.02 
TCGA-G2-A3VY TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GV-A3JZ TCGA-GV-A3QI TCGA-GV-A3QK 
        0.82         2.24         1.32         5.69         4.11         6.64 
TCGA-GV-A40G TCGA-K4-A3WV 
        5.33         4.64 

$`12P GAIN WILD-TYPE`
TCGA-BL-A13I TCGA-BL-A13J TCGA-BT-A0S7 TCGA-BT-A0YX TCGA-BT-A20O TCGA-BT-A20Q 
        7.33         2.66         6.58        11.93        12.16        19.46 
TCGA-BT-A20R TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LA 
        5.06        14.89         8.61         8.35         8.25         5.88 
TCGA-BT-A3PH TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A1HS 
        4.64         8.98         1.94         2.01         0.46         0.43 
TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A3KJ TCGA-CU-A3QU TCGA-CU-A3YL 
        0.69        12.92         4.90         5.46         5.19         8.09 
TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AC 
        2.53         2.14         8.98         7.04         8.91       118.88 
TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I1 
      100.47         7.17         5.85         6.64         1.81        10.59 
TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IN 
        7.76       123.85        75.32         2.20         3.98         8.22 
TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3IV TCGA-DK-A3WW 
       10.49        37.84         5.52        11.51         9.67         8.28 
TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E5-A2PC TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 
       10.55       131.15        36.43         0.10         8.81         8.32 
TCGA-FD-A3B5 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3SJ 
        8.94         4.01        11.05         8.94         7.96        24.30 
TCGA-FD-A3SL TCGA-FD-A3SM TCGA-FD-A3SN TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ 
       10.98         6.12         6.81         5.49         4.54        46.78 
TCGA-FD-A3SR TCGA-FD-A3SS TCGA-FD-A43N TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF 
       19.79         1.94         7.89         6.84        15.16         4.08 
TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO 
        2.33        49.91        26.50         5.65        26.93        32.78 
TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GC-A3BM TCGA-GC-A3RB TCGA-GC-A3RC 
       17.26         7.04        20.12         2.86         4.50         1.38 
TCGA-GC-A3RD TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ 
        1.02         2.50         1.08         7.69         2.10         3.12 
TCGA-GD-A3OS TCGA-GU-A42P TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JW 
        5.82         6.38         7.56         3.22         4.37         6.41 
TCGA-GV-A3JX TCGA-GV-A3QF TCGA-GV-A3QH TCGA-GV-A40E TCGA-H4-A2HO TCGA-H4-A2HQ 
        6.15         7.63         7.79         6.38         1.51         6.71 
TCGA-K4-A3WS TCGA-K4-A3WU 
        8.71         3.42 

  12P GAIN MUTATED 12P GAIN WILD-TYPE 
              0.82               0.10 
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
             32.02             131.15 
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
             6.690              7.105 
[1] "0.8 - 32.0 (6.7)"  "0.1 - 131.2 (7.1)"
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
  "12P GAIN MUTATED" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
  "12P GAIN MUTATED" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
  "12P GAIN MUTATED"   "12P GAIN MUTATED" "12P GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
  "12P GAIN MUTATED" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE"   "12P GAIN MUTATED" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
  "12P GAIN MUTATED" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"12P GAIN WILD-TYPE"   "12P GAIN MUTATED" "12P GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"12P GAIN WILD-TYPE"   "12P GAIN MUTATED" "12P GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE"   "12P GAIN MUTATED" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE"   "12P GAIN MUTATED" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"12P GAIN WILD-TYPE"   "12P GAIN MUTATED" "12P GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
  "12P GAIN MUTATED" "12P GAIN WILD-TYPE"   "12P GAIN MUTATED" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
  "12P GAIN MUTATED" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"12P GAIN WILD-TYPE"   "12P GAIN MUTATED" "12P GAIN WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"12P GAIN WILD-TYPE"   "12P GAIN MUTATED"   "12P GAIN MUTATED" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"12P GAIN WILD-TYPE"   "12P GAIN MUTATED" "12P GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
  "12P GAIN MUTATED" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
  "12P GAIN MUTATED" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
  "12P GAIN MUTATED" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
  "12P GAIN MUTATED"   "12P GAIN MUTATED" "12P GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
  "12P GAIN MUTATED" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE"   "12P GAIN MUTATED" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
  "12P GAIN MUTATED" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"12P GAIN WILD-TYPE"   "12P GAIN MUTATED" "12P GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"12P GAIN WILD-TYPE"   "12P GAIN MUTATED" "12P GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE"   "12P GAIN MUTATED" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE"   "12P GAIN MUTATED" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"12P GAIN WILD-TYPE"   "12P GAIN MUTATED" "12P GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
  "12P GAIN MUTATED" "12P GAIN WILD-TYPE"   "12P GAIN MUTATED" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
  "12P GAIN MUTATED" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"12P GAIN WILD-TYPE"   "12P GAIN MUTATED" "12P GAIN WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"12P GAIN WILD-TYPE"   "12P GAIN MUTATED"   "12P GAIN MUTATED" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"12P GAIN WILD-TYPE"   "12P GAIN MUTATED" "12P GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
  "12P GAIN MUTATED" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
  "12P GAIN MUTATED" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
  "12P GAIN MUTATED" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
  "12P GAIN MUTATED"   "12P GAIN MUTATED" "12P GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
  "12P GAIN MUTATED" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE"   "12P GAIN MUTATED" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
  "12P GAIN MUTATED" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"12P GAIN WILD-TYPE"   "12P GAIN MUTATED" "12P GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"12P GAIN WILD-TYPE"   "12P GAIN MUTATED" "12P GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE"   "12P GAIN MUTATED" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE"   "12P GAIN MUTATED" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"12P GAIN WILD-TYPE"   "12P GAIN MUTATED" "12P GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
  "12P GAIN MUTATED" "12P GAIN WILD-TYPE"   "12P GAIN MUTATED" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
  "12P GAIN MUTATED" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"12P GAIN WILD-TYPE"   "12P GAIN MUTATED" "12P GAIN WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"12P GAIN WILD-TYPE"   "12P GAIN MUTATED"   "12P GAIN MUTATED" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"12P GAIN WILD-TYPE"   "12P GAIN MUTATED" "12P GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
  "12P GAIN MUTATED" 
[1] "hr=" "1"  
D23V2, continuous
D23V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  12P GAIN MUTATED      5   17
  12P GAIN WILD-TYPE   28   81
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  FEMALE                5                 28
  MALE                 17                 81
D23V4, continuous
D23V5, continuous
D23V6, continuous
                    vv
clus                 M0 M1 MX
  12P GAIN MUTATED   12  0  9
  12P GAIN WILD-TYPE 63  4 42
D23V7, multiclass
    clus
vv   12P GAIN MUTATED 12P GAIN WILD-TYPE
  M0               12                 63
  M1                0                  4
  MX                9                 42
                    vv
clus                 N0 N1 N2 N3 NX
  12P GAIN MUTATED   13  2  4  1  1
  12P GAIN WILD-TYPE 61 12 22  3  9
D23V8, multiclass
D23V9, continuous
D23V10, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  12P GAIN MUTATED         1        8         6        6
  12P GAIN WILD-TYPE       0       28        37       40
D23V11, multiclass
           clus
vv          12P GAIN MUTATED 12P GAIN WILD-TYPE
  STAGE I                  1                  0
  STAGE II                 8                 28
  STAGE III                6                 37
  STAGE IV                 6                 40

Clustering(24) Variable = 12q gain mutation analysis
D24V1, survival
                    sevent
clus2                 0  1
  12Q GAIN MUTATED   10  4
  12Q GAIN WILD-TYPE 82 28
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
                14                110 
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
                 4                 28 
$`12Q GAIN MUTATED`
TCGA-BL-A0C8 TCGA-BL-A3JM TCGA-BT-A20J TCGA-BT-A20P TCGA-CU-A0YR TCGA-DK-A1A5 
       12.79         6.74        19.00        17.85         7.20         2.14 
TCGA-DK-A1A6 TCGA-DK-A1AC TCGA-FD-A3B6 TCGA-FD-A3NA TCGA-G2-A2EF TCGA-G2-A3VY 
       31.40       118.88         6.87        32.02        49.91         0.82 
TCGA-GC-A3I6 TCGA-GV-A3QK 
        2.24         6.64 

$`12Q GAIN WILD-TYPE`
TCGA-BL-A13I TCGA-BL-A13J TCGA-BT-A0S7 TCGA-BT-A0YX TCGA-BT-A20N TCGA-BT-A20O 
        7.33         2.66         6.58        11.93        26.10        12.16 
TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20W 
       19.46         5.06        14.89         8.61         5.06         8.35 
TCGA-BT-A20X TCGA-BT-A2LA TCGA-BT-A2LD TCGA-BT-A3PH TCGA-C4-A0EZ TCGA-C4-A0F0 
        8.25         5.88         3.65         4.64         8.98         1.94 
TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO 
        2.01         0.46         0.43         0.69        12.92         4.90 
TCGA-CU-A3KJ TCGA-CU-A3QU TCGA-CU-A3YL TCGA-DK-A1A3 TCGA-DK-A1A7 TCGA-DK-A1AA 
        5.46         5.19         8.09         2.53         8.98         7.04 
TCGA-DK-A1AB TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX 
        8.91       100.47         7.17         5.85         6.64         1.81 
TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IK TCGA-DK-A3IL 
       10.59         7.76       123.85        75.32         2.20         3.98 
TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT TCGA-DK-A3IU 
        7.82         8.22        10.49        37.84         5.52        11.51 
TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E5-A2PC TCGA-E7-A3Y1 
        9.67         8.28        10.55       131.15        36.43         0.10 
TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3N5 
        8.81         8.32         8.94         4.01        11.05         8.94 
TCGA-FD-A3N6 TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SM TCGA-FD-A3SN TCGA-FD-A3SO 
        7.96        24.30        10.98         6.12         6.81         5.49 
TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A3SS TCGA-FD-A43N TCGA-FD-A43U 
        4.54        46.78        19.79         1.94         7.89         6.84 
TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-FT-A3EE TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL 
       15.16         4.08         2.33        26.50         5.65        26.93 
TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GC-A3BM TCGA-GC-A3OO 
       32.78        17.26         7.04        20.12         2.86         1.32 
TCGA-GC-A3RB TCGA-GC-A3RC TCGA-GC-A3RD TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GD-A2C5 
        4.50         1.38         1.02         2.50         1.08         7.69 
TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GD-A3OS TCGA-GU-A42P TCGA-GU-A42Q TCGA-GU-A42R 
        2.10         3.12         5.82         6.38         7.56         3.22 
TCGA-GV-A3JV TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-GV-A3QF TCGA-GV-A3QH 
        4.37         6.41         6.15         5.69         7.63         7.79 
TCGA-GV-A3QI TCGA-GV-A40E TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-K4-A3WS 
        4.11         6.38         5.33         1.51         6.71         8.71 
TCGA-K4-A3WU TCGA-K4-A3WV 
        3.42         4.64 

  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
              0.82               0.10 
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
            118.88             131.15 
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
             9.995              6.825 
[1] "0.8 - 118.9 (10.0)" "0.1 - 131.2 (6.8)" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
  "12Q GAIN MUTATED" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
  "12Q GAIN MUTATED" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
  "12Q GAIN MUTATED" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
  "12Q GAIN MUTATED" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED" "12Q GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
  "12Q GAIN MUTATED"   "12Q GAIN MUTATED" "12Q GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED" "12Q GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED" "12Q GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
  "12Q GAIN MUTATED" "12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"12Q GAIN WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
  "12Q GAIN MUTATED" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
  "12Q GAIN MUTATED" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
  "12Q GAIN MUTATED" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
  "12Q GAIN MUTATED" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED" "12Q GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
  "12Q GAIN MUTATED"   "12Q GAIN MUTATED" "12Q GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED" "12Q GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED" "12Q GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
  "12Q GAIN MUTATED" "12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"12Q GAIN WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
  "12Q GAIN MUTATED" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
  "12Q GAIN MUTATED" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
  "12Q GAIN MUTATED" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
  "12Q GAIN MUTATED" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED" "12Q GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
  "12Q GAIN MUTATED"   "12Q GAIN MUTATED" "12Q GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED" "12Q GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED" "12Q GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
  "12Q GAIN MUTATED" "12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"12Q GAIN WILD-TYPE" 
[1] "hr=" "1.6"
D24V2, continuous
D24V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  12Q GAIN MUTATED      2   15
  12Q GAIN WILD-TYPE   31   83
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  FEMALE                2                 31
  MALE                 15                 83
D24V4, continuous
D24V5, continuous
D24V6, continuous
                    vv
clus                 M0 M1 MX
  12Q GAIN MUTATED   12  0  4
  12Q GAIN WILD-TYPE 63  4 47
D24V7, multiclass
    clus
vv   12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  M0               12                 63
  M1                0                  4
  MX                4                 47
                    vv
clus                 N0 N1 N2 N3 NX
  12Q GAIN MUTATED   11  1  3  0  1
  12Q GAIN WILD-TYPE 63 13 23  4  9
D24V8, multiclass
D24V9, continuous
D24V10, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  12Q GAIN MUTATED         1        7         5        3
  12Q GAIN WILD-TYPE       0       29        38       43
D24V11, multiclass
           clus
vv          12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  STAGE I                  1                  0
  STAGE II                 7                 29
  STAGE III                5                 38
  STAGE IV                 3                 43

Clustering(25) Variable = 13q gain mutation analysis
D25V1, survival
                    sevent
clus2                 0  1
  13Q GAIN MUTATED   13  6
  13Q GAIN WILD-TYPE 79 26
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
                19                105 
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
                 6                 26 
$`13Q GAIN MUTATED`
TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A20J TCGA-BT-A20Q TCGA-BT-A2LD TCGA-C4-A0EZ 
        6.74         6.58        19.00        19.46         3.65         8.98 
TCGA-CU-A0YN TCGA-CU-A3YL TCGA-DK-A2HX TCGA-DK-A3IL TCGA-DK-A3IU TCGA-FD-A3SM 
       12.92         8.09         1.81         3.98        11.51         6.12 
TCGA-G2-A2EF TCGA-G2-A2EK TCGA-GC-A3OO TCGA-GD-A3OS TCGA-GV-A3JX TCGA-GV-A3JZ 
       49.91         5.65         1.32         5.82         6.15         5.69 
TCGA-GV-A3QF 
        7.63 

$`13Q GAIN WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BT-A0YX TCGA-BT-A20N TCGA-BT-A20O 
       12.79         7.33         2.66        11.93        26.10        12.16 
TCGA-BT-A20P TCGA-BT-A20R TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20W 
       17.85         5.06        14.89         8.61         5.06         8.35 
TCGA-BT-A20X TCGA-BT-A2LA TCGA-BT-A3PH TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR 
        8.25         5.88         4.64         1.94         2.01         0.46 
TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3KJ TCGA-CU-A3QU 
        0.43         0.69         4.90         7.20         5.46         5.19 
TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB 
        2.53         2.14        31.40         8.98         7.04         8.91 
TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2I1 
      118.88       100.47         7.17         5.85         6.64        10.59 
TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IK TCGA-DK-A3IM TCGA-DK-A3IN 
        7.76       123.85        75.32         2.20         7.82         8.22 
TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX 
       10.49        37.84         5.52         9.67         8.28        10.55 
TCGA-DK-A3WY TCGA-E5-A2PC TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 
      131.15        36.43         0.10         8.81         8.32         8.94 
TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA 
        6.87         4.01        11.05         8.94         7.96        32.02 
TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SN TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ 
       24.30        10.98         6.81         5.49         4.54        46.78 
TCGA-FD-A3SR TCGA-FD-A3SS TCGA-FD-A43N TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF 
       19.79         1.94         7.89         6.84        15.16         4.08 
TCGA-FT-A3EE TCGA-G2-A2EJ TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB 
        2.33        26.50        26.93        32.78        17.26         7.04 
TCGA-G2-A3IE TCGA-G2-A3VY TCGA-GC-A3BM TCGA-GC-A3I6 TCGA-GC-A3RB TCGA-GC-A3RC 
       20.12         0.82         2.86         2.24         4.50         1.38 
TCGA-GC-A3RD TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ 
        1.02         2.50         1.08         7.69         2.10         3.12 
TCGA-GU-A42P TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JW TCGA-GV-A3QH 
        6.38         7.56         3.22         4.37         6.41         7.79 
TCGA-GV-A3QI TCGA-GV-A3QK TCGA-GV-A40E TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ 
        4.11         6.64         6.38         5.33         1.51         6.71 
TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A3WV 
        8.71         3.42         4.64 

  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
              1.32               0.10 
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
             49.91             131.15 
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
              6.58               7.04 
[1] "1.3 - 49.9 (6.6)"  "0.1 - 131.2 (7.0)"
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
  "13Q GAIN MUTATED"   "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
  "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
  "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
  "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
  "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
  "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
  "13Q GAIN MUTATED"   "13Q GAIN MUTATED"   "13Q GAIN MUTATED" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"13Q GAIN WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
  "13Q GAIN MUTATED"   "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
  "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
  "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
  "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
  "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
  "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
  "13Q GAIN MUTATED"   "13Q GAIN MUTATED"   "13Q GAIN MUTATED" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"13Q GAIN WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
  "13Q GAIN MUTATED"   "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
  "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
  "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
  "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
  "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
  "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
  "13Q GAIN MUTATED"   "13Q GAIN MUTATED"   "13Q GAIN MUTATED" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"13Q GAIN WILD-TYPE" 
[1] "hr=" "1.5"
D25V2, continuous
D25V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  13Q GAIN MUTATED      5   16
  13Q GAIN WILD-TYPE   28   82
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  FEMALE                5                 28
  MALE                 16                 82
D25V4, continuous
D25V5, continuous
D25V6, continuous
                    vv
clus                 M0 M1 MX
  13Q GAIN MUTATED   12  2  7
  13Q GAIN WILD-TYPE 63  2 44
D25V7, multiclass
    clus
vv   13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  M0               12                 63
  M1                2                  2
  MX                7                 44
                    vv
clus                 N0 N1 N2 N3 NX
  13Q GAIN MUTATED   11  2  5  2  1
  13Q GAIN WILD-TYPE 63 12 21  2  9
D25V8, multiclass
D25V9, continuous
D25V10, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  13Q GAIN MUTATED         0        7         5        9
  13Q GAIN WILD-TYPE       1       29        38       37
D25V11, multiclass
           clus
vv          13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  STAGE I                  0                  1
  STAGE II                 7                 29
  STAGE III                5                 38
  STAGE IV                 9                 37

Clustering(26) Variable = 14q gain mutation analysis
D26V1, survival
                    sevent
clus2                 0  1
  14Q GAIN MUTATED    8  3
  14Q GAIN WILD-TYPE 84 29
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
                11                113 
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
                 3                 29 
$`14Q GAIN MUTATED`
TCGA-C4-A0EZ TCGA-C4-A0F6 TCGA-CU-A0YN TCGA-DK-A3IT TCGA-FD-A3N5 TCGA-G2-A2EL 
        8.98         2.01        12.92         5.52         8.94        26.93 
TCGA-G2-A2EO TCGA-GC-A3I6 TCGA-GC-A3YS TCGA-GD-A3OS TCGA-K4-A3WV 
       32.78         2.24         1.08         5.82         4.64 

$`14Q GAIN WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
       12.79         7.33         2.66         6.74         6.58        11.93 
TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R 
       19.00        26.10        12.16        17.85        19.46         5.06 
TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LA 
       14.89         8.61         5.06         8.35         8.25         5.88 
TCGA-BT-A2LD TCGA-BT-A3PH TCGA-C4-A0F0 TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CF-A27C 
        3.65         4.64         1.94         0.46         0.43         0.69 
TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3KJ TCGA-CU-A3QU TCGA-CU-A3YL TCGA-DK-A1A3 
        4.90         7.20         5.46         5.19         8.09         2.53 
TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AC 
        2.14        31.40         8.98         7.04         8.91       118.88 
TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I1 
      100.47         7.17         5.85         6.64         1.81        10.59 
TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IM 
        7.76       123.85        75.32         2.20         3.98         7.82 
TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IU TCGA-DK-A3IV TCGA-DK-A3WW 
        8.22        10.49        37.84        11.51         9.67         8.28 
TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E5-A2PC TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 
       10.55       131.15        36.43         0.10         8.81         8.32 
TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3N6 TCGA-FD-A3NA 
        8.94         6.87         4.01        11.05         7.96        32.02 
TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SM TCGA-FD-A3SN TCGA-FD-A3SO TCGA-FD-A3SP 
       24.30        10.98         6.12         6.81         5.49         4.54 
TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A3SS TCGA-FD-A43N TCGA-FD-A43U TCGA-FJ-A3Z7 
       46.78        19.79         1.94         7.89         6.84        15.16 
TCGA-FJ-A3ZF TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2ES 
        4.08         2.33        49.91        26.50         5.65        17.26 
TCGA-G2-A3IB TCGA-G2-A3IE TCGA-G2-A3VY TCGA-GC-A3BM TCGA-GC-A3OO TCGA-GC-A3RB 
        7.04        20.12         0.82         2.86         1.32         4.50 
TCGA-GC-A3RC TCGA-GC-A3RD TCGA-GC-A3WC TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ 
        1.38         1.02         2.50         7.69         2.10         3.12 
TCGA-GU-A42P TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JW TCGA-GV-A3JX 
        6.38         7.56         3.22         4.37         6.41         6.15 
TCGA-GV-A3JZ TCGA-GV-A3QF TCGA-GV-A3QH TCGA-GV-A3QI TCGA-GV-A3QK TCGA-GV-A40E 
        5.69         7.63         7.79         4.11         6.64         6.38 
TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-K4-A3WS TCGA-K4-A3WU 
        5.33         1.51         6.71         8.71         3.42 

  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
              1.08               0.10 
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
             32.78             131.15 
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
              5.82               7.04 
[1] "1.1 - 32.8 (5.8)"  "0.1 - 131.2 (7.0)"
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" "14Q GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
  "14Q GAIN MUTATED" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED"   "14Q GAIN MUTATED" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
  "14Q GAIN MUTATED" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
  "14Q GAIN MUTATED" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" "14Q GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
  "14Q GAIN MUTATED" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED"   "14Q GAIN MUTATED" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
  "14Q GAIN MUTATED" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
  "14Q GAIN MUTATED" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" "14Q GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
  "14Q GAIN MUTATED" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED"   "14Q GAIN MUTATED" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
  "14Q GAIN MUTATED" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
  "14Q GAIN MUTATED" 
[1] "hr=" "1"  
D26V2, continuous
D26V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  14Q GAIN MUTATED      4    7
  14Q GAIN WILD-TYPE   29   91
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  FEMALE                4                 29
  MALE                  7                 91
D26V4, continuous
D26V5, continuous
D26V6, continuous
                    vv
clus                 M0 M1 MX
  14Q GAIN MUTATED    6  1  4
  14Q GAIN WILD-TYPE 69  3 47
D26V7, multiclass
    clus
vv   14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  M0                6                 69
  M1                1                  3
  MX                4                 47
                    vv
clus                 N0 N1 N2 N3 NX
  14Q GAIN MUTATED    8  2  0  0  1
  14Q GAIN WILD-TYPE 66 12 26  4  9
D26V8, multiclass
D26V9, continuous
D26V10, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  14Q GAIN MUTATED         0        4         5        2
  14Q GAIN WILD-TYPE       1       32        38       44
D26V11, multiclass
           clus
vv          14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  STAGE I                  0                  1
  STAGE II                 4                 32
  STAGE III                5                 38
  STAGE IV                 2                 44

Clustering(27) Variable = 15q gain mutation analysis
D27V1, survival
                    sevent
clus2                 0  1
  15Q GAIN MUTATED    2  2
  15Q GAIN WILD-TYPE 90 30
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                 4                120 
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                 2                 30 
$`15Q GAIN MUTATED`
TCGA-BT-A20Q TCGA-DK-A1A5 TCGA-DK-A2HX TCGA-GC-A3I6 
       19.46         2.14         1.81         2.24 

$`15Q GAIN WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
       12.79         7.33         2.66         6.74         6.58        11.93 
TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20R TCGA-BT-A20T 
       19.00        26.10        12.16        17.85         5.06        14.89 
TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LA TCGA-BT-A2LD 
        8.61         5.06         8.35         8.25         5.88         3.65 
TCGA-BT-A3PH TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A1HS 
        4.64         8.98         1.94         2.01         0.46         0.43 
TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3KJ TCGA-CU-A3QU 
        0.69        12.92         4.90         7.20         5.46         5.19 
TCGA-CU-A3YL TCGA-DK-A1A3 TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB 
        8.09         2.53        31.40         8.98         7.04         8.91 
TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2I1 
      118.88       100.47         7.17         5.85         6.64        10.59 
TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IM 
        7.76       123.85        75.32         2.20         3.98         7.82 
TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3IV 
        8.22        10.49        37.84         5.52        11.51         9.67 
TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E5-A2PC TCGA-E7-A3Y1 TCGA-FD-A3B3 
        8.28        10.55       131.15        36.43         0.10         8.81 
TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3N5 
        8.32         8.94         6.87         4.01        11.05         8.94 
TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SM TCGA-FD-A3SN 
        7.96        32.02        24.30        10.98         6.12         6.81 
TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A3SS TCGA-FD-A43N 
        5.49         4.54        46.78        19.79         1.94         7.89 
TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ 
        6.84        15.16         4.08         2.33        49.91        26.50 
TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE 
        5.65        26.93        32.78        17.26         7.04        20.12 
TCGA-G2-A3VY TCGA-GC-A3BM TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RC TCGA-GC-A3RD 
        0.82         2.86         1.32         4.50         1.38         1.02 
TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GD-A3OS 
        2.50         1.08         7.69         2.10         3.12         5.82 
TCGA-GU-A42P TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JW TCGA-GV-A3JX 
        6.38         7.56         3.22         4.37         6.41         6.15 
TCGA-GV-A3JZ TCGA-GV-A3QF TCGA-GV-A3QH TCGA-GV-A3QI TCGA-GV-A3QK TCGA-GV-A40E 
        5.69         7.63         7.79         4.11         6.64         6.38 
TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A3WV 
        5.33         1.51         6.71         8.71         3.42         4.64 

  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
              1.81               0.10 
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
             19.46             131.15 
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
              2.19               7.04 
[1] "1.8 - 19.5 (2.2)"  "0.1 - 131.2 (7.0)"
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
  "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"15Q GAIN WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
  "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"15Q GAIN WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
  "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"15Q GAIN WILD-TYPE" 
[1] "hr=" "3.4"
D27V2, continuous
D27V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  15Q GAIN MUTATED      1    3
  15Q GAIN WILD-TYPE   32   95
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  FEMALE                1                 32
  MALE                  3                 95
D27V4, continuous
[1] "Remove cluster labels:" "15Q GAIN MUTATED"      
clus
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                 2                 35 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CF-A3MF 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-CF-A3MG         TCGA-CF-A3MH         TCGA-CF-A3MI 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IV         TCGA-DK-A3WX 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3OO 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-GC-A3RC         TCGA-GC-A3RD         TCGA-GC-A3YS 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GV-A3JV         TCGA-GV-A3JW 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
D27V5, continuous
[1] "Remove cluster labels:" "15Q GAIN MUTATED"      
clus
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                 2                 79 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A20J         TCGA-BT-A20N 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-BT-A2LA         TCGA-C4-A0EZ         TCGA-C4-A0F0 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-C4-A0F6         TCGA-CF-A3MH         TCGA-CF-A3MI 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-CU-A0YN         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DK-A1A6         TCGA-DK-A1AA         TCGA-DK-A1AC 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DK-A1AE         TCGA-DK-A2I6         TCGA-DK-A3IL 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DK-A3IM         TCGA-DK-A3IN         TCGA-DK-A3IQ 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DK-A3IU         TCGA-DK-A3IV         TCGA-DK-A3WX 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FD-A3B3         TCGA-FD-A3B4         TCGA-FD-A3B5 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FD-A3B6         TCGA-FD-A3B7         TCGA-FD-A3B8 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FD-A3N5         TCGA-FD-A3N6         TCGA-FD-A3NA 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FD-A3SJ         TCGA-FD-A3SM         TCGA-FD-A3SN 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3ZF         TCGA-G2-A2EF 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EL         TCGA-G2-A2ES 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3BM         TCGA-GC-A3RB 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-GC-A3WC         TCGA-GC-A3YS         TCGA-GD-A2C5 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-GD-A3OQ         TCGA-GD-A3OS         TCGA-GU-A42P 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-GU-A42Q         TCGA-GU-A42R         TCGA-GV-A3JV 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-GV-A3QG         TCGA-GV-A3QH         TCGA-GV-A3QI 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-GV-A3QK         TCGA-GV-A40E         TCGA-GV-A40G 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ         TCGA-K4-A3WS 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"15Q GAIN WILD-TYPE" 
D27V6, continuous
                    vv
clus                 M0 M1 MX
  15Q GAIN MUTATED    4  0  0
  15Q GAIN WILD-TYPE 71  4 51
D27V7, multiclass
    clus
vv   15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  M0                4                 71
  M1                0                  4
  MX                0                 51
                    vv
clus                 N0 N1 N2 N3 NX
  15Q GAIN MUTATED    2  0  2  0  0
  15Q GAIN WILD-TYPE 72 14 24  4 10
D27V8, multiclass
D27V9, continuous
D27V10, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  15Q GAIN MUTATED         0        1         1        2
  15Q GAIN WILD-TYPE       1       35        42       44
D27V11, multiclass
           clus
vv          15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  STAGE I                  0                  1
  STAGE II                 1                 35
  STAGE III                1                 42
  STAGE IV                 2                 44

Clustering(28) Variable = 16p gain mutation analysis
D28V1, survival
                    sevent
clus2                 0  1
  16P GAIN MUTATED    5  5
  16P GAIN WILD-TYPE 87 27
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
                10                114 
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
                 5                 27 
$`16P GAIN MUTATED`
TCGA-BL-A13J TCGA-BT-A20V TCGA-BT-A2LA TCGA-C4-A0EZ TCGA-DK-A3IL TCGA-DK-A3IN 
        2.66         5.06         5.88         8.98         3.98         8.22 
TCGA-DK-A3IV TCGA-FT-A3EE TCGA-G2-A3VY TCGA-GC-A3I6 
        9.67         2.33         0.82         2.24 

$`16P GAIN WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX TCGA-BT-A20J 
       12.79         7.33         6.74         6.58        11.93        19.00 
TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A20T 
       26.10        12.16        17.85        19.46         5.06        14.89 
TCGA-BT-A20U TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LD TCGA-BT-A3PH TCGA-C4-A0F0 
        8.61         8.35         8.25         3.65         4.64         1.94 
TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO 
        2.01         0.46         0.43         0.69        12.92         4.90 
TCGA-CU-A0YR TCGA-CU-A3KJ TCGA-CU-A3QU TCGA-CU-A3YL TCGA-DK-A1A3 TCGA-DK-A1A5 
        7.20         5.46         5.19         8.09         2.53         2.14 
TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AC TCGA-DK-A1AD 
       31.40         8.98         7.04         8.91       118.88       100.47 
TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I2 
        7.17         5.85         6.64         1.81        10.59         7.76 
TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IK TCGA-DK-A3IM TCGA-DK-A3IQ TCGA-DK-A3IS 
      123.85        75.32         2.20         7.82        10.49        37.84 
TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E5-A2PC 
        5.52        11.51         8.28        10.55       131.15        36.43 
TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 
        0.10         8.81         8.32         8.94         6.87         4.01 
TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SL 
       11.05         8.94         7.96        32.02        24.30        10.98 
TCGA-FD-A3SM TCGA-FD-A3SN TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR 
        6.12         6.81         5.49         4.54        46.78        19.79 
TCGA-FD-A3SS TCGA-FD-A43N TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-G2-A2EF 
        1.94         7.89         6.84        15.16         4.08        49.91 
TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB 
       26.50         5.65        26.93        32.78        17.26         7.04 
TCGA-G2-A3IE TCGA-GC-A3BM TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RC TCGA-GC-A3RD 
       20.12         2.86         1.32         4.50         1.38         1.02 
TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GD-A3OS 
        2.50         1.08         7.69         2.10         3.12         5.82 
TCGA-GU-A42P TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JW TCGA-GV-A3JX 
        6.38         7.56         3.22         4.37         6.41         6.15 
TCGA-GV-A3JZ TCGA-GV-A3QF TCGA-GV-A3QH TCGA-GV-A3QI TCGA-GV-A3QK TCGA-GV-A40E 
        5.69         7.63         7.79         4.11         6.64         6.38 
TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A3WV 
        5.33         1.51         6.71         8.71         3.42         4.64 

  16P GAIN MUTATED 16P GAIN WILD-TYPE 
              0.82               0.10 
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
              9.67             131.15 
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
             4.520              7.105 
[1] "0.8 - 9.7 (4.5)"   "0.1 - 131.2 (7.1)"
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE"   "16P GAIN MUTATED" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE"   "16P GAIN MUTATED" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE"   "16P GAIN MUTATED" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE"   "16P GAIN MUTATED" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"16P GAIN WILD-TYPE"   "16P GAIN MUTATED" "16P GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
  "16P GAIN MUTATED" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE"   "16P GAIN MUTATED" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
  "16P GAIN MUTATED" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
  "16P GAIN MUTATED" "16P GAIN WILD-TYPE"   "16P GAIN MUTATED" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"16P GAIN WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE"   "16P GAIN MUTATED" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE"   "16P GAIN MUTATED" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE"   "16P GAIN MUTATED" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE"   "16P GAIN MUTATED" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"16P GAIN WILD-TYPE"   "16P GAIN MUTATED" "16P GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
  "16P GAIN MUTATED" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE"   "16P GAIN MUTATED" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
  "16P GAIN MUTATED" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
  "16P GAIN MUTATED" "16P GAIN WILD-TYPE"   "16P GAIN MUTATED" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"16P GAIN WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE"   "16P GAIN MUTATED" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE"   "16P GAIN MUTATED" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE"   "16P GAIN MUTATED" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE"   "16P GAIN MUTATED" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"16P GAIN WILD-TYPE"   "16P GAIN MUTATED" "16P GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
  "16P GAIN MUTATED" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE"   "16P GAIN MUTATED" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
  "16P GAIN MUTATED" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
  "16P GAIN MUTATED" "16P GAIN WILD-TYPE"   "16P GAIN MUTATED" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"16P GAIN WILD-TYPE" 
[1] "hr=" "6.5"
D28V2, continuous
D28V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  16P GAIN MUTATED      4    6
  16P GAIN WILD-TYPE   29   92
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  FEMALE                4                 29
  MALE                  6                 92
D28V4, continuous
D28V5, continuous
D28V6, continuous
                    vv
clus                 M0 M1 MX
  16P GAIN MUTATED    7  1  1
  16P GAIN WILD-TYPE 68  3 50
D28V7, multiclass
    clus
vv   16P GAIN MUTATED 16P GAIN WILD-TYPE
  M0                7                 68
  M1                1                  3
  MX                1                 50
                    vv
clus                 N0 N1 N2 N3 NX
  16P GAIN MUTATED    4  1  3  0  1
  16P GAIN WILD-TYPE 70 13 23  4  9
D28V8, multiclass
D28V9, continuous
D28V10, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  16P GAIN MUTATED         0        2         4        4
  16P GAIN WILD-TYPE       1       34        39       42
D28V11, multiclass
           clus
vv          16P GAIN MUTATED 16P GAIN WILD-TYPE
  STAGE I                  0                  1
  STAGE II                 2                 34
  STAGE III                4                 39
  STAGE IV                 4                 42

Clustering(29) Variable = 16q gain mutation analysis
D29V1, survival
                    sevent
clus2                 0  1
  16Q GAIN MUTATED    8  4
  16Q GAIN WILD-TYPE 84 28
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
                12                112 
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
                 4                 28 
$`16Q GAIN MUTATED`
TCGA-BL-A13J TCGA-BT-A20V TCGA-BT-A2LA TCGA-C4-A0EZ TCGA-CU-A3KJ TCGA-DK-A3IL 
        2.66         5.06         5.88         8.98         5.46         3.98 
TCGA-DK-A3IN TCGA-FT-A3EE TCGA-G2-A3VY TCGA-GC-A3I6 TCGA-GD-A2C5 TCGA-GD-A3OS 
        8.22         2.33         0.82         2.24         7.69         5.82 

$`16Q GAIN WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX TCGA-BT-A20J 
       12.79         7.33         6.74         6.58        11.93        19.00 
TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A20T 
       26.10        12.16        17.85        19.46         5.06        14.89 
TCGA-BT-A20U TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LD TCGA-BT-A3PH TCGA-C4-A0F0 
        8.61         8.35         8.25         3.65         4.64         1.94 
TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO 
        2.01         0.46         0.43         0.69        12.92         4.90 
TCGA-CU-A0YR TCGA-CU-A3QU TCGA-CU-A3YL TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A6 
        7.20         5.19         8.09         2.53         2.14        31.40 
TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A1AE 
        8.98         7.04         8.91       118.88       100.47         7.17 
TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I4 
        5.85         6.64         1.81        10.59         7.76       123.85 
TCGA-DK-A2I6 TCGA-DK-A3IK TCGA-DK-A3IM TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT 
       75.32         2.20         7.82        10.49        37.84         5.52 
TCGA-DK-A3IU TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E5-A2PC 
       11.51         9.67         8.28        10.55       131.15        36.43 
TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 
        0.10         8.81         8.32         8.94         6.87         4.01 
TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SL 
       11.05         8.94         7.96        32.02        24.30        10.98 
TCGA-FD-A3SM TCGA-FD-A3SN TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR 
        6.12         6.81         5.49         4.54        46.78        19.79 
TCGA-FD-A3SS TCGA-FD-A43N TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-G2-A2EF 
        1.94         7.89         6.84        15.16         4.08        49.91 
TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB 
       26.50         5.65        26.93        32.78        17.26         7.04 
TCGA-G2-A3IE TCGA-GC-A3BM TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RC TCGA-GC-A3RD 
       20.12         2.86         1.32         4.50         1.38         1.02 
TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GU-A42P TCGA-GU-A42Q 
        2.50         1.08         2.10         3.12         6.38         7.56 
TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-GV-A3QF 
        3.22         4.37         6.41         6.15         5.69         7.63 
TCGA-GV-A3QH TCGA-GV-A3QI TCGA-GV-A3QK TCGA-GV-A40E TCGA-GV-A40G TCGA-H4-A2HO 
        7.79         4.11         6.64         6.38         5.33         1.51 
TCGA-H4-A2HQ TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A3WV 
        6.71         8.71         3.42         4.64 

  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
              0.82               0.10 
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
              8.98             131.15 
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
             5.260              7.185 
[1] "0.8 - 9.0 (5.3)"   "0.1 - 131.2 (7.2)"
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" "16Q GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
  "16Q GAIN MUTATED" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
  "16Q GAIN MUTATED" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
  "16Q GAIN MUTATED" "16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
  "16Q GAIN MUTATED" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
  "16Q GAIN MUTATED" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"16Q GAIN WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" "16Q GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
  "16Q GAIN MUTATED" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
  "16Q GAIN MUTATED" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
  "16Q GAIN MUTATED" "16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
  "16Q GAIN MUTATED" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
  "16Q GAIN MUTATED" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"16Q GAIN WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" "16Q GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
  "16Q GAIN MUTATED" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
  "16Q GAIN MUTATED" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
  "16Q GAIN MUTATED" "16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
  "16Q GAIN MUTATED" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
  "16Q GAIN MUTATED" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"16Q GAIN WILD-TYPE" 
[1] "hr=" "5.2"
D29V2, continuous
D29V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  16Q GAIN MUTATED      6    6
  16Q GAIN WILD-TYPE   27   92
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  FEMALE                6                 27
  MALE                  6                 92
D29V4, continuous
D29V5, continuous
D29V6, continuous
                    vv
clus                 M0 M1 MX
  16Q GAIN MUTATED    7  1  3
  16Q GAIN WILD-TYPE 68  3 48
D29V7, multiclass
    clus
vv   16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  M0                7                 68
  M1                1                  3
  MX                3                 48
                    vv
clus                 N0 N1 N2 N3 NX
  16Q GAIN MUTATED    5  1  4  0  1
  16Q GAIN WILD-TYPE 69 13 22  4  9
D29V8, multiclass
D29V9, continuous
D29V10, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  16Q GAIN MUTATED         0        2         5        5
  16Q GAIN WILD-TYPE       1       34        38       41
D29V11, multiclass
           clus
vv          16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  STAGE I                  0                  1
  STAGE II                 2                 34
  STAGE III                5                 38
  STAGE IV                 5                 41

Clustering(30) Variable = 17p gain mutation analysis
D30V1, survival
                    sevent
clus2                 0  1
  17P GAIN MUTATED    5  2
  17P GAIN WILD-TYPE 87 30
  17P GAIN MUTATED 17P GAIN WILD-TYPE 
                 7                117 
  17P GAIN MUTATED 17P GAIN WILD-TYPE 
                 2                 30 
$`17P GAIN MUTATED`
TCGA-BL-A0C8 TCGA-BL-A3JM TCGA-C4-A0EZ TCGA-DK-A3IM TCGA-FT-A3EE TCGA-GV-A3QH 
       12.79         6.74         8.98         7.82         2.33         7.79 
TCGA-K4-A3WV 
        4.64 

$`17P GAIN WILD-TYPE`
TCGA-BL-A13I TCGA-BL-A13J TCGA-BT-A0S7 TCGA-BT-A0YX TCGA-BT-A20J TCGA-BT-A20N 
        7.33         2.66         6.58        11.93        19.00        26.10 
TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A20T TCGA-BT-A20U 
       12.16        17.85        19.46         5.06        14.89         8.61 
TCGA-BT-A20V TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LA TCGA-BT-A2LD TCGA-BT-A3PH 
        5.06         8.35         8.25         5.88         3.65         4.64 
TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YN 
        1.94         2.01         0.46         0.43         0.69        12.92 
TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3KJ TCGA-CU-A3QU TCGA-CU-A3YL TCGA-DK-A1A3 
        4.90         7.20         5.46         5.19         8.09         2.53 
TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AC 
        2.14        31.40         8.98         7.04         8.91       118.88 
TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I1 
      100.47         7.17         5.85         6.64         1.81        10.59 
TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IN 
        7.76       123.85        75.32         2.20         3.98         8.22 
TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3IV TCGA-DK-A3WW 
       10.49        37.84         5.52        11.51         9.67         8.28 
TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E5-A2PC TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 
       10.55       131.15        36.43         0.10         8.81         8.32 
TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3N6 
        8.94         6.87         4.01        11.05         8.94         7.96 
TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SM TCGA-FD-A3SN TCGA-FD-A3SO 
       32.02        24.30        10.98         6.12         6.81         5.49 
TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A3SS TCGA-FD-A43N TCGA-FD-A43U 
        4.54        46.78        19.79         1.94         7.89         6.84 
TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL 
       15.16         4.08        49.91        26.50         5.65        26.93 
TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-G2-A3VY TCGA-GC-A3BM 
       32.78        17.26         7.04        20.12         0.82         2.86 
TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RC TCGA-GC-A3RD TCGA-GC-A3WC 
        2.24         1.32         4.50         1.38         1.02         2.50 
TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GD-A3OS TCGA-GU-A42P 
        1.08         7.69         2.10         3.12         5.82         6.38 
TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ 
        7.56         3.22         4.37         6.41         6.15         5.69 
TCGA-GV-A3QF TCGA-GV-A3QI TCGA-GV-A3QK TCGA-GV-A40E TCGA-GV-A40G TCGA-H4-A2HO 
        7.63         4.11         6.64         6.38         5.33         1.51 
TCGA-H4-A2HQ TCGA-K4-A3WS TCGA-K4-A3WU 
        6.71         8.71         3.42 

  17P GAIN MUTATED 17P GAIN WILD-TYPE 
              2.33               0.10 
  17P GAIN MUTATED 17P GAIN WILD-TYPE 
             12.79             131.15 
  17P GAIN MUTATED 17P GAIN WILD-TYPE 
              7.79               6.87 
[1] "2.3 - 12.8 (7.8)"  "0.1 - 131.2 (6.9)"
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
  "17P GAIN MUTATED" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
  "17P GAIN MUTATED" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE"   "17P GAIN MUTATED" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE"   "17P GAIN MUTATED" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
  "17P GAIN MUTATED" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
  "17P GAIN MUTATED" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
  "17P GAIN MUTATED" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
  "17P GAIN MUTATED" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
  "17P GAIN MUTATED" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE"   "17P GAIN MUTATED" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE"   "17P GAIN MUTATED" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
  "17P GAIN MUTATED" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
  "17P GAIN MUTATED" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
  "17P GAIN MUTATED" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
  "17P GAIN MUTATED" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
  "17P GAIN MUTATED" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE"   "17P GAIN MUTATED" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE"   "17P GAIN MUTATED" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
  "17P GAIN MUTATED" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
  "17P GAIN MUTATED" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
  "17P GAIN MUTATED" 
[1] "hr=" "1.8"
D30V2, continuous
D30V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  17P GAIN MUTATED      3    5
  17P GAIN WILD-TYPE   30   93
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  FEMALE                3                 30
  MALE                  5                 93
D30V4, continuous
[1] "Remove cluster labels:" "17P GAIN MUTATED"      
clus
  17P GAIN MUTATED 17P GAIN WILD-TYPE 
                 2                 35 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CF-A3MG 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-CF-A3MH         TCGA-CF-A3MI         TCGA-DK-A2HX 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IV         TCGA-DK-A3WX 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RC         TCGA-GC-A3RD 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-GC-A3YS         TCGA-GD-A3OS         TCGA-GV-A3JV 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-GV-A3QF         TCGA-GV-A3QI         TCGA-GV-A3QK 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
D30V5, continuous
D30V6, continuous
                    vv
clus                 M0 M1 MX
  17P GAIN MUTATED    4  1  3
  17P GAIN WILD-TYPE 71  3 48
D30V7, multiclass
    clus
vv   17P GAIN MUTATED 17P GAIN WILD-TYPE
  M0                4                 71
  M1                1                  3
  MX                3                 48
                    vv
clus                 N0 N1 N2 N3 NX
  17P GAIN MUTATED    5  1  0  0  2
  17P GAIN WILD-TYPE 69 13 26  4  8
D30V8, multiclass
D30V9, continuous
D30V10, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  17P GAIN MUTATED         1        2         4        1
  17P GAIN WILD-TYPE       0       34        39       45
D30V11, multiclass
           clus
vv          17P GAIN MUTATED 17P GAIN WILD-TYPE
  STAGE I                  1                  0
  STAGE II                 2                 34
  STAGE III                4                 39
  STAGE IV                 1                 45

Clustering(31) Variable = 17q gain mutation analysis
D31V1, survival
                    sevent
clus2                 0  1
  17Q GAIN MUTATED   17  4
  17Q GAIN WILD-TYPE 75 28
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
                21                103 
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
                 4                 28 
$`17Q GAIN MUTATED`
TCGA-BL-A0C8 TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A20Q TCGA-C4-A0EZ TCGA-CU-A3YL 
       12.79         2.66         6.74        19.46         8.98         8.09 
TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AD TCGA-DK-A3IM TCGA-FT-A3EE TCGA-GU-A42P 
       31.40         8.98       100.47         7.82         2.33         6.38 
TCGA-GU-A42R TCGA-GV-A3JZ TCGA-GV-A3QF TCGA-GV-A3QH TCGA-GV-A3QK TCGA-GV-A40E 
        3.22         5.69         7.63         7.79         6.64         6.38 
TCGA-GV-A40G TCGA-H4-A2HQ TCGA-K4-A3WV 
        5.33         6.71         4.64 

$`17Q GAIN WILD-TYPE`
TCGA-BL-A13I TCGA-BT-A0S7 TCGA-BT-A0YX TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O 
        7.33         6.58        11.93        19.00        26.10        12.16 
TCGA-BT-A20P TCGA-BT-A20R TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20W 
       17.85         5.06        14.89         8.61         5.06         8.35 
TCGA-BT-A20X TCGA-BT-A2LA TCGA-BT-A2LD TCGA-BT-A3PH TCGA-C4-A0F0 TCGA-C4-A0F6 
        8.25         5.88         3.65         4.64         1.94         2.01 
TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR 
        0.46         0.43         0.69        12.92         4.90         7.20 
TCGA-CU-A3KJ TCGA-CU-A3QU TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1AA TCGA-DK-A1AB 
        5.46         5.19         2.53         2.14         7.04         8.91 
TCGA-DK-A1AC TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I1 
      118.88         7.17         5.85         6.64         1.81        10.59 
TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IN 
        7.76       123.85        75.32         2.20         3.98         8.22 
TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3IV TCGA-DK-A3WW 
       10.49        37.84         5.52        11.51         9.67         8.28 
TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E5-A2PC TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 
       10.55       131.15        36.43         0.10         8.81         8.32 
TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3N6 
        8.94         6.87         4.01        11.05         8.94         7.96 
TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SM TCGA-FD-A3SN TCGA-FD-A3SO 
       32.02        24.30        10.98         6.12         6.81         5.49 
TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A3SS TCGA-FD-A43N TCGA-FD-A43U 
        4.54        46.78        19.79         1.94         7.89         6.84 
TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL 
       15.16         4.08        49.91        26.50         5.65        26.93 
TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-G2-A3VY TCGA-GC-A3BM 
       32.78        17.26         7.04        20.12         0.82         2.86 
TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RC TCGA-GC-A3RD TCGA-GC-A3WC 
        2.24         1.32         4.50         1.38         1.02         2.50 
TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GD-A3OS TCGA-GU-A42Q 
        1.08         7.69         2.10         3.12         5.82         7.56 
TCGA-GV-A3JV TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3QI TCGA-H4-A2HO TCGA-K4-A3WS 
        4.37         6.41         6.15         4.11         1.51         8.71 
TCGA-K4-A3WU 
        3.42 

  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
              2.33               0.10 
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
            100.47             131.15 
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
              6.74               7.04 
[1] "2.3 - 100.5 (6.7)" "0.1 - 131.2 (7.0)"
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED"   "17Q GAIN MUTATED" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED"   "17Q GAIN MUTATED" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
  "17Q GAIN MUTATED"   "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
  "17Q GAIN MUTATED" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED"   "17Q GAIN MUTATED" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED"   "17Q GAIN MUTATED" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
  "17Q GAIN MUTATED"   "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
  "17Q GAIN MUTATED" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED"   "17Q GAIN MUTATED" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED"   "17Q GAIN MUTATED" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
  "17Q GAIN MUTATED"   "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
  "17Q GAIN MUTATED" 
[1] "hr=" "1.3"
D31V2, continuous
D31V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  17Q GAIN MUTATED      6   17
  17Q GAIN WILD-TYPE   27   81
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  FEMALE                6                 27
  MALE                 17                 81
D31V4, continuous
D31V5, continuous
D31V6, continuous
                    vv
clus                 M0 M1 MX
  17Q GAIN MUTATED   12  2  9
  17Q GAIN WILD-TYPE 63  2 42
D31V7, multiclass
    clus
vv   17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  M0               12                 63
  M1                2                  2
  MX                9                 42
                    vv
clus                 N0 N1 N2 N3 NX
  17Q GAIN MUTATED    7  3  7  1  4
  17Q GAIN WILD-TYPE 67 11 19  3  6
D31V8, multiclass
D31V9, continuous
D31V10, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  17Q GAIN MUTATED         1        5         5       11
  17Q GAIN WILD-TYPE       0       31        38       35
D31V11, multiclass
           clus
vv          17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  STAGE I                  1                  0
  STAGE II                 5                 31
  STAGE III                5                 38
  STAGE IV                11                 35

Clustering(32) Variable = 18p gain mutation analysis
D32V1, survival
                    sevent
clus2                 0  1
  18P GAIN MUTATED   17  6
  18P GAIN WILD-TYPE 75 26
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
                23                101 
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
                 6                 26 
$`18P GAIN MUTATED`
TCGA-BL-A3JM TCGA-BT-A20V TCGA-BT-A20W TCGA-C4-A0EZ TCGA-CF-A1HS TCGA-DK-A2I6 
        6.74         5.06         8.35         8.98         0.43        75.32 
TCGA-DK-A3IM TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3N5 TCGA-FD-A3SR TCGA-FD-A3SS 
        7.82         8.94         6.87         8.94        19.79         1.94 
TCGA-FJ-A3ZF TCGA-G2-A2EF TCGA-G2-A3VY TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GU-A42P 
        4.08        49.91         0.82         7.69         2.10         6.38 
TCGA-GV-A3JX TCGA-GV-A3QI TCGA-GV-A3QK TCGA-GV-A40G TCGA-K4-A3WV 
        6.15         4.11         6.64         5.33         4.64 

$`18P GAIN WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BT-A0S7 TCGA-BT-A0YX TCGA-BT-A20J 
       12.79         7.33         2.66         6.58        11.93        19.00 
TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A20T 
       26.10        12.16        17.85        19.46         5.06        14.89 
TCGA-BT-A20U TCGA-BT-A20X TCGA-BT-A2LA TCGA-BT-A2LD TCGA-BT-A3PH TCGA-C4-A0F0 
        8.61         8.25         5.88         3.65         4.64         1.94 
TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR 
        2.01         0.46         0.69        12.92         4.90         7.20 
TCGA-CU-A3KJ TCGA-CU-A3QU TCGA-CU-A3YL TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A6 
        5.46         5.19         8.09         2.53         2.14        31.40 
TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A1AE 
        8.98         7.04         8.91       118.88       100.47         7.17 
TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I4 
        5.85         6.64         1.81        10.59         7.76       123.85 
TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT 
        2.20         3.98         8.22        10.49        37.84         5.52 
TCGA-DK-A3IU TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E5-A2PC 
       11.51         9.67         8.28        10.55       131.15        36.43 
TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3N6 
        0.10         8.81         8.32         4.01        11.05         7.96 
TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SM TCGA-FD-A3SN TCGA-FD-A3SO 
       32.02        24.30        10.98         6.12         6.81         5.49 
TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A43N TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FT-A3EE 
        4.54        46.78         7.89         6.84        15.16         2.33 
TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB 
       26.50         5.65        26.93        32.78        17.26         7.04 
TCGA-G2-A3IE TCGA-GC-A3BM TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RC 
       20.12         2.86         2.24         1.32         4.50         1.38 
TCGA-GC-A3RD TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GD-A3OQ TCGA-GD-A3OS TCGA-GU-A42Q 
        1.02         2.50         1.08         3.12         5.82         7.56 
TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JW TCGA-GV-A3JZ TCGA-GV-A3QF TCGA-GV-A3QH 
        3.22         4.37         6.41         5.69         7.63         7.79 
TCGA-GV-A40E TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-K4-A3WS TCGA-K4-A3WU 
        6.38         1.51         6.71         8.71         3.42 

  18P GAIN MUTATED 18P GAIN WILD-TYPE 
              0.43               0.10 
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
             75.32             131.15 
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
              6.64               7.17 
[1] "0.4 - 75.3 (6.6)"  "0.1 - 131.2 (7.2)"
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
  "18P GAIN MUTATED" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE"   "18P GAIN MUTATED" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
  "18P GAIN MUTATED" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE"   "18P GAIN MUTATED" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
  "18P GAIN MUTATED" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE"   "18P GAIN MUTATED" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE"   "18P GAIN MUTATED" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"18P GAIN WILD-TYPE"   "18P GAIN MUTATED"   "18P GAIN MUTATED" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE"   "18P GAIN MUTATED" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
  "18P GAIN MUTATED"   "18P GAIN MUTATED" "18P GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE"   "18P GAIN MUTATED" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"18P GAIN WILD-TYPE"   "18P GAIN MUTATED" "18P GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
  "18P GAIN MUTATED" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
  "18P GAIN MUTATED"   "18P GAIN MUTATED" "18P GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"18P GAIN WILD-TYPE"   "18P GAIN MUTATED" "18P GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
  "18P GAIN MUTATED" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"18P GAIN WILD-TYPE"   "18P GAIN MUTATED"   "18P GAIN MUTATED" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"18P GAIN WILD-TYPE"   "18P GAIN MUTATED" "18P GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
  "18P GAIN MUTATED" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
  "18P GAIN MUTATED" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE"   "18P GAIN MUTATED" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
  "18P GAIN MUTATED" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE"   "18P GAIN MUTATED" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
  "18P GAIN MUTATED" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE"   "18P GAIN MUTATED" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE"   "18P GAIN MUTATED" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"18P GAIN WILD-TYPE"   "18P GAIN MUTATED"   "18P GAIN MUTATED" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE"   "18P GAIN MUTATED" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
  "18P GAIN MUTATED"   "18P GAIN MUTATED" "18P GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE"   "18P GAIN MUTATED" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"18P GAIN WILD-TYPE"   "18P GAIN MUTATED" "18P GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
  "18P GAIN MUTATED" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
  "18P GAIN MUTATED"   "18P GAIN MUTATED" "18P GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"18P GAIN WILD-TYPE"   "18P GAIN MUTATED" "18P GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
  "18P GAIN MUTATED" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"18P GAIN WILD-TYPE"   "18P GAIN MUTATED"   "18P GAIN MUTATED" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"18P GAIN WILD-TYPE"   "18P GAIN MUTATED" "18P GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
  "18P GAIN MUTATED" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
  "18P GAIN MUTATED" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE"   "18P GAIN MUTATED" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
  "18P GAIN MUTATED" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE"   "18P GAIN MUTATED" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
  "18P GAIN MUTATED" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE"   "18P GAIN MUTATED" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE"   "18P GAIN MUTATED" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"18P GAIN WILD-TYPE"   "18P GAIN MUTATED"   "18P GAIN MUTATED" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE"   "18P GAIN MUTATED" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
  "18P GAIN MUTATED"   "18P GAIN MUTATED" "18P GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE"   "18P GAIN MUTATED" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"18P GAIN WILD-TYPE"   "18P GAIN MUTATED" "18P GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
  "18P GAIN MUTATED" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
  "18P GAIN MUTATED"   "18P GAIN MUTATED" "18P GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"18P GAIN WILD-TYPE"   "18P GAIN MUTATED" "18P GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
  "18P GAIN MUTATED" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"18P GAIN WILD-TYPE"   "18P GAIN MUTATED"   "18P GAIN MUTATED" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"18P GAIN WILD-TYPE"   "18P GAIN MUTATED" "18P GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
  "18P GAIN MUTATED" 
[1] "hr=" "1.3"
D32V2, continuous
D32V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18P GAIN MUTATED      7   16
  18P GAIN WILD-TYPE   26   82
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  FEMALE                7                 26
  MALE                 16                 82
D32V4, continuous
D32V5, continuous
D32V6, continuous
                    vv
clus                 M0 M1 MX
  18P GAIN MUTATED   10  1 11
  18P GAIN WILD-TYPE 65  3 40
D32V7, multiclass
    clus
vv   18P GAIN MUTATED 18P GAIN WILD-TYPE
  M0               10                 65
  M1                1                  3
  MX               11                 40
                    vv
clus                 N0 N1 N2 N3 NX
  18P GAIN MUTATED   12  4  5  1  0
  18P GAIN WILD-TYPE 62 10 21  3 10
D32V8, multiclass
D32V9, continuous
D32V10, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  18P GAIN MUTATED         0        7         5       10
  18P GAIN WILD-TYPE       1       29        38       36
D32V11, multiclass
           clus
vv          18P GAIN MUTATED 18P GAIN WILD-TYPE
  STAGE I                  0                  1
  STAGE II                 7                 29
  STAGE III                5                 38
  STAGE IV                10                 36

Clustering(33) Variable = 18q gain mutation analysis
D33V1, survival
                    sevent
clus2                 0  1
  18Q GAIN MUTATED    3  4
  18Q GAIN WILD-TYPE 89 28
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
                 7                117 
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
                 4                 28 
$`18Q GAIN MUTATED`
TCGA-BL-A3JM TCGA-BT-A20V TCGA-C4-A0EZ TCGA-DK-A1AE TCGA-FD-A3B6 TCGA-FD-A3SR 
        6.74         5.06         8.98         7.17         6.87        19.79 
TCGA-GV-A3QI 
        4.11 

$`18Q GAIN WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BT-A0S7 TCGA-BT-A0YX TCGA-BT-A20J 
       12.79         7.33         2.66         6.58        11.93        19.00 
TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A20T 
       26.10        12.16        17.85        19.46         5.06        14.89 
TCGA-BT-A20U TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LA TCGA-BT-A2LD TCGA-BT-A3PH 
        8.61         8.35         8.25         5.88         3.65         4.64 
TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YN 
        1.94         2.01         0.46         0.43         0.69        12.92 
TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3KJ TCGA-CU-A3QU TCGA-CU-A3YL TCGA-DK-A1A3 
        4.90         7.20         5.46         5.19         8.09         2.53 
TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AC 
        2.14        31.40         8.98         7.04         8.91       118.88 
TCGA-DK-A1AD TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I2 
      100.47         5.85         6.64         1.81        10.59         7.76 
TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IM TCGA-DK-A3IN 
      123.85        75.32         2.20         3.98         7.82         8.22 
TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3IV TCGA-DK-A3WW 
       10.49        37.84         5.52        11.51         9.67         8.28 
TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E5-A2PC TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 
       10.55       131.15        36.43         0.10         8.81         8.32 
TCGA-FD-A3B5 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA 
        8.94         4.01        11.05         8.94         7.96        32.02 
TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SM TCGA-FD-A3SN TCGA-FD-A3SO TCGA-FD-A3SP 
       24.30        10.98         6.12         6.81         5.49         4.54 
TCGA-FD-A3SQ TCGA-FD-A3SS TCGA-FD-A43N TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF 
       46.78         1.94         7.89         6.84        15.16         4.08 
TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO 
        2.33        49.91        26.50         5.65        26.93        32.78 
TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-G2-A3VY TCGA-GC-A3BM TCGA-GC-A3I6 
       17.26         7.04        20.12         0.82         2.86         2.24 
TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RC TCGA-GC-A3RD TCGA-GC-A3WC TCGA-GC-A3YS 
        1.32         4.50         1.38         1.02         2.50         1.08 
TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GD-A3OS TCGA-GU-A42P TCGA-GU-A42Q 
        7.69         2.10         3.12         5.82         6.38         7.56 
TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-GV-A3QF 
        3.22         4.37         6.41         6.15         5.69         7.63 
TCGA-GV-A3QH TCGA-GV-A3QK TCGA-GV-A40E TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ 
        7.79         6.64         6.38         5.33         1.51         6.71 
TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A3WV 
        8.71         3.42         4.64 

  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
              4.11               0.10 
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
             19.79             131.15 
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
              6.87               7.04 
[1] "4.1 - 19.8 (6.9)"  "0.1 - 131.2 (7.0)"
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
  "18Q GAIN MUTATED" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE"   "18Q GAIN MUTATED" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE"   "18Q GAIN MUTATED" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"18Q GAIN WILD-TYPE"   "18Q GAIN MUTATED" "18Q GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE"   "18Q GAIN MUTATED" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
  "18Q GAIN MUTATED" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"18Q GAIN WILD-TYPE"   "18Q GAIN MUTATED" "18Q GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"18Q GAIN WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
  "18Q GAIN MUTATED" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE"   "18Q GAIN MUTATED" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE"   "18Q GAIN MUTATED" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"18Q GAIN WILD-TYPE"   "18Q GAIN MUTATED" "18Q GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE"   "18Q GAIN MUTATED" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
  "18Q GAIN MUTATED" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"18Q GAIN WILD-TYPE"   "18Q GAIN MUTATED" "18Q GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"18Q GAIN WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
  "18Q GAIN MUTATED" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE"   "18Q GAIN MUTATED" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE"   "18Q GAIN MUTATED" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"18Q GAIN WILD-TYPE"   "18Q GAIN MUTATED" "18Q GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE"   "18Q GAIN MUTATED" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
  "18Q GAIN MUTATED" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"18Q GAIN WILD-TYPE"   "18Q GAIN MUTATED" "18Q GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"18Q GAIN WILD-TYPE" 
[1] "hr=" "3.2"
D33V2, continuous
D33V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18Q GAIN MUTATED      2    5
  18Q GAIN WILD-TYPE   31   93
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  FEMALE                2                 31
  MALE                  5                 93
D33V4, continuous
[1] "Remove cluster labels:" "18Q GAIN MUTATED"      
clus
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
                 1                 36 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CF-A3MF 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-CF-A3MG         TCGA-CF-A3MH         TCGA-CF-A3MI 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-DK-A2HX         TCGA-DK-A3IN         TCGA-DK-A3IV 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-DK-A3WX         TCGA-E5-A2PC         TCGA-G2-A2EF 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-G2-A3VY         TCGA-GC-A3BM 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-GC-A3I6         TCGA-GC-A3OO         TCGA-GC-A3RC 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3YS         TCGA-GD-A3OS 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-GV-A3JV         TCGA-GV-A3JW         TCGA-GV-A3JX 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-GV-A3JZ         TCGA-GV-A3QF         TCGA-GV-A3QH 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-GV-A3QK         TCGA-GV-A40E         TCGA-GV-A40G 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
D33V5, continuous
D33V6, continuous
                    vv
clus                 M0 M1 MX
  18Q GAIN MUTATED    3  1  3
  18Q GAIN WILD-TYPE 72  3 48
D33V7, multiclass
    clus
vv   18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  M0                3                 72
  M1                1                  3
  MX                3                 48
                    vv
clus                 N0 N1 N2 N3 NX
  18Q GAIN MUTATED    4  1  2  0  0
  18Q GAIN WILD-TYPE 70 13 24  4 10
D33V8, multiclass
D33V9, continuous
D33V10, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  18Q GAIN MUTATED         0        1         3        3
  18Q GAIN WILD-TYPE       1       35        40       43
D33V11, multiclass
           clus
vv          18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  STAGE I                  0                  1
  STAGE II                 1                 35
  STAGE III                3                 40
  STAGE IV                 3                 43

Clustering(34) Variable = 19p gain mutation analysis
D34V1, survival
                    sevent
clus2                 0  1
  19P GAIN MUTATED   11  1
  19P GAIN WILD-TYPE 81 31
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
                12                112 
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
                 1                 31 
$`19P GAIN MUTATED`
TCGA-BL-A3JM TCGA-BT-A2LA TCGA-CU-A3KJ TCGA-CU-A3YL TCGA-DK-A1A7 TCGA-DK-A2HX 
        6.74         5.88         5.46         8.09         8.98         1.81 
TCGA-FT-A3EE TCGA-G2-A3VY TCGA-GV-A3JV TCGA-GV-A3JW TCGA-GV-A3QH TCGA-GV-A40G 
        2.33         0.82         4.37         6.41         7.79         5.33 

$`19P GAIN WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BT-A0S7 TCGA-BT-A0YX TCGA-BT-A20J 
       12.79         7.33         2.66         6.58        11.93        19.00 
TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A20T 
       26.10        12.16        17.85        19.46         5.06        14.89 
TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LD TCGA-BT-A3PH 
        8.61         5.06         8.35         8.25         3.65         4.64 
TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CF-A27C 
        8.98         1.94         2.01         0.46         0.43         0.69 
TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3QU TCGA-DK-A1A3 TCGA-DK-A1A5 
       12.92         4.90         7.20         5.19         2.53         2.14 
TCGA-DK-A1A6 TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A1AE 
       31.40         7.04         8.91       118.88       100.47         7.17 
TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A2I6 
        5.85         6.64        10.59         7.76       123.85        75.32 
TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS 
        2.20         3.98         7.82         8.22        10.49        37.84 
TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY 
        5.52        11.51         9.67         8.28        10.55       131.15 
TCGA-E5-A2PC TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 
       36.43         0.10         8.81         8.32         8.94         6.87 
TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ 
        4.01        11.05         8.94         7.96        32.02        24.30 
TCGA-FD-A3SL TCGA-FD-A3SM TCGA-FD-A3SN TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ 
       10.98         6.12         6.81         5.49         4.54        46.78 
TCGA-FD-A3SR TCGA-FD-A3SS TCGA-FD-A43N TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF 
       19.79         1.94         7.89         6.84        15.16         4.08 
TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES 
       49.91        26.50         5.65        26.93        32.78        17.26 
TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GC-A3BM TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RB 
        7.04        20.12         2.86         2.24         1.32         4.50 
TCGA-GC-A3RC TCGA-GC-A3RD TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GD-A3OP 
        1.38         1.02         2.50         1.08         7.69         2.10 
TCGA-GD-A3OQ TCGA-GD-A3OS TCGA-GU-A42P TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JX 
        3.12         5.82         6.38         7.56         3.22         6.15 
TCGA-GV-A3JZ TCGA-GV-A3QF TCGA-GV-A3QI TCGA-GV-A3QK TCGA-GV-A40E TCGA-H4-A2HO 
        5.69         7.63         4.11         6.64         6.38         1.51 
TCGA-H4-A2HQ TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A3WV 
        6.71         8.71         3.42         4.64 

  19P GAIN MUTATED 19P GAIN WILD-TYPE 
              0.82               0.10 
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
              8.98             131.15 
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
             5.670              7.185 
[1] "0.8 - 9.0 (5.7)"   "0.1 - 131.2 (7.2)"
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
  "19P GAIN MUTATED" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE"   "19P GAIN MUTATED" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE"   "19P GAIN MUTATED" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"19P GAIN WILD-TYPE"   "19P GAIN MUTATED" "19P GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE"   "19P GAIN MUTATED" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"19P GAIN WILD-TYPE"   "19P GAIN MUTATED" "19P GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
  "19P GAIN MUTATED" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
  "19P GAIN MUTATED" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"19P GAIN WILD-TYPE"   "19P GAIN MUTATED"   "19P GAIN MUTATED" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
  "19P GAIN MUTATED" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"19P GAIN WILD-TYPE"   "19P GAIN MUTATED" "19P GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"19P GAIN WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
  "19P GAIN MUTATED" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE"   "19P GAIN MUTATED" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE"   "19P GAIN MUTATED" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"19P GAIN WILD-TYPE"   "19P GAIN MUTATED" "19P GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE"   "19P GAIN MUTATED" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"19P GAIN WILD-TYPE"   "19P GAIN MUTATED" "19P GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
  "19P GAIN MUTATED" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
  "19P GAIN MUTATED" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"19P GAIN WILD-TYPE"   "19P GAIN MUTATED"   "19P GAIN MUTATED" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
  "19P GAIN MUTATED" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"19P GAIN WILD-TYPE"   "19P GAIN MUTATED" "19P GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"19P GAIN WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
  "19P GAIN MUTATED" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE"   "19P GAIN MUTATED" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE"   "19P GAIN MUTATED" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"19P GAIN WILD-TYPE"   "19P GAIN MUTATED" "19P GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE"   "19P GAIN MUTATED" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"19P GAIN WILD-TYPE"   "19P GAIN MUTATED" "19P GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
  "19P GAIN MUTATED" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
  "19P GAIN MUTATED" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"19P GAIN WILD-TYPE"   "19P GAIN MUTATED"   "19P GAIN MUTATED" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
  "19P GAIN MUTATED" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"19P GAIN WILD-TYPE"   "19P GAIN MUTATED" "19P GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"19P GAIN WILD-TYPE" 
[1] "hr=" "1.1"
D34V2, continuous
D34V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  19P GAIN MUTATED      3   10
  19P GAIN WILD-TYPE   30   88
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  FEMALE                3                 30
  MALE                 10                 88
D34V4, continuous
D34V5, continuous
D34V6, continuous
                    vv
clus                 M0 M1 MX
  19P GAIN MUTATED    7  0  5
  19P GAIN WILD-TYPE 68  4 46
D34V7, multiclass
    clus
vv   19P GAIN MUTATED 19P GAIN WILD-TYPE
  M0                7                 68
  M1                0                  4
  MX                5                 46
                    vv
clus                 N0 N1 N2 N3 NX
  19P GAIN MUTATED    7  1  2  0  2
  19P GAIN WILD-TYPE 67 13 24  4  8
D34V8, multiclass
D34V9, continuous
D34V10, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  19P GAIN MUTATED         0        4         6        3
  19P GAIN WILD-TYPE       1       32        37       43
D34V11, multiclass
           clus
vv          19P GAIN MUTATED 19P GAIN WILD-TYPE
  STAGE I                  0                  1
  STAGE II                 4                 32
  STAGE III                6                 37
  STAGE IV                 3                 43

Clustering(35) Variable = 19q gain mutation analysis
D35V1, survival
                    sevent
clus2                 0  1
  19Q GAIN MUTATED   22  3
  19Q GAIN WILD-TYPE 70 29
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
                25                 99 
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
                 3                 29 
$`19Q GAIN MUTATED`
TCGA-BL-A3JM TCGA-BT-A20J TCGA-BT-A20V TCGA-BT-A2LA TCGA-C4-A0F6 TCGA-CU-A3KJ 
        6.74        19.00         5.06         5.88         2.01         5.46 
TCGA-CU-A3YL TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AB TCGA-DK-A2HX TCGA-DK-A3IL 
        8.09        31.40         8.98         8.91         1.81         3.98 
TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EO TCGA-G2-A3VY TCGA-GC-A3RD TCGA-GU-A42R 
        2.33        49.91        32.78         0.82         1.02         3.22 
TCGA-GV-A3JV TCGA-GV-A3JW TCGA-GV-A3JZ TCGA-GV-A3QF TCGA-GV-A3QH TCGA-H4-A2HQ 
        4.37         6.41         5.69         7.63         7.79         6.71 
TCGA-K4-A3WS 
        8.71 

$`19Q GAIN WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BT-A0S7 TCGA-BT-A0YX TCGA-BT-A20N 
       12.79         7.33         2.66         6.58        11.93        26.10 
TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A20T TCGA-BT-A20U 
       12.16        17.85        19.46         5.06        14.89         8.61 
TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LD TCGA-BT-A3PH TCGA-C4-A0EZ TCGA-C4-A0F0 
        8.35         8.25         3.65         4.64         8.98         1.94 
TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR 
        0.46         0.43         0.69        12.92         4.90         7.20 
TCGA-CU-A3QU TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1AA TCGA-DK-A1AC TCGA-DK-A1AD 
        5.19         2.53         2.14         7.04       118.88       100.47 
TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I4 
        7.17         5.85         6.64        10.59         7.76       123.85 
TCGA-DK-A2I6 TCGA-DK-A3IK TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS 
       75.32         2.20         7.82         8.22        10.49        37.84 
TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY 
        5.52        11.51         9.67         8.28        10.55       131.15 
TCGA-E5-A2PC TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 
       36.43         0.10         8.81         8.32         8.94         6.87 
TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ 
        4.01        11.05         8.94         7.96        32.02        24.30 
TCGA-FD-A3SL TCGA-FD-A3SM TCGA-FD-A3SN TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ 
       10.98         6.12         6.81         5.49         4.54        46.78 
TCGA-FD-A3SR TCGA-FD-A3SS TCGA-FD-A43N TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF 
       19.79         1.94         7.89         6.84        15.16         4.08 
TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE 
       26.50         5.65        26.93        17.26         7.04        20.12 
TCGA-GC-A3BM TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RC TCGA-GC-A3WC 
        2.86         2.24         1.32         4.50         1.38         2.50 
TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GD-A3OS TCGA-GU-A42P 
        1.08         7.69         2.10         3.12         5.82         6.38 
TCGA-GU-A42Q TCGA-GV-A3JX TCGA-GV-A3QI TCGA-GV-A3QK TCGA-GV-A40E TCGA-GV-A40G 
        7.56         6.15         4.11         6.64         6.38         5.33 
TCGA-H4-A2HO TCGA-K4-A3WU TCGA-K4-A3WV 
        1.51         3.42         4.64 

  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
              0.82               0.10 
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
             49.91             131.15 
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
              6.41               7.17 
[1] "0.8 - 49.9 (6.4)"  "0.1 - 131.2 (7.2)"
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
  "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
  "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED"   "19Q GAIN MUTATED" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
  "19Q GAIN MUTATED"   "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
  "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
  "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
  "19Q GAIN MUTATED"   "19Q GAIN MUTATED"   "19Q GAIN MUTATED" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED"   "19Q GAIN MUTATED" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
  "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
  "19Q GAIN MUTATED"   "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"19Q GAIN WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
  "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
  "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED"   "19Q GAIN MUTATED" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
  "19Q GAIN MUTATED"   "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
  "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
  "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
  "19Q GAIN MUTATED"   "19Q GAIN MUTATED"   "19Q GAIN MUTATED" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED"   "19Q GAIN MUTATED" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
  "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
  "19Q GAIN MUTATED"   "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"19Q GAIN WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
  "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
  "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED"   "19Q GAIN MUTATED" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
  "19Q GAIN MUTATED"   "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
  "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
  "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
  "19Q GAIN MUTATED"   "19Q GAIN MUTATED"   "19Q GAIN MUTATED" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED"   "19Q GAIN MUTATED" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
  "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
  "19Q GAIN MUTATED"   "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"19Q GAIN WILD-TYPE" 
[1] "hr=" "2"  
D35V2, continuous
D35V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  19Q GAIN MUTATED      9   17
  19Q GAIN WILD-TYPE   24   81
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  FEMALE                9                 24
  MALE                 17                 81
D35V4, continuous
D35V5, continuous
D35V6, continuous
                    vv
clus                 M0 M1 MX
  19Q GAIN MUTATED   15  1  9
  19Q GAIN WILD-TYPE 60  3 42
D35V7, multiclass
    clus
vv   19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  M0               15                 60
  M1                1                  3
  MX                9                 42
                    vv
clus                 N0 N1 N2 N3 NX
  19Q GAIN MUTATED   12  2  5  1  3
  19Q GAIN WILD-TYPE 62 12 21  3  7
D35V8, multiclass
D35V9, continuous
D35V10, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  19Q GAIN MUTATED         0        6        10       10
  19Q GAIN WILD-TYPE       1       30        33       36
D35V11, multiclass
           clus
vv          19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  STAGE I                  0                  1
  STAGE II                 6                 30
  STAGE III               10                 33
  STAGE IV                10                 36

Clustering(36) Variable = 20p gain mutation analysis
D36V1, survival
                    sevent
clus2                 0  1
  20P GAIN MUTATED   33 12
  20P GAIN WILD-TYPE 59 20
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
                45                 79 
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
                12                 20 
$`20P GAIN MUTATED`
TCGA-BL-A0C8 TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A20R TCGA-BT-A20V 
       12.79         2.66         6.74         6.58         5.06         5.06 
TCGA-BT-A2LD TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HS TCGA-CU-A0YR 
        3.65         8.98         1.94         2.01         0.43         7.20 
TCGA-CU-A3KJ TCGA-DK-A1A5 TCGA-DK-A1AC TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I2 
        5.46         2.14       118.88         1.81        10.59         7.76 
TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3WX TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3NA 
        2.20         3.98        10.55         6.87         4.01        32.02 
TCGA-FD-A3SL TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ 
       10.98        46.78        19.79         2.33        49.91        26.50 
TCGA-GC-A3BM TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RC TCGA-GD-A2C5 
        2.86         2.24         1.32         4.50         1.38         7.69 
TCGA-GD-A3OP TCGA-GV-A3JV TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3QF TCGA-GV-A3QH 
        2.10         4.37         6.41         6.15         7.63         7.79 
TCGA-GV-A3QI TCGA-H4-A2HQ TCGA-K4-A3WS 
        4.11         6.71         8.71 

$`20P GAIN WILD-TYPE`
TCGA-BL-A13I TCGA-BT-A0YX TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P 
        7.33        11.93        19.00        26.10        12.16        17.85 
TCGA-BT-A20Q TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LA 
       19.46        14.89         8.61         8.35         8.25         5.88 
TCGA-BT-A3PH TCGA-CF-A1HR TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A3QU 
        4.64         0.46         0.69        12.92         4.90         5.19 
TCGA-CU-A3YL TCGA-DK-A1A3 TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB 
        8.09         2.53        31.40         8.98         7.04         8.91 
TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2I4 TCGA-DK-A2I6 
      100.47         7.17         5.85         6.64       123.85        75.32 
TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT TCGA-DK-A3IU 
        7.82         8.22        10.49        37.84         5.52        11.51 
TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WY TCGA-E5-A2PC TCGA-E7-A3Y1 TCGA-FD-A3B3 
        9.67         8.28       131.15        36.43         0.10         8.81 
TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3SJ 
        8.32         8.94        11.05         8.94         7.96        24.30 
TCGA-FD-A3SM TCGA-FD-A3SN TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SS TCGA-FD-A43N 
        6.12         6.81         5.49         4.54         1.94         7.89 
TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO 
        6.84        15.16         4.08         5.65        26.93        32.78 
TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-G2-A3VY TCGA-GC-A3RD TCGA-GC-A3WC 
       17.26         7.04        20.12         0.82         1.02         2.50 
TCGA-GC-A3YS TCGA-GD-A3OQ TCGA-GD-A3OS TCGA-GU-A42P TCGA-GU-A42Q TCGA-GU-A42R 
        1.08         3.12         5.82         6.38         7.56         3.22 
TCGA-GV-A3JZ TCGA-GV-A3QK TCGA-GV-A40E TCGA-GV-A40G TCGA-H4-A2HO TCGA-K4-A3WU 
        5.69         6.64         6.38         5.33         1.51         3.42 
TCGA-K4-A3WV 
        4.64 

  20P GAIN MUTATED 20P GAIN WILD-TYPE 
              0.43               0.10 
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
            118.88             131.15 
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
              6.15               7.82 
[1] "0.4 - 118.9 (6.2)" "0.1 - 131.2 (7.8)"
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
  "20P GAIN MUTATED"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
  "20P GAIN MUTATED"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED"   "20P GAIN MUTATED" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED"   "20P GAIN MUTATED" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
  "20P GAIN MUTATED"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
  "20P GAIN MUTATED"   "20P GAIN MUTATED"   "20P GAIN MUTATED" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED"   "20P GAIN MUTATED" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
  "20P GAIN MUTATED"   "20P GAIN MUTATED"   "20P GAIN MUTATED" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
  "20P GAIN MUTATED"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED"   "20P GAIN MUTATED" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
  "20P GAIN MUTATED"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
  "20P GAIN MUTATED"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"20P GAIN WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
  "20P GAIN MUTATED"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
  "20P GAIN MUTATED"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED"   "20P GAIN MUTATED" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED"   "20P GAIN MUTATED" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
  "20P GAIN MUTATED"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
  "20P GAIN MUTATED"   "20P GAIN MUTATED"   "20P GAIN MUTATED" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED"   "20P GAIN MUTATED" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
  "20P GAIN MUTATED"   "20P GAIN MUTATED"   "20P GAIN MUTATED" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
  "20P GAIN MUTATED"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED"   "20P GAIN MUTATED" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
  "20P GAIN MUTATED"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
  "20P GAIN MUTATED"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"20P GAIN WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
  "20P GAIN MUTATED"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
  "20P GAIN MUTATED"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED"   "20P GAIN MUTATED" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED"   "20P GAIN MUTATED" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
  "20P GAIN MUTATED"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
  "20P GAIN MUTATED"   "20P GAIN MUTATED"   "20P GAIN MUTATED" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED"   "20P GAIN MUTATED" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
  "20P GAIN MUTATED"   "20P GAIN MUTATED"   "20P GAIN MUTATED" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
  "20P GAIN MUTATED"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED"   "20P GAIN MUTATED" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
  "20P GAIN MUTATED"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
  "20P GAIN MUTATED"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"20P GAIN WILD-TYPE" 
[1] "hr=" "1.4"
D36V2, continuous
D36V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  20P GAIN MUTATED     16   32
  20P GAIN WILD-TYPE   17   66
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  FEMALE               16                 17
  MALE                 32                 66
D36V4, continuous
D36V5, continuous
D36V6, continuous
                    vv
clus                 M0 M1 MX
  20P GAIN MUTATED   29  3 16
  20P GAIN WILD-TYPE 46  1 35
D36V7, multiclass
    clus
vv   20P GAIN MUTATED 20P GAIN WILD-TYPE
  M0               29                 46
  M1                3                  1
  MX               16                 35
                    vv
clus                 N0 N1 N2 N3 NX
  20P GAIN MUTATED   27  4 12  1  4
  20P GAIN WILD-TYPE 47 10 14  3  6
D36V8, multiclass
D36V9, continuous
D36V10, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  20P GAIN MUTATED         1       14        14       18
  20P GAIN WILD-TYPE       0       22        29       28
D36V11, multiclass
           clus
vv          20P GAIN MUTATED 20P GAIN WILD-TYPE
  STAGE I                  1                  0
  STAGE II                14                 22
  STAGE III               14                 29
  STAGE IV                18                 28

Clustering(37) Variable = 20q gain mutation analysis
D37V1, survival
                    sevent
clus2                 0  1
  20Q GAIN MUTATED   36 12
  20Q GAIN WILD-TYPE 56 20
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
                48                 76 
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
                12                 20 
$`20Q GAIN MUTATED`
TCGA-BL-A0C8 TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A20J TCGA-BT-A20Q 
       12.79         2.66         6.74         6.58        19.00        19.46 
TCGA-BT-A2LD TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CU-A0YR TCGA-CU-A3KJ 
        3.65         8.98         1.94         2.01         7.20         5.46 
TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AC TCGA-DK-A2HX TCGA-DK-A2I1 
        2.14        31.40         8.98       118.88         1.81        10.59 
TCGA-DK-A2I2 TCGA-DK-A3IL TCGA-DK-A3IS TCGA-DK-A3WX TCGA-FD-A3B6 TCGA-FD-A3B7 
        7.76         3.98        37.84        10.55         6.87         4.01 
TCGA-FD-A3NA TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FJ-A3Z7 TCGA-FT-A3EE TCGA-G2-A2EF 
       32.02        46.78        19.79        15.16         2.33        49.91 
TCGA-G2-A2EJ TCGA-GC-A3BM TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RC 
       26.50         2.86         2.24         1.32         4.50         1.38 
TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JW 
        1.08         7.69         7.56         3.22         4.37         6.41 
TCGA-GV-A3JX TCGA-GV-A3QF TCGA-GV-A3QH TCGA-GV-A3QI TCGA-H4-A2HQ TCGA-K4-A3WS 
        6.15         7.63         7.79         4.11         6.71         8.71 

$`20Q GAIN WILD-TYPE`
TCGA-BL-A13I TCGA-BT-A0YX TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20R 
        7.33        11.93        26.10        12.16        17.85         5.06 
TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LA 
       14.89         8.61         5.06         8.35         8.25         5.88 
TCGA-BT-A3PH TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO 
        4.64         0.46         0.43         0.69        12.92         4.90 
TCGA-CU-A3QU TCGA-CU-A3YL TCGA-DK-A1A3 TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AD 
        5.19         8.09         2.53         7.04         8.91       100.47 
TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IK 
        7.17         5.85         6.64       123.85        75.32         2.20 
TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3IV 
        7.82         8.22        10.49         5.52        11.51         9.67 
TCGA-DK-A3WW TCGA-DK-A3WY TCGA-E5-A2PC TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 
        8.28       131.15        36.43         0.10         8.81         8.32 
TCGA-FD-A3B5 TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3SJ TCGA-FD-A3SL 
        8.94        11.05         8.94         7.96        24.30        10.98 
TCGA-FD-A3SM TCGA-FD-A3SN TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SS TCGA-FD-A43N 
        6.12         6.81         5.49         4.54         1.94         7.89 
TCGA-FD-A43U TCGA-FJ-A3ZF TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES 
        6.84         4.08         5.65        26.93        32.78        17.26 
TCGA-G2-A3IB TCGA-G2-A3IE TCGA-G2-A3VY TCGA-GC-A3RD TCGA-GC-A3WC TCGA-GD-A3OP 
        7.04        20.12         0.82         1.02         2.50         2.10 
TCGA-GD-A3OQ TCGA-GD-A3OS TCGA-GU-A42P TCGA-GV-A3JZ TCGA-GV-A3QK TCGA-GV-A40E 
        3.12         5.82         6.38         5.69         6.64         6.38 
TCGA-GV-A40G TCGA-H4-A2HO TCGA-K4-A3WU TCGA-K4-A3WV 
        5.33         1.51         3.42         4.64 

  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
              1.08               0.10 
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
            118.88             131.15 
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
             6.805              7.040 
[1] "1.1 - 118.9 (6.8)" "0.1 - 131.2 (7.0)"
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"20Q GAIN WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"20Q GAIN WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"20Q GAIN WILD-TYPE" 
[1] "hr=" "1.1"
D37V2, continuous
D37V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  20Q GAIN MUTATED     13   39
  20Q GAIN WILD-TYPE   20   59
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  FEMALE               13                 20
  MALE                 39                 59
D37V4, continuous
D37V5, continuous
D37V6, continuous
                    vv
clus                 M0 M1 MX
  20Q GAIN MUTATED   30  2 20
  20Q GAIN WILD-TYPE 45  2 31
D37V7, multiclass
    clus
vv   20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  M0               30                 45
  M1                2                  2
  MX               20                 31
                    vv
clus                 N0 N1 N2 N3 NX
  20Q GAIN MUTATED   29  5 12  1  4
  20Q GAIN WILD-TYPE 45  9 14  3  6
D37V8, multiclass
D37V9, continuous
D37V10, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  20Q GAIN MUTATED         1       17        15       18
  20Q GAIN WILD-TYPE       0       19        28       28
D37V11, multiclass
           clus
vv          20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  STAGE I                  1                  0
  STAGE II                17                 19
  STAGE III               15                 28
  STAGE IV                18                 28

Clustering(38) Variable = 21q gain mutation analysis
D38V1, survival
                    sevent
clus2                 0  1
  21Q GAIN MUTATED   19  4
  21Q GAIN WILD-TYPE 73 28
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
                23                101 
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
                 4                 28 
$`21Q GAIN MUTATED`
TCGA-BL-A0C8 TCGA-BL-A13J TCGA-BT-A2LA TCGA-C4-A0F0 TCGA-CF-A1HS TCGA-DK-A1A3 
       12.79         2.66         5.88         1.94         0.43         2.53 
TCGA-DK-A1A7 TCGA-DK-A2I1 TCGA-DK-A2I6 TCGA-DK-A3IL TCGA-DK-A3IV TCGA-FD-A3NA 
        8.98        10.59        75.32         3.98         9.67        32.02 
TCGA-FD-A3SJ TCGA-FD-A3SP TCGA-FD-A3SR TCGA-G2-A2EK TCGA-G2-A3VY TCGA-GD-A2C5 
       24.30         4.54        19.79         5.65         0.82         7.69 
TCGA-GU-A42P TCGA-GV-A3JX TCGA-GV-A40E TCGA-GV-A40G TCGA-H4-A2HQ 
        6.38         6.15         6.38         5.33         6.71 

$`21Q GAIN WILD-TYPE`
TCGA-BL-A13I TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX TCGA-BT-A20J TCGA-BT-A20N 
        7.33         6.74         6.58        11.93        19.00        26.10 
TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A20T TCGA-BT-A20U 
       12.16        17.85        19.46         5.06        14.89         8.61 
TCGA-BT-A20V TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LD TCGA-BT-A3PH TCGA-C4-A0EZ 
        5.06         8.35         8.25         3.65         4.64         8.98 
TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR 
        2.01         0.46         0.69        12.92         4.90         7.20 
TCGA-CU-A3KJ TCGA-CU-A3QU TCGA-CU-A3YL TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1AA 
        5.46         5.19         8.09         2.14        31.40         7.04 
TCGA-DK-A1AB TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG 
        8.91       118.88       100.47         7.17         5.85         6.64 
TCGA-DK-A2HX TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A3IK TCGA-DK-A3IM TCGA-DK-A3IN 
        1.81         7.76       123.85         2.20         7.82         8.22 
TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3WW TCGA-DK-A3WX 
       10.49        37.84         5.52        11.51         8.28        10.55 
TCGA-DK-A3WY TCGA-E5-A2PC TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 
      131.15        36.43         0.10         8.81         8.32         8.94 
TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3SL 
        6.87         4.01        11.05         8.94         7.96        10.98 
TCGA-FD-A3SM TCGA-FD-A3SN TCGA-FD-A3SO TCGA-FD-A3SQ TCGA-FD-A3SS TCGA-FD-A43N 
        6.12         6.81         5.49        46.78         1.94         7.89 
TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ 
        6.84        15.16         4.08         2.33        49.91        26.50 
TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GC-A3BM 
       26.93        32.78        17.26         7.04        20.12         2.86 
TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RC TCGA-GC-A3RD TCGA-GC-A3WC 
        2.24         1.32         4.50         1.38         1.02         2.50 
TCGA-GC-A3YS TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GD-A3OS TCGA-GU-A42Q TCGA-GU-A42R 
        1.08         2.10         3.12         5.82         7.56         3.22 
TCGA-GV-A3JV TCGA-GV-A3JW TCGA-GV-A3JZ TCGA-GV-A3QF TCGA-GV-A3QH TCGA-GV-A3QI 
        4.37         6.41         5.69         7.63         7.79         4.11 
TCGA-GV-A3QK TCGA-H4-A2HO TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A3WV 
        6.64         1.51         8.71         3.42         4.64 

  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
              0.43               0.10 
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
             75.32             131.15 
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
              6.38               7.17 
[1] "0.4 - 75.3 (6.4)"  "0.1 - 131.2 (7.2)"
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED"   "21Q GAIN MUTATED" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
  "21Q GAIN MUTATED"   "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"21Q GAIN WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED"   "21Q GAIN MUTATED" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
  "21Q GAIN MUTATED"   "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"21Q GAIN WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED"   "21Q GAIN MUTATED" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
  "21Q GAIN MUTATED"   "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"21Q GAIN WILD-TYPE" 
[1] "hr=" "1.5"
D38V2, continuous
D38V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  21Q GAIN MUTATED      6   18
  21Q GAIN WILD-TYPE   27   80
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  FEMALE                6                 27
  MALE                 18                 80
D38V4, continuous
D38V5, continuous
D38V6, continuous
                    vv
clus                 M0 M1 MX
  21Q GAIN MUTATED   14  1  8
  21Q GAIN WILD-TYPE 61  3 43
D38V7, multiclass
    clus
vv   21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  M0               14                 61
  M1                1                  3
  MX                8                 43
                    vv
clus                 N0 N1 N2 N3 NX
  21Q GAIN MUTATED   10  2  7  0  4
  21Q GAIN WILD-TYPE 64 12 19  4  6
D38V8, multiclass
D38V9, continuous
D38V10, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  21Q GAIN MUTATED         1        9         3       10
  21Q GAIN WILD-TYPE       0       27        40       36
D38V11, multiclass
           clus
vv          21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  STAGE I                  1                  0
  STAGE II                 9                 27
  STAGE III                3                 40
  STAGE IV                10                 36

Clustering(39) Variable = 22q gain mutation analysis
D39V1, survival
                    sevent
clus2                 0  1
  22Q GAIN MUTATED   10  0
  22Q GAIN WILD-TYPE 82 32
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
                10                114 
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
                 0                 32 
$`22Q GAIN MUTATED`
TCGA-C4-A0F6 TCGA-DK-A1A6 TCGA-DK-A2I6 TCGA-G2-A2ES TCGA-GC-A3I6 TCGA-GV-A3JV 
        2.01        31.40        75.32        17.26         2.24         4.37 
TCGA-GV-A3JZ TCGA-GV-A3QI TCGA-GV-A3QK TCGA-GV-A40E 
        5.69         4.11         6.64         6.38 

$`22Q GAIN WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
       12.79         7.33         2.66         6.74         6.58        11.93 
TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R 
       19.00        26.10        12.16        17.85        19.46         5.06 
TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LA 
       14.89         8.61         5.06         8.35         8.25         5.88 
TCGA-BT-A2LD TCGA-BT-A3PH TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-CF-A1HR TCGA-CF-A1HS 
        3.65         4.64         8.98         1.94         0.46         0.43 
TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3KJ TCGA-CU-A3QU 
        0.69        12.92         4.90         7.20         5.46         5.19 
TCGA-CU-A3YL TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB 
        8.09         2.53         2.14         8.98         7.04         8.91 
TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX 
      118.88       100.47         7.17         5.85         6.64         1.81 
TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IM 
       10.59         7.76       123.85         2.20         3.98         7.82 
TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3IV 
        8.22        10.49        37.84         5.52        11.51         9.67 
TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E5-A2PC TCGA-E7-A3Y1 TCGA-FD-A3B3 
        8.28        10.55       131.15        36.43         0.10         8.81 
TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3N5 
        8.32         8.94         6.87         4.01        11.05         8.94 
TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SM TCGA-FD-A3SN 
        7.96        32.02        24.30        10.98         6.12         6.81 
TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A3SS TCGA-FD-A43N 
        5.49         4.54        46.78        19.79         1.94         7.89 
TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ 
        6.84        15.16         4.08         2.33        49.91        26.50 
TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A3IB TCGA-G2-A3IE TCGA-G2-A3VY 
        5.65        26.93        32.78         7.04        20.12         0.82 
TCGA-GC-A3BM TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RC TCGA-GC-A3RD TCGA-GC-A3WC 
        2.86         1.32         4.50         1.38         1.02         2.50 
TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GD-A3OS TCGA-GU-A42P 
        1.08         7.69         2.10         3.12         5.82         6.38 
TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3QF TCGA-GV-A3QH 
        7.56         3.22         6.41         6.15         7.63         7.79 
TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A3WV 
        5.33         1.51         6.71         8.71         3.42         4.64 

  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
              2.01               0.10 
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
             75.32             131.15 
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
             6.035              7.105 
[1] "2.0 - 75.3 (6.0)"  "0.1 - 131.2 (7.1)"
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
  "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED"   "22Q GAIN MUTATED" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
  "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"22Q GAIN WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
  "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED"   "22Q GAIN MUTATED" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
  "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"22Q GAIN WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
  "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED"   "22Q GAIN MUTATED" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
  "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-K4-A3WV 
"22Q GAIN WILD-TYPE" 
[1] "hr="     "7.7e+07"
D39V2, continuous
D39V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  22Q GAIN MUTATED      2    9
  22Q GAIN WILD-TYPE   31   89
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  FEMALE                2                 31
  MALE                  9                 89
D39V4, continuous
D39V5, continuous
D39V6, continuous
                    vv
clus                 M0 M1 MX
  22Q GAIN MUTATED    6  0  5
  22Q GAIN WILD-TYPE 69  4 46
D39V7, multiclass
    clus
vv   22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  M0                6                 69
  M1                0                  4
  MX                5                 46
                    vv
clus                 N0 N1 N2 N3 NX
  22Q GAIN MUTATED    4  3  2  1  1
  22Q GAIN WILD-TYPE 70 11 24  3  9
D39V8, multiclass
D39V9, continuous
D39V10, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  22Q GAIN MUTATED         0        2         3        5
  22Q GAIN WILD-TYPE       1       34        40       41
D39V11, multiclass
           clus
vv          22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  STAGE I                  0                  1
  STAGE II                 2                 34
  STAGE III                3                 40
  STAGE IV                 5                 41

Clustering(40) Variable = Xq gain mutation analysis
D40V1, survival
                   sevent
clus2                0  1
  XQ GAIN MUTATED    4  2
  XQ GAIN WILD-TYPE 88 30
  XQ GAIN MUTATED XQ GAIN WILD-TYPE 
                6               118 
  XQ GAIN MUTATED XQ GAIN WILD-TYPE 
                2                30 
$`XQ GAIN MUTATED`
TCGA-BL-A13J TCGA-FD-A3B6 TCGA-FD-A3SR TCGA-FT-A3EE TCGA-GD-A3OS TCGA-GV-A3QH 
        2.66         6.87        19.79         2.33         5.82         7.79 

$`XQ GAIN WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX TCGA-BT-A20J 
       12.79         7.33         6.74         6.58        11.93        19.00 
TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A20T 
       26.10        12.16        17.85        19.46         5.06        14.89 
TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LA TCGA-BT-A2LD 
        8.61         5.06         8.35         8.25         5.88         3.65 
TCGA-BT-A3PH TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A1HS 
        4.64         8.98         1.94         2.01         0.46         0.43 
TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3KJ TCGA-CU-A3QU 
        0.69        12.92         4.90         7.20         5.46         5.19 
TCGA-CU-A3YL TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA 
        8.09         2.53         2.14        31.40         8.98         7.04 
TCGA-DK-A1AB TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG 
        8.91       118.88       100.47         7.17         5.85         6.64 
TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IK 
        1.81        10.59         7.76       123.85        75.32         2.20 
TCGA-DK-A3IL TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT 
        3.98         7.82         8.22        10.49        37.84         5.52 
TCGA-DK-A3IU TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E5-A2PC 
       11.51         9.67         8.28        10.55       131.15        36.43 
TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B7 TCGA-FD-A3B8 
        0.10         8.81         8.32         8.94         4.01        11.05 
TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SM 
        8.94         7.96        32.02        24.30        10.98         6.12 
TCGA-FD-A3SN TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SS TCGA-FD-A43N 
        6.81         5.49         4.54        46.78         1.94         7.89 
TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK 
        6.84        15.16         4.08        49.91        26.50         5.65 
TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-G2-A3VY 
       26.93        32.78        17.26         7.04        20.12         0.82 
TCGA-GC-A3BM TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RC TCGA-GC-A3RD 
        2.86         2.24         1.32         4.50         1.38         1.02 
TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GU-A42P 
        2.50         1.08         7.69         2.10         3.12         6.38 
TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ 
        7.56         3.22         4.37         6.41         6.15         5.69 
TCGA-GV-A3QF TCGA-GV-A3QI TCGA-GV-A3QK TCGA-GV-A40E TCGA-GV-A40G TCGA-H4-A2HO 
        7.63         4.11         6.64         6.38         5.33         1.51 
TCGA-H4-A2HQ TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A3WV 
        6.71         8.71         3.42         4.64 

  XQ GAIN MUTATED XQ GAIN WILD-TYPE 
             2.33              0.10 
  XQ GAIN MUTATED XQ GAIN WILD-TYPE 
            19.79            131.15 
  XQ GAIN MUTATED XQ GAIN WILD-TYPE 
            6.345             7.040 
[1] "2.3 - 19.8 (6.3)"  "0.1 - 131.2 (7.0)"
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE"   "XQ GAIN MUTATED" "XQ GAIN WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"XQ GAIN WILD-TYPE"   "XQ GAIN MUTATED" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE"   "XQ GAIN MUTATED" "XQ GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
  "XQ GAIN MUTATED" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"XQ GAIN WILD-TYPE"   "XQ GAIN MUTATED" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE"   "XQ GAIN MUTATED" "XQ GAIN WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE"   "XQ GAIN MUTATED" "XQ GAIN WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"XQ GAIN WILD-TYPE"   "XQ GAIN MUTATED" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE"   "XQ GAIN MUTATED" "XQ GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
  "XQ GAIN MUTATED" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"XQ GAIN WILD-TYPE"   "XQ GAIN MUTATED" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE"   "XQ GAIN MUTATED" "XQ GAIN WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE"   "XQ GAIN MUTATED" "XQ GAIN WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"XQ GAIN WILD-TYPE"   "XQ GAIN MUTATED" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE"   "XQ GAIN MUTATED" "XQ GAIN WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
  "XQ GAIN MUTATED" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"XQ GAIN WILD-TYPE"   "XQ GAIN MUTATED" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE"   "XQ GAIN MUTATED" "XQ GAIN WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
[1] "hr=" "2"  
D40V2, continuous
D40V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  XQ GAIN MUTATED      2    4
  XQ GAIN WILD-TYPE   31   94
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  FEMALE               2                31
  MALE                 4                94
D40V4, continuous
[1] "Remove cluster labels:" "XQ GAIN MUTATED"       
clus
  XQ GAIN MUTATED XQ GAIN WILD-TYPE 
                2                35 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CF-A3MF        TCGA-CF-A3MG 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-CF-A3MH        TCGA-CF-A3MI        TCGA-DK-A2HX        TCGA-DK-A3IN 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WX        TCGA-E5-A2PC        TCGA-G2-A2EF 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-G2-A2EJ        TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-G2-A2ES        TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-G2-A3VY 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-GC-A3BM        TCGA-GC-A3I6        TCGA-GC-A3OO        TCGA-GC-A3RC 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-GC-A3RD        TCGA-GC-A3YS        TCGA-GV-A3JV        TCGA-GV-A3JW 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QI 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
D40V5, continuous
D40V6, continuous
                   vv
clus                M0 M1 MX
  XQ GAIN MUTATED    1  0  5
  XQ GAIN WILD-TYPE 74  4 46
D40V7, multiclass
    clus
vv   XQ GAIN MUTATED XQ GAIN WILD-TYPE
  M0               1                74
  M1               0                 4
  MX               5                46
                   vv
clus                N0 N1 N2 N3 NX
  XQ GAIN MUTATED    2  0  2  0  2
  XQ GAIN WILD-TYPE 72 14 24  4  8
D40V8, multiclass
D40V9, continuous
D40V10, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV
  XQ GAIN MUTATED         0        3         1        2
  XQ GAIN WILD-TYPE       1       33        42       44
D40V11, multiclass
           clus
vv          XQ GAIN MUTATED XQ GAIN WILD-TYPE
  STAGE I                 0                 1
  STAGE II                3                33
  STAGE III               1                42
  STAGE IV                2                44

Clustering(41) Variable = 2p loss mutation analysis
D41V1, survival
                   sevent
clus2                0  1
  2P LOSS MUTATED    3  2
  2P LOSS WILD-TYPE 89 30
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
                5               119 
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
                2                30 
$`2P LOSS MUTATED`
TCGA-DK-A2HX TCGA-DK-A3IV TCGA-G2-A2EL TCGA-GV-A3JV TCGA-GV-A3JW 
        1.81         9.67        26.93         4.37         6.41 

$`2P LOSS WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
       12.79         7.33         2.66         6.74         6.58        11.93 
TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R 
       19.00        26.10        12.16        17.85        19.46         5.06 
TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LA 
       14.89         8.61         5.06         8.35         8.25         5.88 
TCGA-BT-A2LD TCGA-BT-A3PH TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR 
        3.65         4.64         8.98         1.94         2.01         0.46 
TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3KJ 
        0.43         0.69        12.92         4.90         7.20         5.46 
TCGA-CU-A3QU TCGA-CU-A3YL TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 
        5.19         8.09         2.53         2.14        31.40         8.98 
TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF 
        7.04         8.91       118.88       100.47         7.17         5.85 
TCGA-DK-A1AG TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IK 
        6.64        10.59         7.76       123.85        75.32         2.20 
TCGA-DK-A3IL TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT 
        3.98         7.82         8.22        10.49        37.84         5.52 
TCGA-DK-A3IU TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E5-A2PC TCGA-E7-A3Y1 
       11.51         8.28        10.55       131.15        36.43         0.10 
TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 
        8.81         8.32         8.94         6.87         4.01        11.05 
TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SM 
        8.94         7.96        32.02        24.30        10.98         6.12 
TCGA-FD-A3SN TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A3SS 
        6.81         5.49         4.54        46.78        19.79         1.94 
TCGA-FD-A43N TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-FT-A3EE TCGA-G2-A2EF 
        7.89         6.84        15.16         4.08         2.33        49.91 
TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE 
       26.50         5.65        32.78        17.26         7.04        20.12 
TCGA-G2-A3VY TCGA-GC-A3BM TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RC 
        0.82         2.86         2.24         1.32         4.50         1.38 
TCGA-GC-A3RD TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ 
        1.02         2.50         1.08         7.69         2.10         3.12 
TCGA-GD-A3OS TCGA-GU-A42P TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JX TCGA-GV-A3JZ 
        5.82         6.38         7.56         3.22         6.15         5.69 
TCGA-GV-A3QF TCGA-GV-A3QH TCGA-GV-A3QI TCGA-GV-A3QK TCGA-GV-A40E TCGA-GV-A40G 
        7.63         7.79         4.11         6.64         6.38         5.33 
TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A3WV 
        1.51         6.71         8.71         3.42         4.64 

  2P LOSS MUTATED 2P LOSS WILD-TYPE 
             1.81              0.10 
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
            26.93            131.15 
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
             6.41              7.04 
[1] "1.8 - 26.9 (6.4)"  "0.1 - 131.2 (7.0)"
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE"   "2P LOSS MUTATED" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
  "2P LOSS MUTATED" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
  "2P LOSS MUTATED" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"2P LOSS WILD-TYPE"   "2P LOSS MUTATED"   "2P LOSS MUTATED" "2P LOSS WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE"   "2P LOSS MUTATED" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
  "2P LOSS MUTATED" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
  "2P LOSS MUTATED" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"2P LOSS WILD-TYPE"   "2P LOSS MUTATED"   "2P LOSS MUTATED" "2P LOSS WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE"   "2P LOSS MUTATED" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
  "2P LOSS MUTATED" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
  "2P LOSS MUTATED" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"2P LOSS WILD-TYPE"   "2P LOSS MUTATED"   "2P LOSS MUTATED" "2P LOSS WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
[1] "hr=" "1.5"
D41V2, continuous
D41V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  2P LOSS MUTATED      1    6
  2P LOSS WILD-TYPE   32   92
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  FEMALE               1                32
  MALE                 6                92
D41V4, continuous
D41V5, continuous
D41V6, continuous
                   vv
clus                M0 M1 MX
  2P LOSS MUTATED    5  0  2
  2P LOSS WILD-TYPE 70  4 49
D41V7, multiclass
    clus
vv   2P LOSS MUTATED 2P LOSS WILD-TYPE
  M0               5                70
  M1               0                 4
  MX               2                49
                   vv
clus                N0 N1 N2 N3 NX
  2P LOSS MUTATED    3  1  1  0  2
  2P LOSS WILD-TYPE 71 13 25  4  8
D41V8, multiclass
D41V9, continuous
[1] "Remove cluster labels:" "2P LOSS MUTATED"       
clus
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
                2                96 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20T 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-BT-A20V        TCGA-BT-A20W        TCGA-BT-A20X        TCGA-BT-A2LA 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-BT-A2LD        TCGA-BT-A3PH        TCGA-CU-A0YN        TCGA-CU-A0YO 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2I1 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6        TCGA-DK-A3IK 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN        TCGA-DK-A3IQ 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU        TCGA-DK-A3WW 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DK-A3WX        TCGA-DK-A3WY        TCGA-E5-A2PC        TCGA-FD-A3B3 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-FD-A3SJ        TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-FD-A3SO        TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-FD-A3SS        TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-GC-A3BM        TCGA-GC-A3I6        TCGA-GC-A3OO 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD        TCGA-GC-A3WC 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP        TCGA-GD-A3OQ 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-GU-A42P        TCGA-GU-A42Q        TCGA-GV-A3JX        TCGA-GV-A3JZ 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-GV-A3QF        TCGA-GV-A3QG        TCGA-GV-A3QI        TCGA-GV-A3QK 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-GV-A40G        TCGA-H4-A2HO        TCGA-K4-A3WS        TCGA-K4-A3WV 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
D41V10, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV
  2P LOSS MUTATED         0        4         1        2
  2P LOSS WILD-TYPE       1       32        42       44
D41V11, multiclass
           clus
vv          2P LOSS MUTATED 2P LOSS WILD-TYPE
  STAGE I                 0                 1
  STAGE II                4                32
  STAGE III               1                42
  STAGE IV                2                44

Clustering(42) Variable = 2q loss mutation analysis
D42V1, survival
                   sevent
clus2                0  1
  2Q LOSS MUTATED    6  6
  2Q LOSS WILD-TYPE 86 26
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
               12               112 
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
                6                26 
$`2Q LOSS MUTATED`
TCGA-BT-A20V TCGA-BT-A2LA TCGA-BT-A3PH TCGA-DK-A2HX TCGA-DK-A3IK TCGA-DK-A3IV 
        5.06         5.88         4.64         1.81         2.20         9.67 
TCGA-FD-A3B5 TCGA-FD-A3SR TCGA-G2-A2EL TCGA-GC-A3RD TCGA-GV-A3JV TCGA-GV-A3JW 
        8.94        19.79        26.93         1.02         4.37         6.41 

$`2Q LOSS WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
       12.79         7.33         2.66         6.74         6.58        11.93 
TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R 
       19.00        26.10        12.16        17.85        19.46         5.06 
TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LD TCGA-C4-A0EZ 
       14.89         8.61         8.35         8.25         3.65         8.98 
TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YN 
        1.94         2.01         0.46         0.43         0.69        12.92 
TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3KJ TCGA-CU-A3QU TCGA-CU-A3YL TCGA-DK-A1A3 
        4.90         7.20         5.46         5.19         8.09         2.53 
TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AC 
        2.14        31.40         8.98         7.04         8.91       118.88 
TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2I1 TCGA-DK-A2I2 
      100.47         7.17         5.85         6.64        10.59         7.76 
TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IL TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IQ 
      123.85        75.32         3.98         7.82         8.22        10.49 
TCGA-DK-A3IS TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY 
       37.84         5.52        11.51         8.28        10.55       131.15 
TCGA-E5-A2PC TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B6 TCGA-FD-A3B7 
       36.43         0.10         8.81         8.32         6.87         4.01 
TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SL 
       11.05         8.94         7.96        32.02        24.30        10.98 
TCGA-FD-A3SM TCGA-FD-A3SN TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SS 
        6.12         6.81         5.49         4.54        46.78         1.94 
TCGA-FD-A43N TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-FT-A3EE TCGA-G2-A2EF 
        7.89         6.84        15.16         4.08         2.33        49.91 
TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE 
       26.50         5.65        32.78        17.26         7.04        20.12 
TCGA-G2-A3VY TCGA-GC-A3BM TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RC 
        0.82         2.86         2.24         1.32         4.50         1.38 
TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GD-A3OS 
        2.50         1.08         7.69         2.10         3.12         5.82 
TCGA-GU-A42P TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-GV-A3QF 
        6.38         7.56         3.22         6.15         5.69         7.63 
TCGA-GV-A3QH TCGA-GV-A3QI TCGA-GV-A3QK TCGA-GV-A40E TCGA-GV-A40G TCGA-H4-A2HO 
        7.79         4.11         6.64         6.38         5.33         1.51 
TCGA-H4-A2HQ TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A3WV 
        6.71         8.71         3.42         4.64 

  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
             1.02              0.10 
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
            26.93            131.15 
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
            5.470             7.105 
[1] "1.0 - 26.9 (5.5)"  "0.1 - 131.2 (7.1)"
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
  "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
  "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
  "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
  "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED"   "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
  "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
  "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
  "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
  "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED"   "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
  "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
  "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
  "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
  "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED"   "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
[1] "hr=" "2.7"
D42V2, continuous
D42V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  2Q LOSS MUTATED      3   12
  2Q LOSS WILD-TYPE   30   86
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  FEMALE               3                30
  MALE                12                86
D42V4, continuous
D42V5, continuous
D42V6, continuous
                   vv
clus                M0 M1 MX
  2Q LOSS MUTATED    9  0  6
  2Q LOSS WILD-TYPE 66  4 45
D42V7, multiclass
    clus
vv   2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  M0               9                66
  M1               0                 4
  MX               6                45
                   vv
clus                N0 N1 N2 N3 NX
  2Q LOSS MUTATED    5  2  6  0  2
  2Q LOSS WILD-TYPE 69 12 20  4  8
D42V8, multiclass
D42V9, continuous
D42V10, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV
  2Q LOSS MUTATED         0        4         3        7
  2Q LOSS WILD-TYPE       1       32        40       39
D42V11, multiclass
           clus
vv          2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  STAGE I                 0                 1
  STAGE II                4                32
  STAGE III               3                40
  STAGE IV                7                39

Clustering(43) Variable = 3p loss mutation analysis
D43V1, survival
                   sevent
clus2                0  1
  3P LOSS MUTATED    7  2
  3P LOSS WILD-TYPE 85 30
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
                9               115 
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
                2                30 
$`3P LOSS MUTATED`
TCGA-BT-A20V TCGA-CU-A3KJ TCGA-DK-A1A6 TCGA-DK-A1AB TCGA-DK-A2I2 TCGA-FD-A3N5 
        5.06         5.46        31.40         8.91         7.76         8.94 
TCGA-G2-A3IB TCGA-GC-A3RB TCGA-GC-A3WC 
        7.04         4.50         2.50 

$`3P LOSS WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
       12.79         7.33         2.66         6.74         6.58        11.93 
TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R 
       19.00        26.10        12.16        17.85        19.46         5.06 
TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LA TCGA-BT-A2LD 
       14.89         8.61         8.35         8.25         5.88         3.65 
TCGA-BT-A3PH TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A1HS 
        4.64         8.98         1.94         2.01         0.46         0.43 
TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3QU TCGA-CU-A3YL 
        0.69        12.92         4.90         7.20         5.19         8.09 
TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AC TCGA-DK-A1AD 
        2.53         2.14         8.98         7.04       118.88       100.47 
TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I4 
        7.17         5.85         6.64         1.81        10.59       123.85 
TCGA-DK-A2I6 TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IQ 
       75.32         2.20         3.98         7.82         8.22        10.49 
TCGA-DK-A3IS TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX 
       37.84         5.52        11.51         9.67         8.28        10.55 
TCGA-DK-A3WY TCGA-E5-A2PC TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 
      131.15        36.43         0.10         8.81         8.32         8.94 
TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ 
        6.87         4.01        11.05         7.96        32.02        24.30 
TCGA-FD-A3SL TCGA-FD-A3SM TCGA-FD-A3SN TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ 
       10.98         6.12         6.81         5.49         4.54        46.78 
TCGA-FD-A3SR TCGA-FD-A3SS TCGA-FD-A43N TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF 
       19.79         1.94         7.89         6.84        15.16         4.08 
TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO 
        2.33        49.91        26.50         5.65        26.93        32.78 
TCGA-G2-A2ES TCGA-G2-A3IE TCGA-G2-A3VY TCGA-GC-A3BM TCGA-GC-A3I6 TCGA-GC-A3OO 
       17.26        20.12         0.82         2.86         2.24         1.32 
TCGA-GC-A3RC TCGA-GC-A3RD TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ 
        1.38         1.02         1.08         7.69         2.10         3.12 
TCGA-GD-A3OS TCGA-GU-A42P TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JW 
        5.82         6.38         7.56         3.22         4.37         6.41 
TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-GV-A3QF TCGA-GV-A3QH TCGA-GV-A3QI TCGA-GV-A3QK 
        6.15         5.69         7.63         7.79         4.11         6.64 
TCGA-GV-A40E TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-K4-A3WS TCGA-K4-A3WU 
        6.38         5.33         1.51         6.71         8.71         3.42 
TCGA-K4-A3WV 
        4.64 

  3P LOSS MUTATED 3P LOSS WILD-TYPE 
              2.5               0.1 
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
            31.40            131.15 
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
             7.04              6.87 
[1] "2.5 - 31.4 (7.0)"  "0.1 - 131.2 (6.9)"
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE"   "3P LOSS MUTATED" "3P LOSS WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"3P LOSS WILD-TYPE"   "3P LOSS MUTATED" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE"   "3P LOSS MUTATED" "3P LOSS WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"3P LOSS WILD-TYPE"   "3P LOSS MUTATED" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"3P LOSS WILD-TYPE"   "3P LOSS MUTATED" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
  "3P LOSS MUTATED" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE"   "3P LOSS MUTATED" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"3P LOSS WILD-TYPE"   "3P LOSS MUTATED" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
  "3P LOSS MUTATED" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE"   "3P LOSS MUTATED" "3P LOSS WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"3P LOSS WILD-TYPE"   "3P LOSS MUTATED" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE"   "3P LOSS MUTATED" "3P LOSS WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"3P LOSS WILD-TYPE"   "3P LOSS MUTATED" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"3P LOSS WILD-TYPE"   "3P LOSS MUTATED" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
  "3P LOSS MUTATED" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE"   "3P LOSS MUTATED" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"3P LOSS WILD-TYPE"   "3P LOSS MUTATED" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
  "3P LOSS MUTATED" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE"   "3P LOSS MUTATED" "3P LOSS WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"3P LOSS WILD-TYPE"   "3P LOSS MUTATED" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE"   "3P LOSS MUTATED" "3P LOSS WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"3P LOSS WILD-TYPE"   "3P LOSS MUTATED" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"3P LOSS WILD-TYPE"   "3P LOSS MUTATED" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
  "3P LOSS MUTATED" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE"   "3P LOSS MUTATED" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"3P LOSS WILD-TYPE"   "3P LOSS MUTATED" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
  "3P LOSS MUTATED" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
[1] "hr=" "1.1"
D43V2, continuous
D43V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  3P LOSS MUTATED      4    5
  3P LOSS WILD-TYPE   29   93
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  FEMALE               4                29
  MALE                 5                93
D43V4, continuous
[1] "Remove cluster labels:" "3P LOSS MUTATED"       
clus
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
                1                36 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CF-A3MF        TCGA-CF-A3MG 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-CF-A3MH        TCGA-CF-A3MI        TCGA-DK-A2HX        TCGA-DK-A3IN 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WX        TCGA-E5-A2PC        TCGA-G2-A2EF 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-G2-A2EJ        TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-G2-A2ES        TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-GC-A3I6        TCGA-GC-A3OO        TCGA-GC-A3RC        TCGA-GC-A3RD 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-GC-A3YS        TCGA-GD-A3OS        TCGA-GV-A3JV        TCGA-GV-A3JW 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-GV-A3QI        TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
D43V5, continuous
D43V6, continuous
                   vv
clus                M0 M1 MX
  3P LOSS MUTATED    6  0  3
  3P LOSS WILD-TYPE 69  4 48
D43V7, multiclass
    clus
vv   3P LOSS MUTATED 3P LOSS WILD-TYPE
  M0               6                69
  M1               0                 4
  MX               3                48
                   vv
clus                N0 N1 N2 N3 NX
  3P LOSS MUTATED    4  1  1  1  1
  3P LOSS WILD-TYPE 70 13 25  3  9
D43V8, multiclass
D43V9, continuous
D43V10, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV
  3P LOSS MUTATED         0        2         3        4
  3P LOSS WILD-TYPE       1       34        40       42
D43V11, multiclass
           clus
vv          3P LOSS MUTATED 3P LOSS WILD-TYPE
  STAGE I                 0                 1
  STAGE II                2                34
  STAGE III               3                40
  STAGE IV                4                42

Clustering(44) Variable = 4p loss mutation analysis
D44V1, survival
                   sevent
clus2                0  1
  4P LOSS MUTATED   17  6
  4P LOSS WILD-TYPE 75 26
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
               23               101 
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
                6                26 
$`4P LOSS MUTATED`
TCGA-BT-A20N TCGA-BT-A20V TCGA-BT-A3PH TCGA-DK-A1A7 TCGA-DK-A1AD TCGA-DK-A2I1 
       26.10         5.06         4.64         8.98       100.47        10.59 
TCGA-DK-A3IT TCGA-DK-A3IV TCGA-FD-A3B5 TCGA-FD-A3SL TCGA-FD-A3SO TCGA-FD-A3SS 
        5.52         9.67         8.94        10.98         5.49         1.94 
TCGA-FJ-A3ZF TCGA-G2-A3IB TCGA-GC-A3BM TCGA-GC-A3RB TCGA-GD-A2C5 TCGA-GU-A42Q 
        4.08         7.04         2.86         4.50         7.69         7.56 
TCGA-GV-A3JW TCGA-GV-A3JZ TCGA-GV-A40G TCGA-H4-A2HQ TCGA-K4-A3WV 
        6.41         5.69         5.33         6.71         4.64 

$`4P LOSS WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
       12.79         7.33         2.66         6.74         6.58        11.93 
TCGA-BT-A20J TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A20T 
       19.00        12.16        17.85        19.46         5.06        14.89 
TCGA-BT-A20U TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LA TCGA-BT-A2LD TCGA-C4-A0EZ 
        8.61         8.35         8.25         5.88         3.65         8.98 
TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YN 
        1.94         2.01         0.46         0.43         0.69        12.92 
TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3KJ TCGA-CU-A3QU TCGA-CU-A3YL TCGA-DK-A1A3 
        4.90         7.20         5.46         5.19         8.09         2.53 
TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AC TCGA-DK-A1AE 
        2.14        31.40         7.04         8.91       118.88         7.17 
TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A2I6 
        5.85         6.64         1.81         7.76       123.85        75.32 
TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS 
        2.20         3.98         7.82         8.22        10.49        37.84 
TCGA-DK-A3IU TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E5-A2PC TCGA-E7-A3Y1 
       11.51         8.28        10.55       131.15        36.43         0.10 
TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3N5 
        8.81         8.32         6.87         4.01        11.05         8.94 
TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SM TCGA-FD-A3SN TCGA-FD-A3SP 
        7.96        32.02        24.30         6.12         6.81         4.54 
TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A43N TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FT-A3EE 
       46.78        19.79         7.89         6.84        15.16         2.33 
TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES 
       49.91        26.50         5.65        26.93        32.78        17.26 
TCGA-G2-A3IE TCGA-G2-A3VY TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RC TCGA-GC-A3RD 
       20.12         0.82         2.24         1.32         1.38         1.02 
TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GD-A3OS TCGA-GU-A42P 
        2.50         1.08         2.10         3.12         5.82         6.38 
TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JX TCGA-GV-A3QF TCGA-GV-A3QH TCGA-GV-A3QI 
        3.22         4.37         6.15         7.63         7.79         4.11 
TCGA-GV-A3QK TCGA-GV-A40E TCGA-H4-A2HO TCGA-K4-A3WS TCGA-K4-A3WU 
        6.64         6.38         1.51         8.71         3.42 

  4P LOSS MUTATED 4P LOSS WILD-TYPE 
             1.94              0.10 
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
           100.47            131.15 
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
             6.41              7.17 
[1] "1.9 - 100.5 (6.4)" "0.1 - 131.2 (7.2)"
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
  "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
  "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
  "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
  "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
  "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
  "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
  "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
  "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
  "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
  "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
  "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
  "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
  "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
  "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
  "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" 
[1] "hr=" "1.4"
D44V2, continuous
D44V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  4P LOSS MUTATED      6   19
  4P LOSS WILD-TYPE   27   79
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  FEMALE               6                27
  MALE                19                79
D44V4, continuous
D44V5, continuous
D44V6, continuous
                   vv
clus                M0 M1 MX
  4P LOSS MUTATED   12  2 11
  4P LOSS WILD-TYPE 63  2 40
D44V7, multiclass
    clus
vv   4P LOSS MUTATED 4P LOSS WILD-TYPE
  M0              12                63
  M1               2                 2
  MX              11                40
                   vv
clus                N0 N1 N2 N3 NX
  4P LOSS MUTATED   10  2  6  2  5
  4P LOSS WILD-TYPE 64 12 20  2  5
D44V8, multiclass
D44V9, continuous
D44V10, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV
  4P LOSS MUTATED         0        9         5       11
  4P LOSS WILD-TYPE       1       27        38       35
D44V11, multiclass
           clus
vv          4P LOSS MUTATED 4P LOSS WILD-TYPE
  STAGE I                 0                 1
  STAGE II                9                27
  STAGE III               5                38
  STAGE IV               11                35

Clustering(45) Variable = 4q loss mutation analysis
D45V1, survival
                   sevent
clus2                0  1
  4Q LOSS MUTATED   17  5
  4Q LOSS WILD-TYPE 75 27
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
               22               102 
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
                5                27 
$`4Q LOSS MUTATED`
TCGA-BT-A20V TCGA-BT-A3PH TCGA-C4-A0F0 TCGA-DK-A1AD TCGA-DK-A2I1 TCGA-DK-A3IM 
        5.06         4.64         1.94       100.47        10.59         7.82 
TCGA-DK-A3IT TCGA-FD-A3B5 TCGA-FD-A3SL TCGA-FD-A3SO TCGA-FJ-A3ZF TCGA-G2-A2EL 
        5.52         8.94        10.98         5.49         4.08        26.93 
TCGA-G2-A3IB TCGA-GC-A3BM TCGA-GC-A3RB TCGA-GD-A2C5 TCGA-GU-A42Q TCGA-GV-A3JW 
        7.04         2.86         4.50         7.69         7.56         6.41 
TCGA-GV-A3JZ TCGA-GV-A40G TCGA-H4-A2HQ TCGA-K4-A3WV 
        5.69         5.33         6.71         4.64 

$`4Q LOSS WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
       12.79         7.33         2.66         6.74         6.58        11.93 
TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R 
       19.00        26.10        12.16        17.85        19.46         5.06 
TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LA TCGA-BT-A2LD 
       14.89         8.61         8.35         8.25         5.88         3.65 
TCGA-C4-A0EZ TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YN 
        8.98         2.01         0.46         0.43         0.69        12.92 
TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3KJ TCGA-CU-A3QU TCGA-CU-A3YL TCGA-DK-A1A3 
        4.90         7.20         5.46         5.19         8.09         2.53 
TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AC 
        2.14        31.40         8.98         7.04         8.91       118.88 
TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I2 TCGA-DK-A2I4 
        7.17         5.85         6.64         1.81         7.76       123.85 
TCGA-DK-A2I6 TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS 
       75.32         2.20         3.98         8.22        10.49        37.84 
TCGA-DK-A3IU TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E5-A2PC 
       11.51         9.67         8.28        10.55       131.15        36.43 
TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 
        0.10         8.81         8.32         6.87         4.01        11.05 
TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SM TCGA-FD-A3SN 
        8.94         7.96        32.02        24.30         6.12         6.81 
TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A3SS TCGA-FD-A43N TCGA-FD-A43U 
        4.54        46.78        19.79         1.94         7.89         6.84 
TCGA-FJ-A3Z7 TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EO 
       15.16         2.33        49.91        26.50         5.65        32.78 
TCGA-G2-A2ES TCGA-G2-A3IE TCGA-G2-A3VY TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RC 
       17.26        20.12         0.82         2.24         1.32         1.38 
TCGA-GC-A3RD TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GD-A3OS 
        1.02         2.50         1.08         2.10         3.12         5.82 
TCGA-GU-A42P TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JX TCGA-GV-A3QF TCGA-GV-A3QH 
        6.38         3.22         4.37         6.15         7.63         7.79 
TCGA-GV-A3QI TCGA-GV-A3QK TCGA-GV-A40E TCGA-H4-A2HO TCGA-K4-A3WS TCGA-K4-A3WU 
        4.11         6.64         6.38         1.51         8.71         3.42 

  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
             1.94              0.10 
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
           100.47            131.15 
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
            6.050             7.185 
[1] "1.9 - 100.5 (6.1)" "0.1 - 131.2 (7.2)"
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" 
[1] "hr=" "1.2"
D45V2, continuous
D45V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  4Q LOSS MUTATED      5   18
  4Q LOSS WILD-TYPE   28   80
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  FEMALE               5                28
  MALE                18                80
D45V4, continuous
D45V5, continuous
D45V6, continuous
                   vv
clus                M0 M1 MX
  4Q LOSS MUTATED   12  2  9
  4Q LOSS WILD-TYPE 63  2 42
D45V7, multiclass
    clus
vv   4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  M0              12                63
  M1               2                 2
  MX               9                42
                   vv
clus                N0 N1 N2 N3 NX
  4Q LOSS MUTATED   12  2  5  1  3
  4Q LOSS WILD-TYPE 62 12 21  3  7
D45V8, multiclass
D45V9, continuous
D45V10, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV
  4Q LOSS MUTATED         0        9         5        9
  4Q LOSS WILD-TYPE       1       27        38       37
D45V11, multiclass
           clus
vv          4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  STAGE I                 0                 1
  STAGE II                9                27
  STAGE III               5                38
  STAGE IV                9                37

Clustering(46) Variable = 5p loss mutation analysis
D46V1, survival
                   sevent
clus2                0  1
  5P LOSS MUTATED    9  2
  5P LOSS WILD-TYPE 83 30
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
               11               113 
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
                2                30 
$`5P LOSS MUTATED`
TCGA-BT-A20J TCGA-BT-A3PH TCGA-C4-A0F6 TCGA-DK-A1A7 TCGA-DK-A2I1 TCGA-DK-A3IM 
       19.00         4.64         2.01         8.98        10.59         7.82 
TCGA-E5-A2PC TCGA-G2-A2EF TCGA-G2-A3VY TCGA-GV-A3JW TCGA-K4-A3WV 
       36.43        49.91         0.82         6.41         4.64 

$`5P LOSS WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
       12.79         7.33         2.66         6.74         6.58        11.93 
TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A20T 
       26.10        12.16        17.85        19.46         5.06        14.89 
TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LA TCGA-BT-A2LD 
        8.61         5.06         8.35         8.25         5.88         3.65 
TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YN 
        8.98         1.94         0.46         0.43         0.69        12.92 
TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3KJ TCGA-CU-A3QU TCGA-CU-A3YL TCGA-DK-A1A3 
        4.90         7.20         5.46         5.19         8.09         2.53 
TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AC TCGA-DK-A1AD 
        2.14        31.40         7.04         8.91       118.88       100.47 
TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I2 TCGA-DK-A2I4 
        7.17         5.85         6.64         1.81         7.76       123.85 
TCGA-DK-A2I6 TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS 
       75.32         2.20         3.98         8.22        10.49        37.84 
TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY 
        5.52        11.51         9.67         8.28        10.55       131.15 
TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 
        0.10         8.81         8.32         8.94         6.87         4.01 
TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SL 
       11.05         8.94         7.96        32.02        24.30        10.98 
TCGA-FD-A3SM TCGA-FD-A3SN TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR 
        6.12         6.81         5.49         4.54        46.78        19.79 
TCGA-FD-A3SS TCGA-FD-A43N TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-FT-A3EE 
        1.94         7.89         6.84        15.16         4.08         2.33 
TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB 
       26.50         5.65        26.93        32.78        17.26         7.04 
TCGA-G2-A3IE TCGA-GC-A3BM TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RC 
       20.12         2.86         2.24         1.32         4.50         1.38 
TCGA-GC-A3RD TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ 
        1.02         2.50         1.08         7.69         2.10         3.12 
TCGA-GD-A3OS TCGA-GU-A42P TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JX 
        5.82         6.38         7.56         3.22         4.37         6.15 
TCGA-GV-A3JZ TCGA-GV-A3QF TCGA-GV-A3QH TCGA-GV-A3QI TCGA-GV-A3QK TCGA-GV-A40E 
        5.69         7.63         7.79         4.11         6.64         6.38 
TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-K4-A3WS TCGA-K4-A3WU 
        5.33         1.51         6.71         8.71         3.42 

  5P LOSS MUTATED 5P LOSS WILD-TYPE 
             0.82              0.10 
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
            49.91            131.15 
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
             7.82              6.87 
[1] "0.8 - 49.9 (7.8)"  "0.1 - 131.2 (6.9)"
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "5P LOSS MUTATED" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
  "5P LOSS MUTATED" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "5P LOSS MUTATED" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
  "5P LOSS MUTATED" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "5P LOSS MUTATED" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
  "5P LOSS MUTATED" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" 
[1] "hr=" "1.9"
D46V2, continuous
D46V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5P LOSS MUTATED      5    7
  5P LOSS WILD-TYPE   28   91
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  FEMALE               5                28
  MALE                 7                91
D46V4, continuous
D46V5, continuous
D46V6, continuous
                   vv
clus                M0 M1 MX
  5P LOSS MUTATED    6  0  5
  5P LOSS WILD-TYPE 69  4 46
D46V7, multiclass
    clus
vv   5P LOSS MUTATED 5P LOSS WILD-TYPE
  M0               6                69
  M1               0                 4
  MX               5                46
                   vv
clus                N0 N1 N2 N3 NX
  5P LOSS MUTATED    7  1  2  0  1
  5P LOSS WILD-TYPE 67 13 24  4  9
D46V8, multiclass
D46V9, continuous
D46V10, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV
  5P LOSS MUTATED         0        7         2        3
  5P LOSS WILD-TYPE       1       29        41       43
D46V11, multiclass
           clus
vv          5P LOSS MUTATED 5P LOSS WILD-TYPE
  STAGE I                 0                 1
  STAGE II                7                29
  STAGE III               2                41
  STAGE IV                3                43

Clustering(47) Variable = 5q loss mutation analysis
D47V1, survival
                   sevent
clus2                0  1
  5Q LOSS MUTATED   23  8
  5Q LOSS WILD-TYPE 69 24
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
               31                93 
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
                8                24 
$`5Q LOSS MUTATED`
TCGA-BT-A20J TCGA-BT-A20V TCGA-BT-A3PH TCGA-C4-A0F6 TCGA-CU-A3QU TCGA-DK-A1A5 
       19.00         5.06         4.64         2.01         5.19         2.14 
TCGA-DK-A1AD TCGA-DK-A2I1 TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-E5-A2PC 
      100.47        10.59         7.82         8.22        10.49        36.43 
TCGA-FD-A3B5 TCGA-FD-A3N5 TCGA-FD-A3SJ TCGA-FD-A3SM TCGA-FD-A3SN TCGA-FD-A3SS 
        8.94         8.94        24.30         6.12         6.81         1.94 
TCGA-FJ-A3ZF TCGA-G2-A2EF TCGA-G2-A3IB TCGA-G2-A3IE TCGA-G2-A3VY TCGA-GC-A3RD 
        4.08        49.91         7.04        20.12         0.82         1.02 
TCGA-GD-A2C5 TCGA-GU-A42P TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-GV-A3QF 
        7.69         6.38         6.41         6.15         5.69         7.63 
TCGA-H4-A2HQ 
        6.71 

$`5Q LOSS WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
       12.79         7.33         2.66         6.74         6.58        11.93 
TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A20T 
       26.10        12.16        17.85        19.46         5.06        14.89 
TCGA-BT-A20U TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LA TCGA-BT-A2LD TCGA-C4-A0EZ 
        8.61         8.35         8.25         5.88         3.65         8.98 
TCGA-C4-A0F0 TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO 
        1.94         0.46         0.43         0.69        12.92         4.90 
TCGA-CU-A0YR TCGA-CU-A3KJ TCGA-CU-A3YL TCGA-DK-A1A3 TCGA-DK-A1A6 TCGA-DK-A1A7 
        7.20         5.46         8.09         2.53        31.40         8.98 
TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AC TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG 
        7.04         8.91       118.88         7.17         5.85         6.64 
TCGA-DK-A2HX TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IK TCGA-DK-A3IL 
        1.81         7.76       123.85        75.32         2.20         3.98 
TCGA-DK-A3IS TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX 
       37.84         5.52        11.51         9.67         8.28        10.55 
TCGA-DK-A3WY TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B6 TCGA-FD-A3B7 
      131.15         0.10         8.81         8.32         6.87         4.01 
TCGA-FD-A3B8 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SL TCGA-FD-A3SO TCGA-FD-A3SP 
       11.05         7.96        32.02        10.98         5.49         4.54 
TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A43N TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FT-A3EE 
       46.78        19.79         7.89         6.84        15.16         2.33 
TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-GC-A3BM 
       26.50         5.65        26.93        32.78        17.26         2.86 
TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RC TCGA-GC-A3WC TCGA-GC-A3YS 
        2.24         1.32         4.50         1.38         2.50         1.08 
TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GD-A3OS TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JV 
        2.10         3.12         5.82         7.56         3.22         4.37 
TCGA-GV-A3QH TCGA-GV-A3QI TCGA-GV-A3QK TCGA-GV-A40E TCGA-GV-A40G TCGA-H4-A2HO 
        7.79         4.11         6.64         6.38         5.33         1.51 
TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A3WV 
        8.71         3.42         4.64 

  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
             0.82              0.10 
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
           100.47            131.15 
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
             6.81              7.04 
[1] "0.8 - 100.5 (6.8)" "0.1 - 131.2 (7.0)"
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED"   "5Q LOSS MUTATED" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
  "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
  "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
  "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
  "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
  "5Q LOSS MUTATED"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED"   "5Q LOSS MUTATED" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
  "5Q LOSS MUTATED"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
  "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED"   "5Q LOSS MUTATED" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
  "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
  "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
  "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
  "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
  "5Q LOSS MUTATED"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED"   "5Q LOSS MUTATED" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
  "5Q LOSS MUTATED"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
  "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED"   "5Q LOSS MUTATED" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
  "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
  "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
  "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
  "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
  "5Q LOSS MUTATED"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED"   "5Q LOSS MUTATED" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
  "5Q LOSS MUTATED"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
  "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
[1] "hr=" "1"  
D47V2, continuous
D47V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5Q LOSS MUTATED      7   25
  5Q LOSS WILD-TYPE   26   73
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  FEMALE               7                26
  MALE                25                73
D47V4, continuous
D47V5, continuous
D47V6, continuous
                   vv
clus                M0 M1 MX
  5Q LOSS MUTATED   14  2 15
  5Q LOSS WILD-TYPE 61  2 36
D47V7, multiclass
    clus
vv   5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  M0              14                61
  M1               2                 2
  MX              15                36
                   vv
clus                N0 N1 N2 N3 NX
  5Q LOSS MUTATED   14  4  7  2  4
  5Q LOSS WILD-TYPE 60 10 19  2  6
D47V8, multiclass
D47V9, continuous
D47V10, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV
  5Q LOSS MUTATED         0       10         7       15
  5Q LOSS WILD-TYPE       1       26        36       31
D47V11, multiclass
           clus
vv          5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  STAGE I                 0                 1
  STAGE II               10                26
  STAGE III               7                36
  STAGE IV               15                31

Clustering(48) Variable = 6p loss mutation analysis
D48V1, survival
                   sevent
clus2                0  1
  6P LOSS MUTATED   12  3
  6P LOSS WILD-TYPE 80 29
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
               15               109 
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
                3                29 
$`6P LOSS MUTATED`
TCGA-BT-A20V TCGA-BT-A20X TCGA-BT-A3PH TCGA-DK-A1A7 TCGA-DK-A1AB TCGA-DK-A3IL 
        5.06         8.25         4.64         8.98         8.91         3.98 
TCGA-DK-A3IQ TCGA-E5-A2PC TCGA-FD-A3SL TCGA-FD-A3SN TCGA-FJ-A3ZF TCGA-GC-A3RB 
       10.49        36.43        10.98         6.81         4.08         4.50 
TCGA-GV-A3JW TCGA-GV-A3JZ TCGA-GV-A3QI 
        6.41         5.69         4.11 

$`6P LOSS WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
       12.79         7.33         2.66         6.74         6.58        11.93 
TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R 
       19.00        26.10        12.16        17.85        19.46         5.06 
TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20W TCGA-BT-A2LA TCGA-BT-A2LD TCGA-C4-A0EZ 
       14.89         8.61         8.35         5.88         3.65         8.98 
TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YN 
        1.94         2.01         0.46         0.43         0.69        12.92 
TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3KJ TCGA-CU-A3QU TCGA-CU-A3YL TCGA-DK-A1A3 
        4.90         7.20         5.46         5.19         8.09         2.53 
TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1AA TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A1AE 
        2.14        31.40         7.04       118.88       100.47         7.17 
TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I4 
        5.85         6.64         1.81        10.59         7.76       123.85 
TCGA-DK-A2I6 TCGA-DK-A3IK TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IS TCGA-DK-A3IT 
       75.32         2.20         7.82         8.22        37.84         5.52 
TCGA-DK-A3IU TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E7-A3Y1 
       11.51         9.67         8.28        10.55       131.15         0.10 
TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 
        8.81         8.32         8.94         6.87         4.01        11.05 
TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SM TCGA-FD-A3SO 
        8.94         7.96        32.02        24.30         6.12         5.49 
TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A3SS TCGA-FD-A43N TCGA-FD-A43U 
        4.54        46.78        19.79         1.94         7.89         6.84 
TCGA-FJ-A3Z7 TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL 
       15.16         2.33        49.91        26.50         5.65        26.93 
TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-G2-A3VY TCGA-GC-A3BM 
       32.78        17.26         7.04        20.12         0.82         2.86 
TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RC TCGA-GC-A3RD TCGA-GC-A3WC TCGA-GC-A3YS 
        2.24         1.32         1.38         1.02         2.50         1.08 
TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GD-A3OS TCGA-GU-A42P TCGA-GU-A42Q 
        7.69         2.10         3.12         5.82         6.38         7.56 
TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JX TCGA-GV-A3QF TCGA-GV-A3QH TCGA-GV-A3QK 
        3.22         4.37         6.15         7.63         7.79         6.64 
TCGA-GV-A40E TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-K4-A3WS TCGA-K4-A3WU 
        6.38         5.33         1.51         6.71         8.71         3.42 
TCGA-K4-A3WV 
        4.64 

  6P LOSS MUTATED 6P LOSS WILD-TYPE 
             3.98              0.10 
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
            36.43            131.15 
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
             6.41              7.04 
[1] "4.0 - 36.4 (6.4)"  "0.1 - 131.2 (7.0)"
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE"   "6P LOSS MUTATED" "6P LOSS WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
  "6P LOSS MUTATED" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE"   "6P LOSS MUTATED" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE"   "6P LOSS MUTATED" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"6P LOSS WILD-TYPE"   "6P LOSS MUTATED" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"6P LOSS WILD-TYPE"   "6P LOSS MUTATED" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
  "6P LOSS MUTATED" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
  "6P LOSS MUTATED" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
  "6P LOSS MUTATED" "6P LOSS WILD-TYPE"   "6P LOSS MUTATED" "6P LOSS WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE"   "6P LOSS MUTATED" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"6P LOSS WILD-TYPE"   "6P LOSS MUTATED" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE"   "6P LOSS MUTATED" "6P LOSS WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
  "6P LOSS MUTATED" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE"   "6P LOSS MUTATED" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE"   "6P LOSS MUTATED" "6P LOSS WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
  "6P LOSS MUTATED" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE"   "6P LOSS MUTATED" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE"   "6P LOSS MUTATED" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"6P LOSS WILD-TYPE"   "6P LOSS MUTATED" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"6P LOSS WILD-TYPE"   "6P LOSS MUTATED" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
  "6P LOSS MUTATED" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
  "6P LOSS MUTATED" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
  "6P LOSS MUTATED" "6P LOSS WILD-TYPE"   "6P LOSS MUTATED" "6P LOSS WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE"   "6P LOSS MUTATED" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"6P LOSS WILD-TYPE"   "6P LOSS MUTATED" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE"   "6P LOSS MUTATED" "6P LOSS WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
  "6P LOSS MUTATED" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE"   "6P LOSS MUTATED" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE"   "6P LOSS MUTATED" "6P LOSS WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
  "6P LOSS MUTATED" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE"   "6P LOSS MUTATED" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE"   "6P LOSS MUTATED" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"6P LOSS WILD-TYPE"   "6P LOSS MUTATED" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"6P LOSS WILD-TYPE"   "6P LOSS MUTATED" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
  "6P LOSS MUTATED" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
  "6P LOSS MUTATED" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
  "6P LOSS MUTATED" "6P LOSS WILD-TYPE"   "6P LOSS MUTATED" "6P LOSS WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE"   "6P LOSS MUTATED" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"6P LOSS WILD-TYPE"   "6P LOSS MUTATED" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE"   "6P LOSS MUTATED" "6P LOSS WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
  "6P LOSS MUTATED" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE"   "6P LOSS MUTATED" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
[1] "hr=" "1.1"
D48V2, continuous
D48V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  6P LOSS MUTATED      5   11
  6P LOSS WILD-TYPE   28   87
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  FEMALE               5                28
  MALE                11                87
D48V4, continuous
D48V5, continuous
D48V6, continuous
                   vv
clus                M0 M1 MX
  6P LOSS MUTATED    8  1  7
  6P LOSS WILD-TYPE 67  3 44
D48V7, multiclass
    clus
vv   6P LOSS MUTATED 6P LOSS WILD-TYPE
  M0               8                67
  M1               1                 3
  MX               7                44
                   vv
clus                N0 N1 N2 N3 NX
  6P LOSS MUTATED    5  1  7  1  1
  6P LOSS WILD-TYPE 69 13 19  3  9
D48V8, multiclass
D48V9, continuous
D48V10, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV
  6P LOSS MUTATED         0        1         4       10
  6P LOSS WILD-TYPE       1       35        39       36
D48V11, multiclass
           clus
vv          6P LOSS MUTATED 6P LOSS WILD-TYPE
  STAGE I                 0                 1
  STAGE II                1                35
  STAGE III               4                39
  STAGE IV               10                36

Clustering(49) Variable = 6q loss mutation analysis
D49V1, survival
                   sevent
clus2                0  1
  6Q LOSS MUTATED   20  5
  6Q LOSS WILD-TYPE 72 27
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
               25                99 
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
                5                27 
$`6Q LOSS MUTATED`
TCGA-BT-A20V TCGA-BT-A3PH TCGA-CU-A3QU TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AB 
        5.06         4.64         5.19        31.40         8.98         8.91 
TCGA-DK-A2I1 TCGA-DK-A3IL TCGA-DK-A3IQ TCGA-E5-A2PC TCGA-FD-A3B5 TCGA-FD-A3SL 
       10.59         3.98        10.49        36.43         8.94        10.98 
TCGA-FD-A3SN TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-G2-A2ES TCGA-GC-A3RB TCGA-GC-A3RD 
        6.81        46.78        19.79        17.26         4.50         1.02 
TCGA-GU-A42R TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-GV-A3QF TCGA-GV-A3QI 
        3.22         6.41         6.15         5.69         7.63         4.11 
TCGA-H4-A2HQ 
        6.71 

$`6Q LOSS WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
       12.79         7.33         2.66         6.74         6.58        11.93 
TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R 
       19.00        26.10        12.16        17.85        19.46         5.06 
TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LA TCGA-BT-A2LD 
       14.89         8.61         8.35         8.25         5.88         3.65 
TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CF-A27C 
        8.98         1.94         2.01         0.46         0.43         0.69 
TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3KJ TCGA-CU-A3YL TCGA-DK-A1A3 
       12.92         4.90         7.20         5.46         8.09         2.53 
TCGA-DK-A1A5 TCGA-DK-A1AA TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF 
        2.14         7.04       118.88       100.47         7.17         5.85 
TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IK 
        6.64         1.81         7.76       123.85        75.32         2.20 
TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IS TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3IV 
        7.82         8.22        37.84         5.52        11.51         9.67 
TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 
        8.28        10.55       131.15         0.10         8.81         8.32 
TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA 
        6.87         4.01        11.05         8.94         7.96        32.02 
TCGA-FD-A3SJ TCGA-FD-A3SM TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SS TCGA-FD-A43N 
       24.30         6.12         5.49         4.54         1.94         7.89 
TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ 
        6.84        15.16         4.08         2.33        49.91        26.50 
TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A3IB TCGA-G2-A3IE TCGA-G2-A3VY 
        5.65        26.93        32.78         7.04        20.12         0.82 
TCGA-GC-A3BM TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RC TCGA-GC-A3WC TCGA-GC-A3YS 
        2.86         2.24         1.32         1.38         2.50         1.08 
TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GD-A3OS TCGA-GU-A42P TCGA-GU-A42Q 
        7.69         2.10         3.12         5.82         6.38         7.56 
TCGA-GV-A3JV TCGA-GV-A3QH TCGA-GV-A3QK TCGA-GV-A40E TCGA-GV-A40G TCGA-H4-A2HO 
        4.37         7.79         6.64         6.38         5.33         1.51 
TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A3WV 
        8.71         3.42         4.64 

  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
             1.02              0.10 
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
            46.78            131.15 
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
             6.81              7.04 
[1] "1.0 - 46.8 (6.8)"  "0.1 - 131.2 (7.0)"
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
  "6Q LOSS MUTATED"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
  "6Q LOSS MUTATED"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
  "6Q LOSS MUTATED"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
[1] "hr=" "1.5"
D49V2, continuous
D49V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  6Q LOSS MUTATED      8   19
  6Q LOSS WILD-TYPE   25   79
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  FEMALE               8                25
  MALE                19                79
D49V4, continuous
D49V5, continuous
D49V6, continuous
                   vv
clus                M0 M1 MX
  6Q LOSS MUTATED   12  2 13
  6Q LOSS WILD-TYPE 63  2 38
D49V7, multiclass
    clus
vv   6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  M0              12                63
  M1               2                 2
  MX              13                38
                   vv
clus                N0 N1 N2 N3 NX
  6Q LOSS MUTATED    9  4  9  1  2
  6Q LOSS WILD-TYPE 65 10 17  3  8
D49V8, multiclass
D49V9, continuous
D49V10, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV
  6Q LOSS MUTATED         0        5         5       16
  6Q LOSS WILD-TYPE       1       31        38       30
D49V11, multiclass
           clus
vv          6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  STAGE I                 0                 1
  STAGE II                5                31
  STAGE III               5                38
  STAGE IV               16                30

Clustering(50) Variable = 8p loss mutation analysis
D50V1, survival
                   sevent
clus2                0  1
  8P LOSS MUTATED   38  8
  8P LOSS WILD-TYPE 54 24
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
               46                78 
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
                8                24 
$`8P LOSS MUTATED`
TCGA-BL-A13J TCGA-BT-A20W TCGA-C4-A0EZ TCGA-CF-A1HS TCGA-CU-A3QU TCGA-DK-A1A3 
        2.66         8.35         8.98         0.43         5.19         2.53 
TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A2I1 TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IK 
      118.88       100.47        10.59       123.85        75.32         2.20 
TCGA-DK-A3IL TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IT TCGA-DK-A3IV TCGA-FD-A3B4 
        3.98         7.82         8.22         5.52         9.67         8.32 
TCGA-FD-A3B6 TCGA-FD-A3N5 TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SM TCGA-FD-A3SO 
        6.87         8.94        24.30        10.98         6.12         5.49 
TCGA-FD-A43N TCGA-FJ-A3ZF TCGA-G2-A2EF TCGA-G2-A2EK TCGA-G2-A3IE TCGA-G2-A3VY 
        7.89         4.08        49.91         5.65        20.12         0.82 
TCGA-GC-A3RB TCGA-GC-A3RC TCGA-GC-A3RD TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GU-A42P 
        4.50         1.38         1.02         1.08         7.69         6.38 
TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-GV-A3QF TCGA-GV-A3QH TCGA-GV-A40E 
        6.41         6.15         5.69         7.63         7.79         6.38 
TCGA-GV-A40G TCGA-H4-A2HQ TCGA-K4-A3WU TCGA-K4-A3WV 
        5.33         6.71         3.42         4.64 

$`8P LOSS WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX TCGA-BT-A20J 
       12.79         7.33         6.74         6.58        11.93        19.00 
TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A20T 
       26.10        12.16        17.85        19.46         5.06        14.89 
TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20X TCGA-BT-A2LA TCGA-BT-A2LD TCGA-BT-A3PH 
        8.61         5.06         8.25         5.88         3.65         4.64 
TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO 
        1.94         2.01         0.46         0.69        12.92         4.90 
TCGA-CU-A0YR TCGA-CU-A3KJ TCGA-CU-A3YL TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 
        7.20         5.46         8.09         2.14        31.40         8.98 
TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX 
        7.04         8.91         7.17         5.85         6.64         1.81 
TCGA-DK-A2I2 TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IU TCGA-DK-A3WW TCGA-DK-A3WX 
        7.76        10.49        37.84        11.51         8.28        10.55 
TCGA-DK-A3WY TCGA-E5-A2PC TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B5 TCGA-FD-A3B7 
      131.15        36.43         0.10         8.81         8.94         4.01 
TCGA-FD-A3B8 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SN TCGA-FD-A3SP TCGA-FD-A3SQ 
       11.05         7.96        32.02         6.81         4.54        46.78 
TCGA-FD-A3SR TCGA-FD-A3SS TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FT-A3EE TCGA-G2-A2EJ 
       19.79         1.94         6.84        15.16         2.33        26.50 
TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-GC-A3BM TCGA-GC-A3I6 
       26.93        32.78        17.26         7.04         2.86         2.24 
TCGA-GC-A3OO TCGA-GC-A3WC TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GD-A3OS TCGA-GU-A42Q 
        1.32         2.50         2.10         3.12         5.82         7.56 
TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3QI TCGA-GV-A3QK TCGA-H4-A2HO TCGA-K4-A3WS 
        3.22         4.37         4.11         6.64         1.51         8.71 

  8P LOSS MUTATED 8P LOSS WILD-TYPE 
             0.43              0.10 
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
           123.85            131.15 
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
            6.395             7.185 
[1] "0.4 - 123.8 (6.4)" "0.1 - 131.2 (7.2)"
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED"   "8P LOSS MUTATED" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED"   "8P LOSS MUTATED" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
  "8P LOSS MUTATED"   "8P LOSS MUTATED"   "8P LOSS MUTATED"   "8P LOSS MUTATED" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
  "8P LOSS MUTATED"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
  "8P LOSS MUTATED"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"8P LOSS WILD-TYPE"   "8P LOSS MUTATED"   "8P LOSS MUTATED"   "8P LOSS MUTATED" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"8P LOSS WILD-TYPE"   "8P LOSS MUTATED"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED"   "8P LOSS MUTATED" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
  "8P LOSS MUTATED"   "8P LOSS MUTATED"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"8P LOSS WILD-TYPE"   "8P LOSS MUTATED"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED"   "8P LOSS MUTATED" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED"   "8P LOSS MUTATED" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED"   "8P LOSS MUTATED" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
  "8P LOSS MUTATED"   "8P LOSS MUTATED"   "8P LOSS MUTATED"   "8P LOSS MUTATED" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
  "8P LOSS MUTATED"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
  "8P LOSS MUTATED"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"8P LOSS WILD-TYPE"   "8P LOSS MUTATED"   "8P LOSS MUTATED"   "8P LOSS MUTATED" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"8P LOSS WILD-TYPE"   "8P LOSS MUTATED"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED"   "8P LOSS MUTATED" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
  "8P LOSS MUTATED"   "8P LOSS MUTATED"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"8P LOSS WILD-TYPE"   "8P LOSS MUTATED"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED"   "8P LOSS MUTATED" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED"   "8P LOSS MUTATED" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED"   "8P LOSS MUTATED" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
  "8P LOSS MUTATED"   "8P LOSS MUTATED"   "8P LOSS MUTATED"   "8P LOSS MUTATED" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
  "8P LOSS MUTATED"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
  "8P LOSS MUTATED"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"8P LOSS WILD-TYPE"   "8P LOSS MUTATED"   "8P LOSS MUTATED"   "8P LOSS MUTATED" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"8P LOSS WILD-TYPE"   "8P LOSS MUTATED"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED"   "8P LOSS MUTATED" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
  "8P LOSS MUTATED"   "8P LOSS MUTATED"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"8P LOSS WILD-TYPE"   "8P LOSS MUTATED"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED"   "8P LOSS MUTATED" 
[1] "hr=" "1.6"
D50V2, continuous
D50V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8P LOSS MUTATED      9   38
  8P LOSS WILD-TYPE   24   60
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  FEMALE               9                24
  MALE                38                60
D50V4, continuous
D50V5, continuous
D50V6, continuous
                   vv
clus                M0 M1 MX
  8P LOSS MUTATED   23  4 19
  8P LOSS WILD-TYPE 52  0 32
D50V7, multiclass
    clus
vv   8P LOSS MUTATED 8P LOSS WILD-TYPE
  M0              23                52
  M1               4                 0
  MX              19                32
                   vv
clus                N0 N1 N2 N3 NX
  8P LOSS MUTATED   22  6 10  2  6
  8P LOSS WILD-TYPE 52  8 16  2  4
D50V8, multiclass
D50V9, continuous
D50V10, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV
  8P LOSS MUTATED         0       15        11       19
  8P LOSS WILD-TYPE       1       21        32       27
D50V11, multiclass
           clus
vv          8P LOSS MUTATED 8P LOSS WILD-TYPE
  STAGE I                 0                 1
  STAGE II               15                21
  STAGE III              11                32
  STAGE IV               19                27

Clustering(51) Variable = 8q loss mutation analysis
D51V1, survival
                   sevent
clus2                0  1
  8Q LOSS MUTATED    5  0
  8Q LOSS WILD-TYPE 87 32
  8Q LOSS MUTATED 8Q LOSS WILD-TYPE 
                5               119 
  8Q LOSS MUTATED 8Q LOSS WILD-TYPE 
                0                32 
$`8Q LOSS MUTATED`
TCGA-DK-A3IL TCGA-DK-A3IM TCGA-GU-A42P TCGA-H4-A2HQ TCGA-K4-A3WU 
        3.98         7.82         6.38         6.71         3.42 

$`8Q LOSS WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
       12.79         7.33         2.66         6.74         6.58        11.93 
TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R 
       19.00        26.10        12.16        17.85        19.46         5.06 
TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LA 
       14.89         8.61         5.06         8.35         8.25         5.88 
TCGA-BT-A2LD TCGA-BT-A3PH TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR 
        3.65         4.64         8.98         1.94         2.01         0.46 
TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3KJ 
        0.43         0.69        12.92         4.90         7.20         5.46 
TCGA-CU-A3QU TCGA-CU-A3YL TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 
        5.19         8.09         2.53         2.14        31.40         8.98 
TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF 
        7.04         8.91       118.88       100.47         7.17         5.85 
TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A2I6 
        6.64         1.81        10.59         7.76       123.85        75.32 
TCGA-DK-A3IK TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT TCGA-DK-A3IU 
        2.20         8.22        10.49        37.84         5.52        11.51 
TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E5-A2PC TCGA-E7-A3Y1 
        9.67         8.28        10.55       131.15        36.43         0.10 
TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 
        8.81         8.32         8.94         6.87         4.01        11.05 
TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SM 
        8.94         7.96        32.02        24.30        10.98         6.12 
TCGA-FD-A3SN TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A3SS 
        6.81         5.49         4.54        46.78        19.79         1.94 
TCGA-FD-A43N TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-FT-A3EE TCGA-G2-A2EF 
        7.89         6.84        15.16         4.08         2.33        49.91 
TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB 
       26.50         5.65        26.93        32.78        17.26         7.04 
TCGA-G2-A3IE TCGA-G2-A3VY TCGA-GC-A3BM TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RB 
       20.12         0.82         2.86         2.24         1.32         4.50 
TCGA-GC-A3RC TCGA-GC-A3RD TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GD-A3OP 
        1.38         1.02         2.50         1.08         7.69         2.10 
TCGA-GD-A3OQ TCGA-GD-A3OS TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JW 
        3.12         5.82         7.56         3.22         4.37         6.41 
TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-GV-A3QF TCGA-GV-A3QH TCGA-GV-A3QI TCGA-GV-A3QK 
        6.15         5.69         7.63         7.79         4.11         6.64 
TCGA-GV-A40E TCGA-GV-A40G TCGA-H4-A2HO TCGA-K4-A3WS TCGA-K4-A3WV 
        6.38         5.33         1.51         8.71         4.64 

  8Q LOSS MUTATED 8Q LOSS WILD-TYPE 
             3.42              0.10 
  8Q LOSS MUTATED 8Q LOSS WILD-TYPE 
             7.82            131.15 
  8Q LOSS MUTATED 8Q LOSS WILD-TYPE 
             6.38              7.04 
[1] "3.4 - 7.8 (6.4)"   "0.1 - 131.2 (7.0)"
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"8Q LOSS WILD-TYPE"   "8Q LOSS MUTATED"   "8Q LOSS MUTATED" "8Q LOSS WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE"   "8Q LOSS MUTATED" "8Q LOSS WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
  "8Q LOSS MUTATED" "8Q LOSS WILD-TYPE"   "8Q LOSS MUTATED" "8Q LOSS WILD-TYPE" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"8Q LOSS WILD-TYPE"   "8Q LOSS MUTATED"   "8Q LOSS MUTATED" "8Q LOSS WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE"   "8Q LOSS MUTATED" "8Q LOSS WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
  "8Q LOSS MUTATED" "8Q LOSS WILD-TYPE"   "8Q LOSS MUTATED" "8Q LOSS WILD-TYPE" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"8Q LOSS WILD-TYPE"   "8Q LOSS MUTATED"   "8Q LOSS MUTATED" "8Q LOSS WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE"   "8Q LOSS MUTATED" "8Q LOSS WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
  "8Q LOSS MUTATED" "8Q LOSS WILD-TYPE"   "8Q LOSS MUTATED" "8Q LOSS WILD-TYPE" 
[1] "hr="     "9400000"
D51V2, continuous
D51V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8Q LOSS MUTATED      2    3
  8Q LOSS WILD-TYPE   31   95
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  FEMALE               2                31
  MALE                 3                95
D51V4, continuous
D51V5, continuous
D51V6, continuous
                   vv
clus                M0 M1 MX
  8Q LOSS MUTATED    3  1  1
  8Q LOSS WILD-TYPE 72  3 50
D51V7, multiclass
    clus
vv   8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  M0               3                72
  M1               1                 3
  MX               1                50
                   vv
clus                N0 N1 N2 N3 NX
  8Q LOSS MUTATED    2  1  1  0  1
  8Q LOSS WILD-TYPE 72 13 25  4  9
D51V8, multiclass
D51V9, continuous
D51V10, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV
  8Q LOSS MUTATED         0        0         1        3
  8Q LOSS WILD-TYPE       1       36        42       43
D51V11, multiclass
           clus
vv          8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  STAGE I                 0                 1
  STAGE II                0                36
  STAGE III               1                42
  STAGE IV                3                43

Clustering(52) Variable = 9p loss mutation analysis
D52V1, survival
                   sevent
clus2                0  1
  9P LOSS MUTATED   23  9
  9P LOSS WILD-TYPE 69 23
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
               32                92 
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
                9                23 
$`9P LOSS MUTATED`
TCGA-BT-A20N TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20T TCGA-BT-A20W TCGA-C4-A0F0 
       26.10        17.85        19.46        14.89         8.35         1.94 
TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CU-A3KJ TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1AA 
        2.01         0.46         5.46         2.53         2.14         7.04 
TCGA-DK-A1AB TCGA-DK-A1AG TCGA-DK-A3IK TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT 
        8.91         6.64         2.20        10.49        37.84         5.52 
TCGA-E5-A2PC TCGA-FD-A3B5 TCGA-FD-A3SM TCGA-FD-A3SN TCGA-FD-A3SQ TCGA-FD-A3SR 
       36.43         8.94         6.12         6.81        46.78        19.79 
TCGA-G2-A2EK TCGA-G2-A2EO TCGA-G2-A3IB TCGA-G2-A3VY TCGA-GC-A3RD TCGA-GV-A3JW 
        5.65        32.78         7.04         0.82         1.02         6.41 
TCGA-GV-A3QK TCGA-K4-A3WV 
        6.64         4.64 

$`9P LOSS WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
       12.79         7.33         2.66         6.74         6.58        11.93 
TCGA-BT-A20J TCGA-BT-A20O TCGA-BT-A20R TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20X 
       19.00        12.16         5.06         8.61         5.06         8.25 
TCGA-BT-A2LA TCGA-BT-A2LD TCGA-BT-A3PH TCGA-C4-A0EZ TCGA-CF-A1HS TCGA-CF-A27C 
        5.88         3.65         4.64         8.98         0.43         0.69 
TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3QU TCGA-CU-A3YL TCGA-DK-A1A6 
       12.92         4.90         7.20         5.19         8.09        31.40 
TCGA-DK-A1A7 TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A2HX 
        8.98       118.88       100.47         7.17         5.85         1.81 
TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IL TCGA-DK-A3IM 
       10.59         7.76       123.85        75.32         3.98         7.82 
TCGA-DK-A3IN TCGA-DK-A3IU TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY 
        8.22        11.51         9.67         8.28        10.55       131.15 
TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 
        0.10         8.81         8.32         6.87         4.01        11.05 
TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SO 
        8.94         7.96        32.02        24.30        10.98         5.49 
TCGA-FD-A3SP TCGA-FD-A3SS TCGA-FD-A43N TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF 
        4.54         1.94         7.89         6.84        15.16         4.08 
TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EL TCGA-G2-A2ES TCGA-G2-A3IE 
        2.33        49.91        26.50        26.93        17.26        20.12 
TCGA-GC-A3BM TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RC TCGA-GC-A3WC 
        2.86         2.24         1.32         4.50         1.38         2.50 
TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GD-A3OS TCGA-GU-A42P 
        1.08         7.69         2.10         3.12         5.82         6.38 
TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-GV-A3QF 
        7.56         3.22         4.37         6.15         5.69         7.63 
TCGA-GV-A3QH TCGA-GV-A3QI TCGA-GV-A40E TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ 
        7.79         4.11         6.38         5.33         1.51         6.71 
TCGA-K4-A3WS TCGA-K4-A3WU 
        8.71         3.42 

  9P LOSS MUTATED 9P LOSS WILD-TYPE 
             0.46              0.10 
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
            46.78            131.15 
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
            6.725             7.185 
[1] "0.5 - 46.8 (6.7)"  "0.1 - 131.2 (7.2)"
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
  "9P LOSS MUTATED"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
  "9P LOSS MUTATED"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
  "9P LOSS MUTATED"   "9P LOSS MUTATED"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
  "9P LOSS MUTATED"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
  "9P LOSS MUTATED"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
  "9P LOSS MUTATED"   "9P LOSS MUTATED"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
  "9P LOSS MUTATED"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
  "9P LOSS MUTATED"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
  "9P LOSS MUTATED"   "9P LOSS MUTATED"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
[1] "hr=" "1"  
D52V2, continuous
D52V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  9P LOSS MUTATED      7   31
  9P LOSS WILD-TYPE   26   67
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  FEMALE               7                26
  MALE                31                67
D52V4, continuous
D52V5, continuous
D52V6, continuous
                   vv
clus                M0 M1 MX
  9P LOSS MUTATED   26  1 10
  9P LOSS WILD-TYPE 49  3 41
D52V7, multiclass
    clus
vv   9P LOSS MUTATED 9P LOSS WILD-TYPE
  M0              26                49
  M1               1                 3
  MX              10                41
                   vv
clus                N0 N1 N2 N3 NX
  9P LOSS MUTATED   22  3  8  0  3
  9P LOSS WILD-TYPE 52 11 18  4  7
D52V8, multiclass
D52V9, continuous
D52V10, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV
  9P LOSS MUTATED         0       13        11       12
  9P LOSS WILD-TYPE       1       23        32       34
D52V11, multiclass
           clus
vv          9P LOSS MUTATED 9P LOSS WILD-TYPE
  STAGE I                 0                 1
  STAGE II               13                23
  STAGE III              11                32
  STAGE IV               12                34

Clustering(53) Variable = 9q loss mutation analysis
D53V1, survival
                   sevent
clus2                0  1
  9Q LOSS MUTATED   22  9
  9Q LOSS WILD-TYPE 70 23
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
               31                93 
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
                9                23 
$`9Q LOSS MUTATED`
TCGA-BT-A20N TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20T TCGA-C4-A0F6 TCGA-CF-A1HR 
       26.10        17.85        19.46        14.89         2.01         0.46 
TCGA-CF-A27C TCGA-CU-A3KJ TCGA-CU-A3QU TCGA-DK-A1A5 TCGA-DK-A1AA TCGA-DK-A1AG 
        0.69         5.46         5.19         2.14         7.04         6.64 
TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT TCGA-E5-A2PC TCGA-FD-A3B5 TCGA-FD-A3SM 
       10.49        37.84         5.52        36.43         8.94         6.12 
TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A3VY 
       46.78        19.79         5.65        26.93        32.78         0.82 
TCGA-GC-A3BM TCGA-GC-A3RD TCGA-GD-A2C5 TCGA-GV-A3JV TCGA-GV-A3JW TCGA-GV-A40G 
        2.86         1.02         7.69         4.37         6.41         5.33 
TCGA-K4-A3WV 
        4.64 

$`9Q LOSS WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
       12.79         7.33         2.66         6.74         6.58        11.93 
TCGA-BT-A20J TCGA-BT-A20O TCGA-BT-A20R TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20W 
       19.00        12.16         5.06         8.61         5.06         8.35 
TCGA-BT-A20X TCGA-BT-A2LA TCGA-BT-A2LD TCGA-BT-A3PH TCGA-C4-A0EZ TCGA-C4-A0F0 
        8.25         5.88         3.65         4.64         8.98         1.94 
TCGA-CF-A1HS TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3YL TCGA-DK-A1A3 
        0.43        12.92         4.90         7.20         8.09         2.53 
TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AB TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A1AE 
       31.40         8.98         8.91       118.88       100.47         7.17 
TCGA-DK-A1AF TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A2I6 
        5.85         1.81        10.59         7.76       123.85        75.32 
TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IU TCGA-DK-A3IV 
        2.20         3.98         7.82         8.22        11.51         9.67 
TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 
        8.28        10.55       131.15         0.10         8.81         8.32 
TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA 
        6.87         4.01        11.05         8.94         7.96        32.02 
TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SN TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SS 
       24.30        10.98         6.81         5.49         4.54         1.94 
TCGA-FD-A43N TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-FT-A3EE TCGA-G2-A2EF 
        7.89         6.84        15.16         4.08         2.33        49.91 
TCGA-G2-A2EJ TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GC-A3I6 TCGA-GC-A3OO 
       26.50        17.26         7.04        20.12         2.24         1.32 
TCGA-GC-A3RB TCGA-GC-A3RC TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GD-A3OP TCGA-GD-A3OQ 
        4.50         1.38         2.50         1.08         2.10         3.12 
TCGA-GD-A3OS TCGA-GU-A42P TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JX TCGA-GV-A3JZ 
        5.82         6.38         7.56         3.22         6.15         5.69 
TCGA-GV-A3QF TCGA-GV-A3QH TCGA-GV-A3QI TCGA-GV-A3QK TCGA-GV-A40E TCGA-H4-A2HO 
        7.63         7.79         4.11         6.64         6.38         1.51 
TCGA-H4-A2HQ TCGA-K4-A3WS TCGA-K4-A3WU 
        6.71         8.71         3.42 

  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
             0.46              0.10 
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
            46.78            131.15 
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
             6.41              7.17 
[1] "0.5 - 46.8 (6.4)"  "0.1 - 131.2 (7.2)"
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
  "9Q LOSS MUTATED"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
  "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
  "9Q LOSS MUTATED"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
  "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
  "9Q LOSS MUTATED"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
  "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
[1] "hr=" "1.1"
D53V2, continuous
D53V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  9Q LOSS MUTATED      6   30
  9Q LOSS WILD-TYPE   27   68
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  FEMALE               6                27
  MALE                30                68
D53V4, continuous
D53V5, continuous
D53V6, continuous
                   vv
clus                M0 M1 MX
  9Q LOSS MUTATED   23  1 11
  9Q LOSS WILD-TYPE 52  3 40
D53V7, multiclass
    clus
vv   9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  M0              23                52
  M1               1                 3
  MX              11                40
                   vv
clus                N0 N1 N2 N3 NX
  9Q LOSS MUTATED   22  5  6  0  2
  9Q LOSS WILD-TYPE 52  9 20  4  8
D53V8, multiclass
D53V9, continuous
D53V10, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV
  9Q LOSS MUTATED         0       12        11       10
  9Q LOSS WILD-TYPE       1       24        32       36
D53V11, multiclass
           clus
vv          9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  STAGE I                 0                 1
  STAGE II               12                24
  STAGE III              11                32
  STAGE IV               10                36

Clustering(54) Variable = 10p loss mutation analysis
D54V1, survival
                    sevent
clus2                 0  1
  10P LOSS MUTATED   15  3
  10P LOSS WILD-TYPE 77 29
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
                18                106 
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
                 3                 29 
$`10P LOSS MUTATED`
TCGA-BT-A2LA TCGA-BT-A2LD TCGA-C4-A0F0 TCGA-CU-A0YR TCGA-CU-A3KJ TCGA-E5-A2PC 
        5.88         3.65         1.94         7.20         5.46        36.43 
TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3N5 TCGA-FD-A3SR TCGA-FJ-A3Z7 TCGA-G2-A2EL 
        8.32         8.94         8.94        19.79        15.16        26.93 
TCGA-GC-A3BM TCGA-GC-A3RC TCGA-GV-A3JX TCGA-GV-A3QI TCGA-GV-A40G TCGA-H4-A2HQ 
        2.86         1.38         6.15         4.11         5.33         6.71 

$`10P LOSS WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
       12.79         7.33         2.66         6.74         6.58        11.93 
TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R 
       19.00        26.10        12.16        17.85        19.46         5.06 
TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A3PH 
       14.89         8.61         5.06         8.35         8.25         4.64 
TCGA-C4-A0EZ TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YN 
        8.98         2.01         0.46         0.43         0.69        12.92 
TCGA-CU-A0YO TCGA-CU-A3QU TCGA-CU-A3YL TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A6 
        4.90         5.19         8.09         2.53         2.14        31.40 
TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A1AE 
        8.98         7.04         8.91       118.88       100.47         7.17 
TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I4 
        5.85         6.64         1.81        10.59         7.76       123.85 
TCGA-DK-A2I6 TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IQ 
       75.32         2.20         3.98         7.82         8.22        10.49 
TCGA-DK-A3IS TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX 
       37.84         5.52        11.51         9.67         8.28        10.55 
TCGA-DK-A3WY TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 
      131.15         0.10         8.81         6.87         4.01        11.05 
TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SM TCGA-FD-A3SN 
        7.96        32.02        24.30        10.98         6.12         6.81 
TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SS TCGA-FD-A43N TCGA-FD-A43U 
        5.49         4.54        46.78         1.94         7.89         6.84 
TCGA-FJ-A3ZF TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EO 
        4.08         2.33        49.91        26.50         5.65        32.78 
TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-G2-A3VY TCGA-GC-A3I6 TCGA-GC-A3OO 
       17.26         7.04        20.12         0.82         2.24         1.32 
TCGA-GC-A3RB TCGA-GC-A3RD TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GD-A3OP 
        4.50         1.02         2.50         1.08         7.69         2.10 
TCGA-GD-A3OQ TCGA-GD-A3OS TCGA-GU-A42P TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JV 
        3.12         5.82         6.38         7.56         3.22         4.37 
TCGA-GV-A3JW TCGA-GV-A3JZ TCGA-GV-A3QF TCGA-GV-A3QH TCGA-GV-A3QK TCGA-GV-A40E 
        6.41         5.69         7.63         7.79         6.64         6.38 
TCGA-H4-A2HO TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A3WV 
        1.51         8.71         3.42         4.64 

  10P LOSS MUTATED 10P LOSS WILD-TYPE 
              1.38               0.10 
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
             36.43             131.15 
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
              6.43               7.04 
[1] "1.4 - 36.4 (6.4)"  "0.1 - 131.2 (7.0)"
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED"   "10P LOSS MUTATED" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
  "10P LOSS MUTATED"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"10P LOSS WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED"   "10P LOSS MUTATED" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
  "10P LOSS MUTATED"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"10P LOSS WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED"   "10P LOSS MUTATED" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
  "10P LOSS MUTATED"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"10P LOSS WILD-TYPE" 
[1] "hr=" "1.5"
D54V2, continuous
D54V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  10P LOSS MUTATED      4   14
  10P LOSS WILD-TYPE   29   84
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  FEMALE                4                 29
  MALE                 14                 84
D54V4, continuous
D54V5, continuous
D54V6, continuous
                    vv
clus                 M0 M1 MX
  10P LOSS MUTATED    8  1  9
  10P LOSS WILD-TYPE 67  3 42
D54V7, multiclass
    clus
vv   10P LOSS MUTATED 10P LOSS WILD-TYPE
  M0                8                 67
  M1                1                  3
  MX                9                 42
                    vv
clus                 N0 N1 N2 N3 NX
  10P LOSS MUTATED   11  3  3  0  1
  10P LOSS WILD-TYPE 63 11 23  4  9
D54V8, multiclass
D54V9, continuous
D54V10, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  10P LOSS MUTATED         0        6         5        7
  10P LOSS WILD-TYPE       1       30        38       39
D54V11, multiclass
           clus
vv          10P LOSS MUTATED 10P LOSS WILD-TYPE
  STAGE I                  0                  1
  STAGE II                 6                 30
  STAGE III                5                 38
  STAGE IV                 7                 39

Clustering(55) Variable = 10q loss mutation analysis
D55V1, survival
                    sevent
clus2                 0  1
  10Q LOSS MUTATED   23  2
  10Q LOSS WILD-TYPE 69 30
  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
                25                 99 
  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
                 2                 30 
$`10Q LOSS MUTATED`
TCGA-BT-A2LD TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CU-A0YR TCGA-CU-A3KJ TCGA-CU-A3QU 
        3.65         1.94         2.01         7.20         5.46         5.19 
TCGA-DK-A1A5 TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IM TCGA-E5-A2PC TCGA-FD-A3N5 
        2.14         2.20         3.98         7.82        36.43         8.94 
TCGA-FD-A3SR TCGA-FJ-A3Z7 TCGA-G2-A3VY TCGA-GC-A3BM TCGA-GC-A3RC TCGA-GC-A3RD 
       19.79        15.16         0.82         2.86         1.38         1.02 
TCGA-GC-A3WC TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3QF TCGA-GV-A3QI TCGA-GV-A40G 
        2.50         6.41         6.15         7.63         4.11         5.33 
TCGA-H4-A2HQ 
        6.71 

$`10Q LOSS WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
       12.79         7.33         2.66         6.74         6.58        11.93 
TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R 
       19.00        26.10        12.16        17.85        19.46         5.06 
TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LA 
       14.89         8.61         5.06         8.35         8.25         5.88 
TCGA-BT-A3PH TCGA-C4-A0EZ TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YN 
        4.64         8.98         0.46         0.43         0.69        12.92 
TCGA-CU-A0YO TCGA-CU-A3YL TCGA-DK-A1A3 TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA 
        4.90         8.09         2.53        31.40         8.98         7.04 
TCGA-DK-A1AB TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG 
        8.91       118.88       100.47         7.17         5.85         6.64 
TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IN 
        1.81        10.59         7.76       123.85        75.32         8.22 
TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3IV TCGA-DK-A3WW 
       10.49        37.84         5.52        11.51         9.67         8.28 
TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 
       10.55       131.15         0.10         8.81         8.32         8.94 
TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ 
        6.87         4.01        11.05         7.96        32.02        24.30 
TCGA-FD-A3SL TCGA-FD-A3SM TCGA-FD-A3SN TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ 
       10.98         6.12         6.81         5.49         4.54        46.78 
TCGA-FD-A3SS TCGA-FD-A43N TCGA-FD-A43U TCGA-FJ-A3ZF TCGA-FT-A3EE TCGA-G2-A2EF 
        1.94         7.89         6.84         4.08         2.33        49.91 
TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB 
       26.50         5.65        26.93        32.78        17.26         7.04 
TCGA-G2-A3IE TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3YS TCGA-GD-A2C5 
       20.12         2.24         1.32         4.50         1.08         7.69 
TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GD-A3OS TCGA-GU-A42P TCGA-GU-A42Q TCGA-GU-A42R 
        2.10         3.12         5.82         6.38         7.56         3.22 
TCGA-GV-A3JV TCGA-GV-A3JZ TCGA-GV-A3QH TCGA-GV-A3QK TCGA-GV-A40E TCGA-H4-A2HO 
        4.37         5.69         7.79         6.64         6.38         1.51 
TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A3WV 
        8.71         3.42         4.64 

  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
              0.82               0.10 
  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
             36.43             131.15 
  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
              5.19               7.69 
[1] "0.8 - 36.4 (5.2)"  "0.1 - 131.2 (7.7)"
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED"   "10Q LOSS MUTATED" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED"   "10Q LOSS MUTATED" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"10Q LOSS WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED"   "10Q LOSS MUTATED" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED"   "10Q LOSS MUTATED" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"10Q LOSS WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED"   "10Q LOSS MUTATED" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED"   "10Q LOSS MUTATED" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"10Q LOSS WILD-TYPE" 
[1] "hr=" "1.8"
D55V2, continuous
D55V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  10Q LOSS MUTATED      7   19
  10Q LOSS WILD-TYPE   26   79
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  FEMALE                7                 26
  MALE                 19                 79
D55V4, continuous
D55V5, continuous
D55V6, continuous
                    vv
clus                 M0 M1 MX
  10Q LOSS MUTATED   14  1 10
  10Q LOSS WILD-TYPE 61  3 41
D55V7, multiclass
    clus
vv   10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  M0               14                 61
  M1                1                  3
  MX               10                 41
                    vv
clus                 N0 N1 N2 N3 NX
  10Q LOSS MUTATED   13  3  6  0  3
  10Q LOSS WILD-TYPE 61 11 20  4  7
D55V8, multiclass
D55V9, continuous
D55V10, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  10Q LOSS MUTATED         0        9         7       10
  10Q LOSS WILD-TYPE       1       27        36       36
D55V11, multiclass
           clus
vv          10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  STAGE I                  0                  1
  STAGE II                 9                 27
  STAGE III                7                 36
  STAGE IV                10                 36

Clustering(56) Variable = 11p loss mutation analysis
D56V1, survival
                    sevent
clus2                 0  1
  11P LOSS MUTATED   28  9
  11P LOSS WILD-TYPE 64 23
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
                37                 87 
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
                 9                 23 
$`11P LOSS MUTATED`
TCGA-BT-A20N TCGA-BT-A20T TCGA-BT-A20V TCGA-BT-A20W TCGA-BT-A3PH TCGA-C4-A0EZ 
       26.10        14.89         5.06         8.35         4.64         8.98 
TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A3KJ TCGA-DK-A1A5 
        2.01         0.46         0.43         0.69         5.46         2.14 
TCGA-DK-A1A6 TCGA-DK-A1AB TCGA-DK-A1AD TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I6 
       31.40         8.91       100.47         1.81        10.59        75.32 
TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IS TCGA-DK-A3IT TCGA-E5-A2PC TCGA-FD-A3B5 
        2.20         3.98        37.84         5.52        36.43         8.94 
TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SN TCGA-FD-A3SS TCGA-G2-A2ES TCGA-GC-A3BM 
       24.30        10.98         6.81         1.94        17.26         2.86 
TCGA-GC-A3RD TCGA-GD-A2C5 TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JW TCGA-GV-A40G 
        1.02         7.69         7.56         3.22         6.41         5.33 
TCGA-H4-A2HQ 
        6.71 

$`11P LOSS WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
       12.79         7.33         2.66         6.74         6.58        11.93 
TCGA-BT-A20J TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A20U 
       19.00        12.16        17.85        19.46         5.06         8.61 
TCGA-BT-A20X TCGA-BT-A2LA TCGA-BT-A2LD TCGA-C4-A0F0 TCGA-CU-A0YN TCGA-CU-A0YO 
        8.25         5.88         3.65         1.94        12.92         4.90 
TCGA-CU-A0YR TCGA-CU-A3QU TCGA-CU-A3YL TCGA-DK-A1A3 TCGA-DK-A1A7 TCGA-DK-A1AA 
        7.20         5.19         8.09         2.53         8.98         7.04 
TCGA-DK-A1AC TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2I2 TCGA-DK-A2I4 
      118.88         7.17         5.85         6.64         7.76       123.85 
TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IU TCGA-DK-A3IV TCGA-DK-A3WW 
        7.82         8.22        10.49        11.51         9.67         8.28 
TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B6 
       10.55       131.15         0.10         8.81         8.32         6.87 
TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SM 
        4.01        11.05         8.94         7.96        32.02         6.12 
TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A43N TCGA-FD-A43U 
        5.49         4.54        46.78        19.79         7.89         6.84 
TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK 
       15.16         4.08         2.33        49.91        26.50         5.65 
TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A3IB TCGA-G2-A3IE TCGA-G2-A3VY TCGA-GC-A3I6 
       26.93        32.78         7.04        20.12         0.82         2.24 
TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RC TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GD-A3OP 
        1.32         4.50         1.38         2.50         1.08         2.10 
TCGA-GD-A3OQ TCGA-GD-A3OS TCGA-GU-A42P TCGA-GV-A3JV TCGA-GV-A3JX TCGA-GV-A3JZ 
        3.12         5.82         6.38         4.37         6.15         5.69 
TCGA-GV-A3QF TCGA-GV-A3QH TCGA-GV-A3QI TCGA-GV-A3QK TCGA-GV-A40E TCGA-H4-A2HO 
        7.63         7.79         4.11         6.64         6.38         1.51 
TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A3WV 
        8.71         3.42         4.64 

  11P LOSS MUTATED 11P LOSS WILD-TYPE 
              0.43               0.10 
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
            100.47             131.15 
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
              6.71               7.04 
[1] "0.4 - 100.5 (6.7)" "0.1 - 131.2 (7.0)"
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED"   "11P LOSS MUTATED" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED"   "11P LOSS MUTATED" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
  "11P LOSS MUTATED"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
  "11P LOSS MUTATED"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED"   "11P LOSS MUTATED" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
  "11P LOSS MUTATED"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"11P LOSS WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED"   "11P LOSS MUTATED" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED"   "11P LOSS MUTATED" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
  "11P LOSS MUTATED"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
  "11P LOSS MUTATED"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED"   "11P LOSS MUTATED" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
  "11P LOSS MUTATED"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"11P LOSS WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED"   "11P LOSS MUTATED" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED"   "11P LOSS MUTATED" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
  "11P LOSS MUTATED"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
  "11P LOSS MUTATED"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED"   "11P LOSS MUTATED" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
  "11P LOSS MUTATED"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"11P LOSS WILD-TYPE" 
[1] "hr=" "1.2"
D56V2, continuous
D56V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  11P LOSS MUTATED     12   31
  11P LOSS WILD-TYPE   21   67
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  FEMALE               12                 21
  MALE                 31                 67
D56V4, continuous
D56V5, continuous
D56V6, continuous
                    vv
clus                 M0 M1 MX
  11P LOSS MUTATED   28  3 12
  11P LOSS WILD-TYPE 47  1 39
D56V7, multiclass
    clus
vv   11P LOSS MUTATED 11P LOSS WILD-TYPE
  M0               28                 47
  M1                3                  1
  MX               12                 39
                    vv
clus                 N0 N1 N2 N3 NX
  11P LOSS MUTATED   21  6 10  1  3
  11P LOSS WILD-TYPE 53  8 16  3  7
D56V8, multiclass
D56V9, continuous
D56V10, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  11P LOSS MUTATED         0       13         7       19
  11P LOSS WILD-TYPE       1       23        36       27
D56V11, multiclass
           clus
vv          11P LOSS MUTATED 11P LOSS WILD-TYPE
  STAGE I                  0                  1
  STAGE II                13                 23
  STAGE III                7                 36
  STAGE IV                19                 27

Clustering(57) Variable = 11q loss mutation analysis
D57V1, survival
                    sevent
clus2                 0  1
  11Q LOSS MUTATED   17 11
  11Q LOSS WILD-TYPE 75 21
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
                28                 96 
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
                11                 21 
$`11Q LOSS MUTATED`
TCGA-BT-A20N TCGA-BT-A20T TCGA-BT-A20V TCGA-BT-A20W TCGA-BT-A2LA TCGA-BT-A3PH 
       26.10        14.89         5.06         8.35         5.88         4.64 
TCGA-C4-A0EZ TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A3KJ TCGA-DK-A1A5 
        8.98         0.43         0.69        12.92         5.46         2.14 
TCGA-DK-A1A6 TCGA-DK-A1AB TCGA-DK-A1AD TCGA-DK-A2I6 TCGA-DK-A3IN TCGA-DK-A3IS 
       31.40         8.91       100.47        75.32         8.22        37.84 
TCGA-E5-A2PC TCGA-FD-A3B5 TCGA-FD-A3SJ TCGA-G2-A2ES TCGA-GC-A3BM TCGA-GD-A2C5 
       36.43         8.94        24.30        17.26         2.86         7.69 
TCGA-GU-A42Q TCGA-GV-A3JW TCGA-GV-A3QK TCGA-GV-A40G 
        7.56         6.41         6.64         5.33 

$`11Q LOSS WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
       12.79         7.33         2.66         6.74         6.58        11.93 
TCGA-BT-A20J TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A20U 
       19.00        12.16        17.85        19.46         5.06         8.61 
TCGA-BT-A20X TCGA-BT-A2LD TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CU-A0YO 
        8.25         3.65         1.94         2.01         0.46         4.90 
TCGA-CU-A0YR TCGA-CU-A3QU TCGA-CU-A3YL TCGA-DK-A1A3 TCGA-DK-A1A7 TCGA-DK-A1AA 
        7.20         5.19         8.09         2.53         8.98         7.04 
TCGA-DK-A1AC TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I1 
      118.88         7.17         5.85         6.64         1.81        10.59 
TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IM TCGA-DK-A3IQ 
        7.76       123.85         2.20         3.98         7.82        10.49 
TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY 
        5.52        11.51         9.67         8.28        10.55       131.15 
TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 
        0.10         8.81         8.32         6.87         4.01        11.05 
TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SL TCGA-FD-A3SM TCGA-FD-A3SN 
        8.94         7.96        32.02        10.98         6.12         6.81 
TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A3SS TCGA-FD-A43N 
        5.49         4.54        46.78        19.79         1.94         7.89 
TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ 
        6.84        15.16         4.08         2.33        49.91        26.50 
TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A3IB TCGA-G2-A3IE TCGA-G2-A3VY 
        5.65        26.93        32.78         7.04        20.12         0.82 
TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RC TCGA-GC-A3RD TCGA-GC-A3WC 
        2.24         1.32         4.50         1.38         1.02         2.50 
TCGA-GC-A3YS TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GD-A3OS TCGA-GU-A42P TCGA-GU-A42R 
        1.08         2.10         3.12         5.82         6.38         3.22 
TCGA-GV-A3JV TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-GV-A3QF TCGA-GV-A3QH TCGA-GV-A3QI 
        4.37         6.15         5.69         7.63         7.79         4.11 
TCGA-GV-A40E TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A3WV 
        6.38         1.51         6.71         8.71         3.42         4.64 

  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
              0.43               0.10 
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
            100.47             131.15 
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
             8.285              6.775 
[1] "0.4 - 100.5 (8.3)" "0.1 - 131.2 (6.8)"
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED"   "11Q LOSS MUTATED" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
  "11Q LOSS MUTATED"   "11Q LOSS MUTATED"   "11Q LOSS MUTATED" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
  "11Q LOSS MUTATED"   "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"11Q LOSS WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED"   "11Q LOSS MUTATED" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
  "11Q LOSS MUTATED"   "11Q LOSS MUTATED"   "11Q LOSS MUTATED" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
  "11Q LOSS MUTATED"   "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"11Q LOSS WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED"   "11Q LOSS MUTATED" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
  "11Q LOSS MUTATED"   "11Q LOSS MUTATED"   "11Q LOSS MUTATED" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
  "11Q LOSS MUTATED"   "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"11Q LOSS WILD-TYPE" 
[1] "hr=" "1.1"
D57V2, continuous
D57V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  11Q LOSS MUTATED      7   25
  11Q LOSS WILD-TYPE   26   73
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  FEMALE                7                 26
  MALE                 25                 73
D57V4, continuous
D57V5, continuous
D57V6, continuous
                    vv
clus                 M0 M1 MX
  11Q LOSS MUTATED   22  1  9
  11Q LOSS WILD-TYPE 53  3 42
D57V7, multiclass
    clus
vv   11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  M0               22                 53
  M1                1                  3
  MX                9                 42
                    vv
clus                 N0 N1 N2 N3 NX
  11Q LOSS MUTATED   17  6  7  0  1
  11Q LOSS WILD-TYPE 57  8 19  4  9
D57V8, multiclass
D57V9, continuous
D57V10, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  11Q LOSS MUTATED         0        9         7       13
  11Q LOSS WILD-TYPE       1       27        36       33
D57V11, multiclass
           clus
vv          11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  STAGE I                  0                  1
  STAGE II                 9                 27
  STAGE III                7                 36
  STAGE IV                13                 33

Clustering(58) Variable = 12p loss mutation analysis
D58V1, survival
                    sevent
clus2                 0  1
  12P LOSS MUTATED    3  1
  12P LOSS WILD-TYPE 89 31
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
                 4                120 
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
                 1                 31 
$`12P LOSS MUTATED`
TCGA-BT-A2LA TCGA-CU-A3QU TCGA-FD-A3SR TCGA-GV-A3JW 
        5.88         5.19        19.79         6.41 

$`12P LOSS WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
       12.79         7.33         2.66         6.74         6.58        11.93 
TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R 
       19.00        26.10        12.16        17.85        19.46         5.06 
TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LD 
       14.89         8.61         5.06         8.35         8.25         3.65 
TCGA-BT-A3PH TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A1HS 
        4.64         8.98         1.94         2.01         0.46         0.43 
TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3KJ TCGA-CU-A3YL 
        0.69        12.92         4.90         7.20         5.46         8.09 
TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB 
        2.53         2.14        31.40         8.98         7.04         8.91 
TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX 
      118.88       100.47         7.17         5.85         6.64         1.81 
TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IK TCGA-DK-A3IL 
       10.59         7.76       123.85        75.32         2.20         3.98 
TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT TCGA-DK-A3IU 
        7.82         8.22        10.49        37.84         5.52        11.51 
TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E5-A2PC TCGA-E7-A3Y1 
        9.67         8.28        10.55       131.15        36.43         0.10 
TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 
        8.81         8.32         8.94         6.87         4.01        11.05 
TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SM 
        8.94         7.96        32.02        24.30        10.98         6.12 
TCGA-FD-A3SN TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SS TCGA-FD-A43N 
        6.81         5.49         4.54        46.78         1.94         7.89 
TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ 
        6.84        15.16         4.08         2.33        49.91        26.50 
TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE 
        5.65        26.93        32.78        17.26         7.04        20.12 
TCGA-G2-A3VY TCGA-GC-A3BM TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RC 
        0.82         2.86         2.24         1.32         4.50         1.38 
TCGA-GC-A3RD TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ 
        1.02         2.50         1.08         7.69         2.10         3.12 
TCGA-GD-A3OS TCGA-GU-A42P TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JX 
        5.82         6.38         7.56         3.22         4.37         6.15 
TCGA-GV-A3JZ TCGA-GV-A3QF TCGA-GV-A3QH TCGA-GV-A3QI TCGA-GV-A3QK TCGA-GV-A40E 
        5.69         7.63         7.79         4.11         6.64         6.38 
TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A3WV 
        5.33         1.51         6.71         8.71         3.42         4.64 

  12P LOSS MUTATED 12P LOSS WILD-TYPE 
              5.19               0.10 
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
             19.79             131.15 
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
             6.145              7.040 
[1] "5.2 - 19.8 (6.1)"  "0.1 - 131.2 (7.0)"
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE"   "12P LOSS MUTATED" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
  "12P LOSS MUTATED" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
  "12P LOSS MUTATED" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE"   "12P LOSS MUTATED" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"12P LOSS WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE"   "12P LOSS MUTATED" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
  "12P LOSS MUTATED" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
  "12P LOSS MUTATED" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE"   "12P LOSS MUTATED" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"12P LOSS WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE"   "12P LOSS MUTATED" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
  "12P LOSS MUTATED" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
  "12P LOSS MUTATED" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE"   "12P LOSS MUTATED" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"12P LOSS WILD-TYPE" 
[1] "hr=" "1.1"
D58V2, continuous
D58V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  12P LOSS MUTATED      0    5
  12P LOSS WILD-TYPE   33   93
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  FEMALE                0                 33
  MALE                  5                 93
D58V4, continuous
[1] "Remove cluster labels:" "12P LOSS MUTATED"      
clus
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
                 2                 35 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CF-A3MF 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CF-A3MG         TCGA-CF-A3MH         TCGA-DK-A2HX 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IV         TCGA-DK-A3WX 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RC         TCGA-GC-A3RD 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-GC-A3YS         TCGA-GD-A3OS         TCGA-GV-A3JV 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
D58V5, continuous
D58V6, continuous
                    vv
clus                 M0 M1 MX
  12P LOSS MUTATED    3  0  2
  12P LOSS WILD-TYPE 72  4 49
D58V7, multiclass
    clus
vv   12P LOSS MUTATED 12P LOSS WILD-TYPE
  M0                3                 72
  M1                0                  4
  MX                2                 49
                    vv
clus                 N0 N1 N2 N3 NX
  12P LOSS MUTATED    2  1  1  0  1
  12P LOSS WILD-TYPE 72 13 25  4  9
D58V8, multiclass
D58V9, continuous
D58V10, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  12P LOSS MUTATED         0        2         1        2
  12P LOSS WILD-TYPE       1       34        42       44
D58V11, multiclass
           clus
vv          12P LOSS MUTATED 12P LOSS WILD-TYPE
  STAGE I                  0                  1
  STAGE II                 2                 34
  STAGE III                1                 42
  STAGE IV                 2                 44

Clustering(59) Variable = 12q loss mutation analysis
D59V1, survival
                    sevent
clus2                 0  1
  12Q LOSS MUTATED    5  2
  12Q LOSS WILD-TYPE 87 30
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
                 7                117 
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
                 2                 30 
$`12Q LOSS MUTATED`
TCGA-C4-A0F0 TCGA-CU-A0YN TCGA-CU-A3QU TCGA-FD-A3SO TCGA-FD-A3SS TCGA-GC-A3RD 
        1.94        12.92         5.19         5.49         1.94         1.02 
TCGA-GV-A3JW 
        6.41 

$`12Q LOSS WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
       12.79         7.33         2.66         6.74         6.58        11.93 
TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R 
       19.00        26.10        12.16        17.85        19.46         5.06 
TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LA 
       14.89         8.61         5.06         8.35         8.25         5.88 
TCGA-BT-A2LD TCGA-BT-A3PH TCGA-C4-A0EZ TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A1HS 
        3.65         4.64         8.98         2.01         0.46         0.43 
TCGA-CF-A27C TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3KJ TCGA-CU-A3YL TCGA-DK-A1A3 
        0.69         4.90         7.20         5.46         8.09         2.53 
TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AC 
        2.14        31.40         8.98         7.04         8.91       118.88 
TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I1 
      100.47         7.17         5.85         6.64         1.81        10.59 
TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IM 
        7.76       123.85        75.32         2.20         3.98         7.82 
TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3IV 
        8.22        10.49        37.84         5.52        11.51         9.67 
TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E5-A2PC TCGA-E7-A3Y1 TCGA-FD-A3B3 
        8.28        10.55       131.15        36.43         0.10         8.81 
TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3N5 
        8.32         8.94         6.87         4.01        11.05         8.94 
TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SM TCGA-FD-A3SN 
        7.96        32.02        24.30        10.98         6.12         6.81 
TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A43N TCGA-FD-A43U TCGA-FJ-A3Z7 
        4.54        46.78        19.79         7.89         6.84        15.16 
TCGA-FJ-A3ZF TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL 
        4.08         2.33        49.91        26.50         5.65        26.93 
TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-G2-A3VY TCGA-GC-A3BM 
       32.78        17.26         7.04        20.12         0.82         2.86 
TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RC TCGA-GC-A3WC TCGA-GC-A3YS 
        2.24         1.32         4.50         1.38         2.50         1.08 
TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GD-A3OS TCGA-GU-A42P TCGA-GU-A42Q 
        7.69         2.10         3.12         5.82         6.38         7.56 
TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-GV-A3QF TCGA-GV-A3QH 
        3.22         4.37         6.15         5.69         7.63         7.79 
TCGA-GV-A3QI TCGA-GV-A3QK TCGA-GV-A40E TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ 
        4.11         6.64         6.38         5.33         1.51         6.71 
TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A3WV 
        8.71         3.42         4.64 

  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
              1.02               0.10 
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
             12.92             131.15 
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
              5.19               7.17 
[1] "1.0 - 12.9 (5.2)"  "0.1 - 131.2 (7.2)"
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
  "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE"   "12Q LOSS MUTATED" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
  "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
  "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"12Q LOSS WILD-TYPE"   "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
  "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE"   "12Q LOSS MUTATED" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"12Q LOSS WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
  "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE"   "12Q LOSS MUTATED" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
  "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
  "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"12Q LOSS WILD-TYPE"   "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
  "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE"   "12Q LOSS MUTATED" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"12Q LOSS WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
  "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE"   "12Q LOSS MUTATED" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
  "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
  "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"12Q LOSS WILD-TYPE"   "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
  "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE"   "12Q LOSS MUTATED" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"12Q LOSS WILD-TYPE" 
[1] "hr=" "3.2"
D59V2, continuous
D59V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  12Q LOSS MUTATED      1    7
  12Q LOSS WILD-TYPE   32   91
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  FEMALE                1                 32
  MALE                  7                 91
D59V4, continuous
D59V5, continuous
D59V6, continuous
                    vv
clus                 M0 M1 MX
  12Q LOSS MUTATED    5  0  3
  12Q LOSS WILD-TYPE 70  4 48
D59V7, multiclass
    clus
vv   12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  M0                5                 70
  M1                0                  4
  MX                3                 48
                    vv
clus                 N0 N1 N2 N3 NX
  12Q LOSS MUTATED    4  2  0  1  1
  12Q LOSS WILD-TYPE 70 12 26  3  9
D59V8, multiclass
D59V9, continuous
D59V10, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  12Q LOSS MUTATED         0        3         2        3
  12Q LOSS WILD-TYPE       1       33        41       43
D59V11, multiclass
           clus
vv          12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  STAGE I                  0                  1
  STAGE II                 3                 33
  STAGE III                2                 41
  STAGE IV                 3                 43

Clustering(60) Variable = 13q loss mutation analysis
D60V1, survival
                    sevent
clus2                 0  1
  13Q LOSS MUTATED   12  4
  13Q LOSS WILD-TYPE 80 28
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
                16                108 
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
                 4                 28 
$`13Q LOSS MUTATED`
TCGA-BT-A20N TCGA-BT-A20V TCGA-BT-A20X TCGA-BT-A2LA TCGA-C4-A0F0 TCGA-DK-A1A3 
       26.10         5.06         8.25         5.88         1.94         2.53 
TCGA-DK-A1A5 TCGA-DK-A1AC TCGA-DK-A2I6 TCGA-FD-A3SN TCGA-G2-A2ES TCGA-GC-A3BM 
        2.14       118.88        75.32         6.81        17.26         2.86 
TCGA-GU-A42Q TCGA-GV-A3JW TCGA-GV-A3QI TCGA-K4-A3WV 
        7.56         6.41         4.11         4.64 

$`13Q LOSS WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
       12.79         7.33         2.66         6.74         6.58        11.93 
TCGA-BT-A20J TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A20T 
       19.00        12.16        17.85        19.46         5.06        14.89 
TCGA-BT-A20U TCGA-BT-A20W TCGA-BT-A2LD TCGA-BT-A3PH TCGA-C4-A0EZ TCGA-C4-A0F6 
        8.61         8.35         3.65         4.64         8.98         2.01 
TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR 
        0.46         0.43         0.69        12.92         4.90         7.20 
TCGA-CU-A3KJ TCGA-CU-A3QU TCGA-CU-A3YL TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA 
        5.46         5.19         8.09        31.40         8.98         7.04 
TCGA-DK-A1AB TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX 
        8.91       100.47         7.17         5.85         6.64         1.81 
TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IM 
       10.59         7.76       123.85         2.20         3.98         7.82 
TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3IV 
        8.22        10.49        37.84         5.52        11.51         9.67 
TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E5-A2PC TCGA-E7-A3Y1 TCGA-FD-A3B3 
        8.28        10.55       131.15        36.43         0.10         8.81 
TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3N5 
        8.32         8.94         6.87         4.01        11.05         8.94 
TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SM TCGA-FD-A3SO 
        7.96        32.02        24.30        10.98         6.12         5.49 
TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A3SS TCGA-FD-A43N TCGA-FD-A43U 
        4.54        46.78        19.79         1.94         7.89         6.84 
TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK 
       15.16         4.08         2.33        49.91        26.50         5.65 
TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A3IB TCGA-G2-A3IE TCGA-G2-A3VY TCGA-GC-A3I6 
       26.93        32.78         7.04        20.12         0.82         2.24 
TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RC TCGA-GC-A3RD TCGA-GC-A3WC TCGA-GC-A3YS 
        1.32         4.50         1.38         1.02         2.50         1.08 
TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GD-A3OS TCGA-GU-A42P TCGA-GU-A42R 
        7.69         2.10         3.12         5.82         6.38         3.22 
TCGA-GV-A3JV TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-GV-A3QF TCGA-GV-A3QH TCGA-GV-A3QK 
        4.37         6.15         5.69         7.63         7.79         6.64 
TCGA-GV-A40E TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-K4-A3WS TCGA-K4-A3WU 
        6.38         5.33         1.51         6.71         8.71         3.42 

  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
              1.94               0.10 
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
            118.88             131.15 
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
             6.145              7.105 
[1] "1.9 - 118.9 (6.1)" "0.1 - 131.2 (7.1)"
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED"   "13Q LOSS MUTATED" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
  "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
  "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
  "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
  "13Q LOSS MUTATED" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED"   "13Q LOSS MUTATED" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
  "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
  "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
  "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
  "13Q LOSS MUTATED" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED"   "13Q LOSS MUTATED" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
  "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
  "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
  "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
  "13Q LOSS MUTATED" 
[1] "hr=" "1.1"
D60V2, continuous
D60V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  13Q LOSS MUTATED      2   16
  13Q LOSS WILD-TYPE   31   82
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  FEMALE                2                 31
  MALE                 16                 82
D60V4, continuous
D60V5, continuous
D60V6, continuous
                    vv
clus                 M0 M1 MX
  13Q LOSS MUTATED   12  0  6
  13Q LOSS WILD-TYPE 63  4 45
D60V7, multiclass
    clus
vv   13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  M0               12                 63
  M1                0                  4
  MX                6                 45
                    vv
clus                 N0 N1 N2 N3 NX
  13Q LOSS MUTATED   11  1  4  0  2
  13Q LOSS WILD-TYPE 63 13 22  4  8
D60V8, multiclass
D60V9, continuous
D60V10, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  13Q LOSS MUTATED         0        7         5        5
  13Q LOSS WILD-TYPE       1       29        38       41
D60V11, multiclass
           clus
vv          13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  STAGE I                  0                  1
  STAGE II                 7                 29
  STAGE III                5                 38
  STAGE IV                 5                 41

Clustering(61) Variable = 14q loss mutation analysis
D61V1, survival
                    sevent
clus2                 0  1
  14Q LOSS MUTATED   17  4
  14Q LOSS WILD-TYPE 75 28
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
                21                103 
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
                 4                 28 
$`14Q LOSS MUTATED`
TCGA-BT-A20J TCGA-BT-A20T TCGA-BT-A20V TCGA-CF-A1HS TCGA-CU-A0YR TCGA-DK-A1A3 
       19.00        14.89         5.06         0.43         7.20         2.53 
TCGA-DK-A1A5 TCGA-DK-A1AD TCGA-DK-A2I1 TCGA-DK-A2I6 TCGA-DK-A3IS TCGA-FD-A3SN 
        2.14       100.47        10.59        75.32        37.84         6.81 
TCGA-FD-A43N TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-G2-A2EF TCGA-G2-A3VY TCGA-GC-A3RB 
        7.89        15.16         4.08        49.91         0.82         4.50 
TCGA-GV-A3JZ TCGA-GV-A3QF TCGA-GV-A40G 
        5.69         7.63         5.33 

$`14Q LOSS WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
       12.79         7.33         2.66         6.74         6.58        11.93 
TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A20U 
       26.10        12.16        17.85        19.46         5.06         8.61 
TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LA TCGA-BT-A2LD TCGA-BT-A3PH TCGA-C4-A0EZ 
        8.35         8.25         5.88         3.65         4.64         8.98 
TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO 
        1.94         2.01         0.46         0.69        12.92         4.90 
TCGA-CU-A3KJ TCGA-CU-A3QU TCGA-CU-A3YL TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA 
        5.46         5.19         8.09        31.40         8.98         7.04 
TCGA-DK-A1AB TCGA-DK-A1AC TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX 
        8.91       118.88         7.17         5.85         6.64         1.81 
TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IM TCGA-DK-A3IN 
        7.76       123.85         2.20         3.98         7.82         8.22 
TCGA-DK-A3IQ TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX 
       10.49         5.52        11.51         9.67         8.28        10.55 
TCGA-DK-A3WY TCGA-E5-A2PC TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 
      131.15        36.43         0.10         8.81         8.32         8.94 
TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA 
        6.87         4.01        11.05         8.94         7.96        32.02 
TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SM TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ 
       24.30        10.98         6.12         5.49         4.54        46.78 
TCGA-FD-A3SR TCGA-FD-A3SS TCGA-FD-A43U TCGA-FT-A3EE TCGA-G2-A2EJ TCGA-G2-A2EK 
       19.79         1.94         6.84         2.33        26.50         5.65 
TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GC-A3BM 
       26.93        32.78        17.26         7.04        20.12         2.86 
TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RC TCGA-GC-A3RD TCGA-GC-A3WC TCGA-GC-A3YS 
        2.24         1.32         1.38         1.02         2.50         1.08 
TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GD-A3OS TCGA-GU-A42P TCGA-GU-A42Q 
        7.69         2.10         3.12         5.82         6.38         7.56 
TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3QH TCGA-GV-A3QI 
        3.22         4.37         6.41         6.15         7.79         4.11 
TCGA-GV-A3QK TCGA-GV-A40E TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-K4-A3WS TCGA-K4-A3WU 
        6.64         6.38         1.51         6.71         8.71         3.42 
TCGA-K4-A3WV 
        4.64 

  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
              0.43               0.10 
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
            100.47             131.15 
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
              7.20               6.87 
[1] "0.4 - 100.5 (7.2)" "0.1 - 131.2 (6.9)"
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED"   "14Q LOSS MUTATED" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED"   "14Q LOSS MUTATED" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"14Q LOSS WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED"   "14Q LOSS MUTATED" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED"   "14Q LOSS MUTATED" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"14Q LOSS WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED"   "14Q LOSS MUTATED" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED"   "14Q LOSS MUTATED" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"14Q LOSS WILD-TYPE" 
[1] "hr=" "1.9"
D61V2, continuous
D61V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  14Q LOSS MUTATED      3   19
  14Q LOSS WILD-TYPE   30   79
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  FEMALE                3                 30
  MALE                 19                 79
D61V4, continuous
D61V5, continuous
D61V6, continuous
                    vv
clus                 M0 M1 MX
  14Q LOSS MUTATED   14  0  7
  14Q LOSS WILD-TYPE 61  4 44
D61V7, multiclass
    clus
vv   14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  M0               14                 61
  M1                0                  4
  MX                7                 44
                    vv
clus                 N0 N1 N2 N3 NX
  14Q LOSS MUTATED   12  2  6  1  0
  14Q LOSS WILD-TYPE 62 12 20  3 10
D61V8, multiclass
D61V9, continuous
D61V10, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  14Q LOSS MUTATED         0        8         3       10
  14Q LOSS WILD-TYPE       1       28        40       36
D61V11, multiclass
           clus
vv          14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  STAGE I                  0                  1
  STAGE II                 8                 28
  STAGE III                3                 40
  STAGE IV                10                 36

Clustering(62) Variable = 15q loss mutation analysis
D62V1, survival
                    sevent
clus2                 0  1
  15Q LOSS MUTATED   11  4
  15Q LOSS WILD-TYPE 81 28
  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
                15                109 
  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
                 4                 28 
$`15Q LOSS MUTATED`
TCGA-BT-A20X TCGA-C4-A0EZ TCGA-CF-A1HS TCGA-CU-A3KJ TCGA-DK-A1A7 TCGA-DK-A3IM 
        8.25         8.98         0.43         5.46         8.98         7.82 
TCGA-DK-A3IN TCGA-E5-A2PC TCGA-FD-A3NA TCGA-FD-A3SN TCGA-G2-A2EF TCGA-G2-A2EL 
        8.22        36.43        32.02         6.81        49.91        26.93 
TCGA-GV-A3JX TCGA-GV-A3QF TCGA-H4-A2HQ 
        6.15         7.63         6.71 

$`15Q LOSS WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
       12.79         7.33         2.66         6.74         6.58        11.93 
TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R 
       19.00        26.10        12.16        17.85        19.46         5.06 
TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20W TCGA-BT-A2LA TCGA-BT-A2LD 
       14.89         8.61         5.06         8.35         5.88         3.65 
TCGA-BT-A3PH TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A27C TCGA-CU-A0YN 
        4.64         1.94         2.01         0.46         0.69        12.92 
TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3QU TCGA-CU-A3YL TCGA-DK-A1A3 TCGA-DK-A1A5 
        4.90         7.20         5.19         8.09         2.53         2.14 
TCGA-DK-A1A6 TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A1AE 
       31.40         7.04         8.91       118.88       100.47         7.17 
TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I4 
        5.85         6.64         1.81        10.59         7.76       123.85 
TCGA-DK-A2I6 TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT 
       75.32         2.20         3.98        10.49        37.84         5.52 
TCGA-DK-A3IU TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E7-A3Y1 
       11.51         9.67         8.28        10.55       131.15         0.10 
TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 
        8.81         8.32         8.94         6.87         4.01        11.05 
TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SM TCGA-FD-A3SO 
        8.94         7.96        24.30        10.98         6.12         5.49 
TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A3SS TCGA-FD-A43N TCGA-FD-A43U 
        4.54        46.78        19.79         1.94         7.89         6.84 
TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-FT-A3EE TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EO 
       15.16         4.08         2.33        26.50         5.65        32.78 
TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-G2-A3VY TCGA-GC-A3BM TCGA-GC-A3I6 
       17.26         7.04        20.12         0.82         2.86         2.24 
TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RC TCGA-GC-A3RD TCGA-GC-A3WC TCGA-GC-A3YS 
        1.32         4.50         1.38         1.02         2.50         1.08 
TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GD-A3OS TCGA-GU-A42P TCGA-GU-A42Q 
        7.69         2.10         3.12         5.82         6.38         7.56 
TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JW TCGA-GV-A3JZ TCGA-GV-A3QH TCGA-GV-A3QI 
        3.22         4.37         6.41         5.69         7.79         4.11 
TCGA-GV-A3QK TCGA-GV-A40E TCGA-GV-A40G TCGA-H4-A2HO TCGA-K4-A3WS TCGA-K4-A3WU 
        6.64         6.38         5.33         1.51         8.71         3.42 
TCGA-K4-A3WV 
        4.64 

  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
              0.43               0.10 
  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
             49.91             131.15 
  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
              8.22               6.74 
[1] "0.4 - 49.9 (8.2)"  "0.1 - 131.2 (6.7)"
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
  "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
  "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
  "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
  "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
  "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"15Q LOSS WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
  "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
  "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
  "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
  "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
  "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"15Q LOSS WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
  "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
  "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
  "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
  "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
  "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"15Q LOSS WILD-TYPE" 
[1] "hr=" "1.5"
D62V2, continuous
D62V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  15Q LOSS MUTATED      5   10
  15Q LOSS WILD-TYPE   28   88
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  FEMALE                5                 28
  MALE                 10                 88
D62V4, continuous
D62V5, continuous
D62V6, continuous
                    vv
clus                 M0 M1 MX
  15Q LOSS MUTATED    8  2  5
  15Q LOSS WILD-TYPE 67  2 46
D62V7, multiclass
    clus
vv   15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  M0                8                 67
  M1                2                  2
  MX                5                 46
                    vv
clus                 N0 N1 N2 N3 NX
  15Q LOSS MUTATED    9  2  3  0  1
  15Q LOSS WILD-TYPE 65 12 23  4  9
D62V8, multiclass
D62V9, continuous
D62V10, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  15Q LOSS MUTATED         0        3         4        7
  15Q LOSS WILD-TYPE       1       33        39       39
D62V11, multiclass
           clus
vv          15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  STAGE I                  0                  1
  STAGE II                 3                 33
  STAGE III                4                 39
  STAGE IV                 7                 39

Clustering(63) Variable = 16p loss mutation analysis
D63V1, survival
                    sevent
clus2                 0  1
  16P LOSS MUTATED   11  2
  16P LOSS WILD-TYPE 81 30
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
                13                111 
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
                 2                 30 
$`16P LOSS MUTATED`
TCGA-CU-A0YN TCGA-CU-A3KJ TCGA-CU-A3QU TCGA-DK-A1A3 TCGA-DK-A1AC TCGA-DK-A2HX 
       12.92         5.46         5.19         2.53       118.88         1.81 
TCGA-FD-A3SO TCGA-G2-A2EF TCGA-GC-A3RC TCGA-GU-A42P TCGA-GV-A3JX TCGA-GV-A3JZ 
        5.49        49.91         1.38         6.38         6.15         5.69 
TCGA-GV-A3QH 
        7.79 

$`16P LOSS WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
       12.79         7.33         2.66         6.74         6.58        11.93 
TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R 
       19.00        26.10        12.16        17.85        19.46         5.06 
TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LA 
       14.89         8.61         5.06         8.35         8.25         5.88 
TCGA-BT-A2LD TCGA-BT-A3PH TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR 
        3.65         4.64         8.98         1.94         2.01         0.46 
TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3YL TCGA-DK-A1A5 
        0.43         0.69         4.90         7.20         8.09         2.14 
TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AD TCGA-DK-A1AE 
       31.40         8.98         7.04         8.91       100.47         7.17 
TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A2I6 
        5.85         6.64        10.59         7.76       123.85        75.32 
TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS 
        2.20         3.98         7.82         8.22        10.49        37.84 
TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY 
        5.52        11.51         9.67         8.28        10.55       131.15 
TCGA-E5-A2PC TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 
       36.43         0.10         8.81         8.32         8.94         6.87 
TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ 
        4.01        11.05         8.94         7.96        32.02        24.30 
TCGA-FD-A3SL TCGA-FD-A3SM TCGA-FD-A3SN TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR 
       10.98         6.12         6.81         4.54        46.78        19.79 
TCGA-FD-A3SS TCGA-FD-A43N TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-FT-A3EE 
        1.94         7.89         6.84        15.16         4.08         2.33 
TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB 
       26.50         5.65        26.93        32.78        17.26         7.04 
TCGA-G2-A3IE TCGA-G2-A3VY TCGA-GC-A3BM TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RB 
       20.12         0.82         2.86         2.24         1.32         4.50 
TCGA-GC-A3RD TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ 
        1.02         2.50         1.08         7.69         2.10         3.12 
TCGA-GD-A3OS TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JW TCGA-GV-A3QF 
        5.82         7.56         3.22         4.37         6.41         7.63 
TCGA-GV-A3QI TCGA-GV-A3QK TCGA-GV-A40E TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ 
        4.11         6.64         6.38         5.33         1.51         6.71 
TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A3WV 
        8.71         3.42         4.64 

  16P LOSS MUTATED 16P LOSS WILD-TYPE 
              1.38               0.10 
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
            118.88             131.15 
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
              5.69               7.17 
[1] "1.4 - 118.9 (5.7)" "0.1 - 131.2 (7.2)"
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE"   "16P LOSS MUTATED" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE"   "16P LOSS MUTATED" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
  "16P LOSS MUTATED" "16P LOSS WILD-TYPE"   "16P LOSS MUTATED" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE"   "16P LOSS MUTATED" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"16P LOSS WILD-TYPE"   "16P LOSS MUTATED" "16P LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
  "16P LOSS MUTATED" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"16P LOSS WILD-TYPE"   "16P LOSS MUTATED" "16P LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE"   "16P LOSS MUTATED" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"16P LOSS WILD-TYPE"   "16P LOSS MUTATED" "16P LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
  "16P LOSS MUTATED"   "16P LOSS MUTATED" "16P LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
  "16P LOSS MUTATED" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"16P LOSS WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE"   "16P LOSS MUTATED" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE"   "16P LOSS MUTATED" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
  "16P LOSS MUTATED" "16P LOSS WILD-TYPE"   "16P LOSS MUTATED" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE"   "16P LOSS MUTATED" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"16P LOSS WILD-TYPE"   "16P LOSS MUTATED" "16P LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
  "16P LOSS MUTATED" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"16P LOSS WILD-TYPE"   "16P LOSS MUTATED" "16P LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE"   "16P LOSS MUTATED" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"16P LOSS WILD-TYPE"   "16P LOSS MUTATED" "16P LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
  "16P LOSS MUTATED"   "16P LOSS MUTATED" "16P LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
  "16P LOSS MUTATED" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"16P LOSS WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE"   "16P LOSS MUTATED" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE"   "16P LOSS MUTATED" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
  "16P LOSS MUTATED" "16P LOSS WILD-TYPE"   "16P LOSS MUTATED" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE"   "16P LOSS MUTATED" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"16P LOSS WILD-TYPE"   "16P LOSS MUTATED" "16P LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
  "16P LOSS MUTATED" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"16P LOSS WILD-TYPE"   "16P LOSS MUTATED" "16P LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE"   "16P LOSS MUTATED" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"16P LOSS WILD-TYPE"   "16P LOSS MUTATED" "16P LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
  "16P LOSS MUTATED"   "16P LOSS MUTATED" "16P LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
  "16P LOSS MUTATED" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"16P LOSS WILD-TYPE" 
[1] "hr=" "1.7"
D63V2, continuous
D63V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  16P LOSS MUTATED      1   13
  16P LOSS WILD-TYPE   32   85
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  FEMALE                1                 32
  MALE                 13                 85
D63V4, continuous
D63V5, continuous
D63V6, continuous
                    vv
clus                 M0 M1 MX
  16P LOSS MUTATED    9  0  5
  16P LOSS WILD-TYPE 66  4 46
D63V7, multiclass
    clus
vv   16P LOSS MUTATED 16P LOSS WILD-TYPE
  M0                9                 66
  M1                0                  4
  MX                5                 46
                    vv
clus                 N0 N1 N2 N3 NX
  16P LOSS MUTATED    6  3  3  1  1
  16P LOSS WILD-TYPE 68 11 23  3  9
D63V8, multiclass
D63V9, continuous
D63V10, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  16P LOSS MUTATED         0        3         4        6
  16P LOSS WILD-TYPE       1       33        39       40
D63V11, multiclass
           clus
vv          16P LOSS MUTATED 16P LOSS WILD-TYPE
  STAGE I                  0                  1
  STAGE II                 3                 33
  STAGE III                4                 39
  STAGE IV                 6                 40

Clustering(64) Variable = 16q loss mutation analysis
D64V1, survival
                    sevent
clus2                 0  1
  16Q LOSS MUTATED   11  3
  16Q LOSS WILD-TYPE 81 29
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
                14                110 
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
                 3                 29 
$`16Q LOSS MUTATED`
TCGA-CU-A0YN TCGA-CU-A3QU TCGA-DK-A1A3 TCGA-DK-A1AC TCGA-DK-A2HX TCGA-DK-A3IV 
       12.92         5.19         2.53       118.88         1.81         9.67 
TCGA-FD-A3SO TCGA-FD-A3SS TCGA-GC-A3RC TCGA-GU-A42P TCGA-GV-A3JX TCGA-GV-A3JZ 
        5.49         1.94         1.38         6.38         6.15         5.69 
TCGA-GV-A3QH TCGA-K4-A3WV 
        7.79         4.64 

$`16Q LOSS WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
       12.79         7.33         2.66         6.74         6.58        11.93 
TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R 
       19.00        26.10        12.16        17.85        19.46         5.06 
TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LA 
       14.89         8.61         5.06         8.35         8.25         5.88 
TCGA-BT-A2LD TCGA-BT-A3PH TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR 
        3.65         4.64         8.98         1.94         2.01         0.46 
TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3KJ TCGA-CU-A3YL 
        0.43         0.69         4.90         7.20         5.46         8.09 
TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AD 
        2.14        31.40         8.98         7.04         8.91       100.47 
TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I4 
        7.17         5.85         6.64        10.59         7.76       123.85 
TCGA-DK-A2I6 TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IQ 
       75.32         2.20         3.98         7.82         8.22        10.49 
TCGA-DK-A3IS TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY 
       37.84         5.52        11.51         8.28        10.55       131.15 
TCGA-E5-A2PC TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 
       36.43         0.10         8.81         8.32         8.94         6.87 
TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ 
        4.01        11.05         8.94         7.96        32.02        24.30 
TCGA-FD-A3SL TCGA-FD-A3SM TCGA-FD-A3SN TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR 
       10.98         6.12         6.81         4.54        46.78        19.79 
TCGA-FD-A43N TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-FT-A3EE TCGA-G2-A2EF 
        7.89         6.84        15.16         4.08         2.33        49.91 
TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB 
       26.50         5.65        26.93        32.78        17.26         7.04 
TCGA-G2-A3IE TCGA-G2-A3VY TCGA-GC-A3BM TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RB 
       20.12         0.82         2.86         2.24         1.32         4.50 
TCGA-GC-A3RD TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ 
        1.02         2.50         1.08         7.69         2.10         3.12 
TCGA-GD-A3OS TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JW TCGA-GV-A3QF 
        5.82         7.56         3.22         4.37         6.41         7.63 
TCGA-GV-A3QI TCGA-GV-A3QK TCGA-GV-A40E TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ 
        4.11         6.64         6.38         5.33         1.51         6.71 
TCGA-K4-A3WS TCGA-K4-A3WU 
        8.71         3.42 

  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
              1.38               0.10 
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
            118.88             131.15 
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
             5.590              7.185 
[1] "1.4 - 118.9 (5.6)" "0.1 - 131.2 (7.2)"
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
  "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
  "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
  "16Q LOSS MUTATED"   "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
  "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
  "16Q LOSS MUTATED" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
  "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
  "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
  "16Q LOSS MUTATED"   "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
  "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
  "16Q LOSS MUTATED" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
  "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
  "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
  "16Q LOSS MUTATED"   "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
  "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
  "16Q LOSS MUTATED" 
[1] "hr=" "1.2"
D64V2, continuous
D64V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  16Q LOSS MUTATED      2   13
  16Q LOSS WILD-TYPE   31   85
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  FEMALE                2                 31
  MALE                 13                 85
D64V4, continuous
D64V5, continuous
D64V6, continuous
                    vv
clus                 M0 M1 MX
  16Q LOSS MUTATED    8  0  7
  16Q LOSS WILD-TYPE 67  4 44
D64V7, multiclass
    clus
vv   16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  M0                8                 67
  M1                0                  4
  MX                7                 44
                    vv
clus                 N0 N1 N2 N3 NX
  16Q LOSS MUTATED    5  3  3  2  2
  16Q LOSS WILD-TYPE 69 11 23  2  8
D64V8, multiclass
D64V9, continuous
D64V10, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  16Q LOSS MUTATED         0        4         3        7
  16Q LOSS WILD-TYPE       1       32        40       39
D64V11, multiclass
           clus
vv          16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  STAGE I                  0                  1
  STAGE II                 4                 32
  STAGE III                3                 40
  STAGE IV                 7                 39

Clustering(65) Variable = 17p loss mutation analysis
D65V1, survival
                    sevent
clus2                 0  1
  17P LOSS MUTATED   25  9
  17P LOSS WILD-TYPE 67 23
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
                34                 90 
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
                 9                 23 
$`17P LOSS MUTATED`
TCGA-BT-A20N TCGA-BT-A20P TCGA-BT-A20T TCGA-BT-A20X TCGA-BT-A2LA TCGA-BT-A3PH 
       26.10        17.85        14.89         8.25         5.88         4.64 
TCGA-C4-A0F0 TCGA-CF-A1HR TCGA-CF-A27C TCGA-CU-A3KJ TCGA-DK-A1AB TCGA-DK-A2HX 
        1.94         0.46         0.69         5.46         8.91         1.81 
TCGA-DK-A3IL TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT TCGA-DK-A3IV TCGA-E5-A2PC 
        3.98        10.49        37.84         5.52         9.67        36.43 
TCGA-FD-A3B4 TCGA-FD-A3NA TCGA-FD-A3SN TCGA-FD-A3SO TCGA-G2-A2EF TCGA-G2-A2EJ 
        8.32        32.02         6.81         5.49        49.91        26.50 
TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A3IE TCGA-GC-A3BM TCGA-GC-A3RD TCGA-GD-A3OP 
       26.93        32.78        20.12         2.86         1.02         2.10 
TCGA-GU-A42Q TCGA-GV-A3JW TCGA-GV-A3QF TCGA-H4-A2HQ 
        7.56         6.41         7.63         6.71 

$`17P LOSS WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
       12.79         7.33         2.66         6.74         6.58        11.93 
TCGA-BT-A20J TCGA-BT-A20O TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A20U TCGA-BT-A20V 
       19.00        12.16        19.46         5.06         8.61         5.06 
TCGA-BT-A20W TCGA-BT-A2LD TCGA-C4-A0EZ TCGA-C4-A0F6 TCGA-CF-A1HS TCGA-CU-A0YN 
        8.35         3.65         8.98         2.01         0.43        12.92 
TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3QU TCGA-CU-A3YL TCGA-DK-A1A3 TCGA-DK-A1A5 
        4.90         7.20         5.19         8.09         2.53         2.14 
TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A1AE 
       31.40         8.98         7.04       118.88       100.47         7.17 
TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A2I6 
        5.85         6.64        10.59         7.76       123.85        75.32 
TCGA-DK-A3IK TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IU TCGA-DK-A3WW TCGA-DK-A3WX 
        2.20         7.82         8.22        11.51         8.28        10.55 
TCGA-DK-A3WY TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 
      131.15         0.10         8.81         8.94         6.87         4.01 
TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SM 
       11.05         8.94         7.96        24.30        10.98         6.12 
TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A3SS TCGA-FD-A43N TCGA-FD-A43U 
        4.54        46.78        19.79         1.94         7.89         6.84 
TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-FT-A3EE TCGA-G2-A2EK TCGA-G2-A2ES TCGA-G2-A3IB 
       15.16         4.08         2.33         5.65        17.26         7.04 
TCGA-G2-A3VY TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RC TCGA-GC-A3WC 
        0.82         2.24         1.32         4.50         1.38         2.50 
TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GD-A3OQ TCGA-GD-A3OS TCGA-GU-A42P TCGA-GU-A42R 
        1.08         7.69         3.12         5.82         6.38         3.22 
TCGA-GV-A3JV TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-GV-A3QH TCGA-GV-A3QI TCGA-GV-A3QK 
        4.37         6.15         5.69         7.79         4.11         6.64 
TCGA-GV-A40E TCGA-GV-A40G TCGA-H4-A2HO TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A3WV 
        6.38         5.33         1.51         8.71         3.42         4.64 

  17P LOSS MUTATED 17P LOSS WILD-TYPE 
              0.46               0.10 
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
             49.91             131.15 
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
             7.595              6.855 
[1] "0.5 - 49.9 (7.6)"  "0.1 - 131.2 (6.9)"
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED" "17P LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED"   "17P LOSS MUTATED" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED" "17P LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED" "17P LOSS WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED" "17P LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED" "17P LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED" "17P LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED"   "17P LOSS MUTATED" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED" "17P LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED"   "17P LOSS MUTATED" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED"   "17P LOSS MUTATED" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED" "17P LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED" "17P LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"17P LOSS WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED" "17P LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED"   "17P LOSS MUTATED" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED" "17P LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED" "17P LOSS WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED" "17P LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED" "17P LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED" "17P LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED"   "17P LOSS MUTATED" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED" "17P LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED"   "17P LOSS MUTATED" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED"   "17P LOSS MUTATED" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED" "17P LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED" "17P LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"17P LOSS WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED" "17P LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED"   "17P LOSS MUTATED" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED" "17P LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED" "17P LOSS WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED" "17P LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED" "17P LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED" "17P LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED"   "17P LOSS MUTATED" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED" "17P LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED"   "17P LOSS MUTATED" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED"   "17P LOSS MUTATED" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED" "17P LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED" "17P LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"17P LOSS WILD-TYPE" 
[1] "hr=" "1.5"
D65V2, continuous
D65V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  17P LOSS MUTATED     10   26
  17P LOSS WILD-TYPE   23   72
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  FEMALE               10                 23
  MALE                 26                 72
D65V4, continuous
D65V5, continuous
D65V6, continuous
                    vv
clus                 M0 M1 MX
  17P LOSS MUTATED   24  1 11
  17P LOSS WILD-TYPE 51  3 40
D65V7, multiclass
    clus
vv   17P LOSS MUTATED 17P LOSS WILD-TYPE
  M0               24                 51
  M1                1                  3
  MX               11                 40
                    vv
clus                 N0 N1 N2 N3 NX
  17P LOSS MUTATED   22  3  6  0  4
  17P LOSS WILD-TYPE 52 11 20  4  6
D65V8, multiclass
D65V9, continuous
D65V10, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  17P LOSS MUTATED         0       12        10       12
  17P LOSS WILD-TYPE       1       24        33       34
D65V11, multiclass
           clus
vv          17P LOSS MUTATED 17P LOSS WILD-TYPE
  STAGE I                  0                  1
  STAGE II                12                 24
  STAGE III               10                 33
  STAGE IV                12                 34

Clustering(66) Variable = 17q loss mutation analysis
D66V1, survival
                    sevent
clus2                 0  1
  17Q LOSS MUTATED    3  1
  17Q LOSS WILD-TYPE 89 31
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
                 4                120 
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
                 1                 31 
$`17Q LOSS MUTATED`
TCGA-BT-A2LA TCGA-DK-A1AB TCGA-G2-A3IE TCGA-GV-A3JW 
        5.88         8.91        20.12         6.41 

$`17Q LOSS WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
       12.79         7.33         2.66         6.74         6.58        11.93 
TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R 
       19.00        26.10        12.16        17.85        19.46         5.06 
TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LD 
       14.89         8.61         5.06         8.35         8.25         3.65 
TCGA-BT-A3PH TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A1HS 
        4.64         8.98         1.94         2.01         0.46         0.43 
TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3KJ TCGA-CU-A3QU 
        0.69        12.92         4.90         7.20         5.46         5.19 
TCGA-CU-A3YL TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA 
        8.09         2.53         2.14        31.40         8.98         7.04 
TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX 
      118.88       100.47         7.17         5.85         6.64         1.81 
TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IK TCGA-DK-A3IL 
       10.59         7.76       123.85        75.32         2.20         3.98 
TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT TCGA-DK-A3IU 
        7.82         8.22        10.49        37.84         5.52        11.51 
TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E5-A2PC TCGA-E7-A3Y1 
        9.67         8.28        10.55       131.15        36.43         0.10 
TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 
        8.81         8.32         8.94         6.87         4.01        11.05 
TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SM 
        8.94         7.96        32.02        24.30        10.98         6.12 
TCGA-FD-A3SN TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A3SS 
        6.81         5.49         4.54        46.78        19.79         1.94 
TCGA-FD-A43N TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-FT-A3EE TCGA-G2-A2EF 
        7.89         6.84        15.16         4.08         2.33        49.91 
TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB 
       26.50         5.65        26.93        32.78        17.26         7.04 
TCGA-G2-A3VY TCGA-GC-A3BM TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RC 
        0.82         2.86         2.24         1.32         4.50         1.38 
TCGA-GC-A3RD TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ 
        1.02         2.50         1.08         7.69         2.10         3.12 
TCGA-GD-A3OS TCGA-GU-A42P TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JX 
        5.82         6.38         7.56         3.22         4.37         6.15 
TCGA-GV-A3JZ TCGA-GV-A3QF TCGA-GV-A3QH TCGA-GV-A3QI TCGA-GV-A3QK TCGA-GV-A40E 
        5.69         7.63         7.79         4.11         6.64         6.38 
TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A3WV 
        5.33         1.51         6.71         8.71         3.42         4.64 

  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
              5.88               0.10 
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
             20.12             131.15 
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
             7.660              6.955 
[1] "5.9 - 20.1 (7.7)"  "0.1 - 131.2 (7.0)"
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE"   "17Q LOSS MUTATED" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"17Q LOSS WILD-TYPE"   "17Q LOSS MUTATED" "17Q LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE"   "17Q LOSS MUTATED" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE"   "17Q LOSS MUTATED" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"17Q LOSS WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE"   "17Q LOSS MUTATED" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"17Q LOSS WILD-TYPE"   "17Q LOSS MUTATED" "17Q LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE"   "17Q LOSS MUTATED" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE"   "17Q LOSS MUTATED" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"17Q LOSS WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE"   "17Q LOSS MUTATED" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"17Q LOSS WILD-TYPE"   "17Q LOSS MUTATED" "17Q LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE"   "17Q LOSS MUTATED" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE"   "17Q LOSS MUTATED" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"17Q LOSS WILD-TYPE" 
[1] "hr=" "1.2"
D66V2, continuous
D66V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  17Q LOSS MUTATED      1    4
  17Q LOSS WILD-TYPE   32   94
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  FEMALE                1                 32
  MALE                  4                 94
D66V4, continuous
D66V5, continuous
D66V6, continuous
                    vv
clus                 M0 M1 MX
  17Q LOSS MUTATED    3  0  2
  17Q LOSS WILD-TYPE 72  4 49
D66V7, multiclass
    clus
vv   17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  M0                3                 72
  M1                0                  4
  MX                2                 49
                    vv
clus                 N0 N1 N2 N3 NX
  17Q LOSS MUTATED    2  0  0  0  2
  17Q LOSS WILD-TYPE 72 14 26  4  8
D66V8, multiclass
D66V9, continuous
[1] "Remove cluster labels:" "17Q LOSS MUTATED"      
clus
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
                 2                 96 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20T 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-BT-A20V         TCGA-BT-A20W         TCGA-BT-A20X 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-CU-A0YN 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AC         TCGA-DK-A1AD 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DK-A1AE         TCGA-DK-A1AF         TCGA-DK-A1AG 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DK-A2HX         TCGA-DK-A2I1         TCGA-DK-A2I2 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DK-A2I4         TCGA-DK-A2I6         TCGA-DK-A3IK 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DK-A3IL         TCGA-DK-A3IM         TCGA-DK-A3IN 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DK-A3IQ         TCGA-DK-A3IS         TCGA-DK-A3IT 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DK-A3IU         TCGA-DK-A3WW         TCGA-DK-A3WX 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DK-A3WY         TCGA-E5-A2PC         TCGA-FD-A3B3 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FT-A3EE 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-GC-A3BM         TCGA-GC-A3I6         TCGA-GC-A3OO 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-GC-A3RB         TCGA-GC-A3RC         TCGA-GC-A3RD 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-GC-A3WC         TCGA-GC-A3YS         TCGA-GD-A2C5 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-GD-A3OP         TCGA-GD-A3OQ         TCGA-GU-A42P 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-GU-A42Q         TCGA-GV-A3JV         TCGA-GV-A3JX 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-GV-A3JZ         TCGA-GV-A3QF         TCGA-GV-A3QG 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-GV-A3QI         TCGA-GV-A3QK         TCGA-GV-A40G 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-K4-A3WS         TCGA-K4-A3WV 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
D66V10, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  17Q LOSS MUTATED         0        3         1        1
  17Q LOSS WILD-TYPE       1       33        42       45
D66V11, multiclass
           clus
vv          17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  STAGE I                  0                  1
  STAGE II                 3                 33
  STAGE III                1                 42
  STAGE IV                 1                 45

Clustering(67) Variable = 18p loss mutation analysis
D67V1, survival
                    sevent
clus2                 0  1
  18P LOSS MUTATED   13  3
  18P LOSS WILD-TYPE 79 29
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
                16                108 
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
                 3                 29 
$`18P LOSS MUTATED`
TCGA-BT-A20J TCGA-BT-A20N TCGA-DK-A1A3 TCGA-DK-A1A7 TCGA-DK-A1AB TCGA-DK-A1AD 
       19.00        26.10         2.53         8.98         8.91       100.47 
TCGA-DK-A2I1 TCGA-DK-A3IL TCGA-DK-A3IQ TCGA-DK-A3IT TCGA-E5-A2PC TCGA-FD-A3SN 
       10.59         3.98        10.49         5.52        36.43         6.81 
TCGA-FD-A3SQ TCGA-GC-A3BM TCGA-GC-A3RD TCGA-GV-A3JW 
       46.78         2.86         1.02         6.41 

$`18P LOSS WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
       12.79         7.33         2.66         6.74         6.58        11.93 
TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A20T TCGA-BT-A20U 
       12.16        17.85        19.46         5.06        14.89         8.61 
TCGA-BT-A20V TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LA TCGA-BT-A2LD TCGA-BT-A3PH 
        5.06         8.35         8.25         5.88         3.65         4.64 
TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CF-A27C 
        8.98         1.94         2.01         0.46         0.43         0.69 
TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3KJ TCGA-CU-A3QU TCGA-CU-A3YL 
       12.92         4.90         7.20         5.46         5.19         8.09 
TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1AA TCGA-DK-A1AC TCGA-DK-A1AE TCGA-DK-A1AF 
        2.14        31.40         7.04       118.88         7.17         5.85 
TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IK 
        6.64         1.81         7.76       123.85        75.32         2.20 
TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IS TCGA-DK-A3IU TCGA-DK-A3IV TCGA-DK-A3WW 
        7.82         8.22        37.84        11.51         9.67         8.28 
TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 
       10.55       131.15         0.10         8.81         8.32         8.94 
TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA 
        6.87         4.01        11.05         8.94         7.96        32.02 
TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SM TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SR 
       24.30        10.98         6.12         5.49         4.54        19.79 
TCGA-FD-A3SS TCGA-FD-A43N TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-FT-A3EE 
        1.94         7.89         6.84        15.16         4.08         2.33 
TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES 
       49.91        26.50         5.65        26.93        32.78        17.26 
TCGA-G2-A3IB TCGA-G2-A3IE TCGA-G2-A3VY TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RB 
        7.04        20.12         0.82         2.24         1.32         4.50 
TCGA-GC-A3RC TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ 
        1.38         2.50         1.08         7.69         2.10         3.12 
TCGA-GD-A3OS TCGA-GU-A42P TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JX 
        5.82         6.38         7.56         3.22         4.37         6.15 
TCGA-GV-A3JZ TCGA-GV-A3QF TCGA-GV-A3QH TCGA-GV-A3QI TCGA-GV-A3QK TCGA-GV-A40E 
        5.69         7.63         7.79         4.11         6.64         6.38 
TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A3WV 
        5.33         1.51         6.71         8.71         3.42         4.64 

  18P LOSS MUTATED 18P LOSS WILD-TYPE 
              1.02               0.10 
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
            100.47             131.15 
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
             8.945              6.855 
[1] "1.0 - 100.5 (8.9)" "0.1 - 131.2 (6.9)"
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
  "18P LOSS MUTATED"   "18P LOSS MUTATED" "18P LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE"   "18P LOSS MUTATED" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE"   "18P LOSS MUTATED" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"18P LOSS WILD-TYPE"   "18P LOSS MUTATED" "18P LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
  "18P LOSS MUTATED" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE"   "18P LOSS MUTATED" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"18P LOSS WILD-TYPE"   "18P LOSS MUTATED" "18P LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"18P LOSS WILD-TYPE"   "18P LOSS MUTATED" "18P LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
  "18P LOSS MUTATED" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
  "18P LOSS MUTATED" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE"   "18P LOSS MUTATED" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE"   "18P LOSS MUTATED" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"18P LOSS WILD-TYPE"   "18P LOSS MUTATED" "18P LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
  "18P LOSS MUTATED" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE"   "18P LOSS MUTATED" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"18P LOSS WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
  "18P LOSS MUTATED"   "18P LOSS MUTATED" "18P LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE"   "18P LOSS MUTATED" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE"   "18P LOSS MUTATED" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"18P LOSS WILD-TYPE"   "18P LOSS MUTATED" "18P LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
  "18P LOSS MUTATED" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE"   "18P LOSS MUTATED" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"18P LOSS WILD-TYPE"   "18P LOSS MUTATED" "18P LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"18P LOSS WILD-TYPE"   "18P LOSS MUTATED" "18P LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
  "18P LOSS MUTATED" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
  "18P LOSS MUTATED" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE"   "18P LOSS MUTATED" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE"   "18P LOSS MUTATED" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"18P LOSS WILD-TYPE"   "18P LOSS MUTATED" "18P LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
  "18P LOSS MUTATED" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE"   "18P LOSS MUTATED" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"18P LOSS WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
  "18P LOSS MUTATED"   "18P LOSS MUTATED" "18P LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE"   "18P LOSS MUTATED" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE"   "18P LOSS MUTATED" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"18P LOSS WILD-TYPE"   "18P LOSS MUTATED" "18P LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
  "18P LOSS MUTATED" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE"   "18P LOSS MUTATED" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"18P LOSS WILD-TYPE"   "18P LOSS MUTATED" "18P LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"18P LOSS WILD-TYPE"   "18P LOSS MUTATED" "18P LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
  "18P LOSS MUTATED" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
  "18P LOSS MUTATED" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE"   "18P LOSS MUTATED" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE"   "18P LOSS MUTATED" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"18P LOSS WILD-TYPE"   "18P LOSS MUTATED" "18P LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
  "18P LOSS MUTATED" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE"   "18P LOSS MUTATED" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"18P LOSS WILD-TYPE" 
[1] "hr=" "2.3"
D67V2, continuous
D67V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18P LOSS MUTATED      6   13
  18P LOSS WILD-TYPE   27   85
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  FEMALE                6                 27
  MALE                 13                 85
D67V4, continuous
D67V5, continuous
D67V6, continuous
                    vv
clus                 M0 M1 MX
  18P LOSS MUTATED   13  0  6
  18P LOSS WILD-TYPE 62  4 45
D67V7, multiclass
    clus
vv   18P LOSS MUTATED 18P LOSS WILD-TYPE
  M0               13                 62
  M1                0                  4
  MX                6                 45
                    vv
clus                 N0 N1 N2 N3 NX
  18P LOSS MUTATED   10  1  5  0  2
  18P LOSS WILD-TYPE 64 13 21  4  8
D67V8, multiclass
D67V9, continuous
D67V10, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  18P LOSS MUTATED         0        7         4        8
  18P LOSS WILD-TYPE       1       29        39       38
D67V11, multiclass
           clus
vv          18P LOSS MUTATED 18P LOSS WILD-TYPE
  STAGE I                  0                  1
  STAGE II                 7                 29
  STAGE III                4                 39
  STAGE IV                 8                 38

Clustering(68) Variable = 18q loss mutation analysis
D68V1, survival
                    sevent
clus2                 0  1
  18Q LOSS MUTATED   29  5
  18Q LOSS WILD-TYPE 63 27
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
                34                 90 
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
                 5                 27 
$`18Q LOSS MUTATED`
TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20W TCGA-CF-A1HS TCGA-CU-A0YR TCGA-DK-A1A7 
       19.00        26.10         8.35         0.43         7.20         8.98 
TCGA-DK-A1AB TCGA-DK-A1AD TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I6 TCGA-DK-A3IK 
        8.91       100.47         1.81        10.59        75.32         2.20 
TCGA-DK-A3IL TCGA-DK-A3IM TCGA-DK-A3IQ TCGA-E5-A2PC TCGA-FD-A3B4 TCGA-FD-A3NA 
        3.98         7.82        10.49        36.43         8.32        32.02 
TCGA-FD-A3SN TCGA-FD-A3SO TCGA-FD-A3SQ TCGA-FD-A3SS TCGA-FD-A43N TCGA-FJ-A3ZF 
        6.81         5.49        46.78         1.94         7.89         4.08 
TCGA-G2-A2EF TCGA-GC-A3BM TCGA-GC-A3RD TCGA-GC-A3YS TCGA-GD-A3OS TCGA-GV-A3JW 
       49.91         2.86         1.02         1.08         5.82         6.41 
TCGA-GV-A3JX TCGA-GV-A40G TCGA-H4-A2HQ TCGA-K4-A3WV 
        6.15         5.33         6.71         4.64 

$`18Q LOSS WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
       12.79         7.33         2.66         6.74         6.58        11.93 
TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A20T TCGA-BT-A20U 
       12.16        17.85        19.46         5.06        14.89         8.61 
TCGA-BT-A20V TCGA-BT-A20X TCGA-BT-A2LA TCGA-BT-A2LD TCGA-BT-A3PH TCGA-C4-A0EZ 
        5.06         8.25         5.88         3.65         4.64         8.98 
TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO 
        1.94         2.01         0.46         0.69        12.92         4.90 
TCGA-CU-A3KJ TCGA-CU-A3QU TCGA-CU-A3YL TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A6 
        5.46         5.19         8.09         2.53         2.14        31.40 
TCGA-DK-A1AA TCGA-DK-A1AC TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2I2 
        7.04       118.88         7.17         5.85         6.64         7.76 
TCGA-DK-A2I4 TCGA-DK-A3IN TCGA-DK-A3IS TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3IV 
      123.85         8.22        37.84         5.52        11.51         9.67 
TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B5 
        8.28        10.55       131.15         0.10         8.81         8.94 
TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3SJ 
        6.87         4.01        11.05         8.94         7.96        24.30 
TCGA-FD-A3SL TCGA-FD-A3SM TCGA-FD-A3SP TCGA-FD-A3SR TCGA-FD-A43U TCGA-FJ-A3Z7 
       10.98         6.12         4.54        19.79         6.84        15.16 
TCGA-FT-A3EE TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES 
        2.33        26.50         5.65        26.93        32.78        17.26 
TCGA-G2-A3IB TCGA-G2-A3IE TCGA-G2-A3VY TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RB 
        7.04        20.12         0.82         2.24         1.32         4.50 
TCGA-GC-A3RC TCGA-GC-A3WC TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GU-A42P 
        1.38         2.50         7.69         2.10         3.12         6.38 
TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JZ TCGA-GV-A3QF TCGA-GV-A3QH 
        7.56         3.22         4.37         5.69         7.63         7.79 
TCGA-GV-A3QI TCGA-GV-A3QK TCGA-GV-A40E TCGA-H4-A2HO TCGA-K4-A3WS TCGA-K4-A3WU 
        4.11         6.64         6.38         1.51         8.71         3.42 

  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
              0.43               0.10 
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
            100.47             131.15 
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
             7.005              6.955 
[1] "0.4 - 100.5 (7.0)" "0.1 - 131.2 (7.0)"
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
  "18Q LOSS MUTATED"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED"   "18Q LOSS MUTATED" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
  "18Q LOSS MUTATED"   "18Q LOSS MUTATED"   "18Q LOSS MUTATED" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED"   "18Q LOSS MUTATED" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
  "18Q LOSS MUTATED" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
  "18Q LOSS MUTATED"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED"   "18Q LOSS MUTATED" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
  "18Q LOSS MUTATED"   "18Q LOSS MUTATED"   "18Q LOSS MUTATED" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED"   "18Q LOSS MUTATED" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
  "18Q LOSS MUTATED" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
  "18Q LOSS MUTATED"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED"   "18Q LOSS MUTATED" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
  "18Q LOSS MUTATED"   "18Q LOSS MUTATED"   "18Q LOSS MUTATED" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED"   "18Q LOSS MUTATED" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
  "18Q LOSS MUTATED" 
[1] "hr=" "2.7"
D68V2, continuous
D68V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18Q LOSS MUTATED     12   24
  18Q LOSS WILD-TYPE   21   74
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  FEMALE               12                 21
  MALE                 24                 74
D68V4, continuous
D68V5, continuous
D68V6, continuous
                    vv
clus                 M0 M1 MX
  18Q LOSS MUTATED   19  1 16
  18Q LOSS WILD-TYPE 56  3 35
D68V7, multiclass
    clus
vv   18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  M0               19                 56
  M1                1                  3
  MX               16                 35
                    vv
clus                 N0 N1 N2 N3 NX
  18Q LOSS MUTATED   19  4  7  1  4
  18Q LOSS WILD-TYPE 55 10 19  3  6
D68V8, multiclass
D68V9, continuous
D68V10, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  18Q LOSS MUTATED         0       12         8       15
  18Q LOSS WILD-TYPE       1       24        35       31
D68V11, multiclass
           clus
vv          18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  STAGE I                  0                  1
  STAGE II                12                 24
  STAGE III                8                 35
  STAGE IV                15                 31

Clustering(69) Variable = 19p loss mutation analysis
D69V1, survival
                    sevent
clus2                 0  1
  19P LOSS MUTATED    5  3
  19P LOSS WILD-TYPE 87 29
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
                 8                116 
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
                 3                 29 
$`19P LOSS MUTATED`
TCGA-BT-A3PH TCGA-CU-A0YN TCGA-E5-A2PC TCGA-FD-A3SM TCGA-FD-A3SO TCGA-FD-A3SS 
        4.64        12.92        36.43         6.12         5.49         1.94 
TCGA-GU-A42P TCGA-H4-A2HQ 
        6.38         6.71 

$`19P LOSS WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
       12.79         7.33         2.66         6.74         6.58        11.93 
TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R 
       19.00        26.10        12.16        17.85        19.46         5.06 
TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LA 
       14.89         8.61         5.06         8.35         8.25         5.88 
TCGA-BT-A2LD TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A1HS 
        3.65         8.98         1.94         2.01         0.46         0.43 
TCGA-CF-A27C TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3KJ TCGA-CU-A3QU TCGA-CU-A3YL 
        0.69         4.90         7.20         5.46         5.19         8.09 
TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB 
        2.53         2.14        31.40         8.98         7.04         8.91 
TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX 
      118.88       100.47         7.17         5.85         6.64         1.81 
TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IK TCGA-DK-A3IL 
       10.59         7.76       123.85        75.32         2.20         3.98 
TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT TCGA-DK-A3IU 
        7.82         8.22        10.49        37.84         5.52        11.51 
TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E7-A3Y1 TCGA-FD-A3B3 
        9.67         8.28        10.55       131.15         0.10         8.81 
TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3N5 
        8.32         8.94         6.87         4.01        11.05         8.94 
TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SN TCGA-FD-A3SP 
        7.96        32.02        24.30        10.98         6.81         4.54 
TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A43N TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF 
       46.78        19.79         7.89         6.84        15.16         4.08 
TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO 
        2.33        49.91        26.50         5.65        26.93        32.78 
TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-G2-A3VY TCGA-GC-A3BM TCGA-GC-A3I6 
       17.26         7.04        20.12         0.82         2.86         2.24 
TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RC TCGA-GC-A3RD TCGA-GC-A3WC TCGA-GC-A3YS 
        1.32         4.50         1.38         1.02         2.50         1.08 
TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GD-A3OS TCGA-GU-A42Q TCGA-GU-A42R 
        7.69         2.10         3.12         5.82         7.56         3.22 
TCGA-GV-A3JV TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-GV-A3QF TCGA-GV-A3QH 
        4.37         6.41         6.15         5.69         7.63         7.79 
TCGA-GV-A3QI TCGA-GV-A3QK TCGA-GV-A40E TCGA-GV-A40G TCGA-H4-A2HO TCGA-K4-A3WS 
        4.11         6.64         6.38         5.33         1.51         8.71 
TCGA-K4-A3WU TCGA-K4-A3WV 
        3.42         4.64 

  19P LOSS MUTATED 19P LOSS WILD-TYPE 
              1.94               0.10 
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
             36.43             131.15 
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
             6.250              7.105 
[1] "1.9 - 36.4 (6.2)"  "0.1 - 131.2 (7.1)"
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"19P LOSS WILD-TYPE"   "19P LOSS MUTATED" "19P LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE"   "19P LOSS MUTATED" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
  "19P LOSS MUTATED" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"19P LOSS WILD-TYPE"   "19P LOSS MUTATED" "19P LOSS WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
  "19P LOSS MUTATED" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"19P LOSS WILD-TYPE"   "19P LOSS MUTATED" "19P LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"19P LOSS WILD-TYPE"   "19P LOSS MUTATED" "19P LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
  "19P LOSS MUTATED" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"19P LOSS WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"19P LOSS WILD-TYPE"   "19P LOSS MUTATED" "19P LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE"   "19P LOSS MUTATED" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
  "19P LOSS MUTATED" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"19P LOSS WILD-TYPE"   "19P LOSS MUTATED" "19P LOSS WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
  "19P LOSS MUTATED" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"19P LOSS WILD-TYPE"   "19P LOSS MUTATED" "19P LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"19P LOSS WILD-TYPE"   "19P LOSS MUTATED" "19P LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
  "19P LOSS MUTATED" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"19P LOSS WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"19P LOSS WILD-TYPE"   "19P LOSS MUTATED" "19P LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE"   "19P LOSS MUTATED" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
  "19P LOSS MUTATED" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"19P LOSS WILD-TYPE"   "19P LOSS MUTATED" "19P LOSS WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
  "19P LOSS MUTATED" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"19P LOSS WILD-TYPE"   "19P LOSS MUTATED" "19P LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"19P LOSS WILD-TYPE"   "19P LOSS MUTATED" "19P LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
  "19P LOSS MUTATED" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"19P LOSS WILD-TYPE" 
[1] "hr=" "1.8"
D69V2, continuous
D69V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  19P LOSS MUTATED      2    6
  19P LOSS WILD-TYPE   31   92
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  FEMALE                2                 31
  MALE                  6                 92
D69V4, continuous
[1] "Remove cluster labels:" "19P LOSS MUTATED"      
clus
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
                 1                 36 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CF-A3MF 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-CF-A3MG         TCGA-CF-A3MH         TCGA-CF-A3MI 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-DK-A2HX         TCGA-DK-A3IN         TCGA-DK-A3IV 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-DK-A3WX         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RC         TCGA-GC-A3RD 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-GC-A3YS         TCGA-GD-A3OS         TCGA-GV-A3JV 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-GV-A3QF         TCGA-GV-A3QH         TCGA-GV-A3QI 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-GV-A3QK         TCGA-GV-A40E         TCGA-GV-A40G 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
D69V5, continuous
D69V6, continuous
                    vv
clus                 M0 M1 MX
  19P LOSS MUTATED    2  2  4
  19P LOSS WILD-TYPE 73  2 47
D69V7, multiclass
    clus
vv   19P LOSS MUTATED 19P LOSS WILD-TYPE
  M0                2                 73
  M1                2                  2
  MX                4                 47
                    vv
clus                 N0 N1 N2 N3 NX
  19P LOSS MUTATED    1  3  2  1  1
  19P LOSS WILD-TYPE 73 11 24  3  9
D69V8, multiclass
D69V9, continuous
D69V10, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  19P LOSS MUTATED         0        0         1        7
  19P LOSS WILD-TYPE       1       36        42       39
D69V11, multiclass
           clus
vv          19P LOSS MUTATED 19P LOSS WILD-TYPE
  STAGE I                  0                  1
  STAGE II                 0                 36
  STAGE III                1                 42
  STAGE IV                 7                 39

Clustering(70) Variable = 19q loss mutation analysis
D70V1, survival
                    sevent
clus2                 0  1
  19Q LOSS MUTATED    0  3
  19Q LOSS WILD-TYPE 92 29
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
                 3                121 
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
                 3                 29 
$`19Q LOSS MUTATED`
TCGA-BT-A3PH TCGA-CU-A0YN TCGA-FD-A3SO 
        4.64        12.92         5.49 

$`19Q LOSS WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
       12.79         7.33         2.66         6.74         6.58        11.93 
TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R 
       19.00        26.10        12.16        17.85        19.46         5.06 
TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LA 
       14.89         8.61         5.06         8.35         8.25         5.88 
TCGA-BT-A2LD TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A1HS 
        3.65         8.98         1.94         2.01         0.46         0.43 
TCGA-CF-A27C TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3KJ TCGA-CU-A3QU TCGA-CU-A3YL 
        0.69         4.90         7.20         5.46         5.19         8.09 
TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB 
        2.53         2.14        31.40         8.98         7.04         8.91 
TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX 
      118.88       100.47         7.17         5.85         6.64         1.81 
TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IK TCGA-DK-A3IL 
       10.59         7.76       123.85        75.32         2.20         3.98 
TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT TCGA-DK-A3IU 
        7.82         8.22        10.49        37.84         5.52        11.51 
TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E5-A2PC TCGA-E7-A3Y1 
        9.67         8.28        10.55       131.15        36.43         0.10 
TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 
        8.81         8.32         8.94         6.87         4.01        11.05 
TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SM 
        8.94         7.96        32.02        24.30        10.98         6.12 
TCGA-FD-A3SN TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A3SS TCGA-FD-A43N 
        6.81         4.54        46.78        19.79         1.94         7.89 
TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ 
        6.84        15.16         4.08         2.33        49.91        26.50 
TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE 
        5.65        26.93        32.78        17.26         7.04        20.12 
TCGA-G2-A3VY TCGA-GC-A3BM TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RC 
        0.82         2.86         2.24         1.32         4.50         1.38 
TCGA-GC-A3RD TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ 
        1.02         2.50         1.08         7.69         2.10         3.12 
TCGA-GD-A3OS TCGA-GU-A42P TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JW 
        5.82         6.38         7.56         3.22         4.37         6.41 
TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-GV-A3QF TCGA-GV-A3QH TCGA-GV-A3QI TCGA-GV-A3QK 
        6.15         5.69         7.63         7.79         4.11         6.64 
TCGA-GV-A40E TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-K4-A3WS TCGA-K4-A3WU 
        6.38         5.33         1.51         6.71         8.71         3.42 
TCGA-K4-A3WV 
        4.64 

  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
              4.64               0.10 
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
             12.92             131.15 
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
              5.49               7.04 
[1] "4.6 - 12.9 (5.5)"  "0.1 - 131.2 (7.0)"
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"19Q LOSS WILD-TYPE"   "19Q LOSS MUTATED" "19Q LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE"   "19Q LOSS MUTATED" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
  "19Q LOSS MUTATED" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"19Q LOSS WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"19Q LOSS WILD-TYPE"   "19Q LOSS MUTATED" "19Q LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE"   "19Q LOSS MUTATED" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
  "19Q LOSS MUTATED" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"19Q LOSS WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"19Q LOSS WILD-TYPE"   "19Q LOSS MUTATED" "19Q LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE"   "19Q LOSS MUTATED" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
  "19Q LOSS MUTATED" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"19Q LOSS WILD-TYPE" 
[1] "hr=" "6.1"
D70V2, continuous
D70V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  19Q LOSS MUTATED      0    3
  19Q LOSS WILD-TYPE   33   95
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  FEMALE                0                 33
  MALE                  3                 95
D70V4, continuous
D70V5, continuous
[1] "Remove cluster labels:" "19Q LOSS MUTATED"      
clus
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
                 2                 79 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A20J         TCGA-BT-A20N 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BT-A2LA         TCGA-C4-A0EZ         TCGA-C4-A0F0 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-C4-A0F6         TCGA-CF-A3MH         TCGA-CF-A3MI 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CU-A0YR         TCGA-CU-A3KJ         TCGA-CU-A3QU 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CU-A3YL         TCGA-DK-A1A3         TCGA-DK-A1A5 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DK-A1A6         TCGA-DK-A1AA         TCGA-DK-A1AC 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DK-A1AE         TCGA-DK-A2HX         TCGA-DK-A2I6 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DK-A3IL         TCGA-DK-A3IM         TCGA-DK-A3IN 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DK-A3IQ         TCGA-DK-A3IU         TCGA-DK-A3IV 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DK-A3WX         TCGA-FD-A3B3         TCGA-FD-A3B4 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FD-A3N5         TCGA-FD-A3N6 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FD-A3NA         TCGA-FD-A3SJ         TCGA-FD-A3SM 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FD-A3SN         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3ZF         TCGA-G2-A2EF 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EL         TCGA-G2-A2ES 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3BM         TCGA-GC-A3RB 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-GC-A3WC         TCGA-GC-A3YS         TCGA-GD-A2C5 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-GD-A3OQ         TCGA-GD-A3OS         TCGA-GU-A42P 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-GU-A42Q         TCGA-GU-A42R         TCGA-GV-A3JV 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-GV-A3QG         TCGA-GV-A3QH         TCGA-GV-A3QI 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-GV-A3QK         TCGA-GV-A40E         TCGA-GV-A40G 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ         TCGA-K4-A3WS 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"19Q LOSS WILD-TYPE" 
D70V6, continuous
                    vv
clus                 M0 M1 MX
  19Q LOSS MUTATED    1  0  2
  19Q LOSS WILD-TYPE 74  4 49
D70V7, multiclass
    clus
vv   19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  M0                1                 74
  M1                0                  4
  MX                2                 49
                    vv
clus                 N0 N1 N2 N3 NX
  19Q LOSS MUTATED    1  1  1  0  0
  19Q LOSS WILD-TYPE 73 13 25  4 10
D70V8, multiclass
D70V9, continuous
D70V10, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  19Q LOSS MUTATED         0        0         1        2
  19Q LOSS WILD-TYPE       1       36        42       44
D70V11, multiclass
           clus
vv          19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  STAGE I                  0                  1
  STAGE II                 0                 36
  STAGE III                1                 42
  STAGE IV                 2                 44

Clustering(71) Variable = 20p loss mutation analysis
D71V1, survival
                    sevent
clus2                 0  1
  20P LOSS MUTATED    4  1
  20P LOSS WILD-TYPE 88 31
  20P LOSS MUTATED 20P LOSS WILD-TYPE 
                 5                119 
  20P LOSS MUTATED 20P LOSS WILD-TYPE 
                 1                 31 
$`20P LOSS MUTATED`
TCGA-BT-A20P TCGA-DK-A1A3 TCGA-DK-A3IM TCGA-FD-A3SN TCGA-GU-A42R 
       17.85         2.53         7.82         6.81         3.22 

$`20P LOSS WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
       12.79         7.33         2.66         6.74         6.58        11.93 
TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A20T 
       19.00        26.10        12.16        19.46         5.06        14.89 
TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LA TCGA-BT-A2LD 
        8.61         5.06         8.35         8.25         5.88         3.65 
TCGA-BT-A3PH TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A1HS 
        4.64         8.98         1.94         2.01         0.46         0.43 
TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3KJ TCGA-CU-A3QU 
        0.69        12.92         4.90         7.20         5.46         5.19 
TCGA-CU-A3YL TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB 
        8.09         2.14        31.40         8.98         7.04         8.91 
TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX 
      118.88       100.47         7.17         5.85         6.64         1.81 
TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IK TCGA-DK-A3IL 
       10.59         7.76       123.85        75.32         2.20         3.98 
TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3IV 
        8.22        10.49        37.84         5.52        11.51         9.67 
TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E5-A2PC TCGA-E7-A3Y1 TCGA-FD-A3B3 
        8.28        10.55       131.15        36.43         0.10         8.81 
TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3N5 
        8.32         8.94         6.87         4.01        11.05         8.94 
TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SM TCGA-FD-A3SO 
        7.96        32.02        24.30        10.98         6.12         5.49 
TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A3SS TCGA-FD-A43N TCGA-FD-A43U 
        4.54        46.78        19.79         1.94         7.89         6.84 
TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK 
       15.16         4.08         2.33        49.91        26.50         5.65 
TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-G2-A3VY 
       26.93        32.78        17.26         7.04        20.12         0.82 
TCGA-GC-A3BM TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RC TCGA-GC-A3RD 
        2.86         2.24         1.32         4.50         1.38         1.02 
TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GD-A3OS 
        2.50         1.08         7.69         2.10         3.12         5.82 
TCGA-GU-A42P TCGA-GU-A42Q TCGA-GV-A3JV TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ 
        6.38         7.56         4.37         6.41         6.15         5.69 
TCGA-GV-A3QF TCGA-GV-A3QH TCGA-GV-A3QI TCGA-GV-A3QK TCGA-GV-A40E TCGA-GV-A40G 
        7.63         7.79         4.11         6.64         6.38         5.33 
TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A3WV 
        1.51         6.71         8.71         3.42         4.64 

  20P LOSS MUTATED 20P LOSS WILD-TYPE 
              2.53               0.10 
  20P LOSS MUTATED 20P LOSS WILD-TYPE 
             17.85             131.15 
  20P LOSS MUTATED 20P LOSS WILD-TYPE 
              6.81               7.04 
[1] "2.5 - 17.9 (6.8)"  "0.1 - 131.2 (7.0)"
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
  "20P LOSS MUTATED" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE"   "20P LOSS MUTATED" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE"   "20P LOSS MUTATED" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE"   "20P LOSS MUTATED" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
  "20P LOSS MUTATED" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"20P LOSS WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
  "20P LOSS MUTATED" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE"   "20P LOSS MUTATED" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE"   "20P LOSS MUTATED" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE"   "20P LOSS MUTATED" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
  "20P LOSS MUTATED" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"20P LOSS WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
  "20P LOSS MUTATED" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE"   "20P LOSS MUTATED" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE"   "20P LOSS MUTATED" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE"   "20P LOSS MUTATED" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
  "20P LOSS MUTATED" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"20P LOSS WILD-TYPE" 
[1] "hr=" "1.2"
D71V2, continuous
D71V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  20P LOSS MUTATED      1    4
  20P LOSS WILD-TYPE   32   94
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  FEMALE                1                 32
  MALE                  4                 94
D71V4, continuous
D71V5, continuous
D71V6, continuous
                    vv
clus                 M0 M1 MX
  20P LOSS MUTATED    3  0  2
  20P LOSS WILD-TYPE 72  4 49
D71V7, multiclass
    clus
vv   20P LOSS MUTATED 20P LOSS WILD-TYPE
  M0                3                 72
  M1                0                  4
  MX                2                 49
                    vv
clus                 N0 N1 N2 N3 NX
  20P LOSS MUTATED    3  0  1  0  0
  20P LOSS WILD-TYPE 71 14 25  4 10
D71V8, multiclass
D71V9, continuous
D71V10, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  20P LOSS MUTATED         0        1         2        2
  20P LOSS WILD-TYPE       1       35        41       44
D71V11, multiclass
           clus
vv          20P LOSS MUTATED 20P LOSS WILD-TYPE
  STAGE I                  0                  1
  STAGE II                 1                 35
  STAGE III                2                 41
  STAGE IV                 2                 44

Clustering(72) Variable = 21q loss mutation analysis
D72V1, survival
                    sevent
clus2                 0  1
  21Q LOSS MUTATED   10  4
  21Q LOSS WILD-TYPE 82 28
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
                14                110 
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
                 4                 28 
$`21Q LOSS MUTATED`
TCGA-BT-A20V TCGA-BT-A20X TCGA-CF-A1HR TCGA-CU-A3QU TCGA-DK-A3IN TCGA-DK-A3IT 
        5.06         8.25         0.46         5.19         8.22         5.52 
TCGA-E5-A2PC TCGA-FD-A3SL TCGA-FD-A3SO TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-GC-A3RD 
       36.43        10.98         5.49        49.91        26.50         1.02 
TCGA-GV-A3JV TCGA-GV-A3QI 
        4.37         4.11 

$`21Q LOSS WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
       12.79         7.33         2.66         6.74         6.58        11.93 
TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R 
       19.00        26.10        12.16        17.85        19.46         5.06 
TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20W TCGA-BT-A2LA TCGA-BT-A2LD TCGA-BT-A3PH 
       14.89         8.61         8.35         5.88         3.65         4.64 
TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YN 
        8.98         1.94         2.01         0.43         0.69        12.92 
TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3KJ TCGA-CU-A3YL TCGA-DK-A1A3 TCGA-DK-A1A5 
        4.90         7.20         5.46         8.09         2.53         2.14 
TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AC TCGA-DK-A1AD 
       31.40         8.98         7.04         8.91       118.88       100.47 
TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I2 
        7.17         5.85         6.64         1.81        10.59         7.76 
TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IM TCGA-DK-A3IQ 
      123.85        75.32         2.20         3.98         7.82        10.49 
TCGA-DK-A3IS TCGA-DK-A3IU TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY 
       37.84        11.51         9.67         8.28        10.55       131.15 
TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 
        0.10         8.81         8.32         8.94         6.87         4.01 
TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SM 
       11.05         8.94         7.96        32.02        24.30         6.12 
TCGA-FD-A3SN TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A3SS TCGA-FD-A43N 
        6.81         4.54        46.78        19.79         1.94         7.89 
TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-FT-A3EE TCGA-G2-A2EK TCGA-G2-A2EL 
        6.84        15.16         4.08         2.33         5.65        26.93 
TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-G2-A3VY TCGA-GC-A3BM 
       32.78        17.26         7.04        20.12         0.82         2.86 
TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RC TCGA-GC-A3WC TCGA-GC-A3YS 
        2.24         1.32         4.50         1.38         2.50         1.08 
TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GD-A3OS TCGA-GU-A42P TCGA-GU-A42Q 
        7.69         2.10         3.12         5.82         6.38         7.56 
TCGA-GU-A42R TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-GV-A3QF TCGA-GV-A3QH 
        3.22         6.41         6.15         5.69         7.63         7.79 
TCGA-GV-A3QK TCGA-GV-A40E TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-K4-A3WS 
        6.64         6.38         5.33         1.51         6.71         8.71 
TCGA-K4-A3WU TCGA-K4-A3WV 
        3.42         4.64 

  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
              0.46               0.10 
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
             49.91             131.15 
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
             5.505              7.040 
[1] "0.5 - 49.9 (5.5)"  "0.1 - 131.2 (7.0)"
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
  "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
  "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
  "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
  "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
  "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
  "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED"   "21Q LOSS MUTATED" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
  "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"21Q LOSS WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
  "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
  "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
  "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
  "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
  "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
  "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED"   "21Q LOSS MUTATED" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
  "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"21Q LOSS WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
  "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
  "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
  "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
  "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
  "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
  "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED"   "21Q LOSS MUTATED" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
  "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"21Q LOSS WILD-TYPE" 
[1] "hr=" "1"  
D72V2, continuous
D72V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  21Q LOSS MUTATED      4   10
  21Q LOSS WILD-TYPE   29   88
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  FEMALE                4                 29
  MALE                 10                 88
D72V4, continuous
D72V5, continuous
D72V6, continuous
                    vv
clus                 M0 M1 MX
  21Q LOSS MUTATED    9  1  4
  21Q LOSS WILD-TYPE 66  3 47
D72V7, multiclass
    clus
vv   21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  M0                9                 66
  M1                1                  3
  MX                4                 47
                    vv
clus                 N0 N1 N2 N3 NX
  21Q LOSS MUTATED    7  4  3  0  0
  21Q LOSS WILD-TYPE 67 10 23  4 10
D72V8, multiclass
D72V9, continuous
D72V10, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  21Q LOSS MUTATED         0        2         4        7
  21Q LOSS WILD-TYPE       1       34        39       39
D72V11, multiclass
           clus
vv          21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  STAGE I                  0                  1
  STAGE II                 2                 34
  STAGE III                4                 39
  STAGE IV                 7                 39

Clustering(73) Variable = 22q loss mutation analysis
D73V1, survival
                    sevent
clus2                 0  1
  22Q LOSS MUTATED   15 10
  22Q LOSS WILD-TYPE 77 22
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
                25                 99 
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
                10                 22 
$`22Q LOSS MUTATED`
TCGA-BT-A20J TCGA-BT-A20R TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-CU-A0YN TCGA-CU-A3KJ 
       19.00         5.06         8.98         1.94        12.92         5.46 
TCGA-CU-A3QU TCGA-DK-A2HX TCGA-DK-A2I2 TCGA-DK-A3IQ TCGA-DK-A3IV TCGA-E5-A2PC 
        5.19         1.81         7.76        10.49         9.67        36.43 
TCGA-FD-A3B4 TCGA-FD-A3B6 TCGA-FD-A3N5 TCGA-FD-A3SJ TCGA-FD-A3SN TCGA-FD-A3SO 
        8.32         6.87         8.94        24.30         6.81         5.49 
TCGA-FD-A3SR TCGA-FJ-A3ZF TCGA-G2-A3IE TCGA-G2-A3VY TCGA-GC-A3RC TCGA-GV-A3JX 
       19.79         4.08        20.12         0.82         1.38         6.15 
TCGA-H4-A2HQ 
        6.71 

$`22Q LOSS WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
       12.79         7.33         2.66         6.74         6.58        11.93 
TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20T TCGA-BT-A20U 
       26.10        12.16        17.85        19.46        14.89         8.61 
TCGA-BT-A20V TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LA TCGA-BT-A2LD TCGA-BT-A3PH 
        5.06         8.35         8.25         5.88         3.65         4.64 
TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YO TCGA-CU-A0YR 
        2.01         0.46         0.43         0.69         4.90         7.20 
TCGA-CU-A3YL TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA 
        8.09         2.53         2.14        31.40         8.98         7.04 
TCGA-DK-A1AB TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG 
        8.91       118.88       100.47         7.17         5.85         6.64 
TCGA-DK-A2I1 TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IM 
       10.59       123.85        75.32         2.20         3.98         7.82 
TCGA-DK-A3IN TCGA-DK-A3IS TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3WW TCGA-DK-A3WX 
        8.22        37.84         5.52        11.51         8.28        10.55 
TCGA-DK-A3WY TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B5 TCGA-FD-A3B7 TCGA-FD-A3B8 
      131.15         0.10         8.81         8.94         4.01        11.05 
TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SL TCGA-FD-A3SM TCGA-FD-A3SP TCGA-FD-A3SQ 
        7.96        32.02        10.98         6.12         4.54        46.78 
TCGA-FD-A3SS TCGA-FD-A43N TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FT-A3EE TCGA-G2-A2EF 
        1.94         7.89         6.84        15.16         2.33        49.91 
TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB 
       26.50         5.65        26.93        32.78        17.26         7.04 
TCGA-GC-A3BM TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RD TCGA-GC-A3WC 
        2.86         2.24         1.32         4.50         1.02         2.50 
TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GD-A3OS TCGA-GU-A42P 
        1.08         7.69         2.10         3.12         5.82         6.38 
TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JW TCGA-GV-A3JZ TCGA-GV-A3QF 
        7.56         3.22         4.37         6.41         5.69         7.63 
TCGA-GV-A3QH TCGA-GV-A3QI TCGA-GV-A3QK TCGA-GV-A40E TCGA-GV-A40G TCGA-H4-A2HO 
        7.79         4.11         6.64         6.38         5.33         1.51 
TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A3WV 
        8.71         3.42         4.64 

  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
              0.82               0.10 
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
             36.43             131.15 
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
              6.87               7.04 
[1] "0.8 - 36.4 (6.9)"  "0.1 - 131.2 (7.0)"
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"22Q LOSS WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"22Q LOSS WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-BL-A3JM         TCGA-BT-A0S7         TCGA-BT-A0YX 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-BT-A20J         TCGA-BT-A20N         TCGA-BT-A20O 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-BT-A20P         TCGA-BT-A20Q         TCGA-BT-A20R 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-BT-A20T         TCGA-BT-A20U         TCGA-BT-A20V 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-BT-A20W         TCGA-BT-A20X         TCGA-BT-A2LA 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-BT-A2LD         TCGA-BT-A3PH         TCGA-C4-A0EZ 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-C4-A0F0         TCGA-C4-A0F6         TCGA-CF-A1HR 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-CU-A0YN 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         TCGA-CU-A3KJ 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-CU-A3QU         TCGA-CU-A3YL         TCGA-DK-A1A3 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-DK-A1A5         TCGA-DK-A1A6         TCGA-DK-A1A7 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-DK-A1AA         TCGA-DK-A1AB         TCGA-DK-A1AC 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-DK-A1AD         TCGA-DK-A1AE         TCGA-DK-A1AF 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-DK-A1AG         TCGA-DK-A2HX         TCGA-DK-A2I1 
"22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" 
        TCGA-DK-A2I2         TCGA-DK-A2I4         TCGA-DK-A2I6 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-DK-A3IK         TCGA-DK-A3IL         TCGA-DK-A3IM 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-DK-A3IN         TCGA-DK-A3IQ         TCGA-DK-A3IS 
"22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" 
        TCGA-DK-A3IT         TCGA-DK-A3IU         TCGA-DK-A3IV 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-DK-A3WW         TCGA-DK-A3WX         TCGA-DK-A3WY 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-E7-A3Y1         TCGA-FD-A3B3 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-FD-A3B4         TCGA-FD-A3B5         TCGA-FD-A3B6 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-FD-A3B7         TCGA-FD-A3B8         TCGA-FD-A3N5 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-FD-A3N6         TCGA-FD-A3NA         TCGA-FD-A3SJ 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-FD-A3SL         TCGA-FD-A3SM         TCGA-FD-A3SN 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-FD-A3SO         TCGA-FD-A3SP         TCGA-FD-A3SQ 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-FD-A3SR         TCGA-FD-A3SS         TCGA-FD-A43N 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-FD-A43U         TCGA-FJ-A3Z7         TCGA-FJ-A3ZF 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-FT-A3EE         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-G2-A2EK         TCGA-G2-A2EL         TCGA-G2-A2EO 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-G2-A2ES         TCGA-G2-A3IB         TCGA-G2-A3IE 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-G2-A3VY         TCGA-GC-A3BM         TCGA-GC-A3I6 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-GC-A3OO         TCGA-GC-A3RB         TCGA-GC-A3RC 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-GC-A3RD         TCGA-GC-A3WC         TCGA-GC-A3YS 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-GD-A2C5         TCGA-GD-A3OP         TCGA-GD-A3OQ 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-GD-A3OS         TCGA-GU-A42P         TCGA-GU-A42Q 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-GU-A42R         TCGA-GV-A3JV         TCGA-GV-A3JW 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ         TCGA-GV-A3QF 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-GV-A3QH         TCGA-GV-A3QI         TCGA-GV-A3QK 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-GV-A40E         TCGA-GV-A40G         TCGA-H4-A2HO 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-H4-A2HQ         TCGA-K4-A3WS         TCGA-K4-A3WU 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-K4-A3WV 
"22Q LOSS WILD-TYPE" 
[1] "hr=" "1.8"
D73V2, continuous
D73V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  22Q LOSS MUTATED      7   18
  22Q LOSS WILD-TYPE   26   80
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  FEMALE                7                 26
  MALE                 18                 80
D73V4, continuous
D73V5, continuous
D73V6, continuous
                    vv
clus                 M0 M1 MX
  22Q LOSS MUTATED   11  2 11
  22Q LOSS WILD-TYPE 64  2 40
D73V7, multiclass
    clus
vv   22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  M0               11                 64
  M1                2                  2
  MX               11                 40
                    vv
clus                 N0 N1 N2 N3 NX
  22Q LOSS MUTATED   12  5  3  1  3
  22Q LOSS WILD-TYPE 62  9 23  3  7
D73V8, multiclass
D73V9, continuous
D73V10, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  22Q LOSS MUTATED         0        8         6       11
  22Q LOSS WILD-TYPE       1       28        37       35
D73V11, multiclass
           clus
vv          22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  STAGE I                  0                  1
  STAGE II                 8                 28
  STAGE III                6                 37
  STAGE IV                11                 35

Clustering(74) Variable = Xq loss mutation analysis
D74V1, survival
                   sevent
clus2                0  1
  XQ LOSS MUTATED    2  1
  XQ LOSS WILD-TYPE 90 31
  XQ LOSS MUTATED XQ LOSS WILD-TYPE 
                3               121 
  XQ LOSS MUTATED XQ LOSS WILD-TYPE 
                1                31 
$`XQ LOSS MUTATED`
TCGA-DK-A3IV TCGA-GU-A42R TCGA-K4-A3WV 
        9.67         3.22         4.64 

$`XQ LOSS WILD-TYPE`
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
       12.79         7.33         2.66         6.74         6.58        11.93 
TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R 
       19.00        26.10        12.16        17.85        19.46         5.06 
TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LA 
       14.89         8.61         5.06         8.35         8.25         5.88 
TCGA-BT-A2LD TCGA-BT-A3PH TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR 
        3.65         4.64         8.98         1.94         2.01         0.46 
TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3KJ 
        0.43         0.69        12.92         4.90         7.20         5.46 
TCGA-CU-A3QU TCGA-CU-A3YL TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 
        5.19         8.09         2.53         2.14        31.40         8.98 
TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF 
        7.04         8.91       118.88       100.47         7.17         5.85 
TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A2I6 
        6.64         1.81        10.59         7.76       123.85        75.32 
TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS 
        2.20         3.98         7.82         8.22        10.49        37.84 
TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E5-A2PC 
        5.52        11.51         8.28        10.55       131.15        36.43 
TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 
        0.10         8.81         8.32         8.94         6.87         4.01 
TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SL 
       11.05         8.94         7.96        32.02        24.30        10.98 
TCGA-FD-A3SM TCGA-FD-A3SN TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR 
        6.12         6.81         5.49         4.54        46.78        19.79 
TCGA-FD-A3SS TCGA-FD-A43N TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-FT-A3EE 
        1.94         7.89         6.84        15.16         4.08         2.33 
TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES 
       49.91        26.50         5.65        26.93        32.78        17.26 
TCGA-G2-A3IB TCGA-G2-A3IE TCGA-G2-A3VY TCGA-GC-A3BM TCGA-GC-A3I6 TCGA-GC-A3OO 
        7.04        20.12         0.82         2.86         2.24         1.32 
TCGA-GC-A3RB TCGA-GC-A3RC TCGA-GC-A3RD TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GD-A2C5 
        4.50         1.38         1.02         2.50         1.08         7.69 
TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GD-A3OS TCGA-GU-A42P TCGA-GU-A42Q TCGA-GV-A3JV 
        2.10         3.12         5.82         6.38         7.56         4.37 
TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-GV-A3QF TCGA-GV-A3QH TCGA-GV-A3QI 
        6.41         6.15         5.69         7.63         7.79         4.11 
TCGA-GV-A3QK TCGA-GV-A40E TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-K4-A3WS 
        6.64         6.38         5.33         1.51         6.71         8.71 
TCGA-K4-A3WU 
        3.42 

  XQ LOSS MUTATED XQ LOSS WILD-TYPE 
             3.22              0.10 
  XQ LOSS MUTATED XQ LOSS WILD-TYPE 
             9.67            131.15 
  XQ LOSS MUTATED XQ LOSS WILD-TYPE 
             4.64              7.04 
[1] "3.2 - 9.7 (4.6)"   "0.1 - 131.2 (7.0)"
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
  "XQ LOSS MUTATED" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
  "XQ LOSS MUTATED" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE"   "XQ LOSS MUTATED" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
  "XQ LOSS MUTATED" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
  "XQ LOSS MUTATED" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE"   "XQ LOSS MUTATED" 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20R 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-BT-A20T        TCGA-BT-A20U        TCGA-BT-A20V        TCGA-BT-A20W 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-BT-A20X        TCGA-BT-A2LA        TCGA-BT-A2LD        TCGA-BT-A3PH 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6        TCGA-CF-A1HR 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN        TCGA-CU-A0YO 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-DK-A3IV        TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY 
  "XQ LOSS MUTATED" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-E5-A2PC        TCGA-E7-A3Y1        TCGA-FD-A3B3        TCGA-FD-A3B4 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7        TCGA-FD-A3B8 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-FD-A3N5        TCGA-FD-A3N6        TCGA-FD-A3NA        TCGA-FD-A3SJ 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-FD-A3SL        TCGA-FD-A3SM        TCGA-FD-A3SN        TCGA-FD-A3SO 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-FD-A3SP        TCGA-FD-A3SQ        TCGA-FD-A3SR        TCGA-FD-A3SS 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-FD-A43N        TCGA-FD-A43U        TCGA-FJ-A3Z7        TCGA-FJ-A3ZF 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM        TCGA-GC-A3I6 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GD-A3OS        TCGA-GU-A42P        TCGA-GU-A42Q 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-GU-A42R        TCGA-GV-A3JV        TCGA-GV-A3JW        TCGA-GV-A3JX 
  "XQ LOSS MUTATED" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH        TCGA-GV-A3QI 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G        TCGA-H4-A2HO 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-H4-A2HQ        TCGA-K4-A3WS        TCGA-K4-A3WU        TCGA-K4-A3WV 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE"   "XQ LOSS MUTATED" 
[1] "hr=" "2.7"
D74V2, continuous
D74V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  XQ LOSS MUTATED      1    3
  XQ LOSS WILD-TYPE   32   95
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  FEMALE               1                32
  MALE                 3                95
D74V4, continuous
[1] "Remove cluster labels:" "XQ LOSS MUTATED"       
clus
  XQ LOSS MUTATED XQ LOSS WILD-TYPE 
                1                36 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CF-A3MF        TCGA-CF-A3MG 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-CF-A3MH        TCGA-CF-A3MI        TCGA-DK-A2HX        TCGA-DK-A3IN 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-DK-A3WX        TCGA-E5-A2PC        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-G2-A3VY        TCGA-GC-A3BM 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-GC-A3I6        TCGA-GC-A3OO        TCGA-GC-A3RC        TCGA-GC-A3RD 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-GC-A3YS        TCGA-GD-A3OS        TCGA-GV-A3JV        TCGA-GV-A3JW 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QH 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-GV-A3QI        TCGA-GV-A3QK        TCGA-GV-A40E        TCGA-GV-A40G 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
D74V5, continuous
D74V6, continuous
                   vv
clus                M0 M1 MX
  XQ LOSS MUTATED    2  0  2
  XQ LOSS WILD-TYPE 73  4 49
D74V7, multiclass
    clus
vv   XQ LOSS MUTATED XQ LOSS WILD-TYPE
  M0               2                73
  M1               0                 4
  MX               2                49
                   vv
clus                N0 N1 N2 N3 NX
  XQ LOSS MUTATED    1  0  0  0  2
  XQ LOSS WILD-TYPE 73 14 26  4  8
D74V8, multiclass
D74V9, continuous
[1] "Remove cluster labels:" "XQ LOSS MUTATED"       
clus
  XQ LOSS MUTATED XQ LOSS WILD-TYPE 
                1                97 
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-BT-A0S7        TCGA-BT-A0YX        TCGA-BT-A20J        TCGA-BT-A20N 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-BT-A20O        TCGA-BT-A20P        TCGA-BT-A20Q        TCGA-BT-A20T 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-BT-A20V        TCGA-BT-A20W        TCGA-BT-A20X        TCGA-BT-A2LA 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-BT-A2LD        TCGA-BT-A3PH        TCGA-CU-A0YN        TCGA-CU-A0YO 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-CU-A0YR        TCGA-CU-A3KJ        TCGA-CU-A3QU        TCGA-CU-A3YL 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-DK-A1A3        TCGA-DK-A1A5        TCGA-DK-A1A6        TCGA-DK-A1A7 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-DK-A1AA        TCGA-DK-A1AB        TCGA-DK-A1AC        TCGA-DK-A1AD 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-DK-A1AE        TCGA-DK-A1AF        TCGA-DK-A1AG        TCGA-DK-A2HX 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-DK-A2I1        TCGA-DK-A2I2        TCGA-DK-A2I4        TCGA-DK-A2I6 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-DK-A3IK        TCGA-DK-A3IL        TCGA-DK-A3IM        TCGA-DK-A3IN 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-DK-A3IQ        TCGA-DK-A3IS        TCGA-DK-A3IT        TCGA-DK-A3IU 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-DK-A3WW        TCGA-DK-A3WX        TCGA-DK-A3WY        TCGA-E5-A2PC 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-FD-A3B3        TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-FD-A3B7        TCGA-FD-A3B8        TCGA-FD-A3N5        TCGA-FD-A3N6 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-FD-A3NA        TCGA-FD-A3SJ        TCGA-FD-A3SL        TCGA-FD-A3SM 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-FD-A3SN        TCGA-FD-A3SO        TCGA-FD-A3SP        TCGA-FD-A3SQ 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-FD-A3SR        TCGA-FD-A3SS        TCGA-FD-A43N        TCGA-FD-A43U 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-FJ-A3Z7        TCGA-FT-A3EE        TCGA-GC-A3BM        TCGA-GC-A3I6 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-GC-A3OO        TCGA-GC-A3RB        TCGA-GC-A3RC        TCGA-GC-A3RD 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-GC-A3WC        TCGA-GC-A3YS        TCGA-GD-A2C5        TCGA-GD-A3OP 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-GD-A3OQ        TCGA-GU-A42P        TCGA-GU-A42Q        TCGA-GV-A3JV 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-GV-A3QF        TCGA-GV-A3QG 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-GV-A3QI        TCGA-GV-A3QK        TCGA-GV-A40G        TCGA-H4-A2HO 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-K4-A3WS 
"XQ LOSS WILD-TYPE" 
D74V10, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV
  XQ LOSS MUTATED         0        4         0        0
  XQ LOSS WILD-TYPE       1       32        43       46
D74V11, multiclass
           clus
vv          XQ LOSS MUTATED XQ LOSS WILD-TYPE
  STAGE I                 0                 1
  STAGE II                4                32
  STAGE III               0                43
  STAGE IV                0                46
                            V1.D                               V2 
                 "Time to Death"                            "AGE" 
                              V3                               V4 
                        "GENDER"    "KARNOFSKY.PERFORMANCE.SCORE" 
                              V5                               V6 
         "NUMBERPACKYEARSSMOKED" "TOBACCOSMOKINGHISTORYINDICATOR" 
                              V7                               V8 
            "DISTANT.METASTASIS"          "LYMPH.NODE.METASTASIS" 
                              V9                              V10 
         "NUMBER.OF.LYMPH.NODES"                "TUMOR.STAGECODE" 
                             V11 
         "NEOPLASM.DISEASESTAGE" 
> q(save="no")
