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

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> source("/xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Correlate_Clinical_Cnvsarms_onlysig.11.3769/CNV2ClinicalAnalysis_nozzle_onlysig.R")
> result <- main("/xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Correlate_Clinical_Cnvsarms_onlysig.11.3769/", "-nF=/xchip/tcga/Tools/Nozzle/v1.current", "-iD=/xchip/cga/gdac-prod/tcga-gdac-genepattern/jobResults/181704/broad_values_by_arm.mutsig.cluster.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataPickerPipeline/BLCA/1708518/1.GDAC_clinicalDataPicker.Finished/BLCA.clin.merged.picked.txt", "-fF=ALL", "-fC=3", "-fH=5", "-fW=9", "-fP=OUT", "-cP=1", "-cQ=0.25", "-MF=ONLYSIG", "-oT=BLCA", "-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"
[1] "opt"        "-OP=MUTSIG"
[1] "tl"   "-iT="
[1] "dx"   "-iX="
[1] "opt"    "MUTSIG"
[1] "dx" ""  

nPatients in clinical file=69, in cluster file=88, common to both=65
[1] "Reduce the number of clustering variables from 80 to 65."
[1] 65 65
[1] "1p gain mutation analysis"
[1] 3
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
                7                58 
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
                7                58 
[1] "1q gain mutation analysis"
[1] 3
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
               14                51 
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
               14                51 
[1] "2p gain mutation analysis"
[1] 3
  2P GAIN MUTATED 2P GAIN WILD-TYPE 
               13                52 
  2P GAIN MUTATED 2P GAIN WILD-TYPE 
               13                52 
[1] "3p gain mutation analysis"
[1] 3
  3P GAIN MUTATED 3P GAIN WILD-TYPE 
               13                52 
  3P GAIN MUTATED 3P GAIN WILD-TYPE 
               13                52 
[1] "3q gain mutation analysis"
[1] 3
  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
               16                49 
  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
               16                49 
[1] "4p gain mutation analysis"
[1] 3
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
                6                59 
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
                6                59 
[1] "5p gain mutation analysis"
[1] 3
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
               17                48 
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
               17                48 
[1] "5q gain mutation analysis"
[1] 3
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
                9                56 
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
                9                56 
[1] "6p gain mutation analysis"
[1] 3
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
                4                61 
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
                4                61 
[1] "7p gain mutation analysis"
[1] 3
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
               19                46 
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
               19                46 
[1] "7q gain mutation analysis"
[1] 3
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
               19                46 
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
               19                46 
[1] "8p gain mutation analysis"
[1] 3
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
               10                55 
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
               10                55 
[1] "8q gain mutation analysis"
[1] 3
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
               21                44 
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
               21                44 
[1] "9p gain mutation analysis"
[1] 3
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
                8                57 
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
                8                57 
[1] "9q gain mutation analysis"
[1] 3
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
                9                56 
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
                9                56 
[1] "10p gain mutation analysis"
[1] 3
  10P GAIN MUTATED 10P GAIN WILD-TYPE 
                15                 50 
  10P GAIN MUTATED 10P GAIN WILD-TYPE 
                15                 50 
[1] "10q gain mutation analysis"
[1] 3
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
                 4                 61 
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
                 4                 61 
[1] "11q gain mutation analysis"
[1] 3
  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
                 3                 62 
  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
                 3                 62 
[1] "12p gain mutation analysis"
[1] 3
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
                11                 54 
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
                11                 54 
[1] "12q gain mutation analysis"
[1] 3
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
                11                 54 
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
                11                 54 
[1] "13q gain mutation analysis"
[1] 3
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
                11                 54 
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
                11                 54 
[1] "14q gain mutation analysis"
[1] 3
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
                 5                 60 
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
                 5                 60 
[1] "15q gain mutation analysis"
[1] 3
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                 4                 61 
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                 4                 61 
[1] "16p gain mutation analysis"
[1] 3
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
                 5                 60 
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
                 5                 60 
[1] "16q gain mutation analysis"
[1] 3
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
                 6                 59 
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
                 6                 59 
[1] "17p gain mutation analysis"
[1] 3
  17P GAIN MUTATED 17P GAIN WILD-TYPE 
                 4                 61 
  17P GAIN MUTATED 17P GAIN WILD-TYPE 
                 4                 61 
[1] "17q gain mutation analysis"
[1] 3
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
                11                 54 
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
                11                 54 
[1] "18p gain mutation analysis"
[1] 3
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
                11                 54 
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
                11                 54 
[1] "18q gain mutation analysis"
[1] 3
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
                 6                 59 
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
                 6                 59 
[1] "19p gain mutation analysis"
[1] 3
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
                 5                 60 
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
                 5                 60 
[1] "19q gain mutation analysis"
[1] 3
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
                14                 51 
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
                14                 51 
[1] "20p gain mutation analysis"
[1] 3
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
                26                 39 
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
                26                 39 
[1] "20q gain mutation analysis"
[1] 3
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
                28                 37 
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
                28                 37 
[1] "21q gain mutation analysis"
[1] 3
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
                12                 53 
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
                12                 53 
[1] "22q gain mutation analysis"
[1] 3
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
                 5                 60 
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
                 5                 60 
[1] "Xq gain mutation analysis"
[1] 3
  XQ GAIN MUTATED XQ GAIN WILD-TYPE 
                4                61 
  XQ GAIN MUTATED XQ GAIN WILD-TYPE 
                4                61 
[1] "2p loss mutation analysis"
[1] 3
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
                3                62 
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
                3                62 
[1] "2q loss mutation analysis"
[1] 3
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
                5                60 
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
                5                60 
[1] "3p loss mutation analysis"
[1] 3
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
                5                60 
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
                5                60 
[1] "4p loss mutation analysis"
[1] 3
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
               11                54 
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
               11                54 
[1] "4q loss mutation analysis"
[1] 3
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
               12                53 
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
               12                53 
[1] "5p loss mutation analysis"
[1] 3
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
                7                58 
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
                7                58 
[1] "5q loss mutation analysis"
[1] 3
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
               14                51 
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
               14                51 
[1] "6p loss mutation analysis"
[1] 3
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
                6                59 
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
                6                59 
[1] "6q loss mutation analysis"
[1] 3
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
               12                53 
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
               12                53 
[1] "8p loss mutation analysis"
[1] 3
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
               18                47 
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
               18                47 
[1] "9p loss mutation analysis"
[1] 3
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
               21                44 
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
               21                44 
[1] "9q loss mutation analysis"
[1] 3
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
               18                47 
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
               18                47 
[1] "10p loss mutation analysis"
[1] 3
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
                 8                 57 
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
                 8                 57 
[1] "10q loss mutation analysis"
[1] 3
  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
                 8                 57 
  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
                 8                 57 
[1] "11p loss mutation analysis"
[1] 3
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
                23                 42 
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
                23                 42 
[1] "11q loss mutation analysis"
[1] 3
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
                19                 46 
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
                19                 46 
[1] "12q loss mutation analysis"
[1] 3
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
                 3                 62 
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
                 3                 62 
[1] "13q loss mutation analysis"
[1] 3
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
                10                 55 
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
                10                 55 
[1] "14q loss mutation analysis"
[1] 3
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
                13                 52 
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
                13                 52 
[1] "15q loss mutation analysis"
[1] 3
  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
                 8                 57 
  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
                 8                 57 
[1] "16p loss mutation analysis"
[1] 3
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
                 7                 58 
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
                 7                 58 
[1] "16q loss mutation analysis"
[1] 3
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
                 6                 59 
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
                 6                 59 
[1] "17p loss mutation analysis"
[1] 3
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
                19                 46 
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
                19                 46 
[1] "17q loss mutation analysis"
[1] 3
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
                 3                 62 
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
                 3                 62 
[1] "18p loss mutation analysis"
[1] 3
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
                 8                 57 
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
                 8                 57 
[1] "18q loss mutation analysis"
[1] 3
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
                16                 49 
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
                16                 49 
[1] "19p loss mutation analysis"
[1] 3
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
                 3                 62 
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
                 3                 62 
[1] "21q loss mutation analysis"
[1] 3
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
                 6                 59 
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
                 6                 59 
[1] "22q loss mutation analysis"
[1] 3
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
                14                 51 
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
                14                 51 
[1] "data2feature, selection=ALL"
 [1] "YEARSTOBIRTH"                          
 [2] "DAYSTODEATH"                           
 [3] "DAYSTOLASTFOLLOWUP"                    
 [4] "VITALSTATUS"                           
 [5] "DCCUPLOADDATE"                         
 [6] "PRIMARYSITEOFDESEASE"                  
 [7] "GENDER"                                
 [8] "DATEOFINITIALPATHOLOGICDIAGNOSIS"      
 [9] "DAYSTOLASTKNOWNALIVE"                  
[10] "KARNOFSKYPERFORMANCESCORE"             
[11] "RADIATIONS.RADIATION.REGIMENINDICATION"
[12] "NEOADJUVANTTHERAPY"                    
[13] "BATCHNUMBER"                           

Input Data has 13 rows and 65 columns.

[1] "Batch" "13"   
[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-C4-A0EZ 
          NA           NA           NA           NA           NA           NA 
TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YN 
          59           61           14           13           21           NA 
TCGA-CU-A0YO TCGA-CU-A0YR TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 
          NA          219           77           NA          955          273 
TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF 
         214          271         3616         3056          218          178 
TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I6 TCGA-DK-A3IS 
         202           55          322           NA         2291         1151 
TCGA-E5-A2PC TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 
        1108          268          253           NA          209           NA 
TCGA-FD-A3B8 TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL 
         336           71         1497          806          172           NA 
TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GC-A3I6 TCGA-GD-A2C5 
         684          525          214           NA           68          234 
TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-H4-A2HO TCGA-H4-A2HQ 
         160          187          160           46          204 
Variable 1:'AGE':	nDistinctValues=34,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'DAYSTODEATH':	nDistinctValues=23,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 3:'DAYSTOLASTFOLLOWUP':	nDistinctValues=39,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 4:'VITALSTATUS':	nDistinctValues=2,	numeric=TRUE,	binary=TRUE,	exclude=FALSE.
Variable 5:'DCCUPLOADDAY':	nDistinctValues=3,	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=11,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 9:'DAYSTOLASTKNOWNALIVE':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 10:'KARNOFSKY.PERFORMANCE.SCORE':	nDistinctValues=5,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 11:'RADIATIONS.RADIATION.REGIMENINDICATION':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 12:'NEOADJUVANT.THERAPY':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 13:'BATCH.NUMBER':	nDistinctValues=17,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "rownames(nsurv.mat)"
[1] "AGE"                         "GENDER"                     
[3] "KARNOFSKY.PERFORMANCE.SCORE"
[1] "TUMOR.?STAGE"
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T"
[1] "PATHOLOGY.N"
Output Data has 65 columns, 1 survival variables, and 3 non-survival variables.
AGE, nv=34, binary=FALSE, numeric=TRUE
GENDER, nv=2, binary=FALSE, numeric=FALSE
KARNOFSKY.PERFORMANCE.SCORE, nv=5, binary=FALSE, numeric=TRUE

Clustering(1) Variable = 1p gain mutation analysis
D1V1, survival
                   sevent
clus2                0  1
  1P GAIN MUTATED    3  4
  1P GAIN WILD-TYPE 38 20
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
                7                58 
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
                4                20 
$`1P GAIN MUTATED`
TCGA-BT-A20T TCGA-C4-A0EZ TCGA-CU-A0YN TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-FT-A3EE 
       14.89         8.98        12.30        10.59         7.76         2.33 
TCGA-GV-A3JZ 
        5.26 

$`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-C4-A0F0 TCGA-C4-A0F6 
        8.61         5.06         8.35         8.25         1.94         2.01 
TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YO TCGA-CU-A0YR TCGA-DK-A1A3 
        0.46         0.43         0.69         4.90         7.20         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-A2I6 
      100.47         7.17         5.85         6.64         1.81        75.32 
TCGA-DK-A3IS TCGA-E5-A2PC TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 
       37.84        36.43         8.81         8.32         8.94         6.87 
TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL 
        4.01        11.05        49.22        26.50         5.65        26.93 
TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GC-A3I6 TCGA-GD-A2C5 
       22.49        17.26         7.04        20.12         2.24         7.69 
TCGA-GV-A3JW TCGA-GV-A3JX TCGA-H4-A2HO TCGA-H4-A2HQ 
        5.26         6.15         1.51         6.71 

  1P GAIN MUTATED 1P GAIN WILD-TYPE 
             2.33              0.43 
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
            14.89            118.88 
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
             8.98              7.51 
[1] "2.3 - 14.9 (9.0)"  "0.4 - 118.9 (7.5)"
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"1P GAIN WILD-TYPE"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED"   "1P GAIN MUTATED" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"1P GAIN WILD-TYPE"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
"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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"1P GAIN WILD-TYPE"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED"   "1P GAIN MUTATED" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"1P GAIN WILD-TYPE"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
"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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"1P GAIN WILD-TYPE"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED"   "1P GAIN MUTATED" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"1P GAIN WILD-TYPE"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
"1P GAIN WILD-TYPE" 
[1] "hr=" "2.1"
D1V2, continuous
D1V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1P GAIN MUTATED      4    3
  1P GAIN WILD-TYPE   18   40
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  FEMALE               4                18
  MALE                 3                40
D1V4, continuous
[1] "Remove cluster labels:" "1P GAIN MUTATED"       
clus
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
                1                15 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-DK-A2HX        TCGA-E5-A2PC 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK        TCGA-G2-A2EL 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB        TCGA-G2-A3IE 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-GC-A3I6        TCGA-GV-A3JW        TCGA-GV-A3JX 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 

Clustering(2) Variable = 1q gain mutation analysis
D2V1, survival
                   sevent
clus2                0  1
  1Q GAIN MUTATED    7  7
  1Q GAIN WILD-TYPE 34 17
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
               14                51 
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
                7                17 
$`1Q GAIN MUTATED`
TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A20T TCGA-BT-A20V TCGA-C4-A0EZ TCGA-CU-A0YN 
        2.66         6.74        14.89         5.06         8.98        12.30 
TCGA-DK-A1A3 TCGA-DK-A1AD TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-FT-A3EE TCGA-GD-A2C5 
        2.53       100.47        10.59         7.76         2.33         7.69 
TCGA-GV-A3JX TCGA-GV-A3JZ 
        6.15         5.26 

$`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-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CF-A27C 
        8.25         1.94         2.01         0.46         0.43         0.69 
TCGA-CU-A0YO TCGA-CU-A0YR TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA 
        4.90         7.20         2.14        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-A2I6 TCGA-DK-A3IS TCGA-E5-A2PC TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 
       75.32        37.84        36.43         8.81         8.32         8.94 
TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK 
        6.87         4.01        11.05        49.22        26.50         5.65 
TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GC-A3I6 
       26.93        22.49        17.26         7.04        20.12         2.24 
TCGA-GV-A3JW TCGA-H4-A2HO TCGA-H4-A2HQ 
        5.26         1.51         6.71 

  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
             2.33              0.43 
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
           100.47            118.88 
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
            7.215             8.320 
[1] "2.3 - 100.5 (7.2)" "0.4 - 118.9 (8.3)"
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED"   "1Q GAIN MUTATED" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
"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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED"   "1Q GAIN MUTATED" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
"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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED"   "1Q GAIN MUTATED" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
"1Q GAIN WILD-TYPE" 
[1] "hr=" "2.2"
D2V2, continuous
D2V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1Q GAIN MUTATED      6    8
  1Q GAIN WILD-TYPE   16   35
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  FEMALE               6                16
  MALE                 8                35
D2V4, continuous
[1] "Remove cluster labels:" "1Q GAIN MUTATED"       
clus
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
                2                14 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-DK-A2HX        TCGA-E5-A2PC 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK        TCGA-G2-A2EL 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB        TCGA-G2-A3IE 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-GC-A3I6        TCGA-GV-A3JW 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 

Clustering(3) Variable = 2p gain mutation analysis
D3V1, survival
                   sevent
clus2                0  1
  2P GAIN MUTATED    9  4
  2P GAIN WILD-TYPE 32 20
  2P GAIN MUTATED 2P GAIN WILD-TYPE 
               13                52 
  2P GAIN MUTATED 2P GAIN WILD-TYPE 
                4                20 
$`2P GAIN MUTATED`
TCGA-BT-A0YX TCGA-BT-A20V TCGA-BT-A20W TCGA-C4-A0EZ TCGA-C4-A0F6 TCGA-DK-A1A6 
       11.93         5.06         8.35         8.98         2.01        31.40 
TCGA-DK-A1A7 TCGA-DK-A1AC TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I6 TCGA-FT-A3EE 
        8.98       118.88        10.59         7.76        75.32         2.33 
TCGA-GD-A2C5 
        7.69 

$`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-C4-A0F0 TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CF-A27C 
        8.61         8.25         1.94         0.46         0.43         0.69 
TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1AA 
       12.30         4.90         7.20         2.53         2.14         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-A3IS TCGA-E5-A2PC TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 
       37.84        36.43         8.81         8.32         8.94         6.87 
TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL 
        4.01        11.05        49.22        26.50         5.65        26.93 
TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GC-A3I6 TCGA-GV-A3JW 
       22.49        17.26         7.04        20.12         2.24         5.26 
TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-H4-A2HO TCGA-H4-A2HQ 
        6.15         5.26         1.51         6.71 

  2P GAIN MUTATED 2P GAIN WILD-TYPE 
             2.01              0.43 
  2P GAIN MUTATED 2P GAIN WILD-TYPE 
           118.88            100.47 
  2P GAIN MUTATED 2P GAIN WILD-TYPE 
            8.980             7.185 
[1] "2.0 - 118.9 (9.0)" "0.4 - 100.5 (7.2)"
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
  "2P GAIN MUTATED"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
  "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED"   "2P GAIN MUTATED" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
  "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
"2P GAIN WILD-TYPE" 
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
  "2P GAIN MUTATED"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
  "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED"   "2P GAIN MUTATED" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
  "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
"2P GAIN WILD-TYPE" 
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
  "2P GAIN MUTATED"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
  "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED"   "2P GAIN MUTATED" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
  "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
"2P GAIN WILD-TYPE" 
[1] "hr=" "1.5"
D3V2, continuous
D3V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  2P GAIN MUTATED      9    4
  2P GAIN WILD-TYPE   13   39
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  FEMALE               9                13
  MALE                 4                39
D3V4, continuous

Clustering(4) Variable = 3p gain mutation analysis
D4V1, survival
                   sevent
clus2                0  1
  3P GAIN MUTATED   10  3
  3P GAIN WILD-TYPE 31 21
  3P GAIN MUTATED 3P GAIN WILD-TYPE 
               13                52 
  3P GAIN MUTATED 3P GAIN WILD-TYPE 
                3                21 
$`3P GAIN MUTATED`
TCGA-BL-A13J TCGA-BL-A3JM TCGA-CF-A1HR TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1AD 
        2.66         6.74         0.46         2.53         2.14       100.47 
TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I6 TCGA-E5-A2PC TCGA-FT-A3EE TCGA-GC-A3I6 
        1.81        10.59        75.32        36.43         2.33         2.24 
TCGA-GV-A3JW 
        5.26 

$`3P 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-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-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 
        5.06         8.35         8.25         8.98         1.94         2.01 
TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-DK-A1A6 
        0.43         0.69        12.30         4.90         7.20        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-A2I2 TCGA-DK-A3IS TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 
        6.64         7.76        37.84         8.81         8.32         8.94 
TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK 
        6.87         4.01        11.05        49.22        26.50         5.65 
TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GD-A2C5 
       26.93        22.49        17.26         7.04        20.12         7.69 
TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-H4-A2HO TCGA-H4-A2HQ 
        6.15         5.26         1.51         6.71 

  3P GAIN MUTATED 3P GAIN WILD-TYPE 
             0.46              0.43 
  3P GAIN MUTATED 3P GAIN WILD-TYPE 
           100.47            118.88 
  3P GAIN MUTATED 3P GAIN WILD-TYPE 
            2.660             8.335 
[1] "0.5 - 100.5 (2.7)" "0.4 - 118.9 (8.3)"
       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 MUTATED" 
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
  "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED"   "3P GAIN MUTATED" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"3P GAIN WILD-TYPE"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"3P GAIN WILD-TYPE"   "3P GAIN MUTATED"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
  "3P GAIN MUTATED" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"3P GAIN WILD-TYPE"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
  "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
"3P GAIN WILD-TYPE" 
       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 MUTATED" 
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
  "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED"   "3P GAIN MUTATED" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"3P GAIN WILD-TYPE"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"3P GAIN WILD-TYPE"   "3P GAIN MUTATED"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
  "3P GAIN MUTATED" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"3P GAIN WILD-TYPE"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
  "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
"3P GAIN WILD-TYPE" 
       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 MUTATED" 
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
  "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED"   "3P GAIN MUTATED" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"3P GAIN WILD-TYPE"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"3P GAIN WILD-TYPE"   "3P GAIN MUTATED"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
  "3P GAIN MUTATED" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"3P GAIN WILD-TYPE"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
  "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
"3P GAIN WILD-TYPE" 
[1] "hr=" "1.4"
D4V2, continuous
D4V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  3P GAIN MUTATED      4    9
  3P GAIN WILD-TYPE   18   34
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  FEMALE               4                18
  MALE                 9                34
D4V4, continuous

Clustering(5) Variable = 3q gain mutation analysis
D5V1, survival
                   sevent
clus2                0  1
  3Q GAIN MUTATED   13  3
  3Q GAIN WILD-TYPE 28 21
  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
               16                49 
  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
                3                21 
$`3Q GAIN MUTATED`
TCGA-BL-A0C8 TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0YX TCGA-BT-A20V TCGA-CF-A1HR 
       12.79         2.66         6.74        11.93         5.06         0.46 
TCGA-DK-A1A3 TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-E5-A2PC 
        2.53        31.40         8.98         1.81        10.59        36.43 
TCGA-G2-A2EJ TCGA-GC-A3I6 TCGA-GV-A3JW TCGA-H4-A2HQ 
       26.50         2.24         5.26         6.71 

$`3Q GAIN WILD-TYPE`
TCGA-BL-A13I TCGA-BT-A0S7 TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P 
        7.33         6.58        19.00        26.10        12.16        17.85 
TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20W TCGA-BT-A20X 
       19.46         5.06        14.89         8.61         8.35         8.25 
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        12.30 
TCGA-CU-A0YO TCGA-CU-A0YR TCGA-DK-A1A5 TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AC 
        4.90         7.20         2.14         7.04         8.91       118.88 
TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2I2 TCGA-DK-A2I6 
      100.47         7.17         5.85         6.64         7.76        75.32 
TCGA-DK-A3IS TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 
       37.84         8.81         8.32         8.94         6.87         4.01 
TCGA-FD-A3B8 TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO 
       11.05         2.33        49.22         5.65        26.93        22.49 
TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GD-A2C5 TCGA-GV-A3JX TCGA-GV-A3JZ 
       17.26         7.04        20.12         7.69         6.15         5.26 
TCGA-H4-A2HO 
        1.51 

  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
             0.46              0.43 
  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
            36.43            118.88 
  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
            6.725             8.250 
[1] "0.5 - 36.4 (6.7)"  "0.4 - 118.9 (8.2)"
       TCGA-BL-A0C8        TCGA-BL-A13I        TCGA-BL-A13J        TCGA-BL-A3JM 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED"   "3Q GAIN MUTATED" 
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
  "3Q GAIN MUTATED"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
  "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 MUTATED" 
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
  "3Q GAIN MUTATED"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
  "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 MUTATED" 
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
  "3Q GAIN MUTATED"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
  "3Q GAIN MUTATED" 
[1] "hr=" "2"  
D5V2, continuous
D5V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  3Q GAIN MUTATED      8    8
  3Q GAIN WILD-TYPE   14   35
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  FEMALE               8                14
  MALE                 8                35
D5V4, continuous

Clustering(6) Variable = 4p gain mutation analysis
D6V1, survival
                   sevent
clus2                0  1
  4P GAIN MUTATED    5  1
  4P GAIN WILD-TYPE 36 23
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
                6                59 
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
                1                23 
$`4P GAIN MUTATED`
TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1AC TCGA-G2-A2EF 
        1.94         2.01         2.14        31.40       118.88        49.22 

$`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-C4-A0EZ 
       14.89         8.61         5.06         8.35         8.25         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        12.30         4.90         7.20 
TCGA-DK-A1A3 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AD TCGA-DK-A1AE 
        2.53         8.98         7.04         8.91       100.47         7.17 
TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I6 
        5.85         6.64         1.81        10.59         7.76        75.32 
TCGA-DK-A3IS TCGA-E5-A2PC TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 
       37.84        36.43         8.81         8.32         8.94         6.87 
TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FT-A3EE TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL 
        4.01        11.05         2.33        26.50         5.65        26.93 
TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GC-A3I6 TCGA-GD-A2C5 
       22.49        17.26         7.04        20.12         2.24         7.69 
TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-H4-A2HO TCGA-H4-A2HQ 
        5.26         6.15         5.26         1.51         6.71 

  4P GAIN MUTATED 4P GAIN WILD-TYPE 
             1.94              0.43 
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
           118.88            100.47 
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
            16.77              7.76 
[1] "1.9 - 118.9 (16.8)" "0.4 - 100.5 (7.8)" 
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE"   "4P GAIN MUTATED"   "4P GAIN MUTATED" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE"   "4P GAIN MUTATED" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
  "4P GAIN MUTATED" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
  "4P GAIN MUTATED" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE"   "4P GAIN MUTATED" "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-GC-A3I6        TCGA-GD-A2C5 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
"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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE"   "4P GAIN MUTATED"   "4P GAIN MUTATED" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE"   "4P GAIN MUTATED" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
  "4P GAIN MUTATED" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
  "4P GAIN MUTATED" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE"   "4P GAIN MUTATED" "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-GC-A3I6        TCGA-GD-A2C5 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
"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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE"   "4P GAIN MUTATED"   "4P GAIN MUTATED" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE"   "4P GAIN MUTATED" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
  "4P GAIN MUTATED" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
  "4P GAIN MUTATED" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE"   "4P GAIN MUTATED" "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-GC-A3I6        TCGA-GD-A2C5 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
"4P GAIN WILD-TYPE" 
[1] "hr=" "3.8"
D6V2, continuous
D6V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  4P GAIN MUTATED      1    5
  4P GAIN WILD-TYPE   21   38
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  FEMALE               1                21
  MALE                 5                38
D6V4, continuous
[1] "Remove cluster labels:" "4P GAIN MUTATED"       
clus
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
                1                15 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-DK-A2HX        TCGA-E5-A2PC 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-G2-A2EJ        TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-G2-A2ES        TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 

Clustering(7) Variable = 5p gain mutation analysis
D7V1, survival
                   sevent
clus2                0  1
  5P GAIN MUTATED   11  6
  5P GAIN WILD-TYPE 30 18
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
               17                48 
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
                6                18 
$`5P GAIN MUTATED`
TCGA-BL-A0C8 TCGA-BL-A3JM TCGA-BT-A20N TCGA-BT-A20V TCGA-BT-A20W TCGA-CF-A1HS 
       12.79         6.74        26.10         5.06         8.35         0.43 
TCGA-CU-A0YN TCGA-CU-A0YR TCGA-DK-A1A3 TCGA-DK-A2I6 TCGA-FD-A3B3 TCGA-FD-A3B4 
       12.30         7.20         2.53        75.32         8.81         8.32 
TCGA-FD-A3B5 TCGA-FT-A3EE TCGA-G2-A2EO TCGA-GC-A3I6 TCGA-H4-A2HQ 
        8.94         2.33        22.49         2.24         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-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A27C TCGA-CU-A0YO 
        8.98         1.94         2.01         0.46         0.69         4.90 
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-A3IS TCGA-E5-A2PC TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 
        7.76        37.84        36.43         6.87         4.01        11.05 
TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2ES TCGA-G2-A3IB 
       49.22        26.50         5.65        26.93        17.26         7.04 
TCGA-G2-A3IE TCGA-GD-A2C5 TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-H4-A2HO 
       20.12         7.69         5.26         6.15         5.26         1.51 

  5P GAIN MUTATED 5P GAIN WILD-TYPE 
             0.43              0.46 
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
            75.32            118.88 
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
            8.320             7.725 
[1] "0.4 - 75.3 (8.3)"  "0.5 - 118.9 (7.7)"
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"5P GAIN WILD-TYPE"   "5P GAIN MUTATED"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
  "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
  "5P GAIN MUTATED"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
  "5P GAIN MUTATED" 
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"5P GAIN WILD-TYPE"   "5P GAIN MUTATED"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
  "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
  "5P GAIN MUTATED"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
  "5P GAIN MUTATED" 
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"5P GAIN WILD-TYPE"   "5P GAIN MUTATED"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
  "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
  "5P GAIN MUTATED"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
  "5P GAIN MUTATED" 
[1] "hr=" "1.1"
D7V2, continuous
D7V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5P GAIN MUTATED      6   11
  5P GAIN WILD-TYPE   16   32
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  FEMALE               6                16
  MALE                11                32
D7V4, continuous

Clustering(8) Variable = 5q gain mutation analysis
D8V1, survival
                   sevent
clus2                0  1
  5Q GAIN MUTATED    6  3
  5Q GAIN WILD-TYPE 35 21
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
                9                56 
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
                3                21 
$`5Q GAIN MUTATED`
TCGA-BL-A0C8 TCGA-BL-A3JM TCGA-BT-A20N TCGA-CF-A1HS TCGA-DK-A2I6 TCGA-FD-A3B5 
       12.79         6.74        26.10         0.43        75.32         8.94 
TCGA-FT-A3EE TCGA-G2-A2EO TCGA-GC-A3I6 
        2.33        22.49         2.24 

$`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-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR 
        8.35         8.25         8.98         1.94         2.01         0.46 
TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-DK-A1A3 TCGA-DK-A1A5 
        0.69        12.30         4.90         7.20         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-A3IS TCGA-E5-A2PC TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B6 TCGA-FD-A3B7 
       37.84        36.43         8.81         8.32         6.87         4.01 
TCGA-FD-A3B8 TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2ES 
       11.05        49.22        26.50         5.65        26.93        17.26 
TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GD-A2C5 TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ 
        7.04        20.12         7.69         5.26         6.15         5.26 
TCGA-H4-A2HO TCGA-H4-A2HQ 
        1.51         6.71 

  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
             0.43              0.46 
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
            75.32            118.88 
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
            8.940             7.725 
[1] "0.4 - 75.3 (8.9)"  "0.5 - 118.9 (7.7)"
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
  "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
"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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
  "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
"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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
  "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
"5Q GAIN WILD-TYPE" 
[1] "hr=" "1.4"
D8V2, continuous
D8V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5Q GAIN MUTATED      2    7
  5Q GAIN WILD-TYPE   20   36
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  FEMALE               2                20
  MALE                 7                36
D8V4, continuous

Clustering(9) Variable = 6p gain mutation analysis
D9V1, survival
                   sevent
clus2                0  1
  6P GAIN MUTATED    4  0
  6P GAIN WILD-TYPE 37 24
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
                4                61 
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
                0                24 
$`6P GAIN MUTATED`
TCGA-DK-A1AC TCGA-FT-A3EE TCGA-GC-A3I6 TCGA-GD-A2C5 
      118.88         2.33         2.24         7.69 

$`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-C4-A0EZ 
       14.89         8.61         5.06         8.35         8.25         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        12.30 
TCGA-CU-A0YO TCGA-CU-A0YR TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 
        4.90         7.20         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-A2I6 TCGA-DK-A3IS TCGA-E5-A2PC 
        1.81        10.59         7.76        75.32        37.84        36.43 
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-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES 
       49.22        26.50         5.65        26.93        22.49        17.26 
TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-H4-A2HO 
        7.04        20.12         5.26         6.15         5.26         1.51 
TCGA-H4-A2HQ 
        6.71 

  6P GAIN MUTATED 6P GAIN WILD-TYPE 
             2.24              0.43 
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
           118.88            100.47 
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
             5.01              8.25 
[1] "2.2 - 118.9 (5.0)" "0.4 - 100.5 (8.2)"
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
  "6P GAIN MUTATED" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"6P GAIN WILD-TYPE"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED"   "6P GAIN MUTATED" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
"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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
  "6P GAIN MUTATED" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"6P GAIN WILD-TYPE"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED"   "6P GAIN MUTATED" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
"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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
  "6P GAIN MUTATED" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"6P GAIN WILD-TYPE"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED"   "6P GAIN MUTATED" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
"6P GAIN WILD-TYPE" 
[1] "hr="     "7.3e+07"
D9V2, continuous
D9V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  6P GAIN MUTATED      2    2
  6P GAIN WILD-TYPE   20   41
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  FEMALE               2                20
  MALE                 2                41
D9V4, continuous
[1] "Remove cluster labels:" "6P GAIN MUTATED"       
clus
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
                1                15 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-DK-A2HX        TCGA-E5-A2PC 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK        TCGA-G2-A2EL 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB        TCGA-G2-A3IE 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 

Clustering(10) Variable = 7p gain mutation analysis
D10V1, survival
                   sevent
clus2                0  1
  7P GAIN MUTATED   11  8
  7P GAIN WILD-TYPE 30 16
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
               19                46 
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
                8                16 
$`7P GAIN MUTATED`
TCGA-BL-A0C8 TCGA-BL-A13J TCGA-BT-A0S7 TCGA-BT-A20N TCGA-C4-A0F6 TCGA-CF-A1HS 
       12.79         2.66         6.58        26.10         2.01         0.43 
TCGA-CU-A0YN TCGA-CU-A0YO TCGA-DK-A1A3 TCGA-DK-A1AC TCGA-DK-A2I1 TCGA-DK-A2I2 
       12.30         4.90         2.53       118.88        10.59         7.76 
TCGA-FD-A3B5 TCGA-FD-A3B7 TCGA-FT-A3EE TCGA-G2-A2EO TCGA-GC-A3I6 TCGA-GD-A2C5 
        8.94         4.01         2.33        22.49         2.24         7.69 
TCGA-GV-A3JZ 
        5.26 

$`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-C4-A0EZ TCGA-C4-A0F0 TCGA-CF-A1HR TCGA-CF-A27C TCGA-CU-A0YR 
        8.25         8.98         1.94         0.46         0.69         7.20 
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-A2I6 TCGA-DK-A3IS 
        7.17         5.85         6.64         1.81        75.32        37.84 
TCGA-E5-A2PC TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B6 TCGA-FD-A3B8 TCGA-G2-A2EF 
       36.43         8.81         8.32         6.87        11.05        49.22 
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-GV-A3JW TCGA-GV-A3JX TCGA-H4-A2HO TCGA-H4-A2HQ 
        5.26         6.15         1.51         6.71 

  7P GAIN MUTATED 7P GAIN WILD-TYPE 
             0.43              0.46 
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
           118.88            100.47 
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
            6.580             8.335 
[1] "0.4 - 118.9 (6.6)" "0.5 - 100.5 (8.3)"
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
  "7P GAIN MUTATED" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
  "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED"   "7P GAIN MUTATED" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED"   "7P GAIN MUTATED" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
"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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
  "7P GAIN MUTATED" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
  "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED"   "7P GAIN MUTATED" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED"   "7P GAIN MUTATED" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
"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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
  "7P GAIN MUTATED" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
  "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED"   "7P GAIN MUTATED" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED"   "7P GAIN MUTATED" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
"7P GAIN WILD-TYPE" 
[1] "hr=" "1.7"
D10V2, continuous
D10V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  7P GAIN MUTATED      6   13
  7P GAIN WILD-TYPE   16   30
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  FEMALE               6                16
  MALE                13                30
D10V4, continuous

Clustering(11) Variable = 7q gain mutation analysis
D11V1, survival
                   sevent
clus2                0  1
  7Q GAIN MUTATED   12  7
  7Q GAIN WILD-TYPE 29 17
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
               19                46 
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
                7                17 
$`7Q GAIN MUTATED`
TCGA-BL-A0C8 TCGA-BL-A13J TCGA-BT-A0S7 TCGA-BT-A20N TCGA-C4-A0F6 TCGA-CF-A1HS 
       12.79         2.66         6.58        26.10         2.01         0.43 
TCGA-CU-A0YN TCGA-CU-A0YO TCGA-DK-A1AD TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I2 
       12.30         4.90       100.47         1.81        10.59         7.76 
TCGA-FD-A3B4 TCGA-FD-A3B7 TCGA-FT-A3EE TCGA-G2-A2EO TCGA-GC-A3I6 TCGA-GD-A2C5 
        8.32         4.01         2.33        22.49         2.24         7.69 
TCGA-GV-A3JZ 
        5.26 

$`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-C4-A0EZ TCGA-C4-A0F0 TCGA-CF-A1HR TCGA-CF-A27C TCGA-CU-A0YR 
        8.25         8.98         1.94         0.46         0.69         7.20 
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-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2I6 TCGA-DK-A3IS 
      118.88         7.17         5.85         6.64        75.32        37.84 
TCGA-E5-A2PC TCGA-FD-A3B3 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B8 TCGA-G2-A2EF 
       36.43         8.81         8.94         6.87        11.05        49.22 
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-GV-A3JW TCGA-GV-A3JX TCGA-H4-A2HO TCGA-H4-A2HQ 
        5.26         6.15         1.51         6.71 

  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
             0.43              0.46 
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
           100.47            118.88 
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
             6.58              8.48 
[1] "0.4 - 100.5 (6.6)" "0.5 - 118.9 (8.5)"
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
  "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
  "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
"7Q GAIN WILD-TYPE" 
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
  "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
  "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
"7Q GAIN WILD-TYPE" 
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
  "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
  "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
"7Q GAIN WILD-TYPE" 
[1] "hr=" "1.4"
D11V2, continuous
D11V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  7Q GAIN MUTATED      8   11
  7Q GAIN WILD-TYPE   14   32
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  FEMALE               8                14
  MALE                11                32
D11V4, continuous

Clustering(12) Variable = 8p gain mutation analysis
D12V1, survival
                   sevent
clus2                0  1
  8P GAIN MUTATED    7  3
  8P GAIN WILD-TYPE 34 21
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
               10                55 
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
                3                21 
$`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-DK-A2I1 TCGA-G2-A2ES TCGA-GC-A3I6 
        7.17        10.59        17.26         2.24 

$`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-C4-A0EZ TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CF-A27C 
        8.35         8.25         8.98         0.46         0.43         0.69 
TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A7 
       12.30         4.90         7.20         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-A2I2 TCGA-DK-A2I6 TCGA-DK-A3IS TCGA-E5-A2PC TCGA-FD-A3B3 
        1.81         7.76        75.32        37.84        36.43         8.81 
TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FT-A3EE 
        8.32         8.94         6.87         4.01        11.05         2.33 
TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A3IB 
       49.22        26.50         5.65        26.93        22.49         7.04 
TCGA-G2-A3IE TCGA-GD-A2C5 TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-H4-A2HO 
       20.12         7.69         5.26         6.15         5.26         1.51 
TCGA-H4-A2HQ 
        6.71 

  8P GAIN MUTATED 8P GAIN WILD-TYPE 
             1.94              0.43 
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
            31.40            118.88 
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
            6.955             8.250 
[1] "1.9 - 31.4 (7.0)"  "0.4 - 118.9 (8.2)"
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED"   "8P GAIN MUTATED" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
  "8P GAIN MUTATED" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
"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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED"   "8P GAIN MUTATED" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
  "8P GAIN MUTATED" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
"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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED"   "8P GAIN MUTATED" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
  "8P GAIN MUTATED" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
"8P GAIN WILD-TYPE" 
[1] "hr=" "1.2"
D12V2, continuous
D12V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8P GAIN MUTATED      3    7
  8P GAIN WILD-TYPE   19   36
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  FEMALE               3                19
  MALE                 7                36
D12V4, continuous
[1] "Remove cluster labels:" "8P GAIN MUTATED"       
clus
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
                2                14 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-DK-A2HX        TCGA-E5-A2PC 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK        TCGA-G2-A2EL 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-G2-A2EO        TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GV-A3JW 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-GV-A3JX        TCGA-GV-A3JZ 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 

Clustering(13) Variable = 8q gain mutation analysis
D13V1, survival
                   sevent
clus2                0  1
  8Q GAIN MUTATED   14  7
  8Q GAIN WILD-TYPE 27 17
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
               21                44 
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
                7                17 
$`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-DK-A1A6 TCGA-DK-A1A7 
        8.25         1.94         2.01        12.30        31.40         8.98 
TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A2I1 TCGA-FD-A3B6 TCGA-FT-A3EE TCGA-G2-A2EK 
      100.47         7.17        10.59         6.87         2.33         5.65 
TCGA-G2-A2ES TCGA-GC-A3I6 TCGA-GV-A3JZ 
       17.26         2.24         5.26 

$`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-C4-A0EZ TCGA-CF-A1HR 
       19.46         5.06        14.89         8.61         8.98         0.46 
TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YO TCGA-CU-A0YR TCGA-DK-A1A3 TCGA-DK-A1A5 
        0.43         0.69         4.90         7.20         2.53         2.14 
TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AC TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX 
        7.04         8.91       118.88         5.85         6.64         1.81 
TCGA-DK-A2I2 TCGA-DK-A2I6 TCGA-DK-A3IS TCGA-E5-A2PC TCGA-FD-A3B3 TCGA-FD-A3B4 
        7.76        75.32        37.84        36.43         8.81         8.32 
TCGA-FD-A3B5 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EL 
        8.94         4.01        11.05        49.22        26.50        26.93 
TCGA-G2-A2EO TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GD-A2C5 TCGA-GV-A3JW TCGA-GV-A3JX 
       22.49         7.04        20.12         7.69         5.26         6.15 
TCGA-H4-A2HO TCGA-H4-A2HQ 
        1.51         6.71 

  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
             1.94              0.43 
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
           100.47            118.88 
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
            8.250             7.725 
[1] "1.9 - 100.5 (8.2)" "0.4 - 118.9 (7.7)"
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED"   "8Q GAIN MUTATED" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
  "8Q GAIN MUTATED"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
"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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED"   "8Q GAIN MUTATED" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
  "8Q GAIN MUTATED"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
"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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED"   "8Q GAIN MUTATED" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
  "8Q GAIN MUTATED"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
"8Q GAIN WILD-TYPE" 
[1] "hr=" "1.1"
D13V2, continuous
D13V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8Q GAIN MUTATED      5   16
  8Q GAIN WILD-TYPE   17   27
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  FEMALE               5                17
  MALE                16                27
D13V4, continuous

Clustering(14) Variable = 9p gain mutation analysis
D14V1, survival
                   sevent
clus2                0  1
  9P GAIN MUTATED    7  1
  9P GAIN WILD-TYPE 34 23
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
                8                57 
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
                1                23 
$`9P GAIN MUTATED`
TCGA-BL-A0C8 TCGA-BL-A3JM TCGA-DK-A1AC TCGA-DK-A1AD TCGA-G2-A2EF TCGA-G2-A2EJ 
       12.79         6.74       118.88       100.47        49.22        26.50 
TCGA-GC-A3I6 TCGA-GV-A3JZ 
        2.24         5.26 

$`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-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 
        5.06         8.35         8.25         8.98         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        12.30         4.90         7.20 
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-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-A2I6 TCGA-DK-A3IS TCGA-E5-A2PC TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 
       75.32        37.84        36.43         8.81         8.32         8.94 
TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FT-A3EE TCGA-G2-A2EK TCGA-G2-A2EL 
        6.87         4.01        11.05         2.33         5.65        26.93 
TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GD-A2C5 TCGA-GV-A3JW 
       22.49        17.26         7.04        20.12         7.69         5.26 
TCGA-GV-A3JX TCGA-H4-A2HO TCGA-H4-A2HQ 
        6.15         1.51         6.71 

  9P GAIN MUTATED 9P GAIN WILD-TYPE 
             2.24              0.43 
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
           118.88             75.32 
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
           19.645             7.690 
[1] "2.2 - 118.9 (19.6)" "0.4 - 75.3 (7.7)"  
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
  "9P GAIN MUTATED"   "9P GAIN MUTATED" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE"   "9P GAIN MUTATED"   "9P GAIN MUTATED" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE"   "9P GAIN MUTATED" "9P GAIN WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE"   "9P GAIN MUTATED" "9P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
"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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
  "9P GAIN MUTATED"   "9P GAIN MUTATED" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE"   "9P GAIN MUTATED"   "9P GAIN MUTATED" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE"   "9P GAIN MUTATED" "9P GAIN WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE"   "9P GAIN MUTATED" "9P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
"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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
  "9P GAIN MUTATED"   "9P GAIN MUTATED" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE"   "9P GAIN MUTATED"   "9P GAIN MUTATED" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE"   "9P GAIN MUTATED" "9P GAIN WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE"   "9P GAIN MUTATED" "9P GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
"9P GAIN WILD-TYPE" 
[1] "hr=" "6.3"
D14V2, continuous
D14V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  9P GAIN MUTATED      1    7
  9P GAIN WILD-TYPE   21   36
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  FEMALE               1                21
  MALE                 7                36
D14V4, continuous

Clustering(15) Variable = 9q gain mutation analysis
D15V1, survival
                   sevent
clus2                0  1
  9Q GAIN MUTATED    8  1
  9Q GAIN WILD-TYPE 33 23
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
                9                56 
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
                1                23 
$`9Q GAIN MUTATED`
TCGA-BL-A0C8 TCGA-BL-A3JM TCGA-C4-A0F0 TCGA-DK-A1AC TCGA-DK-A2I1 TCGA-FD-A3B4 
       12.79         6.74         1.94       118.88        10.59         8.32 
TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-GC-A3I6 
       49.22        26.50         2.24 

$`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-C4-A0EZ TCGA-C4-A0F6 TCGA-CF-A1HR 
        5.06         8.35         8.25         8.98         2.01         0.46 
TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-DK-A1A3 
        0.43         0.69        12.30         4.90         7.20         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-A2I6 
        7.17         5.85         6.64         1.81         7.76        75.32 
TCGA-DK-A3IS TCGA-E5-A2PC TCGA-FD-A3B3 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 
       37.84        36.43         8.81         8.94         6.87         4.01 
TCGA-FD-A3B8 TCGA-FT-A3EE TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES 
       11.05         2.33         5.65        26.93        22.49        17.26 
TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GD-A2C5 TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ 
        7.04        20.12         7.69         5.26         6.15         5.26 
TCGA-H4-A2HO TCGA-H4-A2HQ 
        1.51         6.71 

  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
             1.94              0.43 
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
           118.88            100.47 
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
            10.59              7.51 
[1] "1.9 - 118.9 (10.6)" "0.4 - 100.5 (7.5)" 
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE"   "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
  "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE"   "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
  "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE"   "9Q GAIN MUTATED"   "9Q GAIN MUTATED" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE"   "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
"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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE"   "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
  "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE"   "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
  "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE"   "9Q GAIN MUTATED"   "9Q GAIN MUTATED" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE"   "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
"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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE"   "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
  "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE"   "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
  "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE"   "9Q GAIN MUTATED"   "9Q GAIN MUTATED" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE"   "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
"9Q GAIN WILD-TYPE" 
[1] "hr=" "5.3"
D15V2, continuous
D15V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  9Q GAIN MUTATED      3    6
  9Q GAIN WILD-TYPE   19   37
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  FEMALE               3                19
  MALE                 6                37
D15V4, continuous

Clustering(16) Variable = 10p gain mutation analysis
D16V1, survival
                    sevent
clus2                 0  1
  10P GAIN MUTATED   10  5
  10P GAIN WILD-TYPE 31 19
  10P GAIN MUTATED 10P GAIN WILD-TYPE 
                15                 50 
  10P GAIN MUTATED 10P GAIN WILD-TYPE 
                 5                 19 
$`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-FT-A3EE 
        2.53         2.14        31.40       100.47        75.32         2.33 
TCGA-G2-A2ES TCGA-GV-A3JW TCGA-GV-A3JZ 
       17.26         5.26         5.26 

$`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-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A27C TCGA-CU-A0YN 
        8.98         1.94         2.01         0.46         0.69        12.30 
TCGA-CU-A0YO TCGA-CU-A0YR TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AC 
        4.90         7.20         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-A3IS TCGA-E5-A2PC TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 
       37.84        36.43         8.81         8.32         8.94         6.87 
TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL 
        4.01        11.05        49.22        26.50         5.65        26.93 
TCGA-G2-A2EO TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GC-A3I6 TCGA-GD-A2C5 TCGA-GV-A3JX 
       22.49         7.04        20.12         2.24         7.69         6.15 
TCGA-H4-A2HO TCGA-H4-A2HQ 
        1.51         6.71 

  10P GAIN MUTATED 10P GAIN WILD-TYPE 
              0.43               0.46 
  10P GAIN MUTATED 10P GAIN WILD-TYPE 
            100.47             118.88 
  10P GAIN MUTATED 10P GAIN WILD-TYPE 
             5.260              8.285 
[1] "0.4 - 100.5 (5.3)" "0.5 - 118.9 (8.3)"
        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-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-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-A2I6         TCGA-DK-A3IS 
"10P GAIN WILD-TYPE"   "10P GAIN MUTATED" "10P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"10P GAIN WILD-TYPE"   "10P GAIN MUTATED" "10P GAIN WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"10P GAIN WILD-TYPE"   "10P GAIN MUTATED" "10P GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
  "10P GAIN MUTATED" "10P GAIN WILD-TYPE"   "10P GAIN MUTATED" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"10P GAIN WILD-TYPE" "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-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-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-A2I6         TCGA-DK-A3IS 
"10P GAIN WILD-TYPE"   "10P GAIN MUTATED" "10P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"10P GAIN WILD-TYPE"   "10P GAIN MUTATED" "10P GAIN WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"10P GAIN WILD-TYPE"   "10P GAIN MUTATED" "10P GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
  "10P GAIN MUTATED" "10P GAIN WILD-TYPE"   "10P GAIN MUTATED" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"10P GAIN WILD-TYPE" "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-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-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-A2I6         TCGA-DK-A3IS 
"10P GAIN WILD-TYPE"   "10P GAIN MUTATED" "10P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"10P GAIN WILD-TYPE"   "10P GAIN MUTATED" "10P GAIN WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"10P GAIN WILD-TYPE"   "10P GAIN MUTATED" "10P GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
  "10P GAIN MUTATED" "10P GAIN WILD-TYPE"   "10P GAIN MUTATED" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
[1] "hr=" "1.2"
D16V2, continuous
D16V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  10P GAIN MUTATED      4   11
  10P GAIN WILD-TYPE   18   32
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  FEMALE                4                 18
  MALE                 11                 32
D16V4, continuous

Clustering(17) Variable = 10q gain mutation analysis
D17V1, survival
                    sevent
clus2                 0  1
  10Q GAIN MUTATED    2  2
  10Q GAIN WILD-TYPE 39 22
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
                 4                 61 
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
                 2                 22 
$`10Q GAIN MUTATED`
TCGA-BT-A20R TCGA-BT-A20V TCGA-DK-A1A3 TCGA-DK-A1A6 
        5.06         5.06         2.53        31.40 

$`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-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 
        8.61         8.35         8.25         8.98         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        12.30         4.90         7.20 
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-A2I6 TCGA-DK-A3IS TCGA-E5-A2PC TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 
       75.32        37.84        36.43         8.81         8.32         8.94 
TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ 
        6.87         4.01        11.05         2.33        49.22        26.50 
TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE 
        5.65        26.93        22.49        17.26         7.04        20.12 
TCGA-GC-A3I6 TCGA-GD-A2C5 TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-H4-A2HO 
        2.24         7.69         5.26         6.15         5.26         1.51 
TCGA-H4-A2HQ 
        6.71 

  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
              2.53               0.43 
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
             31.40             118.88 
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
              5.06               8.25 
[1] "2.5 - 31.4 (5.1)"  "0.4 - 118.9 (8.2)"
        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-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-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-A2I6         TCGA-DK-A3IS 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"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-H4-A2HO         TCGA-H4-A2HQ 
"10Q GAIN WILD-TYPE" "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-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-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-A2I6         TCGA-DK-A3IS 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"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-H4-A2HO         TCGA-H4-A2HQ 
"10Q GAIN WILD-TYPE" "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-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-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-A2I6         TCGA-DK-A3IS 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"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-H4-A2HO         TCGA-H4-A2HQ 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
[1] "hr=" "1.6"
D17V2, continuous
D17V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  10Q GAIN MUTATED      2    2
  10Q GAIN WILD-TYPE   20   41
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  FEMALE                2                 20
  MALE                  2                 41
D17V4, continuous

Clustering(18) Variable = 11q gain mutation analysis
D18V1, survival
                    sevent
clus2                 0  1
  11Q GAIN MUTATED    3  0
  11Q GAIN WILD-TYPE 38 24
  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
                 3                 62 
  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
                 0                 24 
$`11Q GAIN MUTATED`
TCGA-DK-A1A3 TCGA-FD-A3B6 TCGA-GC-A3I6 
        2.53         6.87         2.24 

$`11Q 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-C4-A0EZ 
       14.89         8.61         5.06         8.35         8.25         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        12.30 
TCGA-CU-A0YO TCGA-CU-A0YR TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA 
        4.90         7.20         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-A2I6 TCGA-DK-A3IS TCGA-E5-A2PC 
        1.81        10.59         7.76        75.32        37.84        36.43 
TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FT-A3EE 
        8.81         8.32         8.94         4.01        11.05         2.33 
TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES 
       49.22        26.50         5.65        26.93        22.49        17.26 
TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GD-A2C5 TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ 
        7.04        20.12         7.69         5.26         6.15         5.26 
TCGA-H4-A2HO TCGA-H4-A2HQ 
        1.51         6.71 

  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
              2.24               0.43 
  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
              6.87             118.88 
  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
             2.530              8.285 
[1] "2.2 - 6.9 (2.5)"   "0.4 - 118.9 (8.3)"
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        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-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-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-A2I6         TCGA-DK-A3IS 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"11Q GAIN WILD-TYPE"   "11Q GAIN MUTATED" "11Q GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"11Q GAIN WILD-TYPE"   "11Q GAIN MUTATED" "11Q GAIN WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        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-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-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-A2I6         TCGA-DK-A3IS 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"11Q GAIN WILD-TYPE"   "11Q GAIN MUTATED" "11Q GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"11Q GAIN WILD-TYPE"   "11Q GAIN MUTATED" "11Q GAIN WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        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-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-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-A2I6         TCGA-DK-A3IS 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"11Q GAIN WILD-TYPE"   "11Q GAIN MUTATED" "11Q GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"11Q GAIN WILD-TYPE"   "11Q GAIN MUTATED" "11Q GAIN WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
[1] "hr="     "9300000"
D18V2, continuous
D18V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  11Q GAIN MUTATED      0    3
  11Q GAIN WILD-TYPE   22   40
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  FEMALE                0                 22
  MALE                  3                 40
D18V4, continuous
[1] "Remove cluster labels:" "11Q GAIN MUTATED"      
clus
  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
                 1                 15 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-DK-A2HX 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         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-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 

Clustering(19) Variable = 12p gain mutation analysis
D19V1, survival
                    sevent
clus2                 0  1
  12P GAIN MUTATED    6  5
  12P GAIN WILD-TYPE 35 19
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
                11                 54 
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
                 5                 19 
$`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-CU-A0YR TCGA-DK-A1A6 TCGA-FD-A3B6 TCGA-GC-A3I6 TCGA-GV-A3JZ 
        7.20        31.40         6.87         2.24         5.26 

$`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-C4-A0EZ 
        5.06        14.89         8.61         8.35         8.25         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        12.30 
TCGA-CU-A0YO TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB 
        4.90         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-A2I6 TCGA-DK-A3IS TCGA-E5-A2PC TCGA-FD-A3B3 
       10.59         7.76        75.32        37.84        36.43         8.81 
TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FT-A3EE TCGA-G2-A2EF 
        8.32         8.94         4.01        11.05         2.33        49.22 
TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB 
       26.50         5.65        26.93        22.49        17.26         7.04 
TCGA-G2-A3IE TCGA-GD-A2C5 TCGA-GV-A3JW TCGA-GV-A3JX TCGA-H4-A2HO TCGA-H4-A2HQ 
       20.12         7.69         5.26         6.15         1.51         6.71 

  12P GAIN MUTATED 12P GAIN WILD-TYPE 
              2.24               0.43 
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
             31.40             118.88 
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
             7.200              8.005 
[1] "2.2 - 31.4 (7.2)"  "0.4 - 118.9 (8.0)"
        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-C4-A0EZ 
"12P GAIN WILD-TYPE" "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-DK-A1A3 
"12P GAIN WILD-TYPE"   "12P GAIN MUTATED" "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-A2I6         TCGA-DK-A3IS 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"12P GAIN WILD-TYPE"   "12P GAIN MUTATED" "12P GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"12P GAIN WILD-TYPE"   "12P GAIN MUTATED" "12P GAIN WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE"   "12P GAIN MUTATED" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        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-C4-A0EZ 
"12P GAIN WILD-TYPE" "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-DK-A1A3 
"12P GAIN WILD-TYPE"   "12P GAIN MUTATED" "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-A2I6         TCGA-DK-A3IS 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"12P GAIN WILD-TYPE"   "12P GAIN MUTATED" "12P GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"12P GAIN WILD-TYPE"   "12P GAIN MUTATED" "12P GAIN WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE"   "12P GAIN MUTATED" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        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-C4-A0EZ 
"12P GAIN WILD-TYPE" "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-DK-A1A3 
"12P GAIN WILD-TYPE"   "12P GAIN MUTATED" "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-A2I6         TCGA-DK-A3IS 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"12P GAIN WILD-TYPE"   "12P GAIN MUTATED" "12P GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"12P GAIN WILD-TYPE"   "12P GAIN MUTATED" "12P GAIN WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE"   "12P GAIN MUTATED" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
[1] "hr=" "1.1"
D19V2, continuous
D19V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  12P GAIN MUTATED      2    9
  12P GAIN WILD-TYPE   20   34
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  FEMALE                2                 20
  MALE                  9                 34
D19V4, continuous
[1] "Remove cluster labels:" "12P GAIN MUTATED"      
clus
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
                 2                 14 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-DK-A2HX 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         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-GV-A3JW         TCGA-GV-A3JX 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 

Clustering(20) Variable = 12q gain mutation analysis
D20V1, survival
                    sevent
clus2                 0  1
  12Q GAIN MUTATED    7  4
  12Q GAIN WILD-TYPE 34 20
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
                11                 54 
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
                 4                 20 
$`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-G2-A2EF TCGA-GC-A3I6 
       31.40       118.88         6.87        49.22         2.24 

$`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-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A1HS 
        8.25         8.98         1.94         2.01         0.46         0.43 
TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-DK-A1A3 TCGA-DK-A1A7 TCGA-DK-A1AA 
        0.69        12.30         4.90         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-A2I6 TCGA-DK-A3IS TCGA-E5-A2PC TCGA-FD-A3B3 
       10.59         7.76        75.32        37.84        36.43         8.81 
TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FT-A3EE TCGA-G2-A2EJ 
        8.32         8.94         4.01        11.05         2.33        26.50 
TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE 
        5.65        26.93        22.49        17.26         7.04        20.12 
TCGA-GD-A2C5 TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-H4-A2HO TCGA-H4-A2HQ 
        7.69         5.26         6.15         5.26         1.51         6.71 

  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
              2.14               0.43 
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
            118.88             100.47 
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
            12.790              7.725 
[1] "2.1 - 118.9 (12.8)" "0.4 - 100.5 (7.7)" 
        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-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-DK-A1A3 
"12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED" "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-A2I6         TCGA-DK-A3IS 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED" "12Q GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED" "12Q GAIN WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"12Q GAIN WILD-TYPE" "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-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-DK-A1A3 
"12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED" "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-A2I6         TCGA-DK-A3IS 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED" "12Q GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED" "12Q GAIN WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"12Q GAIN WILD-TYPE" "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-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-DK-A1A3 
"12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED" "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-A2I6         TCGA-DK-A3IS 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED" "12Q GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED" "12Q GAIN WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
[1] "hr=" "1.5"
D20V2, continuous
D20V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  12Q GAIN MUTATED      1   10
  12Q GAIN WILD-TYPE   21   33
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  FEMALE                1                 21
  MALE                 10                 33
D20V4, continuous
[1] "Remove cluster labels:" "12Q GAIN MUTATED"      
clus
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
                 2                 14 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-DK-A2HX 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-G2-A2EJ         TCGA-G2-A2EK 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-G2-A2EL         TCGA-G2-A2EO         TCGA-G2-A2ES 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-G2-A3IB         TCGA-G2-A3IE         TCGA-GV-A3JW 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 

Clustering(21) Variable = 13q gain mutation analysis
D21V1, survival
                    sevent
clus2                 0  1
  13Q GAIN MUTATED    5  6
  13Q GAIN WILD-TYPE 36 18
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
                11                 54 
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
                 6                 18 
$`13Q GAIN MUTATED`
TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A20J TCGA-BT-A20Q TCGA-C4-A0EZ TCGA-CU-A0YN 
        6.74         6.58        19.00        19.46         8.98        12.30 
TCGA-DK-A2HX TCGA-G2-A2EF TCGA-G2-A2EK TCGA-GV-A3JX TCGA-GV-A3JZ 
        1.81        49.22         5.65         6.15         5.26 

$`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-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CF-A27C 
        8.25         1.94         2.01         0.46         0.43         0.69 
TCGA-CU-A0YO TCGA-CU-A0YR TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 
        4.90         7.20         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-A2I6 TCGA-DK-A3IS TCGA-E5-A2PC 
        6.64        10.59         7.76        75.32        37.84        36.43 
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-FT-A3EE TCGA-G2-A2EJ TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB 
        2.33        26.50        26.93        22.49        17.26         7.04 
TCGA-G2-A3IE TCGA-GC-A3I6 TCGA-GD-A2C5 TCGA-GV-A3JW TCGA-H4-A2HO TCGA-H4-A2HQ 
       20.12         2.24         7.69         5.26         1.51         6.71 

  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
              1.81               0.43 
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
             49.22             118.88 
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
             6.740              8.005 
[1] "1.8 - 49.2 (6.7)"  "0.4 - 118.9 (8.0)"
        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-C4-A0EZ 
"13Q GAIN WILD-TYPE" "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-DK-A1A3 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "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-A2I6         TCGA-DK-A3IS 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED"   "13Q GAIN MUTATED" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"13Q GAIN WILD-TYPE" "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-C4-A0EZ 
"13Q GAIN WILD-TYPE" "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-DK-A1A3 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "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-A2I6         TCGA-DK-A3IS 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED"   "13Q GAIN MUTATED" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"13Q GAIN WILD-TYPE" "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-C4-A0EZ 
"13Q GAIN WILD-TYPE" "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-DK-A1A3 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "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-A2I6         TCGA-DK-A3IS 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED"   "13Q GAIN MUTATED" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
[1] "hr=" "1.6"
D21V2, continuous
D21V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  13Q GAIN MUTATED      2    9
  13Q GAIN WILD-TYPE   20   34
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  FEMALE                2                 20
  MALE                  9                 34
D21V4, continuous

Clustering(22) Variable = 14q gain mutation analysis
D22V1, survival
                    sevent
clus2                 0  1
  14Q GAIN MUTATED    3  2
  14Q GAIN WILD-TYPE 38 22
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
                 5                 60 
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
                 2                 22 
$`14Q GAIN MUTATED`
TCGA-C4-A0EZ TCGA-C4-A0F6 TCGA-G2-A2EL TCGA-G2-A2EO TCGA-GC-A3I6 
        8.98         2.01        26.93        22.49         2.24 

$`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-C4-A0F0 
       14.89         8.61         5.06         8.35         8.25         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        12.30         4.90         7.20 
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-A2I6 TCGA-DK-A3IS TCGA-E5-A2PC TCGA-FD-A3B3 
       10.59         7.76        75.32        37.84        36.43         8.81 
TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FT-A3EE 
        8.32         8.94         6.87         4.01        11.05         2.33 
TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE 
       49.22        26.50         5.65        17.26         7.04        20.12 
TCGA-GD-A2C5 TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-H4-A2HO TCGA-H4-A2HQ 
        7.69         5.26         6.15         5.26         1.51         6.71 

  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
              2.01               0.43 
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
             26.93             118.88 
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
             8.980              7.725 
[1] "2.0 - 26.9 (9.0)"  "0.4 - 118.9 (7.7)"
        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-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 WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         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-A2I6         TCGA-DK-A3IS 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
  "14Q GAIN MUTATED" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" "14Q GAIN WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        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-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 WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         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-A2I6         TCGA-DK-A3IS 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
  "14Q GAIN MUTATED" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" "14Q GAIN WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        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-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 WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         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-A2I6         TCGA-DK-A3IS 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
  "14Q GAIN MUTATED" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" "14Q GAIN WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
[1] "hr=" "1.2"
D22V2, continuous
D22V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  14Q GAIN MUTATED      2    3
  14Q GAIN WILD-TYPE   20   40
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  FEMALE                2                 20
  MALE                  3                 40
D22V4, continuous

Clustering(23) Variable = 15q gain mutation analysis
D23V1, survival
                    sevent
clus2                 0  1
  15Q GAIN MUTATED    2  2
  15Q GAIN WILD-TYPE 39 22
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                 4                 61 
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                 2                 22 
$`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-C4-A0EZ TCGA-C4-A0F0 
        8.61         5.06         8.35         8.25         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        12.30         4.90 
TCGA-CU-A0YR TCGA-DK-A1A3 TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB 
        7.20         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-A2I6 TCGA-DK-A3IS TCGA-E5-A2PC TCGA-FD-A3B3 TCGA-FD-A3B4 
        7.76        75.32        37.84        36.43         8.81         8.32 
TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FT-A3EE TCGA-G2-A2EF 
        8.94         6.87         4.01        11.05         2.33        49.22 
TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB 
       26.50         5.65        26.93        22.49        17.26         7.04 
TCGA-G2-A3IE TCGA-GD-A2C5 TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-H4-A2HO 
       20.12         7.69         5.26         6.15         5.26         1.51 
TCGA-H4-A2HQ 
        6.71 

  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
              1.81               0.43 
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
             19.46             118.88 
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
              2.19               8.25 
[1] "1.8 - 19.5 (2.2)"  "0.4 - 118.9 (8.2)"
        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-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-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-A2I6         TCGA-DK-A3IS 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"15Q GAIN WILD-TYPE" "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-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-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-A2I6         TCGA-DK-A3IS 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"15Q GAIN WILD-TYPE" "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-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-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-A2I6         TCGA-DK-A3IS 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
[1] "hr=" "2.7"
D23V2, continuous
D23V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  15Q GAIN MUTATED      1    3
  15Q GAIN WILD-TYPE   21   40
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  FEMALE                1                 21
  MALE                  3                 40
D23V4, continuous
[1] "Remove cluster labels:" "15Q GAIN MUTATED"      
clus
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                 2                 14 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-E5-A2PC 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-G2-A2EF         TCGA-G2-A2EJ         TCGA-G2-A2EK 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-G2-A2EL         TCGA-G2-A2EO         TCGA-G2-A2ES 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-G2-A3IB         TCGA-G2-A3IE         TCGA-GV-A3JW 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 

Clustering(24) Variable = 16p gain mutation analysis
D24V1, survival
                    sevent
clus2                 0  1
  16P GAIN MUTATED    2  3
  16P GAIN WILD-TYPE 39 21
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
                 5                 60 
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
                 3                 21 
$`16P GAIN MUTATED`
TCGA-BL-A13J TCGA-BT-A20V TCGA-C4-A0EZ TCGA-FT-A3EE TCGA-GC-A3I6 
        2.66         5.06         8.98         2.33         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-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR 
        8.61         8.35         8.25         1.94         2.01         0.46 
TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-DK-A1A3 
        0.43         0.69        12.30         4.90         7.20         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-A2I6 TCGA-DK-A3IS TCGA-E5-A2PC TCGA-FD-A3B3 TCGA-FD-A3B4 
        7.76        75.32        37.84        36.43         8.81         8.32 
TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-G2-A2EF TCGA-G2-A2EJ 
        8.94         6.87         4.01        11.05        49.22        26.50 
TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE 
        5.65        26.93        22.49        17.26         7.04        20.12 
TCGA-GD-A2C5 TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-H4-A2HO TCGA-H4-A2HQ 
        7.69         5.26         6.15         5.26         1.51         6.71 

  16P GAIN MUTATED 16P GAIN WILD-TYPE 
              2.24               0.43 
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
              8.98             118.88 
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
             2.660              8.285 
[1] "2.2 - 9.0 (2.7)"   "0.4 - 118.9 (8.3)"
        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-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-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-A2I6         TCGA-DK-A3IS 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"16P GAIN WILD-TYPE"   "16P GAIN MUTATED" "16P GAIN WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"16P GAIN WILD-TYPE"   "16P GAIN MUTATED" "16P GAIN WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"16P GAIN WILD-TYPE" "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-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-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-A2I6         TCGA-DK-A3IS 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"16P GAIN WILD-TYPE"   "16P GAIN MUTATED" "16P GAIN WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"16P GAIN WILD-TYPE"   "16P GAIN MUTATED" "16P GAIN WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"16P GAIN WILD-TYPE" "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-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-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-A2I6         TCGA-DK-A3IS 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"16P GAIN WILD-TYPE"   "16P GAIN MUTATED" "16P GAIN WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"16P GAIN WILD-TYPE"   "16P GAIN MUTATED" "16P GAIN WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
[1] "hr=" "6.5"
D24V2, continuous
D24V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  16P GAIN MUTATED      3    2
  16P GAIN WILD-TYPE   19   41
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  FEMALE                3                 19
  MALE                  2                 41
D24V4, continuous
[1] "Remove cluster labels:" "16P GAIN MUTATED"      
clus
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
                 1                 15 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-DK-A2HX 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"16P GAIN WILD-TYPE" "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-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 

Clustering(25) Variable = 16q gain mutation analysis
D25V1, survival
                    sevent
clus2                 0  1
  16Q GAIN MUTATED    3  3
  16Q GAIN WILD-TYPE 38 21
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
                 6                 59 
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
                 3                 21 
$`16Q GAIN MUTATED`
TCGA-BL-A13J TCGA-BT-A20V TCGA-C4-A0EZ TCGA-FT-A3EE TCGA-GC-A3I6 TCGA-GD-A2C5 
        2.66         5.06         8.98         2.33         2.24         7.69 

$`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-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR 
        8.61         8.35         8.25         1.94         2.01         0.46 
TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-DK-A1A3 
        0.43         0.69        12.30         4.90         7.20         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-A2I6 TCGA-DK-A3IS TCGA-E5-A2PC TCGA-FD-A3B3 TCGA-FD-A3B4 
        7.76        75.32        37.84        36.43         8.81         8.32 
TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-G2-A2EF TCGA-G2-A2EJ 
        8.94         6.87         4.01        11.05        49.22        26.50 
TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE 
        5.65        26.93        22.49        17.26         7.04        20.12 
TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-H4-A2HO TCGA-H4-A2HQ 
        5.26         6.15         5.26         1.51         6.71 

  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
              2.24               0.43 
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
              8.98             118.88 
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
              3.86               8.32 
[1] "2.2 - 9.0 (3.9)"   "0.4 - 118.9 (8.3)"
        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-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-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-A2I6         TCGA-DK-A3IS 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" "16Q GAIN WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED"   "16Q GAIN MUTATED" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"16Q GAIN WILD-TYPE" "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-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-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-A2I6         TCGA-DK-A3IS 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" "16Q GAIN WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED"   "16Q GAIN MUTATED" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"16Q GAIN WILD-TYPE" "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-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-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-A2I6         TCGA-DK-A3IS 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" "16Q GAIN WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED"   "16Q GAIN MUTATED" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
[1] "hr=" "4.8"
D25V2, continuous
D25V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  16Q GAIN MUTATED      4    2
  16Q GAIN WILD-TYPE   18   41
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  FEMALE                4                 18
  MALE                  2                 41
D25V4, continuous
[1] "Remove cluster labels:" "16Q GAIN MUTATED"      
clus
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
                 1                 15 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-DK-A2HX 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"16Q GAIN WILD-TYPE" "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-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 

Clustering(26) Variable = 17p gain mutation analysis
D26V1, survival
                    sevent
clus2                 0  1
  17P GAIN MUTATED    2  2
  17P GAIN WILD-TYPE 39 22
  17P GAIN MUTATED 17P GAIN WILD-TYPE 
                 4                 61 
  17P GAIN MUTATED 17P GAIN WILD-TYPE 
                 2                 22 
$`17P GAIN MUTATED`
TCGA-BL-A0C8 TCGA-BL-A3JM TCGA-C4-A0EZ TCGA-FT-A3EE 
       12.79         6.74         8.98         2.33 

$`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-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR 
        5.06         8.35         8.25         1.94         2.01         0.46 
TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-DK-A1A3 
        0.43         0.69        12.30         4.90         7.20         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-A2I6 TCGA-DK-A3IS TCGA-E5-A2PC TCGA-FD-A3B3 TCGA-FD-A3B4 
        7.76        75.32        37.84        36.43         8.81         8.32 
TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-G2-A2EF TCGA-G2-A2EJ 
        8.94         6.87         4.01        11.05        49.22        26.50 
TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE 
        5.65        26.93        22.49        17.26         7.04        20.12 
TCGA-GC-A3I6 TCGA-GD-A2C5 TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-H4-A2HO 
        2.24         7.69         5.26         6.15         5.26         1.51 
TCGA-H4-A2HQ 
        6.71 

  17P GAIN MUTATED 17P GAIN WILD-TYPE 
              2.33               0.43 
  17P GAIN MUTATED 17P GAIN WILD-TYPE 
             12.79             118.88 
  17P GAIN MUTATED 17P GAIN WILD-TYPE 
              7.86               7.76 
[1] "2.3 - 12.8 (7.9)"  "0.4 - 118.9 (7.8)"
        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-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-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-A2I6         TCGA-DK-A3IS 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"17P GAIN WILD-TYPE"   "17P GAIN MUTATED" "17P GAIN WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"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-H4-A2HO         TCGA-H4-A2HQ 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        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-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-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-A2I6         TCGA-DK-A3IS 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"17P GAIN WILD-TYPE"   "17P GAIN MUTATED" "17P GAIN WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"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-H4-A2HO         TCGA-H4-A2HQ 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        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-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-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-A2I6         TCGA-DK-A3IS 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"17P GAIN WILD-TYPE"   "17P GAIN MUTATED" "17P GAIN WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"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-H4-A2HO         TCGA-H4-A2HQ 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
[1] "hr=" "2"  
D26V2, continuous
D26V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  17P GAIN MUTATED      2    2
  17P GAIN WILD-TYPE   20   41
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  FEMALE                2                 20
  MALE                  2                 41
D26V4, continuous

Clustering(27) Variable = 17q gain mutation analysis
D27V1, survival
                    sevent
clus2                 0  1
  17Q GAIN MUTATED    7  4
  17Q GAIN WILD-TYPE 34 20
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
                11                 54 
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
                 4                 20 
$`17Q GAIN MUTATED`
TCGA-BL-A0C8 TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A20Q TCGA-C4-A0EZ TCGA-DK-A1A6 
       12.79         2.66         6.74        19.46         8.98        31.40 
TCGA-DK-A1A7 TCGA-DK-A1AD TCGA-FT-A3EE TCGA-GV-A3JZ TCGA-H4-A2HQ 
        8.98       100.47         2.33         5.26         6.71 

$`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-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CF-A27C 
        8.25         1.94         2.01         0.46         0.43         0.69 
TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1AA 
       12.30         4.90         7.20         2.53         2.14         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-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I6 TCGA-DK-A3IS TCGA-E5-A2PC TCGA-FD-A3B3 
       10.59         7.76        75.32        37.84        36.43         8.81 
TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-G2-A2EF 
        8.32         8.94         6.87         4.01        11.05        49.22 
TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB 
       26.50         5.65        26.93        22.49        17.26         7.04 
TCGA-G2-A3IE TCGA-GC-A3I6 TCGA-GD-A2C5 TCGA-GV-A3JW TCGA-GV-A3JX TCGA-H4-A2HO 
       20.12         2.24         7.69         5.26         6.15         1.51 

  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
              2.33               0.43 
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
            100.47             118.88 
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
             8.980              7.725 
[1] "2.3 - 100.5 (9.0)" "0.4 - 118.9 (7.7)"
        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-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-DK-A1A3 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "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-A2I6         TCGA-DK-A3IS 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"17Q GAIN WILD-TYPE"   "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-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-DK-A1A3 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "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-A2I6         TCGA-DK-A3IS 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"17Q GAIN WILD-TYPE"   "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-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-DK-A1A3 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "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-A2I6         TCGA-DK-A3IS 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" 
[1] "hr=" "1.2"
D27V2, continuous
D27V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  17Q GAIN MUTATED      4    7
  17Q GAIN WILD-TYPE   18   36
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  FEMALE                4                 18
  MALE                  7                 36
D27V4, continuous
[1] "Remove cluster labels:" "17Q GAIN MUTATED"      
clus
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
                 1                 15 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-DK-A2HX 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-G2-A2EF         TCGA-G2-A2EJ 
"17Q GAIN WILD-TYPE" "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-GC-A3I6         TCGA-GV-A3JW         TCGA-GV-A3JX 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 

Clustering(28) Variable = 18p gain mutation analysis
D28V1, survival
                    sevent
clus2                 0  1
  18P GAIN MUTATED    6  5
  18P GAIN WILD-TYPE 35 19
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
                11                 54 
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
                 5                 19 
$`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-FD-A3B5 TCGA-FD-A3B6 TCGA-G2-A2EF TCGA-GD-A2C5 TCGA-GV-A3JX 
        8.94         6.87        49.22         7.69         6.15 

$`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-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A27C 
        8.61         8.25         1.94         2.01         0.46         0.69 
TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A6 
       12.30         4.90         7.20         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-A3IS 
        5.85         6.64         1.81        10.59         7.76        37.84 
TCGA-E5-A2PC TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FT-A3EE 
       36.43         8.81         8.32         4.01        11.05         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        22.49        17.26         7.04 
TCGA-G2-A3IE TCGA-GC-A3I6 TCGA-GV-A3JW TCGA-GV-A3JZ TCGA-H4-A2HO TCGA-H4-A2HQ 
       20.12         2.24         5.26         5.26         1.51         6.71 

  18P GAIN MUTATED 18P GAIN WILD-TYPE 
              0.43               0.46 
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
             75.32             118.88 
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
             7.690              8.005 
[1] "0.4 - 75.3 (7.7)"  "0.5 - 118.9 (8.0)"
        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-C4-A0EZ 
  "18P GAIN MUTATED" "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-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-A2I6         TCGA-DK-A3IS 
"18P GAIN WILD-TYPE"   "18P GAIN MUTATED" "18P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
  "18P GAIN MUTATED"   "18P GAIN MUTATED" "18P GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE"   "18P GAIN MUTATED" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE"   "18P GAIN MUTATED" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"18P GAIN WILD-TYPE"   "18P GAIN MUTATED" "18P GAIN WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        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-C4-A0EZ 
  "18P GAIN MUTATED" "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-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-A2I6         TCGA-DK-A3IS 
"18P GAIN WILD-TYPE"   "18P GAIN MUTATED" "18P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
  "18P GAIN MUTATED"   "18P GAIN MUTATED" "18P GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE"   "18P GAIN MUTATED" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE"   "18P GAIN MUTATED" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"18P GAIN WILD-TYPE"   "18P GAIN MUTATED" "18P GAIN WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        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-C4-A0EZ 
  "18P GAIN MUTATED" "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-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-A2I6         TCGA-DK-A3IS 
"18P GAIN WILD-TYPE"   "18P GAIN MUTATED" "18P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
  "18P GAIN MUTATED"   "18P GAIN MUTATED" "18P GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE"   "18P GAIN MUTATED" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE"   "18P GAIN MUTATED" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"18P GAIN WILD-TYPE"   "18P GAIN MUTATED" "18P GAIN WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
[1] "hr=" "1.3"
D28V2, continuous
D28V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18P GAIN MUTATED      4    7
  18P GAIN WILD-TYPE   18   36
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  FEMALE                4                 18
  MALE                  7                 36
D28V4, continuous

Clustering(29) Variable = 18q gain mutation analysis
D29V1, survival
                    sevent
clus2                 0  1
  18Q GAIN MUTATED    3  3
  18Q GAIN WILD-TYPE 38 21
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
                 6                 59 
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
                 3                 21 
$`18Q GAIN MUTATED`
TCGA-BL-A3JM TCGA-BT-A20V TCGA-C4-A0EZ TCGA-DK-A1AE TCGA-FD-A3B6 TCGA-GD-A2C5 
        6.74         5.06         8.98         7.17         6.87         7.69 

$`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-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR 
        8.61         8.35         8.25         1.94         2.01         0.46 
TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-DK-A1A3 
        0.43         0.69        12.30         4.90         7.20         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-A2I6 TCGA-DK-A3IS TCGA-E5-A2PC TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 
       75.32        37.84        36.43         8.81         8.32         8.94 
TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK 
        4.01        11.05         2.33        49.22        26.50         5.65 
TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GC-A3I6 
       26.93        22.49        17.26         7.04        20.12         2.24 
TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-H4-A2HO TCGA-H4-A2HQ 
        5.26         6.15         5.26         1.51         6.71 

  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
              5.06               0.43 
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
              8.98             118.88 
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
              7.02               8.32 
[1] "5.1 - 9.0 (7.0)"   "0.4 - 118.9 (8.3)"
        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-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-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-A2I6         TCGA-DK-A3IS 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"18Q GAIN WILD-TYPE"   "18Q GAIN MUTATED" "18Q GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         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-GC-A3I6         TCGA-GD-A2C5 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE"   "18Q GAIN MUTATED" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"18Q GAIN WILD-TYPE" "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-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-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-A2I6         TCGA-DK-A3IS 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"18Q GAIN WILD-TYPE"   "18Q GAIN MUTATED" "18Q GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         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-GC-A3I6         TCGA-GD-A2C5 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE"   "18Q GAIN MUTATED" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"18Q GAIN WILD-TYPE" "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-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-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-A2I6         TCGA-DK-A3IS 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"18Q GAIN WILD-TYPE"   "18Q GAIN MUTATED" "18Q GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         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-GC-A3I6         TCGA-GD-A2C5 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE"   "18Q GAIN MUTATED" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
[1] "hr=" "3.1"
D29V2, continuous
D29V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18Q GAIN MUTATED      3    3
  18Q GAIN WILD-TYPE   19   40
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  FEMALE                3                 19
  MALE                  3                 40
D29V4, continuous

Clustering(30) Variable = 19p gain mutation analysis
D30V1, survival
                    sevent
clus2                 0  1
  19P GAIN MUTATED    4  1
  19P GAIN WILD-TYPE 37 23
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
                 5                 60 
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
                 1                 23 
$`19P GAIN MUTATED`
TCGA-BL-A3JM TCGA-DK-A1A7 TCGA-DK-A2HX TCGA-FT-A3EE TCGA-GV-A3JW 
        6.74         8.98         1.81         2.33         5.26 

$`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-C4-A0EZ TCGA-C4-A0F0 
        8.61         5.06         8.35         8.25         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        12.30         4.90 
TCGA-CU-A0YR TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1AA TCGA-DK-A1AB 
        7.20         2.53         2.14        31.40         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-A2I6 TCGA-DK-A3IS TCGA-E5-A2PC TCGA-FD-A3B3 TCGA-FD-A3B4 
        7.76        75.32        37.84        36.43         8.81         8.32 
TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-G2-A2EF TCGA-G2-A2EJ 
        8.94         6.87         4.01        11.05        49.22        26.50 
TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE 
        5.65        26.93        22.49        17.26         7.04        20.12 
TCGA-GC-A3I6 TCGA-GD-A2C5 TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-H4-A2HO TCGA-H4-A2HQ 
        2.24         7.69         6.15         5.26         1.51         6.71 

  19P GAIN MUTATED 19P GAIN WILD-TYPE 
              1.81               0.43 
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
              8.98             118.88 
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
             5.260              8.285 
[1] "1.8 - 9.0 (5.3)"   "0.4 - 118.9 (8.3)"
        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-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-DK-A1A3 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "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-A2I6         TCGA-DK-A3IS 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"19P GAIN WILD-TYPE"   "19P GAIN MUTATED" "19P GAIN WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
  "19P GAIN MUTATED" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"19P GAIN WILD-TYPE" "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-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-DK-A1A3 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "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-A2I6         TCGA-DK-A3IS 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"19P GAIN WILD-TYPE"   "19P GAIN MUTATED" "19P GAIN WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
  "19P GAIN MUTATED" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"19P GAIN WILD-TYPE" "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-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-DK-A1A3 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "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-A2I6         TCGA-DK-A3IS 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"19P GAIN WILD-TYPE"   "19P GAIN MUTATED" "19P GAIN WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
  "19P GAIN MUTATED" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
[1] "hr=" "1.5"
D30V2, continuous
D30V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  19P GAIN MUTATED      3    2
  19P GAIN WILD-TYPE   19   41
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  FEMALE                3                 19
  MALE                  2                 41
D30V4, continuous
[1] "Remove cluster labels:" "19P GAIN MUTATED"      
clus
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
                 2                 14 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-E5-A2PC 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-G2-A2EF         TCGA-G2-A2EJ         TCGA-G2-A2EK 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-G2-A2EL         TCGA-G2-A2EO         TCGA-G2-A2ES 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-G2-A3IB         TCGA-G2-A3IE         TCGA-GC-A3I6 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 

Clustering(31) Variable = 19q gain mutation analysis
D31V1, survival
                    sevent
clus2                 0  1
  19Q GAIN MUTATED   11  3
  19Q GAIN WILD-TYPE 30 21
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
                14                 51 
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
                 3                 21 
$`19Q GAIN MUTATED`
TCGA-BL-A3JM TCGA-BT-A20J TCGA-BT-A20V TCGA-C4-A0F6 TCGA-DK-A1A6 TCGA-DK-A1A7 
        6.74        19.00         5.06         2.01        31.40         8.98 
TCGA-DK-A1AB TCGA-DK-A2HX TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EO TCGA-GV-A3JW 
        8.91         1.81         2.33        49.22        22.49         5.26 
TCGA-GV-A3JZ TCGA-H4-A2HQ 
        5.26         6.71 

$`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-C4-A0EZ TCGA-C4-A0F0 TCGA-CF-A1HR TCGA-CF-A1HS 
        8.35         8.25         8.98         1.94         0.46         0.43 
TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-DK-A1A3 TCGA-DK-A1A5 
        0.69        12.30         4.90         7.20         2.53         2.14 
TCGA-DK-A1AA TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG 
        7.04       118.88       100.47         7.17         5.85         6.64 
TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I6 TCGA-DK-A3IS TCGA-E5-A2PC TCGA-FD-A3B3 
       10.59         7.76        75.32        37.84        36.43         8.81 
TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-G2-A2EJ 
        8.32         8.94         6.87         4.01        11.05        26.50 
TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GC-A3I6 
        5.65        26.93        17.26         7.04        20.12         2.24 
TCGA-GD-A2C5 TCGA-GV-A3JX TCGA-H4-A2HO 
        7.69         6.15         1.51 

  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
              1.81               0.43 
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
             49.22             118.88 
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
             6.725              8.250 
[1] "1.8 - 49.2 (6.7)"  "0.4 - 118.9 (8.2)"
        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-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-DK-A1A3 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "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-A2I6         TCGA-DK-A3IS 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED"   "19Q GAIN MUTATED" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
  "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
  "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" 
        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-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-DK-A1A3 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "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-A2I6         TCGA-DK-A3IS 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED"   "19Q GAIN MUTATED" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
  "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
  "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" 
        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-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-DK-A1A3 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "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-A2I6         TCGA-DK-A3IS 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED"   "19Q GAIN MUTATED" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
  "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
  "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" 
[1] "hr=" "1.9"
D31V2, continuous
D31V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  19Q GAIN MUTATED      7    7
  19Q GAIN WILD-TYPE   15   36
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  FEMALE                7                 15
  MALE                  7                 36
D31V4, continuous

Clustering(32) Variable = 20p gain mutation analysis
D32V1, survival
                    sevent
clus2                 0  1
  20P GAIN MUTATED   17  9
  20P GAIN WILD-TYPE 24 15
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
                26                 39 
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
                 9                 15 
$`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-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HS TCGA-CU-A0YR TCGA-DK-A1A5 
        8.98         1.94         2.01         0.43         7.20         2.14 
TCGA-DK-A1AC TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-FD-A3B6 TCGA-FD-A3B7 
      118.88         1.81        10.59         7.76         6.87         4.01 
TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-GC-A3I6 TCGA-GD-A2C5 TCGA-GV-A3JW 
        2.33        49.22        26.50         2.24         7.69         5.26 
TCGA-GV-A3JX TCGA-H4-A2HQ 
        6.15         6.71 

$`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-CF-A1HR 
       19.46        14.89         8.61         8.35         8.25         0.46 
TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-DK-A1A3 TCGA-DK-A1A6 TCGA-DK-A1A7 
        0.69        12.30         4.90         2.53        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-A2I6 TCGA-DK-A3IS TCGA-E5-A2PC TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 
       75.32        37.84        36.43         8.81         8.32         8.94 
TCGA-FD-A3B8 TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB 
       11.05         5.65        26.93        22.49        17.26         7.04 
TCGA-G2-A3IE TCGA-GV-A3JZ TCGA-H4-A2HO 
       20.12         5.26         1.51 

  20P GAIN MUTATED 20P GAIN WILD-TYPE 
              0.43               0.46 
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
            118.88             100.47 
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
             6.365              8.940 
[1] "0.4 - 118.9 (6.4)" "0.5 - 100.5 (8.9)"
        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-C4-A0EZ 
"20P GAIN WILD-TYPE" "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-DK-A1A3 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED" "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-A2I6         TCGA-DK-A3IS 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED"   "20P GAIN MUTATED" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED"   "20P GAIN MUTATED" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED"   "20P GAIN MUTATED" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
  "20P GAIN MUTATED"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        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-C4-A0EZ 
"20P GAIN WILD-TYPE" "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-DK-A1A3 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED" "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-A2I6         TCGA-DK-A3IS 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED"   "20P GAIN MUTATED" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED"   "20P GAIN MUTATED" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED"   "20P GAIN MUTATED" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
  "20P GAIN MUTATED"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        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-C4-A0EZ 
"20P GAIN WILD-TYPE" "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-DK-A1A3 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED" "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-A2I6         TCGA-DK-A3IS 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED"   "20P GAIN MUTATED" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED"   "20P GAIN MUTATED" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED"   "20P GAIN MUTATED" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
  "20P GAIN MUTATED"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
[1] "hr=" "1.8"
D32V2, continuous
D32V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  20P GAIN MUTATED     12   14
  20P GAIN WILD-TYPE   10   29
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  FEMALE               12                 10
  MALE                 14                 29
D32V4, continuous

Clustering(33) Variable = 20q gain mutation analysis
D33V1, survival
                    sevent
clus2                 0  1
  20Q GAIN MUTATED   19  9
  20Q GAIN WILD-TYPE 22 15
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
                28                 37 
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
                 9                 15 
$`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-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CU-A0YR TCGA-DK-A1A5 TCGA-DK-A1A6 
        8.98         1.94         2.01         7.20         2.14        31.40 
TCGA-DK-A1A7 TCGA-DK-A1AC TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A3IS 
        8.98       118.88         1.81        10.59         7.76        37.84 
TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-GC-A3I6 
        6.87         4.01         2.33        49.22        26.50         2.24 
TCGA-GD-A2C5 TCGA-GV-A3JW TCGA-GV-A3JX TCGA-H4-A2HQ 
        7.69         5.26         6.15         6.71 

$`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-CF-A1HR 
       14.89         8.61         5.06         8.35         8.25         0.46 
TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-DK-A1A3 TCGA-DK-A1AA 
        0.43         0.69        12.30         4.90         2.53         7.04 
TCGA-DK-A1AB TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2I6 
        8.91       100.47         7.17         5.85         6.64        75.32 
TCGA-E5-A2PC TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B8 TCGA-G2-A2EK 
       36.43         8.81         8.32         8.94        11.05         5.65 
TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GV-A3JZ 
       26.93        22.49        17.26         7.04        20.12         5.26 
TCGA-H4-A2HO 
        1.51 

  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
              1.81               0.43 
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
            118.88             100.47 
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
             7.035              8.350 
[1] "1.8 - 118.9 (7.0)" "0.4 - 100.5 (8.3)"
        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-C4-A0EZ 
"20Q GAIN WILD-TYPE" "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-DK-A1A3 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "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-A2I6         TCGA-DK-A3IS 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        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-C4-A0EZ 
"20Q GAIN WILD-TYPE" "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-DK-A1A3 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "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-A2I6         TCGA-DK-A3IS 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        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-C4-A0EZ 
"20Q GAIN WILD-TYPE" "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-DK-A1A3 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "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-A2I6         TCGA-DK-A3IS 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
[1] "hr=" "1.2"
D33V2, continuous
D33V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  20Q GAIN MUTATED     10   18
  20Q GAIN WILD-TYPE   12   25
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  FEMALE               10                 12
  MALE                 18                 25
D33V4, continuous

Clustering(34) Variable = 21q gain mutation analysis
D34V1, survival
                    sevent
clus2                 0  1
  21Q GAIN MUTATED   11  1
  21Q GAIN WILD-TYPE 30 23
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
                12                 53 
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
                 1                 23 
$`21Q GAIN MUTATED`
TCGA-BL-A0C8 TCGA-BL-A13J TCGA-C4-A0F0 TCGA-CF-A1HS TCGA-DK-A1A3 TCGA-DK-A1A7 
       12.79         2.66         1.94         0.43         2.53         8.98 
TCGA-DK-A2I1 TCGA-DK-A2I6 TCGA-G2-A2EK TCGA-GD-A2C5 TCGA-GV-A3JX TCGA-H4-A2HQ 
       10.59        75.32         5.65         7.69         6.15         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-C4-A0EZ TCGA-C4-A0F6 TCGA-CF-A1HR 
        5.06         8.35         8.25         8.98         2.01         0.46 
TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-DK-A1A5 TCGA-DK-A1A6 
        0.69        12.30         4.90         7.20         2.14        31.40 
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-A2I2 TCGA-DK-A3IS TCGA-E5-A2PC TCGA-FD-A3B3 
        6.64         1.81         7.76        37.84        36.43         8.81 
TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FT-A3EE 
        8.32         8.94         6.87         4.01        11.05         2.33 
TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB 
       49.22        26.50        26.93        22.49        17.26         7.04 
TCGA-G2-A3IE TCGA-GC-A3I6 TCGA-GV-A3JW TCGA-GV-A3JZ TCGA-H4-A2HO 
       20.12         2.24         5.26         5.26         1.51 

  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
              0.43               0.46 
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
             75.32             118.88 
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
              6.43               8.32 
[1] "0.4 - 75.3 (6.4)"  "0.5 - 118.9 (8.3)"
        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-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-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-A2I6         TCGA-DK-A3IS 
"21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" 
        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-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-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-A2I6         TCGA-DK-A3IS 
"21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" 
        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-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-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-A2I6         TCGA-DK-A3IS 
"21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" 
[1] "hr=" "3.3"
D34V2, continuous
D34V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  21Q GAIN MUTATED      5    7
  21Q GAIN WILD-TYPE   17   36
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  FEMALE                5                 17
  MALE                  7                 36
D34V4, continuous

Clustering(35) Variable = 22q gain mutation analysis
D35V1, survival
                    sevent
clus2                 0  1
  22Q GAIN MUTATED    5  0
  22Q GAIN WILD-TYPE 36 24
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
                 5                 60 
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
                 0                 24 
$`22Q GAIN MUTATED`
TCGA-DK-A1A6 TCGA-DK-A2I6 TCGA-G2-A2ES TCGA-GC-A3I6 TCGA-GV-A3JZ 
       31.40        75.32        17.26         2.24         5.26 

$`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-C4-A0EZ 
       14.89         8.61         5.06         8.35         8.25         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        12.30 
TCGA-CU-A0YO TCGA-CU-A0YR TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A7 TCGA-DK-A1AA 
        4.90         7.20         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-A2I2 TCGA-DK-A3IS TCGA-E5-A2PC TCGA-FD-A3B3 
        1.81        10.59         7.76        37.84        36.43         8.81 
TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FT-A3EE 
        8.32         8.94         6.87         4.01        11.05         2.33 
TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A3IB 
       49.22        26.50         5.65        26.93        22.49         7.04 
TCGA-G2-A3IE TCGA-GD-A2C5 TCGA-GV-A3JW TCGA-GV-A3JX TCGA-H4-A2HO TCGA-H4-A2HQ 
       20.12         7.69         5.26         6.15         1.51         6.71 

  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
              2.24               0.43 
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
             75.32             118.88 
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
            17.260              7.725 
[1] "2.2 - 75.3 (17.3)" "0.4 - 118.9 (7.7)"
        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-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 WILD-TYPE" "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-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-A2I6         TCGA-DK-A3IS 
"22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"22Q GAIN WILD-TYPE" "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-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 WILD-TYPE" "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-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-A2I6         TCGA-DK-A3IS 
"22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"22Q GAIN WILD-TYPE" "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-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 WILD-TYPE" "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-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-A2I6         TCGA-DK-A3IS 
"22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
[1] "hr="     "8.3e+07"
D35V2, continuous
D35V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  22Q GAIN MUTATED      0    5
  22Q GAIN WILD-TYPE   22   38
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  FEMALE                0                 22
  MALE                  5                 38
D35V4, continuous

Clustering(36) Variable = Xq gain mutation analysis
D36V1, survival
                   sevent
clus2                0  1
  XQ GAIN MUTATED    3  1
  XQ GAIN WILD-TYPE 38 23
  XQ GAIN MUTATED XQ GAIN WILD-TYPE 
                4                61 
  XQ GAIN MUTATED XQ GAIN WILD-TYPE 
                1                23 
$`XQ GAIN MUTATED`
TCGA-BL-A13J TCGA-DK-A1AC TCGA-FD-A3B6 TCGA-FT-A3EE 
        2.66       118.88         6.87         2.33 

$`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-C4-A0EZ TCGA-C4-A0F0 
        8.61         5.06         8.35         8.25         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        12.30         4.90 
TCGA-CU-A0YR TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA 
        7.20         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-A2I6 TCGA-DK-A3IS TCGA-E5-A2PC TCGA-FD-A3B3 
       10.59         7.76        75.32        37.84        36.43         8.81 
TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-G2-A2EF TCGA-G2-A2EJ 
        8.32         8.94         4.01        11.05        49.22        26.50 
TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE 
        5.65        26.93        22.49        17.26         7.04        20.12 
TCGA-GC-A3I6 TCGA-GD-A2C5 TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-H4-A2HO 
        2.24         7.69         5.26         6.15         5.26         1.51 
TCGA-H4-A2HQ 
        6.71 

  XQ GAIN MUTATED XQ GAIN WILD-TYPE 
             2.33              0.43 
  XQ GAIN MUTATED XQ GAIN WILD-TYPE 
           118.88            100.47 
  XQ GAIN MUTATED XQ GAIN WILD-TYPE 
            4.765             8.250 
[1] "2.3 - 118.9 (4.8)" "0.4 - 100.5 (8.2)"
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
  "XQ GAIN MUTATED" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE"   "XQ GAIN MUTATED" "XQ GAIN WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"XQ GAIN WILD-TYPE"   "XQ GAIN MUTATED" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
"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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
  "XQ GAIN MUTATED" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE"   "XQ GAIN MUTATED" "XQ GAIN WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"XQ GAIN WILD-TYPE"   "XQ GAIN MUTATED" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
"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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
  "XQ GAIN MUTATED" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE"   "XQ GAIN MUTATED" "XQ GAIN WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"XQ GAIN WILD-TYPE"   "XQ GAIN MUTATED" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-H4-A2HQ 
"XQ GAIN WILD-TYPE" 
[1] "hr=" "1.3"
D36V2, continuous
D36V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  XQ GAIN MUTATED      1    3
  XQ GAIN WILD-TYPE   21   40
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  FEMALE               1                21
  MALE                 3                40
D36V4, continuous

Clustering(37) Variable = 2p loss mutation analysis
D37V1, survival
                   sevent
clus2                0  1
  2P LOSS MUTATED    2  1
  2P LOSS WILD-TYPE 39 23
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
                3                62 
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
                1                23 
$`2P LOSS MUTATED`
TCGA-DK-A2HX TCGA-G2-A2EL TCGA-GV-A3JW 
        1.81        26.93         5.26 

$`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-C4-A0EZ 
       14.89         8.61         5.06         8.35         8.25         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        12.30 
TCGA-CU-A0YO TCGA-CU-A0YR TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 
        4.90         7.20         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-A2I6 TCGA-DK-A3IS TCGA-E5-A2PC 
        6.64        10.59         7.76        75.32        37.84        36.43 
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-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EO TCGA-G2-A2ES 
        2.33        49.22        26.50         5.65        22.49        17.26 
TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GC-A3I6 TCGA-GD-A2C5 TCGA-GV-A3JX TCGA-GV-A3JZ 
        7.04        20.12         2.24         7.69         6.15         5.26 
TCGA-H4-A2HO TCGA-H4-A2HQ 
        1.51         6.71 

  2P LOSS MUTATED 2P LOSS WILD-TYPE 
             1.81              0.43 
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
            26.93            118.88 
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
            5.260             8.005 
[1] "1.8 - 26.9 (5.3)"  "0.4 - 118.9 (8.0)"
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"2P LOSS WILD-TYPE"   "2P LOSS MUTATED" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        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-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"2P LOSS WILD-TYPE"   "2P LOSS MUTATED" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
  "2P LOSS MUTATED" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-H4-A2HQ 
"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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"2P LOSS WILD-TYPE"   "2P LOSS MUTATED" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        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-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"2P LOSS WILD-TYPE"   "2P LOSS MUTATED" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
  "2P LOSS MUTATED" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-H4-A2HQ 
"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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"2P LOSS WILD-TYPE"   "2P LOSS MUTATED" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        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-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"2P LOSS WILD-TYPE"   "2P LOSS MUTATED" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
  "2P LOSS MUTATED" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-H4-A2HQ 
"2P LOSS WILD-TYPE" 
[1] "hr=" "1.2"
D37V2, continuous
D37V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  2P LOSS MUTATED      1    2
  2P LOSS WILD-TYPE   21   41
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  FEMALE               1                21
  MALE                 2                41
D37V4, continuous

Clustering(38) Variable = 2q loss mutation analysis
D38V1, survival
                   sevent
clus2                0  1
  2Q LOSS MUTATED    2  3
  2Q LOSS WILD-TYPE 39 21
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
                5                60 
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
                3                21 
$`2Q LOSS MUTATED`
TCGA-BT-A20V TCGA-DK-A2HX TCGA-FD-A3B5 TCGA-G2-A2EL TCGA-GV-A3JW 
        5.06         1.81         8.94        26.93         5.26 

$`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-C4-A0EZ TCGA-C4-A0F0 
       14.89         8.61         8.35         8.25         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        12.30         4.90 
TCGA-CU-A0YR TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA 
        7.20         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-A2I2 TCGA-DK-A2I6 TCGA-DK-A3IS TCGA-E5-A2PC TCGA-FD-A3B3 
       10.59         7.76        75.32        37.84        36.43         8.81 
TCGA-FD-A3B4 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FT-A3EE TCGA-G2-A2EF 
        8.32         6.87         4.01        11.05         2.33        49.22 
TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE 
       26.50         5.65        22.49        17.26         7.04        20.12 
TCGA-GC-A3I6 TCGA-GD-A2C5 TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-H4-A2HO TCGA-H4-A2HQ 
        2.24         7.69         6.15         5.26         1.51         6.71 

  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
             1.81              0.43 
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
            26.93            118.88 
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
            5.260             8.005 
[1] "1.8 - 26.9 (5.3)"  "0.4 - 118.9 (8.0)"
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
  "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-H4-A2HQ 
"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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
  "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-H4-A2HQ 
"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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
  "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-H4-A2HQ 
"2Q LOSS WILD-TYPE" 
[1] "hr=" "1.9"
D38V2, continuous
D38V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  2Q LOSS MUTATED      2    3
  2Q LOSS WILD-TYPE   20   40
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  FEMALE               2                20
  MALE                 3                40
D38V4, continuous

Clustering(39) Variable = 3p loss mutation analysis
D39V1, survival
                   sevent
clus2                0  1
  3P LOSS MUTATED    3  2
  3P LOSS WILD-TYPE 38 22
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
                5                60 
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
                2                22 
$`3P LOSS MUTATED`
TCGA-BT-A20V TCGA-DK-A1A6 TCGA-DK-A1AB TCGA-DK-A2I2 TCGA-G2-A3IB 
        5.06        31.40         8.91         7.76         7.04 

$`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-C4-A0EZ TCGA-C4-A0F0 
       14.89         8.61         8.35         8.25         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        12.30         4.90 
TCGA-CU-A0YR TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AC 
        7.20         2.53         2.14         8.98         7.04       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-A2I6 TCGA-DK-A3IS TCGA-E5-A2PC TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 
       75.32        37.84        36.43         8.81         8.32         8.94 
TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ 
        6.87         4.01        11.05         2.33        49.22        26.50 
TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IE TCGA-GC-A3I6 
        5.65        26.93        22.49        17.26        20.12         2.24 
TCGA-GD-A2C5 TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-H4-A2HO TCGA-H4-A2HQ 
        7.69         5.26         6.15         5.26         1.51         6.71 

  3P LOSS MUTATED 3P LOSS WILD-TYPE 
             5.06              0.43 
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
            31.40            118.88 
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
             7.76              7.97 
[1] "5.1 - 31.4 (7.8)"  "0.4 - 118.9 (8.0)"
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
  "3P LOSS MUTATED" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE"   "3P LOSS MUTATED" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE"   "3P LOSS MUTATED" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
  "3P LOSS MUTATED" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-H4-A2HQ 
"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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
  "3P LOSS MUTATED" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE"   "3P LOSS MUTATED" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE"   "3P LOSS MUTATED" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
  "3P LOSS MUTATED" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-H4-A2HQ 
"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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
  "3P LOSS MUTATED" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE"   "3P LOSS MUTATED" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE"   "3P LOSS MUTATED" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
  "3P LOSS MUTATED" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-H4-A2HQ 
"3P LOSS WILD-TYPE" 
[1] "hr=" "1.1"
D39V2, continuous
D39V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  3P LOSS MUTATED      3    2
  3P LOSS WILD-TYPE   19   41
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  FEMALE               3                19
  MALE                 2                41
D39V4, continuous
[1] "Remove cluster labels:" "3P LOSS MUTATED"       
clus
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
                1                15 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-DK-A2HX        TCGA-E5-A2PC 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK        TCGA-G2-A2EL 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IE        TCGA-GC-A3I6 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 

Clustering(40) Variable = 4p loss mutation analysis
D40V1, survival
                   sevent
clus2                0  1
  4P LOSS MUTATED    8  3
  4P LOSS WILD-TYPE 33 21
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
               11                54 
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
                3                21 
$`4P LOSS MUTATED`
TCGA-BT-A20N TCGA-BT-A20V TCGA-DK-A1A7 TCGA-DK-A1AD TCGA-DK-A2I1 TCGA-FD-A3B5 
       26.10         5.06         8.98       100.47        10.59         8.94 
TCGA-G2-A3IB TCGA-GD-A2C5 TCGA-GV-A3JW TCGA-GV-A3JZ TCGA-H4-A2HQ 
        7.04         7.69         5.26         5.26         6.71 

$`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-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 
        8.61         8.35         8.25         8.98         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        12.30         4.90         7.20 
TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AC 
        2.53         2.14        31.40         7.04         8.91       118.88 
TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I2 TCGA-DK-A2I6 
        7.17         5.85         6.64         1.81         7.76        75.32 
TCGA-DK-A3IS TCGA-E5-A2PC TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B6 TCGA-FD-A3B7 
       37.84        36.43         8.81         8.32         6.87         4.01 
TCGA-FD-A3B8 TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL 
       11.05         2.33        49.22        26.50         5.65        26.93 
TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IE TCGA-GC-A3I6 TCGA-GV-A3JX TCGA-H4-A2HO 
       22.49        17.26        20.12         2.24         6.15         1.51 

  4P LOSS MUTATED 4P LOSS WILD-TYPE 
             5.06              0.43 
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
           100.47            118.88 
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
            7.690             8.005 
[1] "5.1 - 100.5 (7.7)" "0.4 - 118.9 (8.0)"
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
  "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
  "4P LOSS MUTATED" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" 
       TCGA-H4-A2HQ 
  "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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
  "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
  "4P LOSS MUTATED" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" 
       TCGA-H4-A2HQ 
  "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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
  "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
  "4P LOSS MUTATED" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" 
       TCGA-H4-A2HQ 
  "4P LOSS MUTATED" 
[1] "hr=" "1.4"
D40V2, continuous
D40V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  4P LOSS MUTATED      5    6
  4P LOSS WILD-TYPE   17   37
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  FEMALE               5                17
  MALE                 6                37
D40V4, continuous

Clustering(41) Variable = 4q loss mutation analysis
D41V1, survival
                   sevent
clus2                0  1
  4Q LOSS MUTATED    8  4
  4Q LOSS WILD-TYPE 33 20
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
               12                53 
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
                4                20 
$`4Q LOSS MUTATED`
TCGA-BT-A20N TCGA-BT-A20V TCGA-C4-A0F0 TCGA-DK-A1AD TCGA-DK-A2I1 TCGA-FD-A3B5 
       26.10         5.06         1.94       100.47        10.59         8.94 
TCGA-G2-A2EL TCGA-G2-A3IB TCGA-GD-A2C5 TCGA-GV-A3JW TCGA-GV-A3JZ TCGA-H4-A2HQ 
       26.93         7.04         7.69         5.26         5.26         6.71 

$`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-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-C4-A0EZ TCGA-C4-A0F6 TCGA-CF-A1HR 
        8.61         8.35         8.25         8.98         2.01         0.46 
TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-DK-A1A3 
        0.43         0.69        12.30         4.90         7.20         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-A2I6 
        7.17         5.85         6.64         1.81         7.76        75.32 
TCGA-DK-A3IS TCGA-E5-A2PC TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B6 TCGA-FD-A3B7 
       37.84        36.43         8.81         8.32         6.87         4.01 
TCGA-FD-A3B8 TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EO 
       11.05         2.33        49.22        26.50         5.65        22.49 
TCGA-G2-A2ES TCGA-G2-A3IE TCGA-GC-A3I6 TCGA-GV-A3JX TCGA-H4-A2HO 
       17.26        20.12         2.24         6.15         1.51 

  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
             1.94              0.43 
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
           100.47            118.88 
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
            7.365             8.250 
[1] "1.9 - 100.5 (7.4)" "0.4 - 118.9 (8.2)"
       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 MUTATED" 
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" 
       TCGA-H4-A2HQ 
  "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 MUTATED" 
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" 
       TCGA-H4-A2HQ 
  "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 MUTATED" 
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" 
       TCGA-H4-A2HQ 
  "4Q LOSS MUTATED" 
[1] "hr=" "1.2"
D41V2, continuous
D41V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  4Q LOSS MUTATED      4    8
  4Q LOSS WILD-TYPE   18   35
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  FEMALE               4                18
  MALE                 8                35
D41V4, continuous

Clustering(42) Variable = 5p loss mutation analysis
D42V1, survival
                   sevent
clus2                0  1
  5P LOSS MUTATED    6  1
  5P LOSS WILD-TYPE 35 23
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
                7                58 
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
                1                23 
$`5P LOSS MUTATED`
TCGA-BT-A20J TCGA-C4-A0F6 TCGA-DK-A1A7 TCGA-DK-A2I1 TCGA-E5-A2PC TCGA-G2-A2EF 
       19.00         2.01         8.98        10.59        36.43        49.22 
TCGA-GV-A3JW 
        5.26 

$`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-C4-A0EZ TCGA-C4-A0F0 
        8.61         5.06         8.35         8.25         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        12.30         4.90         7.20 
TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AC 
        2.53         2.14        31.40         7.04         8.91       118.88 
TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I2 
      100.47         7.17         5.85         6.64         1.81         7.76 
TCGA-DK-A2I6 TCGA-DK-A3IS TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 
       75.32        37.84         8.81         8.32         8.94         6.87 
TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FT-A3EE TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL 
        4.01        11.05         2.33        26.50         5.65        26.93 
TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GC-A3I6 TCGA-GD-A2C5 
       22.49        17.26         7.04        20.12         2.24         7.69 
TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-H4-A2HO TCGA-H4-A2HQ 
        6.15         5.26         1.51         6.71 

  5P LOSS MUTATED 5P LOSS WILD-TYPE 
             2.01              0.43 
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
            49.22            118.88 
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
            10.59              7.51 
[1] "2.0 - 49.2 (10.6)" "0.4 - 118.9 (7.5)"
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
  "5P LOSS MUTATED" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-H4-A2HQ 
"5P LOSS WILD-TYPE" 
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
  "5P LOSS MUTATED" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-H4-A2HQ 
"5P LOSS WILD-TYPE" 
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
  "5P LOSS MUTATED" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-H4-A2HQ 
"5P LOSS WILD-TYPE" 
[1] "hr=" "4.3"
D42V2, continuous
D42V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5P LOSS MUTATED      4    3
  5P LOSS WILD-TYPE   18   40
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  FEMALE               4                18
  MALE                 3                40
D42V4, continuous

Clustering(43) Variable = 5q loss mutation analysis
D43V1, survival
                   sevent
clus2                0  1
  5Q LOSS MUTATED   10  4
  5Q LOSS WILD-TYPE 31 20
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
               14                51 
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
                4                20 
$`5Q LOSS MUTATED`
TCGA-BT-A20J TCGA-BT-A20V TCGA-C4-A0F6 TCGA-DK-A1A5 TCGA-DK-A1AD TCGA-DK-A2I1 
       19.00         5.06         2.01         2.14       100.47        10.59 
TCGA-E5-A2PC TCGA-G2-A2EF TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GD-A2C5 TCGA-GV-A3JW 
       36.43        49.22         7.04        20.12         7.69         5.26 
TCGA-GV-A3JX TCGA-H4-A2HQ 
        6.15         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-C4-A0EZ TCGA-C4-A0F0 TCGA-CF-A1HR 
        8.61         8.35         8.25         8.98         1.94         0.46 
TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-DK-A1A3 
        0.43         0.69        12.30         4.90         7.20         2.53 
TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AC TCGA-DK-A1AE 
       31.40         8.98         7.04         8.91       118.88         7.17 
TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I2 TCGA-DK-A2I6 TCGA-DK-A3IS 
        5.85         6.64         1.81         7.76        75.32        37.84 
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-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        22.49        17.26 
TCGA-GC-A3I6 TCGA-GV-A3JZ TCGA-H4-A2HO 
        2.24         5.26         1.51 

  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
             2.01              0.43 
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
           100.47            118.88 
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
            7.365             8.250 
[1] "2.0 - 100.5 (7.4)" "0.4 - 118.9 (8.2)"
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
  "5Q LOSS MUTATED"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
  "5Q LOSS MUTATED"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-H4-A2HQ 
  "5Q LOSS MUTATED" 
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
  "5Q LOSS MUTATED"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
  "5Q LOSS MUTATED"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-H4-A2HQ 
  "5Q LOSS MUTATED" 
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
  "5Q LOSS MUTATED"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
  "5Q LOSS MUTATED"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-H4-A2HQ 
  "5Q LOSS MUTATED" 
[1] "hr=" "1.7"
D43V2, continuous
D43V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5Q LOSS MUTATED      6    8
  5Q LOSS WILD-TYPE   16   35
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  FEMALE               6                16
  MALE                 8                35
D43V4, continuous

Clustering(44) Variable = 6p loss mutation analysis
D44V1, survival
                   sevent
clus2                0  1
  6P LOSS MUTATED    4  2
  6P LOSS WILD-TYPE 37 22
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
                6                59 
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
                2                22 
$`6P LOSS MUTATED`
TCGA-BT-A20V TCGA-BT-A20X TCGA-DK-A1A3 TCGA-DK-A1AB TCGA-GV-A3JW TCGA-GV-A3JZ 
        5.06         8.25         2.53         8.91         5.26         5.26 

$`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-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 
       14.89         8.61         8.35         8.98         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        12.30         4.90         7.20 
TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AC TCGA-DK-A1AD 
        2.14        31.40         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-A2I2 
        7.17         5.85         6.64         1.81        10.59         7.76 
TCGA-DK-A2I6 TCGA-DK-A3IS TCGA-E5-A2PC TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 
       75.32        37.84        36.43         8.81         8.32         8.94 
TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ 
        6.87         4.01        11.05         2.33        49.22        26.50 
TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE 
        5.65        26.93        22.49        17.26         7.04        20.12 
TCGA-GC-A3I6 TCGA-GD-A2C5 TCGA-GV-A3JX TCGA-H4-A2HO TCGA-H4-A2HQ 
        2.24         7.69         6.15         1.51         6.71 

  6P LOSS MUTATED 6P LOSS WILD-TYPE 
             2.53              0.43 
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
             8.91            118.88 
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
             5.26              8.32 
[1] "2.5 - 8.9 (5.3)"   "0.4 - 118.9 (8.3)"
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
  "6P LOSS MUTATED" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE"   "6P LOSS MUTATED" "6P LOSS WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE"   "6P LOSS MUTATED" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
  "6P LOSS MUTATED" "6P LOSS WILD-TYPE"   "6P LOSS MUTATED" "6P LOSS WILD-TYPE" 
       TCGA-H4-A2HQ 
"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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
  "6P LOSS MUTATED" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE"   "6P LOSS MUTATED" "6P LOSS WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE"   "6P LOSS MUTATED" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
  "6P LOSS MUTATED" "6P LOSS WILD-TYPE"   "6P LOSS MUTATED" "6P LOSS WILD-TYPE" 
       TCGA-H4-A2HQ 
"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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
  "6P LOSS MUTATED" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE"   "6P LOSS MUTATED" "6P LOSS WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE"   "6P LOSS MUTATED" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
  "6P LOSS MUTATED" "6P LOSS WILD-TYPE"   "6P LOSS MUTATED" "6P LOSS WILD-TYPE" 
       TCGA-H4-A2HQ 
"6P LOSS WILD-TYPE" 
[1] "hr=" "2.4"
D44V2, continuous
D44V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  6P LOSS MUTATED      2    4
  6P LOSS WILD-TYPE   20   39
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  FEMALE               2                20
  MALE                 4                39
D44V4, continuous
[1] "Remove cluster labels:" "6P LOSS MUTATED"       
clus
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
                2                14 
       TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-DK-A2HX        TCGA-E5-A2PC 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-G2-A2EF        TCGA-G2-A2EJ        TCGA-G2-A2EK        TCGA-G2-A2EL 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-G2-A2EO        TCGA-G2-A2ES        TCGA-G2-A3IB        TCGA-G2-A3IE 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-GC-A3I6        TCGA-GV-A3JX 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 

Clustering(45) Variable = 6q loss mutation analysis
D45V1, survival
                   sevent
clus2                0  1
  6Q LOSS MUTATED   10  2
  6Q LOSS WILD-TYPE 31 22
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
               12                53 
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
                2                22 
$`6Q LOSS MUTATED`
TCGA-BT-A20V TCGA-DK-A1A3 TCGA-DK-A1A6 TCGA-DK-A1AB TCGA-DK-A2I1 TCGA-E5-A2PC 
        5.06         2.53        31.40         8.91        10.59        36.43 
TCGA-FD-A3B5 TCGA-G2-A2ES TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-H4-A2HQ 
        8.94        17.26         5.26         6.15         5.26         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-C4-A0EZ TCGA-C4-A0F0 
       14.89         8.61         8.35         8.25         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        12.30         4.90 
TCGA-CU-A0YR TCGA-DK-A1A5 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AC TCGA-DK-A1AD 
        7.20         2.14         8.98         7.04       118.88       100.47 
TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I2 TCGA-DK-A2I6 
        7.17         5.85         6.64         1.81         7.76        75.32 
TCGA-DK-A3IS TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 
       37.84         8.81         8.32         6.87         4.01        11.05 
TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO 
        2.33        49.22        26.50         5.65        26.93        22.49 
TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GC-A3I6 TCGA-GD-A2C5 TCGA-H4-A2HO 
        7.04        20.12         2.24         7.69         1.51 

  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
             2.53              0.43 
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
            36.43            118.88 
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
             7.81              7.76 
[1] "2.5 - 36.4 (7.8)"  "0.4 - 118.9 (7.8)"
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
  "6Q LOSS MUTATED"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-H4-A2HQ 
  "6Q LOSS MUTATED" 
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
  "6Q LOSS MUTATED"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-H4-A2HQ 
  "6Q LOSS MUTATED" 
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
  "6Q LOSS MUTATED"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-H4-A2HQ 
  "6Q LOSS MUTATED" 
[1] "hr=" "2.5"
D45V2, continuous
D45V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  6Q LOSS MUTATED      5    7
  6Q LOSS WILD-TYPE   17   36
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  FEMALE               5                17
  MALE                 7                36
D45V4, continuous

Clustering(46) Variable = 8p loss mutation analysis
D46V1, survival
                   sevent
clus2                0  1
  8P LOSS MUTATED   14  4
  8P LOSS WILD-TYPE 27 20
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
               18                47 
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
                4                20 
$`8P LOSS MUTATED`
TCGA-BL-A13J TCGA-BT-A20W TCGA-C4-A0EZ TCGA-CF-A1HS TCGA-DK-A1A3 TCGA-DK-A1AC 
        2.66         8.35         8.98         0.43         2.53       118.88 
TCGA-DK-A1AD TCGA-DK-A2I6 TCGA-FD-A3B4 TCGA-FD-A3B6 TCGA-G2-A2EF TCGA-G2-A2EK 
      100.47        75.32         8.32         6.87        49.22         5.65 
TCGA-G2-A3IE TCGA-GD-A2C5 TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-H4-A2HQ 
       20.12         7.69         5.26         6.15         5.26         6.71 

$`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-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR 
        8.61         5.06         8.25         1.94         2.01         0.46 
TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-DK-A1A5 TCGA-DK-A1A6 
        0.69        12.30         4.90         7.20         2.14        31.40 
TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG 
        8.98         7.04         8.91         7.17         5.85         6.64 
TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A3IS TCGA-E5-A2PC TCGA-FD-A3B3 
        1.81        10.59         7.76        37.84        36.43         8.81 
TCGA-FD-A3B5 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FT-A3EE TCGA-G2-A2EJ TCGA-G2-A2EL 
        8.94         4.01        11.05         2.33        26.50        26.93 
TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-GC-A3I6 TCGA-H4-A2HO 
       22.49        17.26         7.04         2.24         1.51 

  8P LOSS MUTATED 8P LOSS WILD-TYPE 
             0.43              0.46 
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
           118.88             37.84 
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
             7.28              8.25 
[1] "0.4 - 118.9 (7.3)" "0.5 - 37.8 (8.2)" 
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
  "8P LOSS MUTATED"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
  "8P LOSS MUTATED"   "8P LOSS MUTATED"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" 
       TCGA-H4-A2HQ 
  "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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
  "8P LOSS MUTATED"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
  "8P LOSS MUTATED"   "8P LOSS MUTATED"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" 
       TCGA-H4-A2HQ 
  "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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
"8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
  "8P LOSS MUTATED"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
  "8P LOSS MUTATED"   "8P LOSS MUTATED"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" 
       TCGA-H4-A2HQ 
  "8P LOSS MUTATED" 
[1] "hr=" "2.1"
D46V2, continuous
D46V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8P LOSS MUTATED      5   13
  8P LOSS WILD-TYPE   17   30
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  FEMALE               5                17
  MALE                13                30
D46V4, continuous

Clustering(47) Variable = 9p loss mutation analysis
D47V1, survival
                   sevent
clus2                0  1
  9P LOSS MUTATED   14  7
  9P LOSS WILD-TYPE 27 17
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
               21                44 
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
                7                17 
$`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-CF-A27C TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1AA 
        2.01         0.46         0.69         2.53         2.14         7.04 
TCGA-DK-A1AB TCGA-DK-A1AG TCGA-DK-A3IS TCGA-E5-A2PC TCGA-FD-A3B5 TCGA-G2-A2EK 
        8.91         6.64        37.84        36.43         8.94         5.65 
TCGA-G2-A2EO TCGA-G2-A3IB TCGA-GV-A3JW 
       22.49         7.04         5.26 

$`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-C4-A0EZ TCGA-CF-A1HS TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-DK-A1A6 
        8.98         0.43        12.30         4.90         7.20        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-A2I6 TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B6 
       10.59         7.76        75.32         8.81         8.32         6.87 
TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EL 
        4.01        11.05         2.33        49.22        26.50        26.93 
TCGA-G2-A2ES TCGA-G2-A3IE TCGA-GC-A3I6 TCGA-GD-A2C5 TCGA-GV-A3JX TCGA-GV-A3JZ 
       17.26        20.12         2.24         7.69         6.15         5.26 
TCGA-H4-A2HO TCGA-H4-A2HQ 
        1.51         6.71 

  9P LOSS MUTATED 9P LOSS WILD-TYPE 
             0.46              0.43 
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
            37.84            118.88 
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
            7.040             8.005 
[1] "0.5 - 37.8 (7.0)"  "0.4 - 118.9 (8.0)"
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-H4-A2HQ 
"9P LOSS WILD-TYPE" 
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-H4-A2HQ 
"9P LOSS WILD-TYPE" 
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-H4-A2HQ 
"9P LOSS WILD-TYPE" 
[1] "hr=" "1.1"
D47V2, continuous
D47V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  9P LOSS MUTATED      4   17
  9P LOSS WILD-TYPE   18   26
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  FEMALE               4                18
  MALE                17                26
D47V4, continuous

Clustering(48) Variable = 9q loss mutation analysis
D48V1, survival
                   sevent
clus2                0  1
  9Q LOSS MUTATED   11  7
  9Q LOSS WILD-TYPE 30 17
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
               18                47 
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
                7                17 
$`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-DK-A1A5 TCGA-DK-A1AA TCGA-DK-A1AG TCGA-DK-A3IS TCGA-E5-A2PC 
        0.69         2.14         7.04         6.64        37.84        36.43 
TCGA-FD-A3B5 TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-GD-A2C5 TCGA-GV-A3JW 
        8.94         5.65        26.93        22.49         7.69         5.26 

$`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-C4-A0EZ TCGA-C4-A0F0 TCGA-CF-A1HS TCGA-CU-A0YN TCGA-CU-A0YO 
        8.25         8.98         1.94         0.43        12.30         4.90 
TCGA-CU-A0YR TCGA-DK-A1A3 TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AB TCGA-DK-A1AC 
        7.20         2.53        31.40         8.98         8.91       118.88 
TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I2 
      100.47         7.17         5.85         1.81        10.59         7.76 
TCGA-DK-A2I6 TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 
       75.32         8.81         8.32         6.87         4.01        11.05 
TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE 
        2.33        49.22        26.50        17.26         7.04        20.12 
TCGA-GC-A3I6 TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-H4-A2HO TCGA-H4-A2HQ 
        2.24         6.15         5.26         1.51         6.71 

  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
             0.46              0.43 
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
            37.84            118.88 
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
            8.315             7.760 
[1] "0.5 - 37.8 (8.3)"  "0.4 - 118.9 (7.8)"
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
  "9Q LOSS MUTATED"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-H4-A2HQ 
"9Q LOSS WILD-TYPE" 
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
  "9Q LOSS MUTATED"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-H4-A2HQ 
"9Q LOSS WILD-TYPE" 
       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-C4-A0EZ        TCGA-C4-A0F0        TCGA-C4-A0F6 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-CF-A1HR        TCGA-CF-A1HS        TCGA-CF-A27C        TCGA-CU-A0YN 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-CU-A0YO        TCGA-CU-A0YR        TCGA-DK-A1A3        TCGA-DK-A1A5 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-DK-A1A6        TCGA-DK-A1A7        TCGA-DK-A1AA        TCGA-DK-A1AB 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-DK-A1AC        TCGA-DK-A1AD        TCGA-DK-A1AE        TCGA-DK-A1AF 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-DK-A1AG        TCGA-DK-A2HX        TCGA-DK-A2I1        TCGA-DK-A2I2 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-DK-A2I6        TCGA-DK-A3IS        TCGA-E5-A2PC        TCGA-FD-A3B3 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-FD-A3B4        TCGA-FD-A3B5        TCGA-FD-A3B6        TCGA-FD-A3B7 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-FD-A3B8        TCGA-FT-A3EE        TCGA-G2-A2EF        TCGA-G2-A2EJ 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-G2-A2EK        TCGA-G2-A2EL        TCGA-G2-A2EO        TCGA-G2-A2ES 
  "9Q LOSS MUTATED"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-G2-A3IB        TCGA-G2-A3IE        TCGA-GC-A3I6        TCGA-GD-A2C5 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-GV-A3JW        TCGA-GV-A3JX        TCGA-GV-A3JZ        TCGA-H4-A2HO 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-H4-A2HQ 
"9Q LOSS WILD-TYPE" 
[1] "hr=" "1.2"
D48V2, continuous
D48V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  9Q LOSS MUTATED      4   14
  9Q LOSS WILD-TYPE   18   29
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  FEMALE               4                18
  MALE                14                29
D48V4, continuous

Clustering(49) Variable = 10p loss mutation analysis
D49V1, survival
                    sevent
clus2                 0  1
  10P LOSS MUTATED    6  2
  10P LOSS WILD-TYPE 35 22
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
                 8                 57 
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
                 2                 22 
$`10P LOSS MUTATED`
TCGA-C4-A0F0 TCGA-CU-A0YR TCGA-DK-A3IS TCGA-E5-A2PC TCGA-FD-A3B4 TCGA-FD-A3B5 
        1.94         7.20        37.84        36.43         8.32         8.94 
TCGA-G2-A2EL TCGA-H4-A2HQ 
       26.93         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-C4-A0EZ 
       14.89         8.61         5.06         8.35         8.25         8.98 
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        12.30         4.90 
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-A2I6 TCGA-FD-A3B3 TCGA-FD-A3B6 TCGA-FD-A3B7 
       10.59         7.76        75.32         8.81         6.87         4.01 
TCGA-FD-A3B8 TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EO 
       11.05         2.33        49.22        26.50         5.65        22.49 
TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GC-A3I6 TCGA-GD-A2C5 TCGA-GV-A3JW 
       17.26         7.04        20.12         2.24         7.69         5.26 
TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-H4-A2HO 
        6.15         5.26         1.51 

  10P LOSS MUTATED 10P LOSS WILD-TYPE 
              1.94               0.43 
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
             37.84             118.88 
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
              8.63               7.69 
[1] "1.9 - 37.8 (8.6)"  "0.4 - 118.9 (7.7)"
        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-C4-A0EZ 
"10P LOSS WILD-TYPE" "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-DK-A1A3 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED" "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-A2I6         TCGA-DK-A3IS 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        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-C4-A0EZ 
"10P LOSS WILD-TYPE" "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-DK-A1A3 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED" "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-A2I6         TCGA-DK-A3IS 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        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-C4-A0EZ 
"10P LOSS WILD-TYPE" "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-DK-A1A3 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED" "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-A2I6         TCGA-DK-A3IS 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
[1] "hr=" "2.3"
D49V2, continuous
D49V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  10P LOSS MUTATED      3    5
  10P LOSS WILD-TYPE   19   38
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  FEMALE                3                 19
  MALE                  5                 38
D49V4, continuous
[1] "Remove cluster labels:" "10P LOSS MUTATED"      
clus
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
                 2                 14 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-DK-A2HX 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-G2-A2EF         TCGA-G2-A2EJ         TCGA-G2-A2EK 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GV-A3JW 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 

Clustering(50) Variable = 10q loss mutation analysis
D50V1, survival
                    sevent
clus2                 0  1
  10Q LOSS MUTATED    7  1
  10Q LOSS WILD-TYPE 34 23
  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
                 8                 57 
  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
                 1                 23 
$`10Q LOSS MUTATED`
TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CU-A0YR TCGA-DK-A1A5 TCGA-DK-A3IS TCGA-E5-A2PC 
        1.94         2.01         7.20         2.14        37.84        36.43 
TCGA-GV-A3JX TCGA-H4-A2HQ 
        6.15         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-C4-A0EZ 
       14.89         8.61         5.06         8.35         8.25         8.98 
TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-DK-A1A3 
        0.46         0.43         0.69        12.30         4.90         2.53 
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-A2I6 TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 
       75.32         8.81         8.32         8.94         6.87         4.01 
TCGA-FD-A3B8 TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL 
       11.05         2.33        49.22        26.50         5.65        26.93 
TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GC-A3I6 TCGA-GD-A2C5 
       22.49        17.26         7.04        20.12         2.24         7.69 
TCGA-GV-A3JW TCGA-GV-A3JZ TCGA-H4-A2HO 
        5.26         5.26         1.51 

  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
              1.94               0.43 
  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
             37.84             118.88 
  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
              6.43               8.32 
[1] "1.9 - 37.8 (6.4)"  "0.4 - 118.9 (8.3)"
        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-C4-A0EZ 
"10Q LOSS WILD-TYPE" "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-DK-A1A3 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" "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-A2I6         TCGA-DK-A3IS 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        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-C4-A0EZ 
"10Q LOSS WILD-TYPE" "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-DK-A1A3 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" "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-A2I6         TCGA-DK-A3IS 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        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-C4-A0EZ 
"10Q LOSS WILD-TYPE" "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-DK-A1A3 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" "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-A2I6         TCGA-DK-A3IS 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
[1] "hr=" "2.8"
D50V2, continuous
D50V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  10Q LOSS MUTATED      3    5
  10Q LOSS WILD-TYPE   19   38
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  FEMALE                3                 19
  MALE                  5                 38
D50V4, continuous
[1] "Remove cluster labels:" "10Q LOSS MUTATED"      
clus
  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
                 2                 14 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-DK-A2HX 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-G2-A2EF         TCGA-G2-A2EJ         TCGA-G2-A2EK 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-G2-A2EL         TCGA-G2-A2EO         TCGA-G2-A2ES 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-G2-A3IB         TCGA-G2-A3IE         TCGA-GC-A3I6 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JZ 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 

Clustering(51) Variable = 11p loss mutation analysis
D51V1, survival
                    sevent
clus2                 0  1
  11P LOSS MUTATED   15  8
  11P LOSS WILD-TYPE 26 16
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
                23                 42 
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
                 8                 16 
$`11P LOSS MUTATED`
TCGA-BL-A13J TCGA-BT-A20N TCGA-BT-A20T TCGA-BT-A20V TCGA-BT-A20W TCGA-C4-A0EZ 
        2.66        26.10        14.89         5.06         8.35         8.98 
TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A27C TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1AB 
        2.01         0.46         0.69         2.14        31.40         8.91 
TCGA-DK-A1AD TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I6 TCGA-DK-A3IS TCGA-E5-A2PC 
      100.47         1.81        10.59        75.32        37.84        36.43 
TCGA-FD-A3B5 TCGA-G2-A2ES TCGA-GD-A2C5 TCGA-GV-A3JW TCGA-H4-A2HQ 
        8.94        17.26         7.69         5.26         6.71 

$`11P 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-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A20U TCGA-BT-A20X 
       12.16        17.85        19.46         5.06         8.61         8.25 
TCGA-C4-A0F0 TCGA-CF-A1HS TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-DK-A1A3 
        1.94         0.43        12.30         4.90         7.20         2.53 
TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AC TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG 
        8.98         7.04       118.88         7.17         5.85         6.64 
TCGA-DK-A2I2 TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 
        7.76         8.81         8.32         6.87         4.01        11.05 
TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO 
        2.33        49.22        26.50         5.65        26.93        22.49 
TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GC-A3I6 TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-H4-A2HO 
        7.04        20.12         2.24         6.15         5.26         1.51 

  11P LOSS MUTATED 11P LOSS WILD-TYPE 
              0.46               0.43 
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
            100.47             118.88 
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
             8.910              7.265 
[1] "0.5 - 100.5 (8.9)" "0.4 - 118.9 (7.3)"
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        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-C4-A0EZ 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE"   "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 WILD-TYPE"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         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-A2I6         TCGA-DK-A3IS 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED"   "11P LOSS MUTATED" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        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-C4-A0EZ 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE"   "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 WILD-TYPE"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         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-A2I6         TCGA-DK-A3IS 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED"   "11P LOSS MUTATED" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-BL-A0C8         TCGA-BL-A13I         TCGA-BL-A13J 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        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-C4-A0EZ 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE"   "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 WILD-TYPE"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-CU-A0YO         TCGA-CU-A0YR         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-A2I6         TCGA-DK-A3IS 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED"   "11P LOSS MUTATED" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
[1] "hr=" "1.4"
D51V2, continuous
D51V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  11P LOSS MUTATED      9   14
  11P LOSS WILD-TYPE   13   29
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  FEMALE                9                 13
  MALE                 14                 29
D51V4, continuous

Clustering(52) Variable = 11q loss mutation analysis
D52V1, survival
                    sevent
clus2                 0  1
  11Q LOSS MUTATED   11  8
  11Q LOSS WILD-TYPE 30 16
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
                19                 46 
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
                 8                 16 
$`11Q LOSS MUTATED`
TCGA-BT-A20N TCGA-BT-A20T TCGA-BT-A20V TCGA-BT-A20W TCGA-C4-A0EZ TCGA-CF-A1HS 
       26.10        14.89         5.06         8.35         8.98         0.43 
TCGA-CF-A27C TCGA-CU-A0YN TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1AB TCGA-DK-A1AD 
        0.69        12.30         2.14        31.40         8.91       100.47 
TCGA-DK-A2I6 TCGA-DK-A3IS TCGA-E5-A2PC TCGA-FD-A3B5 TCGA-G2-A2ES TCGA-GD-A2C5 
       75.32        37.84        36.43         8.94        17.26         7.69 
TCGA-GV-A3JW 
        5.26 

$`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-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CU-A0YO TCGA-CU-A0YR 
        8.25         1.94         2.01         0.46         4.90         7.20 
TCGA-DK-A1A3 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AC TCGA-DK-A1AE TCGA-DK-A1AF 
        2.53         8.98         7.04       118.88         7.17         5.85 
TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-FD-A3B3 TCGA-FD-A3B4 
        6.64         1.81        10.59         7.76         8.81         8.32 
TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ 
        6.87         4.01        11.05         2.33        49.22        26.50 
TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GC-A3I6 
        5.65        26.93        22.49         7.04        20.12         2.24 
TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-H4-A2HO TCGA-H4-A2HQ 
        6.15         5.26         1.51         6.71 

  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
              0.43               0.46 
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
            100.47             118.88 
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
             8.980              7.105 
[1] "0.4 - 100.5 (9.0)" "0.5 - 118.9 (7.1)"
        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-C4-A0EZ 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE"   "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-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-A2I6         TCGA-DK-A3IS 
"11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED"   "11Q LOSS MUTATED" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"11Q LOSS WILD-TYPE" "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-C4-A0EZ 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE"   "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-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-A2I6         TCGA-DK-A3IS 
"11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED"   "11Q LOSS MUTATED" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"11Q LOSS WILD-TYPE" "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-C4-A0EZ 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE"   "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-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-A2I6         TCGA-DK-A3IS 
"11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED"   "11Q LOSS MUTATED" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
[1] "hr=" "1.4"
D52V2, continuous
D52V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  11Q LOSS MUTATED      6   13
  11Q LOSS WILD-TYPE   16   30
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  FEMALE                6                 16
  MALE                 13                 30
D52V4, continuous

Clustering(53) Variable = 12q loss mutation analysis
D53V1, survival
                    sevent
clus2                 0  1
  12Q LOSS MUTATED    2  1
  12Q LOSS WILD-TYPE 39 23
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
                 3                 62 
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
                 1                 23 
$`12Q LOSS MUTATED`
TCGA-C4-A0F0 TCGA-CU-A0YN TCGA-GV-A3JW 
        1.94        12.30         5.26 

$`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-C4-A0EZ 
       14.89         8.61         5.06         8.35         8.25         8.98 
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-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-A2I6 TCGA-DK-A3IS TCGA-E5-A2PC TCGA-FD-A3B3 
       10.59         7.76        75.32        37.84        36.43         8.81 
TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FT-A3EE 
        8.32         8.94         6.87         4.01        11.05         2.33 
TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES 
       49.22        26.50         5.65        26.93        22.49        17.26 
TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GC-A3I6 TCGA-GD-A2C5 TCGA-GV-A3JX TCGA-GV-A3JZ 
        7.04        20.12         2.24         7.69         6.15         5.26 
TCGA-H4-A2HO TCGA-H4-A2HQ 
        1.51         6.71 

  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
              1.94               0.43 
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
             12.30             118.88 
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
             5.260              8.005 
[1] "1.9 - 12.3 (5.3)"  "0.4 - 118.9 (8.0)"
        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-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-DK-A1A3 
"12Q LOSS WILD-TYPE" "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-A2I6         TCGA-DK-A3IS 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
  "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"12Q LOSS WILD-TYPE" "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-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-DK-A1A3 
"12Q LOSS WILD-TYPE" "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-A2I6         TCGA-DK-A3IS 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
  "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"12Q LOSS WILD-TYPE" "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-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-DK-A1A3 
"12Q LOSS WILD-TYPE" "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-A2I6         TCGA-DK-A3IS 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
  "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
[1] "hr=" "1.7"
D53V2, continuous
D53V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  12Q LOSS MUTATED      0    3
  12Q LOSS WILD-TYPE   22   40
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  FEMALE                0                 22
  MALE                  3                 40
D53V4, continuous
[1] "Remove cluster labels:" "12Q LOSS MUTATED"      
clus
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
                 1                 15 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-DK-A2HX 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         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-GC-A3I6         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 

Clustering(54) Variable = 13q loss mutation analysis
D54V1, survival
                    sevent
clus2                 0  1
  13Q LOSS MUTATED    6  4
  13Q LOSS WILD-TYPE 35 20
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
                10                 55 
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
                 4                 20 
$`13Q LOSS MUTATED`
TCGA-BT-A20N TCGA-BT-A20V TCGA-BT-A20X TCGA-C4-A0F0 TCGA-DK-A1A3 TCGA-DK-A1A5 
       26.10         5.06         8.25         1.94         2.53         2.14 
TCGA-DK-A1AC TCGA-DK-A2I6 TCGA-G2-A2ES TCGA-GV-A3JW 
      118.88        75.32        17.26         5.26 

$`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-C4-A0EZ TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A1HS 
        8.61         8.35         8.98         2.01         0.46         0.43 
TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-DK-A1A6 TCGA-DK-A1A7 
        0.69        12.30         4.90         7.20        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-A3IS TCGA-E5-A2PC TCGA-FD-A3B3 
        1.81        10.59         7.76        37.84        36.43         8.81 
TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FT-A3EE 
        8.32         8.94         6.87         4.01        11.05         2.33 
TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A3IB 
       49.22        26.50         5.65        26.93        22.49         7.04 
TCGA-G2-A3IE TCGA-GC-A3I6 TCGA-GD-A2C5 TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-H4-A2HO 
       20.12         2.24         7.69         6.15         5.26         1.51 
TCGA-H4-A2HQ 
        6.71 

  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
              1.94               0.43 
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
            118.88             100.47 
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
             6.755              7.760 
[1] "1.9 - 118.9 (6.8)" "0.4 - 100.5 (7.8)"
        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-C4-A0EZ 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" "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-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-A2I6         TCGA-DK-A3IS 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
  "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        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-C4-A0EZ 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" "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-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-A2I6         TCGA-DK-A3IS 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
  "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        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-C4-A0EZ 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" "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-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-A2I6         TCGA-DK-A3IS 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
  "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
[1] "hr=" "1.1"
D54V2, continuous
D54V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  13Q LOSS MUTATED      1    9
  13Q LOSS WILD-TYPE   21   34
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  FEMALE                1                 21
  MALE                  9                 34
D54V4, continuous
[1] "Remove cluster labels:" "13Q LOSS MUTATED"      
clus
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
                 2                 14 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-DK-A2HX 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         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-A3IB         TCGA-G2-A3IE         TCGA-GC-A3I6 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 

Clustering(55) Variable = 14q loss mutation analysis
D55V1, survival
                    sevent
clus2                 0  1
  14Q LOSS MUTATED    9  4
  14Q LOSS WILD-TYPE 32 20
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
                13                 52 
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
                 4                 20 
$`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-G2-A2EF 
        2.14       100.47        10.59        75.32        37.84        49.22 
TCGA-GV-A3JZ 
        5.26 

$`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-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR 
        8.35         8.25         8.98         1.94         2.01         0.46 
TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA 
        0.69        12.30         4.90        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-E5-A2PC TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 
        7.76        36.43         8.81         8.32         8.94         6.87 
TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FT-A3EE TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL 
        4.01        11.05         2.33        26.50         5.65        26.93 
TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GC-A3I6 TCGA-GD-A2C5 
       22.49        17.26         7.04        20.12         2.24         7.69 
TCGA-GV-A3JW TCGA-GV-A3JX TCGA-H4-A2HO TCGA-H4-A2HQ 
        5.26         6.15         1.51         6.71 

  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
              0.43               0.46 
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
            100.47             118.88 
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
            10.590              7.725 
[1] "0.4 - 100.5 (10.6)" "0.5 - 118.9 (7.7)" 
        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-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-DK-A1A3 
"14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED"   "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-A2I6         TCGA-DK-A3IS 
"14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED"   "14Q LOSS MUTATED" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"14Q LOSS WILD-TYPE" "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-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-DK-A1A3 
"14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED"   "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-A2I6         TCGA-DK-A3IS 
"14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED"   "14Q LOSS MUTATED" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"14Q LOSS WILD-TYPE" "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-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-DK-A1A3 
"14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED"   "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-A2I6         TCGA-DK-A3IS 
"14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED"   "14Q LOSS MUTATED" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
[1] "hr=" "1.8"
D55V2, continuous
D55V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  14Q LOSS MUTATED      3   10
  14Q LOSS WILD-TYPE   19   33
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  FEMALE                3                 19
  MALE                 10                 33
D55V4, continuous

Clustering(56) Variable = 15q loss mutation analysis
D56V1, survival
                    sevent
clus2                 0  1
  15Q LOSS MUTATED    5  3
  15Q LOSS WILD-TYPE 36 21
  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
                 8                 57 
  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
                 3                 21 
$`15Q LOSS MUTATED`
TCGA-BT-A20X TCGA-C4-A0EZ TCGA-CF-A1HS TCGA-E5-A2PC TCGA-G2-A2EF TCGA-G2-A2EL 
        8.25         8.98         0.43        36.43        49.22        26.93 
TCGA-GV-A3JX TCGA-H4-A2HQ 
        6.15         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-C4-A0F0 TCGA-C4-A0F6 
       14.89         8.61         5.06         8.35         1.94         2.01 
TCGA-CF-A1HR TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-DK-A1A3 
        0.46         0.69        12.30         4.90         7.20         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-A2I6 TCGA-DK-A3IS TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 
        7.76        75.32        37.84         8.81         8.32         8.94 
TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FT-A3EE TCGA-G2-A2EJ TCGA-G2-A2EK 
        6.87         4.01        11.05         2.33        26.50         5.65 
TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GC-A3I6 TCGA-GD-A2C5 
       22.49        17.26         7.04        20.12         2.24         7.69 
TCGA-GV-A3JW TCGA-GV-A3JZ TCGA-H4-A2HO 
        5.26         5.26         1.51 

  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
              0.43               0.46 
  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
             49.22             118.88 
  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
             8.615              7.690 
[1] "0.4 - 49.2 (8.6)"  "0.5 - 118.9 (7.7)"
        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-C4-A0EZ 
"15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED"   "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-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 WILD-TYPE" 
        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-A2I6         TCGA-DK-A3IS 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
  "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" 
        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-C4-A0EZ 
"15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED"   "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-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 WILD-TYPE" 
        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-A2I6         TCGA-DK-A3IS 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
  "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" 
        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-C4-A0EZ 
"15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED"   "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-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 WILD-TYPE" 
        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-A2I6         TCGA-DK-A3IS 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
  "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" 
[1] "hr=" "1.5"
D56V2, continuous
D56V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  15Q LOSS MUTATED      4    4
  15Q LOSS WILD-TYPE   18   39
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  FEMALE                4                 18
  MALE                  4                 39
D56V4, continuous

Clustering(57) Variable = 16p loss mutation analysis
D57V1, survival
                    sevent
clus2                 0  1
  16P LOSS MUTATED    6  1
  16P LOSS WILD-TYPE 35 23
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
                 7                 58 
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
                 1                 23 
$`16P LOSS MUTATED`
TCGA-CU-A0YN TCGA-DK-A1A3 TCGA-DK-A1AC TCGA-DK-A2HX TCGA-G2-A2EF TCGA-GV-A3JX 
       12.30         2.53       118.88         1.81        49.22         6.15 
TCGA-GV-A3JZ 
        5.26 

$`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-C4-A0EZ 
       14.89         8.61         5.06         8.35         8.25         8.98 
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-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB 
        7.20         2.14        31.40         8.98         7.04         8.91 
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-A2I6 TCGA-DK-A3IS TCGA-E5-A2PC TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 
       75.32        37.84        36.43         8.81         8.32         8.94 
TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FT-A3EE TCGA-G2-A2EJ TCGA-G2-A2EK 
        6.87         4.01        11.05         2.33        26.50         5.65 
TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GC-A3I6 
       26.93        22.49        17.26         7.04        20.12         2.24 
TCGA-GD-A2C5 TCGA-GV-A3JW TCGA-H4-A2HO TCGA-H4-A2HQ 
        7.69         5.26         1.51         6.71 

  16P LOSS MUTATED 16P LOSS WILD-TYPE 
              1.81               0.43 
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
            118.88             100.47 
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
             6.150              8.005 
[1] "1.8 - 118.9 (6.2)" "0.4 - 100.5 (8.0)"
        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-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-DK-A1A3 
"16P LOSS WILD-TYPE" "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-A2I6         TCGA-DK-A3IS 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE"   "16P LOSS MUTATED" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"16P LOSS WILD-TYPE"   "16P LOSS MUTATED"   "16P LOSS MUTATED" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"16P LOSS WILD-TYPE" "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-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-DK-A1A3 
"16P LOSS WILD-TYPE" "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-A2I6         TCGA-DK-A3IS 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE"   "16P LOSS MUTATED" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"16P LOSS WILD-TYPE"   "16P LOSS MUTATED"   "16P LOSS MUTATED" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"16P LOSS WILD-TYPE" "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-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-DK-A1A3 
"16P LOSS WILD-TYPE" "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-A2I6         TCGA-DK-A3IS 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE"   "16P LOSS MUTATED" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"16P LOSS WILD-TYPE"   "16P LOSS MUTATED"   "16P LOSS MUTATED" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
[1] "hr=" "3.2"
D57V2, continuous
D57V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  16P LOSS MUTATED      1    6
  16P LOSS WILD-TYPE   21   37
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  FEMALE                1                 21
  MALE                  6                 37
D57V4, continuous

Clustering(58) Variable = 16q loss mutation analysis
D58V1, survival
                    sevent
clus2                 0  1
  16Q LOSS MUTATED    5  1
  16Q LOSS WILD-TYPE 36 23
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
                 6                 59 
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
                 1                 23 
$`16Q LOSS MUTATED`
TCGA-CU-A0YN TCGA-DK-A1A3 TCGA-DK-A1AC TCGA-DK-A2HX TCGA-GV-A3JX TCGA-GV-A3JZ 
       12.30         2.53       118.88         1.81         6.15         5.26 

$`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-C4-A0EZ 
       14.89         8.61         5.06         8.35         8.25         8.98 
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-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB 
        7.20         2.14        31.40         8.98         7.04         8.91 
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-A2I6 TCGA-DK-A3IS TCGA-E5-A2PC TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 
       75.32        37.84        36.43         8.81         8.32         8.94 
TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ 
        6.87         4.01        11.05         2.33        49.22        26.50 
TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE 
        5.65        26.93        22.49        17.26         7.04        20.12 
TCGA-GC-A3I6 TCGA-GD-A2C5 TCGA-GV-A3JW TCGA-H4-A2HO TCGA-H4-A2HQ 
        2.24         7.69         5.26         1.51         6.71 

  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
              1.81               0.43 
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
            118.88             100.47 
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
             5.705              8.250 
[1] "1.8 - 118.9 (5.7)" "0.4 - 100.5 (8.2)"
        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-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-DK-A1A3 
"16Q LOSS WILD-TYPE" "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-A2I6         TCGA-DK-A3IS 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED"   "16Q LOSS MUTATED" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        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-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-DK-A1A3 
"16Q LOSS WILD-TYPE" "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-A2I6         TCGA-DK-A3IS 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED"   "16Q LOSS MUTATED" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        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-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-DK-A1A3 
"16Q LOSS WILD-TYPE" "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-A2I6         TCGA-DK-A3IS 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED"   "16Q LOSS MUTATED" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
[1] "hr=" "1.9"
D58V2, continuous
D58V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  16Q LOSS MUTATED      1    5
  16Q LOSS WILD-TYPE   21   38
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  FEMALE                1                 21
  MALE                  5                 38
D58V4, continuous

Clustering(59) Variable = 17p loss mutation analysis
D59V1, survival
                    sevent
clus2                 0  1
  17P LOSS MUTATED   13  6
  17P LOSS WILD-TYPE 28 18
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
                19                 46 
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
                 6                 18 
$`17P LOSS MUTATED`
TCGA-BT-A20N TCGA-BT-A20P TCGA-BT-A20T TCGA-BT-A20X TCGA-C4-A0F0 TCGA-CF-A1HR 
       26.10        17.85        14.89         8.25         1.94         0.46 
TCGA-CF-A27C TCGA-DK-A1AB TCGA-DK-A2HX TCGA-DK-A3IS TCGA-E5-A2PC TCGA-FD-A3B4 
        0.69         8.91         1.81        37.84        36.43         8.32 
TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A3IE TCGA-GV-A3JW 
       49.22        26.50        26.93        22.49        20.12         5.26 
TCGA-H4-A2HQ 
        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-C4-A0EZ TCGA-C4-A0F6 TCGA-CF-A1HS TCGA-CU-A0YN TCGA-CU-A0YO 
        8.35         8.98         2.01         0.43        12.30         4.90 
TCGA-CU-A0YR TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA 
        7.20         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-A2I1 
      118.88       100.47         7.17         5.85         6.64        10.59 
TCGA-DK-A2I2 TCGA-DK-A2I6 TCGA-FD-A3B3 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 
        7.76        75.32         8.81         8.94         6.87         4.01 
TCGA-FD-A3B8 TCGA-FT-A3EE TCGA-G2-A2EK TCGA-G2-A2ES TCGA-G2-A3IB TCGA-GC-A3I6 
       11.05         2.33         5.65        17.26         7.04         2.24 
TCGA-GD-A2C5 TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-H4-A2HO 
        7.69         6.15         5.26         1.51 

  17P LOSS MUTATED 17P LOSS WILD-TYPE 
              0.46               0.43 
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
             49.22             118.88 
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
            14.890              7.185 
[1] "0.5 - 49.2 (14.9)" "0.4 - 118.9 (7.2)"
        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-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-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-A2I6         TCGA-DK-A3IS 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        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-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-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-A2I6         TCGA-DK-A3IS 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        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-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-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-A2I6         TCGA-DK-A3IS 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
[1] "hr=" "2.3"
D59V2, continuous
D59V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  17P LOSS MUTATED      7   12
  17P LOSS WILD-TYPE   15   31
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  FEMALE                7                 15
  MALE                 12                 31
D59V4, continuous

Clustering(60) Variable = 17q loss mutation analysis
D60V1, survival
                    sevent
clus2                 0  1
  17Q LOSS MUTATED    2  1
  17Q LOSS WILD-TYPE 39 23
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
                 3                 62 
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
                 1                 23 
$`17Q LOSS MUTATED`
TCGA-DK-A1AB TCGA-G2-A3IE TCGA-GV-A3JW 
        8.91        20.12         5.26 

$`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-C4-A0EZ 
       14.89         8.61         5.06         8.35         8.25         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        12.30 
TCGA-CU-A0YO TCGA-CU-A0YR TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 
        4.90         7.20         2.53         2.14        31.40         8.98 
TCGA-DK-A1AA TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG 
        7.04       118.88       100.47         7.17         5.85         6.64 
TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I6 TCGA-DK-A3IS TCGA-E5-A2PC 
        1.81        10.59         7.76        75.32        37.84        36.43 
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-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO 
        2.33        49.22        26.50         5.65        26.93        22.49 
TCGA-G2-A2ES TCGA-G2-A3IB TCGA-GC-A3I6 TCGA-GD-A2C5 TCGA-GV-A3JX TCGA-GV-A3JZ 
       17.26         7.04         2.24         7.69         6.15         5.26 
TCGA-H4-A2HO TCGA-H4-A2HQ 
        1.51         6.71 

  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
              5.26               0.43 
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
             20.12             118.88 
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
             8.910              7.725 
[1] "5.3 - 20.1 (8.9)"  "0.4 - 118.9 (7.7)"
        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-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-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-A2I6         TCGA-DK-A3IS 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
  "17Q LOSS MUTATED" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
  "17Q LOSS MUTATED" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"17Q LOSS WILD-TYPE" "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-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-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-A2I6         TCGA-DK-A3IS 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
  "17Q LOSS MUTATED" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
  "17Q LOSS MUTATED" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"17Q LOSS WILD-TYPE" "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-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-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-A2I6         TCGA-DK-A3IS 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
  "17Q LOSS MUTATED" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
  "17Q LOSS MUTATED" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
[1] "hr=" "1.3"
D60V2, continuous
D60V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  17Q LOSS MUTATED      1    2
  17Q LOSS WILD-TYPE   21   41
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  FEMALE                1                 21
  MALE                  2                 41
D60V4, continuous
[1] "Remove cluster labels:" "17Q LOSS MUTATED"      
clus
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
                 2                 14 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-DK-A2HX 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         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-GC-A3I6 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 

Clustering(61) Variable = 18p loss mutation analysis
D61V1, survival
                    sevent
clus2                 0  1
  18P LOSS MUTATED    6  2
  18P LOSS WILD-TYPE 35 22
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
                 8                 57 
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
                 2                 22 
$`18P LOSS MUTATED`
TCGA-BT-A20J TCGA-BT-A20N TCGA-DK-A1A3 TCGA-DK-A1A7 TCGA-DK-A1AB TCGA-DK-A2I1 
       19.00        26.10         2.53         8.98         8.91        10.59 
TCGA-E5-A2PC TCGA-GV-A3JW 
       36.43         5.26 

$`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-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 
        5.06         8.35         8.25         8.98         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        12.30         4.90         7.20 
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-A2I2 TCGA-DK-A2I6 TCGA-DK-A3IS 
        5.85         6.64         1.81         7.76        75.32        37.84 
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-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO 
        2.33        49.22        26.50         5.65        26.93        22.49 
TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GC-A3I6 TCGA-GD-A2C5 TCGA-GV-A3JX 
       17.26         7.04        20.12         2.24         7.69         6.15 
TCGA-GV-A3JZ TCGA-H4-A2HO TCGA-H4-A2HQ 
        5.26         1.51         6.71 

  18P LOSS MUTATED 18P LOSS WILD-TYPE 
              2.53               0.43 
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
             36.43             118.88 
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
             9.785              7.330 
[1] "2.5 - 36.4 (9.8)"  "0.4 - 118.9 (7.3)"
        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-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-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 WILD-TYPE" "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-A2I6         TCGA-DK-A3IS 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
  "18P LOSS MUTATED" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
  "18P LOSS MUTATED" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"18P LOSS WILD-TYPE" "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-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-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 WILD-TYPE" "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-A2I6         TCGA-DK-A3IS 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
  "18P LOSS MUTATED" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
  "18P LOSS MUTATED" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"18P LOSS WILD-TYPE" "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-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-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 WILD-TYPE" "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-A2I6         TCGA-DK-A3IS 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
  "18P LOSS MUTATED" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
  "18P LOSS MUTATED" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
[1] "hr=" "2.2"
D61V2, continuous
D61V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18P LOSS MUTATED      4    4
  18P LOSS WILD-TYPE   18   39
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  FEMALE                4                 18
  MALE                  4                 39
D61V4, continuous
[1] "Remove cluster labels:" "18P LOSS MUTATED"      
clus
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
                 2                 14 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-DK-A2HX 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-G2-A2EF         TCGA-G2-A2EJ         TCGA-G2-A2EK 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-G2-A2EL         TCGA-G2-A2EO         TCGA-G2-A2ES 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-G2-A3IB         TCGA-G2-A3IE         TCGA-GC-A3I6 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-GV-A3JX         TCGA-GV-A3JZ 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 

Clustering(62) Variable = 18q loss mutation analysis
D62V1, survival
                    sevent
clus2                 0  1
  18Q LOSS MUTATED   13  3
  18Q LOSS WILD-TYPE 28 21
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
                16                 49 
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
                 3                 21 
$`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-A2HX TCGA-DK-A2I1 TCGA-DK-A2I6 TCGA-E5-A2PC TCGA-FD-A3B4 
        8.91         1.81        10.59        75.32        36.43         8.32 
TCGA-G2-A2EF TCGA-GV-A3JW TCGA-GV-A3JX TCGA-H4-A2HQ 
       49.22         5.26         6.15         6.71 

$`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-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR 
        5.06         8.25         8.98         1.94         2.01         0.46 
TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A6 
        0.69        12.30         4.90         2.53         2.14        31.40 
TCGA-DK-A1AA TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG 
        7.04       118.88       100.47         7.17         5.85         6.64 
TCGA-DK-A2I2 TCGA-DK-A3IS TCGA-FD-A3B3 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 
        7.76        37.84         8.81         8.94         6.87         4.01 
TCGA-FD-A3B8 TCGA-FT-A3EE TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO 
       11.05         2.33        26.50         5.65        26.93        22.49 
TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GC-A3I6 TCGA-GD-A2C5 TCGA-GV-A3JZ 
       17.26         7.04        20.12         2.24         7.69         5.26 
TCGA-H4-A2HO 
        1.51 

  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
              0.43               0.46 
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
             75.32             118.88 
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
              8.63               7.33 
[1] "0.4 - 75.3 (8.6)"  "0.5 - 118.9 (7.3)"
        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-C4-A0EZ 
  "18Q LOSS MUTATED" "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-DK-A1A3 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "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 WILD-TYPE" "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-A2I6         TCGA-DK-A3IS 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
  "18Q LOSS MUTATED"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"18Q LOSS WILD-TYPE"   "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-C4-A0EZ 
  "18Q LOSS MUTATED" "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-DK-A1A3 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "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 WILD-TYPE" "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-A2I6         TCGA-DK-A3IS 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
  "18Q LOSS MUTATED"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"18Q LOSS WILD-TYPE"   "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-C4-A0EZ 
  "18Q LOSS MUTATED" "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-DK-A1A3 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "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 WILD-TYPE" "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-A2I6         TCGA-DK-A3IS 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
  "18Q LOSS MUTATED"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
[1] "hr=" "2.9"
D62V2, continuous
D62V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18Q LOSS MUTATED      8    8
  18Q LOSS WILD-TYPE   14   35
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  FEMALE                8                 14
  MALE                  8                 35
D62V4, continuous

Clustering(63) Variable = 19p loss mutation analysis
D63V1, survival
                    sevent
clus2                 0  1
  19P LOSS MUTATED    2  1
  19P LOSS WILD-TYPE 39 23
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
                 3                 62 
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
                 1                 23 
$`19P LOSS MUTATED`
TCGA-CU-A0YN TCGA-E5-A2PC TCGA-H4-A2HQ 
       12.30        36.43         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-C4-A0EZ 
       14.89         8.61         5.06         8.35         8.25         8.98 
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-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA 
        7.20         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-A2I6 TCGA-DK-A3IS TCGA-FD-A3B3 
        1.81        10.59         7.76        75.32        37.84         8.81 
TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FT-A3EE 
        8.32         8.94         6.87         4.01        11.05         2.33 
TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES 
       49.22        26.50         5.65        26.93        22.49        17.26 
TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GC-A3I6 TCGA-GD-A2C5 TCGA-GV-A3JW TCGA-GV-A3JX 
        7.04        20.12         2.24         7.69         5.26         6.15 
TCGA-GV-A3JZ TCGA-H4-A2HO 
        5.26         1.51 

  19P LOSS MUTATED 19P LOSS WILD-TYPE 
              6.71               0.43 
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
             36.43             118.88 
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
            12.300              7.725 
[1] "6.7 - 36.4 (12.3)" "0.4 - 118.9 (7.7)"
        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-C4-A0EZ 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "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-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-A2I6         TCGA-DK-A3IS 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
  "19P LOSS MUTATED" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"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-H4-A2HO         TCGA-H4-A2HQ 
"19P LOSS WILD-TYPE"   "19P LOSS MUTATED" 
        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-C4-A0EZ 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "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-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-A2I6         TCGA-DK-A3IS 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
  "19P LOSS MUTATED" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"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-H4-A2HO         TCGA-H4-A2HQ 
"19P LOSS WILD-TYPE"   "19P LOSS MUTATED" 
        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-C4-A0EZ 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "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-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-A2I6         TCGA-DK-A3IS 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
  "19P LOSS MUTATED" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"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-H4-A2HO         TCGA-H4-A2HQ 
"19P LOSS WILD-TYPE"   "19P LOSS MUTATED" 
[1] "hr=" "1.8"
D63V2, continuous
D63V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  19P LOSS MUTATED      2    1
  19P LOSS WILD-TYPE   20   42
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  FEMALE                2                 20
  MALE                  1                 42
D63V4, continuous
[1] "Remove cluster labels:" "19P LOSS MUTATED"      
clus
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
                 1                 15 
        TCGA-CF-A1HS         TCGA-CF-A27C         TCGA-DK-A2HX 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-G2-A2EF         TCGA-G2-A2EJ         TCGA-G2-A2EK 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-G2-A2EL         TCGA-G2-A2EO         TCGA-G2-A2ES 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-G2-A3IB         TCGA-G2-A3IE         TCGA-GC-A3I6 
"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" 

Clustering(64) Variable = 21q loss mutation analysis
D64V1, survival
                    sevent
clus2                 0  1
  21Q LOSS MUTATED    4  2
  21Q LOSS WILD-TYPE 37 22
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
                 6                 59 
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
                 2                 22 
$`21Q LOSS MUTATED`
TCGA-BT-A20V TCGA-BT-A20X TCGA-CF-A1HR TCGA-E5-A2PC TCGA-G2-A2EF TCGA-G2-A2EJ 
        5.06         8.25         0.46        36.43        49.22        26.50 

$`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-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 
       14.89         8.61         8.35         8.98         1.94         2.01 
TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-DK-A1A3 
        0.43         0.69        12.30         4.90         7.20         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-A2I6 TCGA-DK-A3IS TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 
        7.76        75.32        37.84         8.81         8.32         8.94 
TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FT-A3EE TCGA-G2-A2EK TCGA-G2-A2EL 
        6.87         4.01        11.05         2.33         5.65        26.93 
TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GC-A3I6 TCGA-GD-A2C5 
       22.49        17.26         7.04        20.12         2.24         7.69 
TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-H4-A2HO TCGA-H4-A2HQ 
        5.26         6.15         5.26         1.51         6.71 

  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
              0.46               0.43 
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
             49.22             118.88 
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
            17.375              7.690 
[1] "0.5 - 49.2 (17.4)" "0.4 - 118.9 (7.7)"
        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-C4-A0EZ 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" "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-DK-A1A3 
"21Q LOSS WILD-TYPE" "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-A2I6         TCGA-DK-A3IS 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
  "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
  "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"21Q LOSS WILD-TYPE" "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-C4-A0EZ 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" "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-DK-A1A3 
"21Q LOSS WILD-TYPE" "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-A2I6         TCGA-DK-A3IS 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
  "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
  "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"21Q LOSS WILD-TYPE" "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-C4-A0EZ 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" "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-DK-A1A3 
"21Q LOSS WILD-TYPE" "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-A2I6         TCGA-DK-A3IS 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
  "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
  "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
[1] "hr=" "1.9"
D64V2, continuous
D64V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  21Q LOSS MUTATED      3    3
  21Q LOSS WILD-TYPE   19   40
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  FEMALE                3                 19
  MALE                  3                 40
D64V4, continuous

Clustering(65) Variable = 22q loss mutation analysis
D65V1, survival
                    sevent
clus2                 0  1
  22Q LOSS MUTATED    8  6
  22Q LOSS WILD-TYPE 33 18
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
                14                 51 
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
                 6                 18 
$`22Q LOSS MUTATED`
TCGA-BT-A20J TCGA-BT-A20R TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CU-A0YN 
       19.00         5.06         8.98         1.94         2.01        12.30 
TCGA-DK-A2HX TCGA-DK-A2I2 TCGA-E5-A2PC TCGA-FD-A3B4 TCGA-FD-A3B6 TCGA-G2-A3IE 
        1.81         7.76        36.43         8.32         6.87        20.12 
TCGA-GV-A3JX TCGA-H4-A2HQ 
        6.15         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-CF-A1HR TCGA-CF-A1HS TCGA-CF-A27C 
        5.06         8.35         8.25         0.46         0.43         0.69 
TCGA-CU-A0YO TCGA-CU-A0YR TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 
        4.90         7.20         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-A2I6 TCGA-DK-A3IS TCGA-FD-A3B3 TCGA-FD-A3B5 
        6.64        10.59        75.32        37.84         8.81         8.94 
TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK 
        4.01        11.05         2.33        49.22        26.50         5.65 
TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-GC-A3I6 TCGA-GD-A2C5 
       26.93        22.49        17.26         7.04         2.24         7.69 
TCGA-GV-A3JW TCGA-GV-A3JZ TCGA-H4-A2HO 
        5.26         5.26         1.51 

  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
              1.81               0.43 
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
             36.43             118.88 
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
             7.315              8.250 
[1] "1.8 - 36.4 (7.3)"  "0.4 - 118.9 (8.2)"
        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-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 MUTATED" "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-DK-A1A3 
"22Q LOSS WILD-TYPE" "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-A2I6         TCGA-DK-A3IS 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        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-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 MUTATED" "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-DK-A1A3 
"22Q LOSS WILD-TYPE" "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-A2I6         TCGA-DK-A3IS 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        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-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 MUTATED" "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-DK-A1A3 
"22Q LOSS WILD-TYPE" "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-A2I6         TCGA-DK-A3IS 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-E5-A2PC         TCGA-FD-A3B3         TCGA-FD-A3B4 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-FD-A3B5         TCGA-FD-A3B6         TCGA-FD-A3B7 
"22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" 
        TCGA-FD-A3B8         TCGA-FT-A3EE         TCGA-G2-A2EF 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-G2-A2EJ         TCGA-G2-A2EK         TCGA-G2-A2EL 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-G2-A2EO         TCGA-G2-A2ES         TCGA-G2-A3IB 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-G2-A3IE         TCGA-GC-A3I6         TCGA-GD-A2C5 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-GV-A3JW         TCGA-GV-A3JX         TCGA-GV-A3JZ 
"22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" 
        TCGA-H4-A2HO         TCGA-H4-A2HQ 
"22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
[1] "hr=" "1.4"
D65V2, continuous
D65V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  22Q LOSS MUTATED      8    6
  22Q LOSS WILD-TYPE   14   37
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  FEMALE                8                 14
  MALE                  6                 37
D65V4, continuous
                         V1.D                            V2 
              "Time to Death"                         "AGE" 
                           V3                            V4 
                     "GENDER" "KARNOFSKY.PERFORMANCE.SCORE" 
> q(save="no")
