
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/process_mgmt/firehose_task_registry/tcga-gdac/Correlate_Clinical_Cnvsarms_onlysig/broadinstitute.org/cancer.genome.analysis/00498/19/CNV2ClinicalAnalysis_nozzle_onlysig_arm.R")
> result <- main("/xchip/tcga/gdac_prod/applications/process_mgmt/firehose_task_registry/tcga-gdac/Correlate_Clinical_Cnvsarms_onlysig/broadinstitute.org/cancer.genome.analysis/00498/19/", "-nF=/xchip/tcga/Tools/Nozzle/v1.current", "-iD=/xchip/cga/gdac-prod/tcga-gdac/jobResults/cnvarms2cluster/SKCM-Regional_Metastatic/3164440/broad_values_by_arm.mutsig.cluster.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataPicker/SKCM-Regional_Metastatic/3215667/SKCM-Regional_Metastatic.clin.merged.picked.txt", "-fF=", "-fC=3", "-fH=5", "-fW=9", "-fP=OUT", "-cP=1", "-cQ=0.25", "-MF=ONLYSIG", "-oT=SKCM-Regional_Metastatic", "-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=SKCM-Regional_Metastatic"
[1] "opt"        "-OP=MUTSIG"
[1] "tl"   "-iT="
[1] "dx"   "-iX="
[1] "opt"    "MUTSIG"
[1] "dx" ""  

nPatients in clinical file=152, in cluster file=147, common to both=147
[1] "Reduce the number of clustering variables from 80 to 73."
[1]  73 147
[1] "1p gain mutation analysis"
[1] 3
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
               20               127 
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
               20               127 
[1] "1q gain mutation analysis"
[1] 3
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
               48                99 
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
               48                99 
[1] "2p gain mutation analysis"
[1] 3
  2P GAIN MUTATED 2P GAIN WILD-TYPE 
               16               131 
  2P GAIN MUTATED 2P GAIN WILD-TYPE 
               16               131 
[1] "2q gain mutation analysis"
[1] 3
  2Q GAIN MUTATED 2Q GAIN WILD-TYPE 
               15               132 
  2Q GAIN MUTATED 2Q GAIN WILD-TYPE 
               15               132 
[1] "3p gain mutation analysis"
[1] 3
  3P GAIN MUTATED 3P GAIN WILD-TYPE 
               12               135 
  3P GAIN MUTATED 3P GAIN WILD-TYPE 
               12               135 
[1] "3q gain mutation analysis"
[1] 3
  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
               15               132 
  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
               15               132 
[1] "4p gain mutation analysis"
[1] 3
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
               14               133 
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
               14               133 
[1] "4q gain mutation analysis"
[1] 3
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
               12               135 
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
               12               135 
[1] "5p gain mutation analysis"
[1] 3
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
               13               134 
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
               13               134 
[1] "5q gain mutation analysis"
[1] 3
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
                5               142 
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
                5               142 
[1] "6p gain mutation analysis"
[1] 3
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
               45               102 
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
               45               102 
[1] "6q gain mutation analysis"
[1] 3
  6Q GAIN MUTATED 6Q GAIN WILD-TYPE 
                9               138 
  6Q GAIN MUTATED 6Q GAIN WILD-TYPE 
                9               138 
[1] "7p gain mutation analysis"
[1] 3
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
               63                84 
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
               63                84 
[1] "7q gain mutation analysis"
[1] 3
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
               62                85 
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
               62                85 
[1] "8p gain mutation analysis"
[1] 3
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
               29               118 
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
               29               118 
[1] "8q gain mutation analysis"
[1] 3
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
               46               101 
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
               46               101 
[1] "9p gain mutation analysis"
[1] 3
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
                3               144 
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
                3               144 
[1] "9q gain mutation analysis"
[1] 3
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
                3               144 
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
                3               144 
[1] "11p gain mutation analysis"
[1] 3
  11P GAIN MUTATED 11P GAIN WILD-TYPE 
                 9                138 
  11P GAIN MUTATED 11P GAIN WILD-TYPE 
                 9                138 
[1] "11q gain mutation analysis"
[1] 3
  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
                 6                141 
  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
                 6                141 
[1] "12p gain mutation analysis"
[1] 3
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
                16                131 
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
                16                131 
[1] "12q gain mutation analysis"
[1] 3
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
                 7                140 
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
                 7                140 
[1] "13q gain mutation analysis"
[1] 3
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
                21                126 
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
                21                126 
[1] "14q gain mutation analysis"
[1] 3
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
                12                135 
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
                12                135 
[1] "15q gain mutation analysis"
[1] 3
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                21                126 
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                21                126 
[1] "16p gain mutation analysis"
[1] 3
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
                12                135 
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
                12                135 
[1] "16q gain mutation analysis"
[1] 3
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
                10                137 
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
                10                137 
[1] "17p gain mutation analysis"
[1] 3
  17P GAIN MUTATED 17P GAIN WILD-TYPE 
                13                134 
  17P GAIN MUTATED 17P GAIN WILD-TYPE 
                13                134 
[1] "17q gain mutation analysis"
[1] 3
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
                21                126 
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
                21                126 
[1] "18p gain mutation analysis"
[1] 3
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
                19                128 
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
                19                128 
[1] "18q gain mutation analysis"
[1] 3
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
                10                137 
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
                10                137 
[1] "19p gain mutation analysis"
[1] 3
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
                 7                140 
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
                 7                140 
[1] "19q gain mutation analysis"
[1] 3
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
                11                136 
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
                11                136 
[1] "20p gain mutation analysis"
[1] 3
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
                43                104 
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
                43                104 
[1] "20q gain mutation analysis"
[1] 3
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
                53                 94 
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
                53                 94 
[1] "21q gain mutation analysis"
[1] 3
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
                17                130 
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
                17                130 
[1] "22q gain mutation analysis"
[1] 3
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
                37                110 
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
                37                110 
[1] "1p loss mutation analysis"
[1] 3
  1P LOSS MUTATED 1P LOSS WILD-TYPE 
               12               135 
  1P LOSS MUTATED 1P LOSS WILD-TYPE 
               12               135 
[1] "1q loss mutation analysis"
[1] 3
  1Q LOSS MUTATED 1Q LOSS WILD-TYPE 
                4               143 
  1Q LOSS MUTATED 1Q LOSS WILD-TYPE 
                4               143 
[1] "2p loss mutation analysis"
[1] 3
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
               14               133 
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
               14               133 
[1] "2q loss mutation analysis"
[1] 3
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
               13               134 
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
               13               134 
[1] "3p loss mutation analysis"
[1] 3
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
               10               137 
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
               10               137 
[1] "3q loss mutation analysis"
[1] 3
  3Q LOSS MUTATED 3Q LOSS WILD-TYPE 
               12               135 
  3Q LOSS MUTATED 3Q LOSS WILD-TYPE 
               12               135 
[1] "4p loss mutation analysis"
[1] 3
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
               15               132 
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
               15               132 
[1] "4q loss mutation analysis"
[1] 3
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
               16               131 
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
               16               131 
[1] "5p loss mutation analysis"
[1] 3
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
               18               129 
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
               18               129 
[1] "5q loss mutation analysis"
[1] 3
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
               31               116 
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
               31               116 
[1] "6p loss mutation analysis"
[1] 3
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
               11               136 
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
               11               136 
[1] "6q loss mutation analysis"
[1] 3
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
               53                94 
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
               53                94 
[1] "8p loss mutation analysis"
[1] 3
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
               16               131 
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
               16               131 
[1] "9p loss mutation analysis"
[1] 3
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
               82                65 
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
               82                65 
[1] "9q loss mutation analysis"
[1] 3
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
               61                86 
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
               61                86 
[1] "10p loss mutation analysis"
[1] 3
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
                64                 83 
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
                64                 83 
[1] "10q loss mutation analysis"
[1] 3
  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
                71                 76 
  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
                71                 76 
[1] "11p loss mutation analysis"
[1] 3
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
                35                112 
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
                35                112 
[1] "11q loss mutation analysis"
[1] 3
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
                39                108 
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
                39                108 
[1] "12p loss mutation analysis"
[1] 3
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
                 8                139 
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
                 8                139 
[1] "12q loss mutation analysis"
[1] 3
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
                15                132 
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
                15                132 
[1] "13q loss mutation analysis"
[1] 3
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
                23                124 
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
                23                124 
[1] "14q loss mutation analysis"
[1] 3
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
                35                112 
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
                35                112 
[1] "15q loss mutation analysis"
[1] 3
  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
                12                135 
  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
                12                135 
[1] "16p loss mutation analysis"
[1] 3
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
                 9                138 
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
                 9                138 
[1] "16q loss mutation analysis"
[1] 3
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
                20                127 
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
                20                127 
[1] "17p loss mutation analysis"
[1] 3
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
                33                114 
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
                33                114 
[1] "17q loss mutation analysis"
[1] 3
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
                12                135 
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
                12                135 
[1] "18p loss mutation analysis"
[1] 3
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
                26                121 
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
                26                121 
[1] "18q loss mutation analysis"
[1] 3
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
                24                123 
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
                24                123 
[1] "19p loss mutation analysis"
[1] 3
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
                14                133 
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
                14                133 
[1] "19q loss mutation analysis"
[1] 3
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
                15                132 
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
                15                132 
[1] "20p loss mutation analysis"
[1] 3
  20P LOSS MUTATED 20P LOSS WILD-TYPE 
                 6                141 
  20P LOSS MUTATED 20P LOSS WILD-TYPE 
                 6                141 
[1] "21q loss mutation analysis"
[1] 3
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
                18                129 
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
                18                129 
[1] "22q loss mutation analysis"
[1] 3
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
                12                135 
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
                12                135 
[1] "Xq loss mutation analysis"
[1] 3
  XQ LOSS MUTATED XQ LOSS WILD-TYPE 
                4               143 
  XQ LOSS MUTATED XQ LOSS WILD-TYPE 
                4               143 
[1] "data2feature, selection="
 [1] "YEARSTOBIRTH"                          
 [2] "DAYSTODEATH"                           
 [3] "DAYSTOLASTFOLLOWUP"                    
 [4] "DAYSTOSUBMITTEDSPECIMENDX"             
 [5] "VITALSTATUS"                           
 [6] "DCCUPLOADDATE"                         
 [7] "PRIMARYSITEOFDESEASE"                  
 [8] "GENDER"                                
 [9] "DATEOFINITIALPATHOLOGICDIAGNOSIS"      
[10] "RADIATIONTHERAPY"                      
[11] "RADIATIONS.RADIATION.REGIMENINDICATION"
[12] "DISTANT.METASTASIS"                    
[13] "LYMPH.NODE.METASTASIS"                 
[14] "TUMOR.STAGECODE"                       
[15] "NEOPLASM.DISEASESTAGE"                 
[16] "BATCHNUMBER"                           

Input Data has 16 rows and 147 columns.

[1] "Batch" "16"   
[1] "Last Follow UP"
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 
          NA           NA           NA         3687           NA           NA 
TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 
          NA           NA           NA           NA           NA           NA 
TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A148 
        2167           NA           NA           NA          653         4511 
TCGA-D9-A149 TCGA-D9-A1JW TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV 
        1513           82          194          345           98         1487 
TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 
          NA         3564           NA         5926           NA           NA 
TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 
        1861           NA          713           NA          870           NA 
TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 
        6553          477           NA           NA           NA           NA 
TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E 
          NA         3335         2399         1455           NA         1205 
TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29R 
         979           NA           NA         1716         1136          440 
TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 
        1700        10523           NA           NA         2401          743 
TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-EE-A2GB TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GE 
          NA         1787         1446         1315         9567         4134 
TCGA-EE-A2GH TCGA-EE-A2GI TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GM 
        5536          686         2717         1664         1673         2296 
TCGA-EE-A2GN TCGA-EE-A2GO TCGA-EE-A2GP TCGA-EE-A2GR TCGA-EE-A2GS TCGA-EE-A2GT 
        2766         3101           NA          435         1691          595 
TCGA-EE-A2GU TCGA-EE-A2M5 TCGA-EE-A2M6 TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC 
        2042           NA         3931           NA           NA           NA 
TCGA-EE-A2MD TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MJ 
          NA           NA           NA           NA           NA           NA 
TCGA-EE-A2MK TCGA-EE-A2ML TCGA-EE-A2MM TCGA-EE-A2MN TCGA-EE-A2MP TCGA-EE-A2MQ 
        4403         6175           NA           NA         7562           NA 
TCGA-EE-A2MR TCGA-EE-A2MS TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AB 
        3150         4150         1265         1620          129         3733 
TCGA-EE-A3AC TCGA-EE-A3AD TCGA-EE-A3AE TCGA-EE-A3AF TCGA-EE-A3AG TCGA-EE-A3AH 
         786          112          813           NA          714           NA 
TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N 
          NA           NA           NA           NA           NA         1340 
TCGA-ER-A19O TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A 
          NA         2433         2443         1010         2448         4885 
TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1Z4 TCGA-FS-A1Z7 TCGA-FS-A1ZD TCGA-FS-A1ZG 
          NA           NA           NA           NA           NA           NA 
TCGA-FS-A1ZH TCGA-FS-A1ZJ TCGA-FS-A1ZM TCGA-FS-A1ZP TCGA-FS-A1ZR TCGA-FS-A1ZS 
          NA           NA         3080           NA           NA         4525 
TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-FW-A3TV 
        1505         2366          378         1504          699           NA 
TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A267 
          NA         3664           NA         2577           NA           NA 
TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
          NA           NA         1204 
Variable 1:'AGE':	nDistinctValues=59,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'DAYSTODEATH':	nDistinctValues=68,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 3:'DAYSTOLASTFOLLOWUP':	nDistinctValues=77,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 4:'DAYSTOSUBMITTEDSPECIMENDX':	nDistinctValues=77,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 5:'VITALSTATUS':	nDistinctValues=2,	numeric=TRUE,	binary=TRUE,	exclude=FALSE.
Variable 6:'DCCUPLOADDAY':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 7:'PRIMARY.SITE.OF.DISEASE':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'GENDER':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 9:'DAYOFINITIALPATHOLOGICDIAGNOSIS':	nDistinctValues=25,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 10:'RADIATION.THERAPY':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 11:'RADIATIONS.RADIATION.REGIMENINDICATION':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 12:'DISTANT.METASTASIS':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 13:'LYMPH.NODE.METASTASIS':	nDistinctValues=10,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 14:'TUMOR.STAGECODE':	nDistinctValues=15,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 15:'NEOPLASM.DISEASESTAGE':	nDistinctValues=13,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 16:'BATCH.NUMBER':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "rownames(nsurv.mat)"
[1] "AGE"                     "PRIMARY.SITE.OF.DISEASE"
[3] "GENDER"                  "DISTANT.METASTASIS"     
[5] "LYMPH.NODE.METASTASIS"   "TUMOR.STAGECODE"        
[7] "NEOPLASM.DISEASESTAGE"  
[1] "TUMOR.?STAGE" "6"           
[1] "stage2"
vv
 T0  T1 T1A T1B  T2 T2A T2B  T3 T3A T3B  T4 T4A T4B TIS  TX 
  6   4  11   3  15  14   6   4  19  10   4   7  20   1  10 
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T"
[1] "PATHOLOGY.N"
Output Data has 147 columns, 1 survival variables, and 7 non-survival variables.
AGE, nv=59, binary=FALSE, numeric=TRUE
PRIMARY.SITE.OF.DISEASE, nv=2, binary=FALSE, numeric=FALSE
GENDER, nv=2, binary=FALSE, numeric=FALSE
DISTANT.METASTASIS, nv=5, binary=FALSE, numeric=FALSE
LYMPH.NODE.METASTASIS, nv=10, binary=FALSE, numeric=FALSE
TUMOR.STAGECODE, nv=0, binary=FALSE, numeric=TRUE
NEOPLASM.DISEASESTAGE, nv=13, binary=FALSE, numeric=FALSE

Clustering(1) Variable = 1p gain mutation analysis
D1V1, survival
                   sevent
clus2                0  1
  1P GAIN MUTATED    9 11
  1P GAIN WILD-TYPE 67 58
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
               20               125 
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
               11                58 
$`1P GAIN MUTATED`
TCGA-D3-A2J8 TCGA-DA-A1IC TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29L TCGA-EE-A2A2 
       65.49        68.09        13.97        39.62         2.56        24.43 
TCGA-EE-A2GI TCGA-EE-A2GM TCGA-EE-A2GP TCGA-EE-A2GS TCGA-EE-A2GU TCGA-EE-A2MD 
       22.55        75.48        13.87        55.59        67.13        47.28 
TCGA-EE-A2MM TCGA-EE-A2MQ TCGA-EE-A2MU TCGA-ER-A19F TCGA-ER-A3ET TCGA-FR-A3YN 
      167.87        43.23        53.26        26.37        80.32        80.48 
TCGA-GN-A266 TCGA-GN-A26A 
       10.09        32.48 

$`1P GAIN WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 
       16.57       112.54        71.80       121.22        28.08        31.59 
TCGA-D3-A2J6 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC 
       43.40        23.77        11.87        12.10        58.03        71.24 
TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A148 TCGA-D9-A149 
       60.23        24.53         9.30        21.47       148.31        49.74 
TCGA-D9-A1JW TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW 
        2.70         6.38        11.34         3.22        48.89        36.03 
TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 
      117.17        20.38       194.83       176.55        35.93        61.18 
TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 
       53.92        23.44        28.60        10.49       215.44        15.68 
TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B 
       29.82         8.65        33.73        26.86         4.93       109.64 
TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29H TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q 
       78.87        47.84        32.19        18.58        56.42        37.35 
TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 
       14.47        55.89       345.96        17.92        46.82        78.94 
TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-EE-A2GB TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GE 
       39.25        58.75        47.54        43.23       314.53       135.91 
TCGA-EE-A2GH TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GN TCGA-EE-A2GO 
      182.01        89.33        54.71        55.00        90.94       101.95 
TCGA-EE-A2GR TCGA-EE-A2GT TCGA-EE-A2M5 TCGA-EE-A2M6 TCGA-EE-A2M7 TCGA-EE-A2M8 
       14.30        19.56        21.67       129.24        28.80        19.76 
TCGA-EE-A2MC TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MJ 
       61.51       103.27       103.17        16.96       204.62        96.23 
TCGA-EE-A2MK TCGA-EE-A2ML TCGA-EE-A2MN TCGA-EE-A2MP TCGA-EE-A2MR TCGA-EE-A2MS 
      144.76       203.01        47.54       248.61       103.56       136.44 
TCGA-EE-A2MT TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AC TCGA-EE-A3AD TCGA-EE-A3AE 
       41.59         4.24       122.73        25.84         3.68        26.73 
TCGA-EE-A3AF TCGA-EE-A3AG TCGA-EE-A3AH TCGA-ER-A19D TCGA-ER-A19J TCGA-ER-A19L 
       13.81        23.47       138.77        12.59         6.41       131.08 
TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3PL TCGA-FR-A44A TCGA-FS-A1YW 
       61.05        44.05        79.99        33.21       160.60       216.92 
TCGA-FS-A1YX TCGA-FS-A1Z4 TCGA-FS-A1Z7 TCGA-FS-A1ZD TCGA-FS-A1ZG TCGA-FS-A1ZH 
       48.59        28.08         7.76        53.52         9.70        32.71 
TCGA-FS-A1ZJ TCGA-FS-A1ZM TCGA-FS-A1ZP TCGA-FS-A1ZR TCGA-FS-A1ZS TCGA-FS-A1ZW 
       47.38       101.26        74.73        11.41       148.77        49.48 
TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 
       77.79        12.43        49.45        22.98        76.41       120.46 
TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
      117.93        84.72        64.41        62.76        39.58 

  1P GAIN MUTATED 1P GAIN WILD-TYPE 
             2.56              2.70 
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
           167.87            345.96 
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
           45.255            47.840 
[1] "2.6 - 167.9 (45.3)" "2.7 - 346.0 (47.8)"
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"1P GAIN WILD-TYPE"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED"   "1P GAIN MUTATED" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"1P GAIN WILD-TYPE"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
  "1P GAIN MUTATED" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
  "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
  "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"1P GAIN WILD-TYPE"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"1P GAIN WILD-TYPE"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
  "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" 
       TCGA-GN-A26D 
"1P GAIN WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"1P GAIN WILD-TYPE"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED"   "1P GAIN MUTATED" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"1P GAIN WILD-TYPE"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
  "1P GAIN MUTATED" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
  "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
  "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"1P GAIN WILD-TYPE"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"1P GAIN WILD-TYPE"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
  "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" 
       TCGA-GN-A26D 
"1P GAIN WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"1P GAIN WILD-TYPE"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED"   "1P GAIN MUTATED" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"1P GAIN WILD-TYPE"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
  "1P GAIN MUTATED" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
  "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
  "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"1P GAIN WILD-TYPE"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"1P GAIN WILD-TYPE"   "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
  "1P GAIN MUTATED" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE"   "1P GAIN MUTATED" 
       TCGA-GN-A26D 
"1P GAIN WILD-TYPE" 
[1] "hr=" "1.4"
D1V2, continuous
D1V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1P GAIN MUTATED      7   13
  1P GAIN WILD-TYPE   28   99
                                                                                          clus
vv                                                                                         1P GAIN MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)               7
  REGIONAL LYMPH NODE                                                                                   13
                                                                                          clus
vv                                                                                         1P GAIN WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                28
  REGIONAL LYMPH NODE                                                                                     99
D1V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1P GAIN MUTATED      7   13
  1P GAIN WILD-TYPE   45   82
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  FEMALE               7                45
  MALE                13                82
                   vv
clus                 M0  M1 M1A M1B M1C
  1P GAIN MUTATED    19   0   0   0   0
  1P GAIN WILD-TYPE 109   1   2   2   1
D1V5, multiclass
                   vv
clus                N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  1P GAIN MUTATED   10  0   3   3  0   1   0   1  1  0
  1P GAIN WILD-TYPE 67  2   3   9  1   3  11   3 15  2
D1V6, multiclass
D1V7, continuous
                   vv
clus                I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  1P GAIN MUTATED             0       1        3        3        1         0
  1P GAIN WILD-TYPE           1      15        5       10       16         7
                   vv
clus                STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  1P GAIN MUTATED           0         1         0          3          4
  1P GAIN WILD-TYPE         8         3         8          2         12
                   vv
clus                STAGE IIIC STAGE IV
  1P GAIN MUTATED            2        0
  1P GAIN WILD-TYPE         19        4
D1V8, multiclass

Clustering(2) Variable = 1q gain mutation analysis
D2V1, survival
                   sevent
clus2                0  1
  1Q GAIN MUTATED   27 21
  1Q GAIN WILD-TYPE 49 48
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
               48                97 
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
               21                48 
$`1Q GAIN MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A2J8 TCGA-D3-A2JD TCGA-D3-A3CE TCGA-D3-A3MO TCGA-D3-A3MV 
       16.57        65.49        11.87        60.23         9.30        21.47 
TCGA-D9-A1JW TCGA-D9-A3Z3 TCGA-DA-A1I1 TCGA-DA-A1I4 TCGA-DA-A1IC TCGA-DA-A3F3 
        2.70         3.22       194.83        35.93        68.09        10.49 
TCGA-EE-A17Z TCGA-EE-A20B TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29L TCGA-EE-A29R 
        8.65       109.64        13.97        39.62         2.56        14.47 
TCGA-EE-A29S TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-EE-A2GD TCGA-EE-A2GH 
       55.89        78.94        24.43        58.75       314.53       182.01 
TCGA-EE-A2GI TCGA-EE-A2GM TCGA-EE-A2GN TCGA-EE-A2GS TCGA-EE-A2GU TCGA-EE-A2M7 
       22.55        75.48        90.94        55.59        67.13        28.80 
TCGA-EE-A2MD TCGA-EE-A2MN TCGA-EE-A2MQ TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AB 
       47.28        47.54        43.23        41.59        53.26       122.73 
TCGA-EE-A3AC TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN 
       25.84        12.59        26.37        80.32        33.21        80.48 
TCGA-FR-A44A TCGA-FS-A1ZP TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A26A TCGA-GN-A26D 
      160.60        74.73        10.09        64.41        32.48        39.58 

$`1Q GAIN WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
      112.54        71.80       121.22        28.08        31.59        43.40 
TCGA-D3-A2J9 TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CF TCGA-D9-A148 
       23.77        12.10        58.03        71.24        24.53       148.31 
TCGA-D9-A149 TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
       49.74         6.38        11.34        48.89        36.03       117.17 
TCGA-DA-A1I0 TCGA-DA-A1I2 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A3F2 
       20.38       176.55        61.18        53.92        23.44        28.60 
TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 
      215.44        15.68        29.82        33.73        26.86         4.93 
TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29H TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q 
       78.87        47.84        32.19        18.58        56.42        37.35 
TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A5 TCGA-EE-A2GB TCGA-EE-A2GC 
      345.96        17.92        46.82        39.25        47.54        43.23 
TCGA-EE-A2GE TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GO TCGA-EE-A2GP 
      135.91        89.33        54.71        55.00       101.95        13.87 
TCGA-EE-A2GR TCGA-EE-A2GT TCGA-EE-A2M5 TCGA-EE-A2M6 TCGA-EE-A2M8 TCGA-EE-A2MC 
       14.30        19.56        21.67       129.24        19.76        61.51 
TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2MK 
      103.27       103.17        16.96       204.62        96.23       144.76 
TCGA-EE-A2ML TCGA-EE-A2MM TCGA-EE-A2MP TCGA-EE-A2MR TCGA-EE-A2MS TCGA-EE-A3AA 
      203.01       167.87       248.61       103.56       136.44         4.24 
TCGA-EE-A3AD TCGA-EE-A3AE TCGA-EE-A3AF TCGA-EE-A3AG TCGA-EE-A3AH TCGA-ER-A19J 
        3.68        26.73        13.81        23.47       138.77         6.41 
TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-FS-A1YW TCGA-FS-A1YX 
      131.08        61.05        44.05        79.99       216.92        48.59 
TCGA-FS-A1Z4 TCGA-FS-A1Z7 TCGA-FS-A1ZD TCGA-FS-A1ZG TCGA-FS-A1ZH TCGA-FS-A1ZJ 
       28.08         7.76        53.52         9.70        32.71        47.38 
TCGA-FS-A1ZM TCGA-FS-A1ZR TCGA-FS-A1ZS TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 
      101.26        11.41       148.77        49.48        77.79        12.43 
TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 
       49.45        22.98        76.41       120.46       117.93        84.72 
TCGA-GN-A268 
       62.76 

  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
             2.56              3.68 
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
           314.53            345.96 
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
            42.41             48.89 
[1] "2.6 - 314.5 (42.4)" "3.7 - 346.0 (48.9)"
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
  "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
  "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED"   "1Q GAIN MUTATED" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED"   "1Q GAIN MUTATED" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
  "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED"   "1Q GAIN MUTATED" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
  "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
  "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
  "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED"   "1Q GAIN MUTATED" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
  "1Q GAIN MUTATED"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
  "1Q GAIN MUTATED"   "1Q GAIN MUTATED"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
  "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
  "1Q GAIN MUTATED"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-GN-A26D 
  "1Q GAIN MUTATED" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
  "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
  "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED"   "1Q GAIN MUTATED" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED"   "1Q GAIN MUTATED" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
  "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED"   "1Q GAIN MUTATED" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
  "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
  "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
  "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED"   "1Q GAIN MUTATED" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
  "1Q GAIN MUTATED"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
  "1Q GAIN MUTATED"   "1Q GAIN MUTATED"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
  "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
  "1Q GAIN MUTATED"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-GN-A26D 
  "1Q GAIN MUTATED" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
  "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
  "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED"   "1Q GAIN MUTATED" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED"   "1Q GAIN MUTATED" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
  "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED"   "1Q GAIN MUTATED" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
  "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
  "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
  "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED"   "1Q GAIN MUTATED" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
  "1Q GAIN MUTATED"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
  "1Q GAIN MUTATED"   "1Q GAIN MUTATED"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
  "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" "1Q GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
  "1Q GAIN MUTATED"   "1Q GAIN MUTATED" "1Q GAIN WILD-TYPE"   "1Q GAIN MUTATED" 
       TCGA-GN-A26D 
  "1Q GAIN MUTATED" 
[1] "hr=" "1"  
D2V2, continuous
D2V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1Q GAIN MUTATED     15   33
  1Q GAIN WILD-TYPE   20   79
                                                                                          clus
vv                                                                                         1Q GAIN MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)              15
  REGIONAL LYMPH NODE                                                                                   33
                                                                                          clus
vv                                                                                         1Q GAIN WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                20
  REGIONAL LYMPH NODE                                                                                     79
D2V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1Q GAIN MUTATED     15   33
  1Q GAIN WILD-TYPE   37   62
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  FEMALE              15                37
  MALE                33                62
                   vv
clus                M0 M1 M1A M1B M1C
  1Q GAIN MUTATED   43  0   1   0   0
  1Q GAIN WILD-TYPE 85  1   1   2   1
D2V5, multiclass
                   vv
clus                N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  1Q GAIN MUTATED   25  0   3   7  0   3   2   2  3  0
  1Q GAIN WILD-TYPE 52  2   3   5  1   1   9   2 13  2
D2V6, multiclass
D2V7, continuous
                   vv
clus                I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  1Q GAIN MUTATED             0       2        4        6        5         2
  1Q GAIN WILD-TYPE           1      14        4        7       12         5
                   vv
clus                STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  1Q GAIN MUTATED           2         2         2          4          7
  1Q GAIN WILD-TYPE         6         2         6          1          9
                   vv
clus                STAGE IIIC STAGE IV
  1Q GAIN MUTATED            6        1
  1Q GAIN WILD-TYPE         15        3
D2V8, multiclass

Clustering(3) Variable = 2p gain mutation analysis
D3V1, survival
                   sevent
clus2                0  1
  2P GAIN MUTATED    9  7
  2P GAIN WILD-TYPE 67 62
  2P GAIN MUTATED 2P GAIN WILD-TYPE 
               16               129 
  2P GAIN MUTATED 2P GAIN WILD-TYPE 
                7                62 
$`2P GAIN MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q6 TCGA-D3-A1Q9 TCGA-D3-A2JD TCGA-D3-A3MV TCGA-EE-A29D 
       16.57        71.80        31.59        11.87        21.47        13.97 
TCGA-EE-A29L TCGA-EE-A29R TCGA-EE-A2A6 TCGA-EE-A2GM TCGA-EE-A2GN TCGA-EE-A2MU 
        2.56        14.47        58.75        75.48        90.94        53.26 
TCGA-ER-A19N TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1ZD 
       44.05        80.48       160.60        53.52 

$`2P GAIN WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A2J9 
      112.54       121.22        28.08        43.40        65.49        23.77 
TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO 
       12.10        58.03        71.24        60.23        24.53         9.30 
TCGA-D9-A148 TCGA-D9-A149 TCGA-D9-A1JW TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 
      148.31        49.74         2.70         6.38        11.34         3.22 
TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 
       48.89        36.03       117.17        20.38       194.83       176.55 
TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 
       35.93        61.18        53.92        23.44        68.09        28.60 
TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 
       10.49       215.44        15.68        29.82         8.65        33.73 
TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29E 
       26.86         4.93       109.64        78.87        47.84        39.62 
TCGA-EE-A29H TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29S TCGA-EE-A29T 
       32.19        18.58        56.42        37.35        55.89       345.96 
TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2GB 
       17.92        46.82        78.94        24.43        39.25        47.54 
TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GH TCGA-EE-A2GI TCGA-EE-A2GJ 
       43.23       314.53       135.91       182.01        22.55        89.33 
TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GO TCGA-EE-A2GP TCGA-EE-A2GR TCGA-EE-A2GS 
       54.71        55.00       101.95        13.87        14.30        55.59 
TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 TCGA-EE-A2M6 TCGA-EE-A2M7 TCGA-EE-A2M8 
       19.56        67.13        21.67       129.24        28.80        19.76 
TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MI 
       61.51        47.28       103.27       103.17        16.96       204.62 
TCGA-EE-A2MJ TCGA-EE-A2MK TCGA-EE-A2ML TCGA-EE-A2MM TCGA-EE-A2MN TCGA-EE-A2MP 
       96.23       144.76       203.01       167.87        47.54       248.61 
TCGA-EE-A2MQ TCGA-EE-A2MR TCGA-EE-A2MS TCGA-EE-A2MT TCGA-EE-A3AA TCGA-EE-A3AB 
       43.23       103.56       136.44        41.59         4.24       122.73 
TCGA-EE-A3AC TCGA-EE-A3AD TCGA-EE-A3AE TCGA-EE-A3AF TCGA-EE-A3AG TCGA-EE-A3AH 
       25.84         3.68        26.73        13.81        23.47       138.77 
TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A1A1 
       12.59        26.37         6.41       131.08        61.05        79.99 
TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1Z4 TCGA-FS-A1Z7 
       80.32        33.21       216.92        48.59        28.08         7.76 
TCGA-FS-A1ZG TCGA-FS-A1ZH TCGA-FS-A1ZJ TCGA-FS-A1ZM TCGA-FS-A1ZP TCGA-FS-A1ZR 
        9.70        32.71        47.38       101.26        74.73        11.41 
TCGA-FS-A1ZS TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 
      148.77        49.48        77.79        12.43        49.45        22.98 
TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A267 
       76.41       120.46       117.93        84.72        10.09        64.41 
TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       62.76        32.48        39.58 

  2P GAIN MUTATED 2P GAIN WILD-TYPE 
             2.56              2.70 
  2P GAIN MUTATED 2P GAIN WILD-TYPE 
           160.60            345.96 
  2P GAIN MUTATED 2P GAIN WILD-TYPE 
           48.655            47.540 
[1] "2.6 - 160.6 (48.7)" "2.7 - 346.0 (47.5)"
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
  "2P GAIN MUTATED" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
  "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
  "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"2P GAIN WILD-TYPE"   "2P GAIN MUTATED"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-GN-A26D 
"2P GAIN WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
  "2P GAIN MUTATED" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
  "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
  "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"2P GAIN WILD-TYPE"   "2P GAIN MUTATED"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-GN-A26D 
"2P GAIN WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
  "2P GAIN MUTATED" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
  "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
  "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"2P GAIN WILD-TYPE"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"2P GAIN WILD-TYPE"   "2P GAIN MUTATED"   "2P GAIN MUTATED" "2P GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE"   "2P GAIN MUTATED" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" "2P GAIN WILD-TYPE" 
       TCGA-GN-A26D 
"2P GAIN WILD-TYPE" 
[1] "hr=" "1.1"
D3V2, continuous
D3V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  2P GAIN MUTATED      5   11
  2P GAIN WILD-TYPE   30  101
                                                                                          clus
vv                                                                                         2P GAIN MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)               5
  REGIONAL LYMPH NODE                                                                                   11
                                                                                          clus
vv                                                                                         2P GAIN WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                30
  REGIONAL LYMPH NODE                                                                                    101
D3V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  2P GAIN MUTATED      5   11
  2P GAIN WILD-TYPE   47   84
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  FEMALE               5                47
  MALE                11                84
                   vv
clus                 M0  M1 M1A M1B M1C
  2P GAIN MUTATED    15   0   0   0   0
  2P GAIN WILD-TYPE 113   1   2   2   1
D3V5, multiclass
                   vv
clus                N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  2P GAIN MUTATED    7  0   0   4  0   2   0   0  2  0
  2P GAIN WILD-TYPE 70  2   6   8  1   2  11   4 14  2
D3V6, multiclass
D3V7, continuous
                   vv
clus                I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  2P GAIN MUTATED             0       0        2        1        1         2
  2P GAIN WILD-TYPE           1      16        6       12       16         5
                   vv
clus                STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  2P GAIN MUTATED           0         1         1          0          2
  2P GAIN WILD-TYPE         8         3         7          5         14
                   vv
clus                STAGE IIIC STAGE IV
  2P GAIN MUTATED            5        0
  2P GAIN WILD-TYPE         16        4
D3V8, multiclass

Clustering(4) Variable = 2q gain mutation analysis
D4V1, survival
                   sevent
clus2                0  1
  2Q GAIN MUTATED    9  6
  2Q GAIN WILD-TYPE 67 63
  2Q GAIN MUTATED 2Q GAIN WILD-TYPE 
               15               130 
  2Q GAIN MUTATED 2Q GAIN WILD-TYPE 
                6                63 
$`2Q GAIN MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q6 TCGA-D3-A1Q9 TCGA-D3-A2JD TCGA-D3-A3MV TCGA-EE-A29L 
       16.57        71.80        31.59        11.87        21.47         2.56 
TCGA-EE-A29R TCGA-EE-A2A6 TCGA-EE-A2GM TCGA-EE-A2GN TCGA-EE-A2MU TCGA-ER-A19N 
       14.47        58.75        75.48        90.94        53.26        44.05 
TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1ZD 
       80.48       160.60        53.52 

$`2Q GAIN WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A2J9 
      112.54       121.22        28.08        43.40        65.49        23.77 
TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO 
       12.10        58.03        71.24        60.23        24.53         9.30 
TCGA-D9-A148 TCGA-D9-A149 TCGA-D9-A1JW TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 
      148.31        49.74         2.70         6.38        11.34         3.22 
TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 
       48.89        36.03       117.17        20.38       194.83       176.55 
TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 
       35.93        61.18        53.92        23.44        68.09        28.60 
TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 
       10.49       215.44        15.68        29.82         8.65        33.73 
TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D 
       26.86         4.93       109.64        78.87        47.84        13.97 
TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29S 
       39.62        32.19        18.58        56.42        37.35        55.89 
TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 
      345.96        17.92        46.82        78.94        24.43        39.25 
TCGA-EE-A2GB TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GH TCGA-EE-A2GI 
       47.54        43.23       314.53       135.91       182.01        22.55 
TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GO TCGA-EE-A2GP TCGA-EE-A2GR 
       89.33        54.71        55.00       101.95        13.87        14.30 
TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 TCGA-EE-A2M6 TCGA-EE-A2M7 
       55.59        19.56        67.13        21.67       129.24        28.80 
TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MH 
       19.76        61.51        47.28       103.27       103.17        16.96 
TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2MK TCGA-EE-A2ML TCGA-EE-A2MM TCGA-EE-A2MN 
      204.62        96.23       144.76       203.01       167.87        47.54 
TCGA-EE-A2MP TCGA-EE-A2MQ TCGA-EE-A2MR TCGA-EE-A2MS TCGA-EE-A2MT TCGA-EE-A3AA 
      248.61        43.23       103.56       136.44        41.59         4.24 
TCGA-EE-A3AB TCGA-EE-A3AC TCGA-EE-A3AD TCGA-EE-A3AE TCGA-EE-A3AF TCGA-EE-A3AG 
      122.73        25.84         3.68        26.73        13.81        23.47 
TCGA-EE-A3AH TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M 
      138.77        12.59        26.37         6.41       131.08        61.05 
TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1Z4 
       79.99        80.32        33.21       216.92        48.59        28.08 
TCGA-FS-A1Z7 TCGA-FS-A1ZG TCGA-FS-A1ZH TCGA-FS-A1ZJ TCGA-FS-A1ZM TCGA-FS-A1ZP 
        7.76         9.70        32.71        47.38       101.26        74.73 
TCGA-FS-A1ZR TCGA-FS-A1ZS TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC 
       11.41       148.77        49.48        77.79        12.43        49.45 
TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 
       22.98        76.41       120.46       117.93        84.72        10.09 
TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       64.41        62.76        32.48        39.58 

  2Q GAIN MUTATED 2Q GAIN WILD-TYPE 
             2.56              2.70 
  2Q GAIN MUTATED 2Q GAIN WILD-TYPE 
           160.60            345.96 
  2Q GAIN MUTATED 2Q GAIN WILD-TYPE 
            53.26             47.54 
[1] "2.6 - 160.6 (53.3)" "2.7 - 346.0 (47.5)"
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
  "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
  "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
  "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED"   "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-GN-A26D 
"2Q GAIN WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
  "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
  "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
  "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED"   "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-GN-A26D 
"2Q GAIN WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
  "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
  "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
  "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED"   "2Q GAIN MUTATED" "2Q GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE"   "2Q GAIN MUTATED" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" "2Q GAIN WILD-TYPE" 
       TCGA-GN-A26D 
"2Q GAIN WILD-TYPE" 
[1] "hr=" "1"  
D4V2, continuous
D4V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  2Q GAIN MUTATED      5   10
  2Q GAIN WILD-TYPE   30  102
                                                                                          clus
vv                                                                                         2Q GAIN MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)               5
  REGIONAL LYMPH NODE                                                                                   10
                                                                                          clus
vv                                                                                         2Q GAIN WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                30
  REGIONAL LYMPH NODE                                                                                    102
D4V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  2Q GAIN MUTATED      5   10
  2Q GAIN WILD-TYPE   47   85
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  FEMALE               5                47
  MALE                10                85
                   vv
clus                 M0  M1 M1A M1B M1C
  2Q GAIN MUTATED    14   0   0   0   0
  2Q GAIN WILD-TYPE 114   1   2   2   1
D4V5, multiclass
                   vv
clus                N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  2Q GAIN MUTATED    7  0   0   3  0   2   0   0  2  0
  2Q GAIN WILD-TYPE 70  2   6   9  1   2  11   4 14  2
D4V6, multiclass
D4V7, continuous
                   vv
clus                I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  2Q GAIN MUTATED             0       0        2        1        1         2
  2Q GAIN WILD-TYPE           1      16        6       12       16         5
                   vv
clus                STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  2Q GAIN MUTATED           0         1         1          0          2
  2Q GAIN WILD-TYPE         8         3         7          5         14
                   vv
clus                STAGE IIIC STAGE IV
  2Q GAIN MUTATED            4        0
  2Q GAIN WILD-TYPE         17        4
D4V8, multiclass

Clustering(5) Variable = 3p gain mutation analysis
D5V1, survival
                   sevent
clus2                0  1
  3P GAIN MUTATED    7  5
  3P GAIN WILD-TYPE 69 64
  3P GAIN MUTATED 3P GAIN WILD-TYPE 
               12               133 
  3P GAIN MUTATED 3P GAIN WILD-TYPE 
                5                64 
$`3P GAIN MUTATED`
TCGA-D3-A3MV TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-EE-A29L TCGA-EE-A29R TCGA-EE-A29T 
       21.47        10.49       215.44         2.56        14.47       345.96 
TCGA-EE-A2GN TCGA-EE-A2GP TCGA-EE-A3AE TCGA-ER-A3ET TCGA-GN-A264 TCGA-GN-A266 
       90.94        13.87        26.73        80.32       117.93        10.09 

$`3P GAIN WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 
       16.57       112.54        71.80       121.22        28.08        31.59 
TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 
       43.40        65.49        23.77        11.87        12.10        58.03 
TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D9-A148 TCGA-D9-A149 
       71.24        60.23        24.53         9.30       148.31        49.74 
TCGA-D9-A1JW TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW 
        2.70         6.38        11.34         3.22        48.89        36.03 
TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 
      117.17        20.38       194.83       176.55        35.93        61.18 
TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F8 TCGA-EE-A17X 
       53.92        23.44        68.09        28.60        15.68        29.82 
TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F 
        8.65        33.73        26.86         4.93       109.64        78.87 
TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29N TCGA-EE-A29P 
       47.84        13.97        39.62        32.19        18.58        56.42 
TCGA-EE-A29Q TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 
       37.35        55.89        17.92        46.82        78.94        24.43 
TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-EE-A2GB TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GE 
       39.25        58.75        47.54        43.23       314.53       135.91 
TCGA-EE-A2GH TCGA-EE-A2GI TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GM 
      182.01        22.55        89.33        54.71        55.00        75.48 
TCGA-EE-A2GO TCGA-EE-A2GR TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 
      101.95        14.30        55.59        19.56        67.13        21.67 
TCGA-EE-A2M6 TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME 
      129.24        28.80        19.76        61.51        47.28       103.27 
TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2MK TCGA-EE-A2ML 
      103.17        16.96       204.62        96.23       144.76       203.01 
TCGA-EE-A2MM TCGA-EE-A2MN TCGA-EE-A2MP TCGA-EE-A2MQ TCGA-EE-A2MR TCGA-EE-A2MS 
      167.87        47.54       248.61        43.23       103.56       136.44 
TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AC TCGA-EE-A3AD 
       41.59        53.26         4.24       122.73        25.84         3.68 
TCGA-EE-A3AF TCGA-EE-A3AG TCGA-EE-A3AH TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J 
       13.81        23.47       138.77        12.59        26.37         6.41 
TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3PL TCGA-FR-A3YN 
      131.08        61.05        44.05        79.99        33.21        80.48 
TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1Z4 TCGA-FS-A1Z7 TCGA-FS-A1ZD 
      160.60       216.92        48.59        28.08         7.76        53.52 
TCGA-FS-A1ZG TCGA-FS-A1ZH TCGA-FS-A1ZJ TCGA-FS-A1ZM TCGA-FS-A1ZP TCGA-FS-A1ZR 
        9.70        32.71        47.38       101.26        74.73        11.41 
TCGA-FS-A1ZS TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 
      148.77        49.48        77.79        12.43        49.45        22.98 
TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A 
       76.41       120.46        84.72        64.41        62.76        32.48 
TCGA-GN-A26D 
       39.58 

  3P GAIN MUTATED 3P GAIN WILD-TYPE 
             2.56              2.70 
  3P GAIN MUTATED 3P GAIN WILD-TYPE 
           345.96            314.53 
  3P GAIN MUTATED 3P GAIN WILD-TYPE 
            24.10             47.84 
[1] "2.6 - 346.0 (24.1)" "2.7 - 314.5 (47.8)"
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
  "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
  "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"3P GAIN WILD-TYPE"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"3P GAIN WILD-TYPE"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
  "3P GAIN MUTATED" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
  "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
  "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-GN-A26D 
"3P GAIN WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
  "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
  "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"3P GAIN WILD-TYPE"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"3P GAIN WILD-TYPE"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
  "3P GAIN MUTATED" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
  "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
  "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-GN-A26D 
"3P GAIN WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
  "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
  "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"3P GAIN WILD-TYPE"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"3P GAIN WILD-TYPE"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
  "3P GAIN MUTATED" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
  "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE"   "3P GAIN MUTATED" "3P GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
  "3P GAIN MUTATED" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" "3P GAIN WILD-TYPE" 
       TCGA-GN-A26D 
"3P GAIN WILD-TYPE" 
[1] "hr=" "1.2"
D5V2, continuous
D5V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  3P GAIN MUTATED      5    7
  3P GAIN WILD-TYPE   30  105
                                                                                          clus
vv                                                                                         3P GAIN MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)               5
  REGIONAL LYMPH NODE                                                                                    7
                                                                                          clus
vv                                                                                         3P GAIN WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                30
  REGIONAL LYMPH NODE                                                                                    105
D5V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  3P GAIN MUTATED      5    7
  3P GAIN WILD-TYPE   47   88
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  FEMALE               5                47
  MALE                 7                88
                   vv
clus                 M0  M1 M1A M1B M1C
  3P GAIN MUTATED    10   0   0   0   0
  3P GAIN WILD-TYPE 118   1   2   2   1
D5V5, multiclass
                   vv
clus                N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  3P GAIN MUTATED    2  0   2   1  0   1   1   0  2  1
  3P GAIN WILD-TYPE 75  2   4  11  1   3  10   4 14  1
D5V6, multiclass
D5V7, continuous
                   vv
clus                I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  3P GAIN MUTATED             0       0        1        0        0         1
  3P GAIN WILD-TYPE           1      16        7       13       17         6
                   vv
clus                STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  3P GAIN MUTATED           0         0         0          1          3
  3P GAIN WILD-TYPE         8         4         8          4         13
                   vv
clus                STAGE IIIC STAGE IV
  3P GAIN MUTATED            3        0
  3P GAIN WILD-TYPE         18        4
D5V8, multiclass

Clustering(6) Variable = 3q gain mutation analysis
D6V1, survival
                   sevent
clus2                0  1
  3Q GAIN MUTATED   10  5
  3Q GAIN WILD-TYPE 66 64
  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
               15               130 
  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
                5                64 
$`3Q GAIN MUTATED`
TCGA-D3-A3MV TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-EE-A20F TCGA-EE-A29R TCGA-EE-A29T 
       21.47        10.49       215.44        78.87        14.47       345.96 
TCGA-EE-A2GN TCGA-EE-A2GP TCGA-EE-A2M6 TCGA-EE-A2ML TCGA-EE-A3AE TCGA-ER-A19M 
       90.94        13.87       129.24       203.01        26.73        61.05 
TCGA-ER-A3ET TCGA-GN-A266 TCGA-GN-A26A 
       80.32        10.09        32.48 

$`3Q GAIN WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 
       16.57       112.54        71.80       121.22        28.08        31.59 
TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 
       43.40        65.49        23.77        11.87        12.10        58.03 
TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D9-A148 TCGA-D9-A149 
       71.24        60.23        24.53         9.30       148.31        49.74 
TCGA-D9-A1JW TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW 
        2.70         6.38        11.34         3.22        48.89        36.03 
TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 
      117.17        20.38       194.83       176.55        35.93        61.18 
TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F8 TCGA-EE-A17X 
       53.92        23.44        68.09        28.60        15.68        29.82 
TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A29C 
        8.65        33.73        26.86         4.93       109.64        47.84 
TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P 
       13.97        39.62        32.19         2.56        18.58        56.42 
TCGA-EE-A29Q TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 
       37.35        55.89        17.92        46.82        78.94        24.43 
TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-EE-A2GB TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GE 
       39.25        58.75        47.54        43.23       314.53       135.91 
TCGA-EE-A2GH TCGA-EE-A2GI TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GM 
      182.01        22.55        89.33        54.71        55.00        75.48 
TCGA-EE-A2GO TCGA-EE-A2GR TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 
      101.95        14.30        55.59        19.56        67.13        21.67 
TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME TCGA-EE-A2MG 
       28.80        19.76        61.51        47.28       103.27       103.17 
TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2MK TCGA-EE-A2MM TCGA-EE-A2MN 
       16.96       204.62        96.23       144.76       167.87        47.54 
TCGA-EE-A2MP TCGA-EE-A2MQ TCGA-EE-A2MR TCGA-EE-A2MS TCGA-EE-A2MT TCGA-EE-A2MU 
      248.61        43.23       103.56       136.44        41.59        53.26 
TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AC TCGA-EE-A3AD TCGA-EE-A3AF TCGA-EE-A3AG 
        4.24       122.73        25.84         3.68        13.81        23.47 
TCGA-EE-A3AH TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19N 
      138.77        12.59        26.37         6.41       131.08        44.05 
TCGA-ER-A1A1 TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1YX 
       79.99        33.21        80.48       160.60       216.92        48.59 
TCGA-FS-A1Z4 TCGA-FS-A1Z7 TCGA-FS-A1ZD TCGA-FS-A1ZG TCGA-FS-A1ZH TCGA-FS-A1ZJ 
       28.08         7.76        53.52         9.70        32.71        47.38 
TCGA-FS-A1ZM TCGA-FS-A1ZP TCGA-FS-A1ZR TCGA-FS-A1ZS TCGA-FS-A1ZW TCGA-FS-A4F0 
      101.26        74.73        11.41       148.77        49.48        77.79 
TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 
       12.43        49.45        22.98        76.41       120.46       117.93 
TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
       84.72        64.41        62.76        39.58 

  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
            10.09              2.56 
  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
           345.96            314.53 
  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
            61.05             47.54 
[1] "10.1 - 346.0 (61.0)" "2.6 - 314.5 (47.5)" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" 
       TCGA-GN-A26D 
"3Q GAIN WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" 
       TCGA-GN-A26D 
"3Q GAIN WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
  "3Q GAIN MUTATED" "3Q GAIN WILD-TYPE" "3Q GAIN WILD-TYPE"   "3Q GAIN MUTATED" 
       TCGA-GN-A26D 
"3Q GAIN WILD-TYPE" 
[1] "hr=" "1.8"
D6V2, continuous
D6V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  3Q GAIN MUTATED      6    9
  3Q GAIN WILD-TYPE   29  103
                                                                                          clus
vv                                                                                         3Q GAIN MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)               6
  REGIONAL LYMPH NODE                                                                                    9
                                                                                          clus
vv                                                                                         3Q GAIN WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                29
  REGIONAL LYMPH NODE                                                                                    103
D6V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  3Q GAIN MUTATED      6    9
  3Q GAIN WILD-TYPE   46   86
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  FEMALE               6                46
  MALE                 9                86
                   vv
clus                 M0  M1 M1A M1B M1C
  3Q GAIN MUTATED    14   0   0   0   0
  3Q GAIN WILD-TYPE 114   1   2   2   1
D6V5, multiclass
                   vv
clus                N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  3Q GAIN MUTATED    6  0   3   1  0   1   1   0  1  1
  3Q GAIN WILD-TYPE 71  2   3  11  1   3  10   4 15  1
D6V6, multiclass
D6V7, continuous
                   vv
clus                I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  3Q GAIN MUTATED             0       1        1        1        2         1
  3Q GAIN WILD-TYPE           1      15        7       12       15         6
                   vv
clus                STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  3Q GAIN MUTATED           0         0         0          2          3
  3Q GAIN WILD-TYPE         8         4         8          3         13
                   vv
clus                STAGE IIIC STAGE IV
  3Q GAIN MUTATED            2        0
  3Q GAIN WILD-TYPE         19        4
D6V8, multiclass

Clustering(7) Variable = 4p gain mutation analysis
D7V1, survival
                   sevent
clus2                0  1
  4P GAIN MUTATED   10  4
  4P GAIN WILD-TYPE 66 65
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
               14               131 
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
                4                65 
$`4P GAIN MUTATED`
TCGA-D3-A3CE TCGA-DA-A1HV TCGA-DA-A1I1 TCGA-DA-A3F5 TCGA-EE-A29P TCGA-EE-A2GB 
       60.23        48.89       194.83       215.44        56.42        47.54 
TCGA-EE-A2GI TCGA-EE-A2GP TCGA-ER-A3ET TCGA-FR-A3YN TCGA-FS-A1ZJ TCGA-FS-A1ZM 
       22.55        13.87        80.32        80.48        47.38       101.26 
TCGA-GN-A264 TCGA-GN-A26D 
      117.93        39.58 

$`4P GAIN WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 
       16.57       112.54        71.80       121.22        28.08        31.59 
TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 
       43.40        65.49        23.77        11.87        12.10        58.03 
TCGA-D3-A3CC TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A148 TCGA-D9-A149 
       71.24        24.53         9.30        21.47       148.31        49.74 
TCGA-D9-A1JW TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HW TCGA-DA-A1HY 
        2.70         6.38        11.34         3.22        36.03       117.17 
TCGA-DA-A1I0 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IB 
       20.38       176.55        35.93        61.18        53.92        23.44 
TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z 
       68.09        28.60        10.49        15.68        29.82         8.65 
TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29C 
       33.73        26.86         4.93       109.64        78.87        47.84 
TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29Q 
       13.97        39.62        32.19         2.56        18.58        37.35 
TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 
       14.47        55.89       345.96        17.92        46.82        78.94 
TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GE 
       24.43        39.25        58.75        43.23       314.53       135.91 
TCGA-EE-A2GH TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GM TCGA-EE-A2GN 
      182.01        89.33        54.71        55.00        75.48        90.94 
TCGA-EE-A2GO TCGA-EE-A2GR TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 
      101.95        14.30        55.59        19.56        67.13        21.67 
TCGA-EE-A2M6 TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME 
      129.24        28.80        19.76        61.51        47.28       103.27 
TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2MK TCGA-EE-A2ML 
      103.17        16.96       204.62        96.23       144.76       203.01 
TCGA-EE-A2MM TCGA-EE-A2MN TCGA-EE-A2MP TCGA-EE-A2MQ TCGA-EE-A2MR TCGA-EE-A2MS 
      167.87        47.54       248.61        43.23       103.56       136.44 
TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AC TCGA-EE-A3AD 
       41.59        53.26         4.24       122.73        25.84         3.68 
TCGA-EE-A3AE TCGA-EE-A3AF TCGA-EE-A3AG TCGA-EE-A3AH TCGA-ER-A19D TCGA-ER-A19F 
       26.73        13.81        23.47       138.77        12.59        26.37 
TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3PL 
        6.41       131.08        61.05        44.05        79.99        33.21 
TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1Z4 TCGA-FS-A1Z7 TCGA-FS-A1ZD 
      160.60       216.92        48.59        28.08         7.76        53.52 
TCGA-FS-A1ZG TCGA-FS-A1ZH TCGA-FS-A1ZP TCGA-FS-A1ZR TCGA-FS-A1ZS TCGA-FS-A1ZW 
        9.70        32.71        74.73        11.41       148.77        49.48 
TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 
       77.79        12.43        49.45        22.98        76.41       120.46 
TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A 
       84.72        10.09        64.41        62.76        32.48 

  4P GAIN MUTATED 4P GAIN WILD-TYPE 
            13.87              2.56 
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
           215.44            345.96 
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
           58.325            46.820 
[1] "13.9 - 215.4 (58.3)" "2.6 - 346.0 (46.8)" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"4P GAIN WILD-TYPE"   "4P GAIN MUTATED" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE"   "4P GAIN MUTATED" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE"   "4P GAIN MUTATED" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
  "4P GAIN MUTATED" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE"   "4P GAIN MUTATED" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE"   "4P GAIN MUTATED" "4P GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE"   "4P GAIN MUTATED" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE"   "4P GAIN MUTATED" "4P GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE"   "4P GAIN MUTATED" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"4P GAIN WILD-TYPE"   "4P GAIN MUTATED" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE"   "4P GAIN MUTATED"   "4P GAIN MUTATED" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE"   "4P GAIN MUTATED" "4P GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-GN-A26D 
  "4P GAIN MUTATED" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"4P GAIN WILD-TYPE"   "4P GAIN MUTATED" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE"   "4P GAIN MUTATED" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE"   "4P GAIN MUTATED" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
  "4P GAIN MUTATED" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE"   "4P GAIN MUTATED" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE"   "4P GAIN MUTATED" "4P GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE"   "4P GAIN MUTATED" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE"   "4P GAIN MUTATED" "4P GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE"   "4P GAIN MUTATED" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"4P GAIN WILD-TYPE"   "4P GAIN MUTATED" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE"   "4P GAIN MUTATED"   "4P GAIN MUTATED" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE"   "4P GAIN MUTATED" "4P GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-GN-A26D 
  "4P GAIN MUTATED" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"4P GAIN WILD-TYPE"   "4P GAIN MUTATED" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE"   "4P GAIN MUTATED" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE"   "4P GAIN MUTATED" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
  "4P GAIN MUTATED" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE"   "4P GAIN MUTATED" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE"   "4P GAIN MUTATED" "4P GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE"   "4P GAIN MUTATED" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE"   "4P GAIN MUTATED" "4P GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE"   "4P GAIN MUTATED" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"4P GAIN WILD-TYPE"   "4P GAIN MUTATED" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE"   "4P GAIN MUTATED"   "4P GAIN MUTATED" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE"   "4P GAIN MUTATED" "4P GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-GN-A26D 
  "4P GAIN MUTATED" 
[1] "hr=" "2.2"
D7V2, continuous
D7V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  4P GAIN MUTATED      4   10
  4P GAIN WILD-TYPE   31  102
                                                                                          clus
vv                                                                                         4P GAIN MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)               4
  REGIONAL LYMPH NODE                                                                                   10
                                                                                          clus
vv                                                                                         4P GAIN WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                31
  REGIONAL LYMPH NODE                                                                                    102
D7V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  4P GAIN MUTATED      6    8
  4P GAIN WILD-TYPE   46   87
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  FEMALE               6                46
  MALE                 8                87
                   vv
clus                 M0  M1 M1A M1B M1C
  4P GAIN MUTATED    12   0   0   0   0
  4P GAIN WILD-TYPE 116   1   2   2   1
D7V5, multiclass
                   vv
clus                N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  4P GAIN MUTATED    5  0   3   1  0   0   1   1  2  0
  4P GAIN WILD-TYPE 72  2   3  11  1   4  10   3 14  2
D7V6, multiclass
D7V7, continuous
                   vv
clus                I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  4P GAIN MUTATED             0       1        1        1        0         0
  4P GAIN WILD-TYPE           1      15        7       12       17         7
                   vv
clus                STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  4P GAIN MUTATED           0         2         2          2          2
  4P GAIN WILD-TYPE         8         2         6          3         14
                   vv
clus                STAGE IIIC STAGE IV
  4P GAIN MUTATED            2        0
  4P GAIN WILD-TYPE         19        4
D7V8, multiclass

Clustering(8) Variable = 4q gain mutation analysis
D8V1, survival
                   sevent
clus2                0  1
  4Q GAIN MUTATED    8  4
  4Q GAIN WILD-TYPE 68 65
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
               12               133 
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
                4                65 
$`4Q GAIN MUTATED`
TCGA-D3-A3CE TCGA-DA-A1HV TCGA-DA-A1I1 TCGA-DA-A3F5 TCGA-EE-A29D TCGA-EE-A29P 
       60.23        48.89       194.83       215.44        13.97        56.42 
TCGA-EE-A2GB TCGA-EE-A2GP TCGA-EE-A3AD TCGA-FR-A3YN TCGA-GN-A264 TCGA-GN-A26D 
       47.54        13.87         3.68        80.48       117.93        39.58 

$`4Q GAIN WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 
       16.57       112.54        71.80       121.22        28.08        31.59 
TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 
       43.40        65.49        23.77        11.87        12.10        58.03 
TCGA-D3-A3CC TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A148 TCGA-D9-A149 
       71.24        24.53         9.30        21.47       148.31        49.74 
TCGA-D9-A1JW TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HW TCGA-DA-A1HY 
        2.70         6.38        11.34         3.22        36.03       117.17 
TCGA-DA-A1I0 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IB 
       20.38       176.55        35.93        61.18        53.92        23.44 
TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z 
       68.09        28.60        10.49        15.68        29.82         8.65 
TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29C 
       33.73        26.86         4.93       109.64        78.87        47.84 
TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29Q TCGA-EE-A29R 
       39.62        32.19         2.56        18.58        37.35        14.47 
TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 
       55.89       345.96        17.92        46.82        78.94        24.43 
TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GH 
       39.25        58.75        43.23       314.53       135.91       182.01 
TCGA-EE-A2GI TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GM TCGA-EE-A2GN 
       22.55        89.33        54.71        55.00        75.48        90.94 
TCGA-EE-A2GO TCGA-EE-A2GR TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 
      101.95        14.30        55.59        19.56        67.13        21.67 
TCGA-EE-A2M6 TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME 
      129.24        28.80        19.76        61.51        47.28       103.27 
TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2MK TCGA-EE-A2ML 
      103.17        16.96       204.62        96.23       144.76       203.01 
TCGA-EE-A2MM TCGA-EE-A2MN TCGA-EE-A2MP TCGA-EE-A2MQ TCGA-EE-A2MR TCGA-EE-A2MS 
      167.87        47.54       248.61        43.23       103.56       136.44 
TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AC TCGA-EE-A3AE 
       41.59        53.26         4.24       122.73        25.84        26.73 
TCGA-EE-A3AF TCGA-EE-A3AG TCGA-EE-A3AH TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J 
       13.81        23.47       138.77        12.59        26.37         6.41 
TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-ER-A3PL 
      131.08        61.05        44.05        79.99        80.32        33.21 
TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1Z4 TCGA-FS-A1Z7 TCGA-FS-A1ZD 
      160.60       216.92        48.59        28.08         7.76        53.52 
TCGA-FS-A1ZG TCGA-FS-A1ZH TCGA-FS-A1ZJ TCGA-FS-A1ZM TCGA-FS-A1ZP TCGA-FS-A1ZR 
        9.70        32.71        47.38       101.26        74.73        11.41 
TCGA-FS-A1ZS TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 
      148.77        49.48        77.79        12.43        49.45        22.98 
TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A268 
       76.41       120.46        84.72        10.09        64.41        62.76 
TCGA-GN-A26A 
       32.48 

  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
             3.68              2.56 
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
           215.44            345.96 
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
           52.655            47.380 
[1] "3.7 - 215.4 (52.7)" "2.6 - 346.0 (47.4)"
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"4Q GAIN WILD-TYPE"   "4Q GAIN MUTATED" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE"   "4Q GAIN MUTATED" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE"   "4Q GAIN MUTATED" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
  "4Q GAIN MUTATED" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE"   "4Q GAIN MUTATED" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE"   "4Q GAIN MUTATED" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE"   "4Q GAIN MUTATED" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE"   "4Q GAIN MUTATED" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE"   "4Q GAIN MUTATED" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"4Q GAIN WILD-TYPE"   "4Q GAIN MUTATED" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE"   "4Q GAIN MUTATED" "4Q GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-GN-A26D 
  "4Q GAIN MUTATED" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"4Q GAIN WILD-TYPE"   "4Q GAIN MUTATED" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE"   "4Q GAIN MUTATED" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE"   "4Q GAIN MUTATED" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
  "4Q GAIN MUTATED" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE"   "4Q GAIN MUTATED" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE"   "4Q GAIN MUTATED" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE"   "4Q GAIN MUTATED" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE"   "4Q GAIN MUTATED" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE"   "4Q GAIN MUTATED" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"4Q GAIN WILD-TYPE"   "4Q GAIN MUTATED" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE"   "4Q GAIN MUTATED" "4Q GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-GN-A26D 
  "4Q GAIN MUTATED" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"4Q GAIN WILD-TYPE"   "4Q GAIN MUTATED" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE"   "4Q GAIN MUTATED" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE"   "4Q GAIN MUTATED" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
  "4Q GAIN MUTATED" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE"   "4Q GAIN MUTATED" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE"   "4Q GAIN MUTATED" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE"   "4Q GAIN MUTATED" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE"   "4Q GAIN MUTATED" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE"   "4Q GAIN MUTATED" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"4Q GAIN WILD-TYPE"   "4Q GAIN MUTATED" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE"   "4Q GAIN MUTATED" "4Q GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-GN-A26D 
  "4Q GAIN MUTATED" 
[1] "hr=" "1.7"
D8V2, continuous
D8V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  4Q GAIN MUTATED      2   10
  4Q GAIN WILD-TYPE   33  102
                                                                                          clus
vv                                                                                         4Q GAIN MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)               2
  REGIONAL LYMPH NODE                                                                                   10
                                                                                          clus
vv                                                                                         4Q GAIN WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                33
  REGIONAL LYMPH NODE                                                                                    102
D8V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  4Q GAIN MUTATED      4    8
  4Q GAIN WILD-TYPE   48   87
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  FEMALE               4                48
  MALE                 8                87
                   vv
clus                 M0  M1 M1A M1B M1C
  4Q GAIN MUTATED     9   0   0   0   0
  4Q GAIN WILD-TYPE 119   1   2   2   1
D8V5, multiclass
                   vv
clus                N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  4Q GAIN MUTATED    3  0   2   2  0   0   1   0  2  0
  4Q GAIN WILD-TYPE 74  2   4  10  1   4  10   4 14  2
D8V6, multiclass
D8V7, continuous
                   vv
clus                I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  4Q GAIN MUTATED             0       0        0        1        0         0
  4Q GAIN WILD-TYPE           1      16        8       12       17         7
                   vv
clus                STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  4Q GAIN MUTATED           0         2         1          1          2
  4Q GAIN WILD-TYPE         8         2         7          4         14
                   vv
clus                STAGE IIIC STAGE IV
  4Q GAIN MUTATED            3        0
  4Q GAIN WILD-TYPE         18        4
D8V8, multiclass

Clustering(9) Variable = 5p gain mutation analysis
D9V1, survival
                   sevent
clus2                0  1
  5P GAIN MUTATED    8  4
  5P GAIN WILD-TYPE 68 65
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
               12               133 
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
                4                65 
$`5P GAIN MUTATED`
TCGA-D3-A1Q5 TCGA-D3-A2JK TCGA-D9-A148 TCGA-D9-A1JW TCGA-EE-A29T TCGA-EE-A2A0 
      112.54        12.10       148.31         2.70       345.96        46.82 
TCGA-EE-A2GM TCGA-EE-A2M6 TCGA-EE-A2MP TCGA-EE-A2MS TCGA-EE-A3AE TCGA-ER-A19M 
       75.48       129.24       248.61       136.44        26.73        61.05 

$`5P GAIN WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.57        71.80       121.22        28.08        31.59        43.40 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CE 
       65.49        23.77        11.87        58.03        71.24        60.23 
TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A149 TCGA-D9-A1JX TCGA-D9-A3Z1 
       24.53         9.30        21.47        49.74         6.38        11.34 
TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 
        3.22        48.89        36.03       117.17        20.38       194.83 
TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC 
      176.55        35.93        61.18        53.92        23.44        68.09 
TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z 
       28.60        10.49       215.44        15.68        29.82         8.65 
TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29C 
       33.73        26.86         4.93       109.64        78.87        47.84 
TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P 
       13.97        39.62        32.19         2.56        18.58        56.42 
TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A1 TCGA-EE-A2A2 
       37.35        14.47        55.89        17.92        78.94        24.43 
TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-EE-A2GB TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GE 
       39.25        58.75        47.54        43.23       314.53       135.91 
TCGA-EE-A2GH TCGA-EE-A2GI TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GN 
      182.01        22.55        89.33        54.71        55.00        90.94 
TCGA-EE-A2GO TCGA-EE-A2GP TCGA-EE-A2GR TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2GU 
      101.95        13.87        14.30        55.59        19.56        67.13 
TCGA-EE-A2M5 TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME 
       21.67        28.80        19.76        61.51        47.28       103.27 
TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2MK TCGA-EE-A2ML 
      103.17        16.96       204.62        96.23       144.76       203.01 
TCGA-EE-A2MM TCGA-EE-A2MN TCGA-EE-A2MQ TCGA-EE-A2MR TCGA-EE-A2MT TCGA-EE-A2MU 
      167.87        47.54        43.23       103.56        41.59        53.26 
TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AC TCGA-EE-A3AD TCGA-EE-A3AF TCGA-EE-A3AG 
        4.24       122.73        25.84         3.68        13.81        23.47 
TCGA-EE-A3AH TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19N 
      138.77        12.59        26.37         6.41       131.08        44.05 
TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1YW 
       79.99        80.32        33.21        80.48       160.60       216.92 
TCGA-FS-A1YX TCGA-FS-A1Z4 TCGA-FS-A1Z7 TCGA-FS-A1ZD TCGA-FS-A1ZG TCGA-FS-A1ZH 
       48.59        28.08         7.76        53.52         9.70        32.71 
TCGA-FS-A1ZJ TCGA-FS-A1ZM TCGA-FS-A1ZP TCGA-FS-A1ZR TCGA-FS-A1ZS TCGA-FS-A1ZW 
       47.38       101.26        74.73        11.41       148.77        49.48 
TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 
       77.79        12.43        49.45        22.98        76.41       120.46 
TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A 
      117.93        84.72        10.09        64.41        62.76        32.48 
TCGA-GN-A26D 
       39.58 

  5P GAIN MUTATED 5P GAIN WILD-TYPE 
             2.70              2.56 
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
           345.96            314.53 
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
            94.01             47.38 
[1] "2.7 - 346.0 (94.0)" "2.6 - 314.5 (47.4)"
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
  "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
  "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
  "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-GN-A26D 
"5P GAIN WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
  "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
  "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
  "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-GN-A26D 
"5P GAIN WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
  "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"5P GAIN WILD-TYPE"   "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
  "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
  "5P GAIN MUTATED" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" "5P GAIN WILD-TYPE" 
       TCGA-GN-A26D 
"5P GAIN WILD-TYPE" 
[1] "hr=" "2.4"
D9V2, continuous
D9V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5P GAIN MUTATED      1   12
  5P GAIN WILD-TYPE   34  100
                                                                                          clus
vv                                                                                         5P GAIN MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)               1
  REGIONAL LYMPH NODE                                                                                   12
                                                                                          clus
vv                                                                                         5P GAIN WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                34
  REGIONAL LYMPH NODE                                                                                    100
D9V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5P GAIN MUTATED      5    8
  5P GAIN WILD-TYPE   47   87
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  FEMALE               5                47
  MALE                 8                87
                   vv
clus                 M0  M1 M1A M1B M1C
  5P GAIN MUTATED    12   0   0   1   0
  5P GAIN WILD-TYPE 116   1   2   1   1
D9V5, multiclass
                   vv
clus                N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  5P GAIN MUTATED    8  0   0   1  0   1   1   0  1  1
  5P GAIN WILD-TYPE 69  2   6  11  1   3  10   4 15  1
D9V6, multiclass
D9V7, continuous
                   vv
clus                I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  5P GAIN MUTATED             1       2        1        1        1         1
  5P GAIN WILD-TYPE           0      14        7       12       16         6
                   vv
clus                STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  5P GAIN MUTATED           0         1         0          0          1
  5P GAIN WILD-TYPE         8         3         8          5         15
                   vv
clus                STAGE IIIC STAGE IV
  5P GAIN MUTATED            1        0
  5P GAIN WILD-TYPE         20        4
D9V8, multiclass

Clustering(10) Variable = 5q gain mutation analysis
D10V1, survival
                   sevent
clus2                0  1
  5Q GAIN MUTATED    4  1
  5Q GAIN WILD-TYPE 72 68
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
                5               140 
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
                1                68 
$`5Q GAIN MUTATED`
TCGA-D9-A1JW TCGA-EE-A2MP TCGA-EE-A2MS TCGA-EE-A3AE TCGA-FS-A1ZD 
        2.70       248.61       136.44        26.73        53.52 

$`5Q GAIN WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 
       16.57       112.54        71.80       121.22        28.08        31.59 
TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 
       43.40        65.49        23.77        11.87        12.10        58.03 
TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A148 
       71.24        60.23        24.53         9.30        21.47       148.31 
TCGA-D9-A149 TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW 
       49.74         6.38        11.34         3.22        48.89        36.03 
TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 
      117.17        20.38       194.83       176.55        35.93        61.18 
TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 
       53.92        23.44        68.09        28.60        10.49       215.44 
TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 
       15.68        29.82         8.65        33.73        26.86         4.93 
TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H 
      109.64        78.87        47.84        13.97        39.62        32.19 
TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S 
        2.56        18.58        56.42        37.35        14.47        55.89 
TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 
      345.96        17.92        46.82        78.94        24.43        39.25 
TCGA-EE-A2A6 TCGA-EE-A2GB TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GH 
       58.75        47.54        43.23       314.53       135.91       182.01 
TCGA-EE-A2GI TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GM TCGA-EE-A2GN 
       22.55        89.33        54.71        55.00        75.48        90.94 
TCGA-EE-A2GO TCGA-EE-A2GP TCGA-EE-A2GR TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2GU 
      101.95        13.87        14.30        55.59        19.56        67.13 
TCGA-EE-A2M5 TCGA-EE-A2M6 TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD 
       21.67       129.24        28.80        19.76        61.51        47.28 
TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2MK 
      103.27       103.17        16.96       204.62        96.23       144.76 
TCGA-EE-A2ML TCGA-EE-A2MM TCGA-EE-A2MN TCGA-EE-A2MQ TCGA-EE-A2MR TCGA-EE-A2MT 
      203.01       167.87        47.54        43.23       103.56        41.59 
TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AC TCGA-EE-A3AD TCGA-EE-A3AF 
       53.26         4.24       122.73        25.84         3.68        13.81 
TCGA-EE-A3AG TCGA-EE-A3AH TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L 
       23.47       138.77        12.59        26.37         6.41       131.08 
TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN 
       61.05        44.05        79.99        80.32        33.21        80.48 
TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1Z4 TCGA-FS-A1Z7 TCGA-FS-A1ZG 
      160.60       216.92        48.59        28.08         7.76         9.70 
TCGA-FS-A1ZH TCGA-FS-A1ZJ TCGA-FS-A1ZM TCGA-FS-A1ZP TCGA-FS-A1ZR TCGA-FS-A1ZS 
       32.71        47.38       101.26        74.73        11.41       148.77 
TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 
       49.48        77.79        12.43        49.45        22.98        76.41 
TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A268 
      120.46       117.93        84.72        10.09        64.41        62.76 
TCGA-GN-A26A TCGA-GN-A26D 
       32.48        39.58 

  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
             2.70              2.56 
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
           248.61            345.96 
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
            53.52             47.54 
[1] "2.7 - 248.6 (53.5)" "2.6 - 346.0 (47.5)"
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
  "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-GN-A26D 
"5Q GAIN WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
  "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-GN-A26D 
"5Q GAIN WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
  "5Q GAIN MUTATED" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE"   "5Q GAIN MUTATED" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-GN-A26D 
"5Q GAIN WILD-TYPE" 
[1] "hr=" "3.3"
D10V2, continuous
D10V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5Q GAIN MUTATED      0    5
  5Q GAIN WILD-TYPE   35  107
                                                                                          clus
vv                                                                                         5Q GAIN MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)               0
  REGIONAL LYMPH NODE                                                                                    5
                                                                                          clus
vv                                                                                         5Q GAIN WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                35
  REGIONAL LYMPH NODE                                                                                    107
D10V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5Q GAIN MUTATED      2    3
  5Q GAIN WILD-TYPE   50   92
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  FEMALE               2                50
  MALE                 3                92
                   vv
clus                 M0  M1 M1A M1B M1C
  5Q GAIN MUTATED     5   0   0   0   0
  5Q GAIN WILD-TYPE 123   1   2   2   1
D10V5, multiclass
                   vv
clus                N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  5Q GAIN MUTATED    4  0   0   0  0   1   0   0  0  0
  5Q GAIN WILD-TYPE 73  2   6  12  1   3  11   4 16  2
D10V6, multiclass
D10V7, continuous
                   vv
clus                I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  5Q GAIN MUTATED             0       1        1        0        1         1
  5Q GAIN WILD-TYPE           1      15        7       13       16         6
                   vv
clus                STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  5Q GAIN MUTATED           0         0         0          0          0
  5Q GAIN WILD-TYPE         8         4         8          5         16
                   vv
clus                STAGE IIIC STAGE IV
  5Q GAIN MUTATED            0        0
  5Q GAIN WILD-TYPE         21        4
D10V8, multiclass

Clustering(11) Variable = 6p gain mutation analysis
D11V1, survival
                   sevent
clus2                0  1
  6P GAIN MUTATED   21 23
  6P GAIN WILD-TYPE 55 46
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
               44               101 
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
               23                46 
$`6P GAIN MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q7 TCGA-D3-A2J9 TCGA-D3-A3C6 TCGA-D9-A149 TCGA-D9-A1JW 
       16.57       121.22        23.77        58.03        49.74         2.70 
TCGA-DA-A1HV TCGA-DA-A1I0 TCGA-DA-A1I2 TCGA-DA-A3F3 TCGA-EE-A17Z TCGA-EE-A181 
       48.89        20.38       176.55        10.49         8.65        33.73 
TCGA-EE-A185 TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A2A5 TCGA-EE-A2GB 
        4.93        56.42        14.47        55.89        39.25        47.54 
TCGA-EE-A2GD TCGA-EE-A2GH TCGA-EE-A2GN TCGA-EE-A2GP TCGA-EE-A2GR TCGA-EE-A2GS 
      314.53       182.01        90.94        13.87        14.30        55.59 
TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2MI TCGA-EE-A2MK TCGA-EE-A2MM TCGA-EE-A2MN 
       19.56        67.13       204.62       144.76       167.87        47.54 
TCGA-EE-A2MP TCGA-EE-A2MQ TCGA-EE-A2MS TCGA-EE-A3AD TCGA-EE-A3AF TCGA-ER-A19M 
      248.61        43.23       136.44         3.68        13.81        61.05 
TCGA-ER-A19N TCGA-FS-A1ZJ TCGA-FS-A1ZP TCGA-GN-A264 TCGA-GN-A266 TCGA-GN-A267 
       44.05        47.38        74.73       117.93        10.09        64.41 
TCGA-GN-A26A TCGA-GN-A26D 
       32.48        39.58 

$`6P GAIN WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A2J8 
      112.54        71.80        28.08        31.59        43.40        65.49 
TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO 
       11.87        12.10        71.24        60.23        24.53         9.30 
TCGA-D3-A3MV TCGA-D9-A148 TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HW 
       21.47       148.31         6.38        11.34         3.22        36.03 
TCGA-DA-A1HY TCGA-DA-A1I1 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IB 
      117.17       194.83        35.93        61.18        53.92        23.44 
TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A183 
       68.09        28.60       215.44        15.68        29.82        26.86 
TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H 
      109.64        78.87        47.84        13.97        39.62        32.19 
TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29Q TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 
        2.56        18.58        37.35       345.96        17.92        46.82 
TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-EE-A2GC TCGA-EE-A2GE TCGA-EE-A2GI 
       78.94        24.43        58.75        43.23       135.91        22.55 
TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GM TCGA-EE-A2GO TCGA-EE-A2M5 
       89.33        54.71        55.00        75.48       101.95        21.67 
TCGA-EE-A2M6 TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME 
      129.24        28.80        19.76        61.51        47.28       103.27 
TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MJ TCGA-EE-A2ML TCGA-EE-A2MR TCGA-EE-A2MT 
      103.17        16.96        96.23       203.01       103.56        41.59 
TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AC TCGA-EE-A3AE TCGA-EE-A3AG 
       53.26         4.24       122.73        25.84        26.73        23.47 
TCGA-EE-A3AH TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A1A1 
      138.77        12.59        26.37         6.41       131.08        79.99 
TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1YX 
       80.32        33.21        80.48       160.60       216.92        48.59 
TCGA-FS-A1Z4 TCGA-FS-A1Z7 TCGA-FS-A1ZD TCGA-FS-A1ZG TCGA-FS-A1ZH TCGA-FS-A1ZM 
       28.08         7.76        53.52         9.70        32.71       101.26 
TCGA-FS-A1ZR TCGA-FS-A1ZS TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC 
       11.41       148.77        49.48        77.79        12.43        49.45 
TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A265 TCGA-GN-A268 
       22.98        76.41       120.46        84.72        62.76 

  6P GAIN MUTATED 6P GAIN WILD-TYPE 
             2.70              2.56 
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
           314.53            345.96 
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
            47.54             47.84 
[1] "2.7 - 314.5 (47.5)" "2.6 - 346.0 (47.8)"
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
  "6P GAIN MUTATED" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
  "6P GAIN MUTATED" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED"   "6P GAIN MUTATED" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
  "6P GAIN MUTATED" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
  "6P GAIN MUTATED" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"6P GAIN WILD-TYPE"   "6P GAIN MUTATED"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
  "6P GAIN MUTATED" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
  "6P GAIN MUTATED" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
  "6P GAIN MUTATED" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED"   "6P GAIN MUTATED" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
  "6P GAIN MUTATED"   "6P GAIN MUTATED"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
  "6P GAIN MUTATED" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
  "6P GAIN MUTATED"   "6P GAIN MUTATED"   "6P GAIN MUTATED"   "6P GAIN MUTATED" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"6P GAIN WILD-TYPE"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"6P GAIN WILD-TYPE"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
  "6P GAIN MUTATED"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
  "6P GAIN MUTATED" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
  "6P GAIN MUTATED"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" 
       TCGA-GN-A26D 
  "6P GAIN MUTATED" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
  "6P GAIN MUTATED" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
  "6P GAIN MUTATED" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED"   "6P GAIN MUTATED" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
  "6P GAIN MUTATED" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
  "6P GAIN MUTATED" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"6P GAIN WILD-TYPE"   "6P GAIN MUTATED"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
  "6P GAIN MUTATED" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
  "6P GAIN MUTATED" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
  "6P GAIN MUTATED" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED"   "6P GAIN MUTATED" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
  "6P GAIN MUTATED"   "6P GAIN MUTATED"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
  "6P GAIN MUTATED" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
  "6P GAIN MUTATED"   "6P GAIN MUTATED"   "6P GAIN MUTATED"   "6P GAIN MUTATED" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"6P GAIN WILD-TYPE"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"6P GAIN WILD-TYPE"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
  "6P GAIN MUTATED"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
  "6P GAIN MUTATED" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
  "6P GAIN MUTATED"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" 
       TCGA-GN-A26D 
  "6P GAIN MUTATED" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
  "6P GAIN MUTATED" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
  "6P GAIN MUTATED" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED"   "6P GAIN MUTATED" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
  "6P GAIN MUTATED" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
  "6P GAIN MUTATED" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"6P GAIN WILD-TYPE"   "6P GAIN MUTATED"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
  "6P GAIN MUTATED" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
  "6P GAIN MUTATED" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
  "6P GAIN MUTATED" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED"   "6P GAIN MUTATED" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
  "6P GAIN MUTATED"   "6P GAIN MUTATED"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
  "6P GAIN MUTATED" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
  "6P GAIN MUTATED"   "6P GAIN MUTATED"   "6P GAIN MUTATED"   "6P GAIN MUTATED" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"6P GAIN WILD-TYPE"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"6P GAIN WILD-TYPE"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
  "6P GAIN MUTATED"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
  "6P GAIN MUTATED" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
  "6P GAIN MUTATED"   "6P GAIN MUTATED" "6P GAIN WILD-TYPE"   "6P GAIN MUTATED" 
       TCGA-GN-A26D 
  "6P GAIN MUTATED" 
[1] "hr=" "1.1"
D11V2, continuous
D11V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  6P GAIN MUTATED      9   36
  6P GAIN WILD-TYPE   26   76
                                                                                          clus
vv                                                                                         6P GAIN MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)               9
  REGIONAL LYMPH NODE                                                                                   36
                                                                                          clus
vv                                                                                         6P GAIN WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                26
  REGIONAL LYMPH NODE                                                                                     76
D11V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  6P GAIN MUTATED     20   25
  6P GAIN WILD-TYPE   32   70
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  FEMALE              20                32
  MALE                25                70
                   vv
clus                M0 M1 M1A M1B M1C
  6P GAIN MUTATED   38  0   1   0   0
  6P GAIN WILD-TYPE 90  1   1   2   1
D11V5, multiclass
                   vv
clus                N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  6P GAIN MUTATED   24  0   4   3  0   2   3   0  4  0
  6P GAIN WILD-TYPE 53  2   2   9  1   2   8   4 12  2
D11V6, multiclass
D11V7, continuous
                   vv
clus                I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  6P GAIN MUTATED             0       5        1        5        5         3
  6P GAIN WILD-TYPE           1      11        7        8       12         4
                   vv
clus                STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  6P GAIN MUTATED           3         2         0          4          4
  6P GAIN WILD-TYPE         5         2         8          1         12
                   vv
clus                STAGE IIIC STAGE IV
  6P GAIN MUTATED            6        0
  6P GAIN WILD-TYPE         15        4
D11V8, multiclass

Clustering(12) Variable = 6q gain mutation analysis
D12V1, survival
                   sevent
clus2                0  1
  6Q GAIN MUTATED    6  3
  6Q GAIN WILD-TYPE 70 66
  6Q GAIN MUTATED 6Q GAIN WILD-TYPE 
                9               136 
  6Q GAIN MUTATED 6Q GAIN WILD-TYPE 
                3                66 
$`6Q GAIN MUTATED`
TCGA-D3-A1Q7 TCGA-D9-A149 TCGA-DA-A1I0 TCGA-EE-A29R TCGA-EE-A2GS TCGA-EE-A2GT 
      121.22        49.74        20.38        14.47        55.59        19.56 
TCGA-EE-A2MI TCGA-EE-A2MS TCGA-ER-A19M 
      204.62       136.44        61.05 

$`6Q GAIN WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.57       112.54        71.80        28.08        31.59        43.40 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC 
       65.49        23.77        11.87        12.10        58.03        71.24 
TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A148 TCGA-D9-A1JW 
       60.23        24.53         9.30        21.47       148.31         2.70 
TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
        6.38        11.34         3.22        48.89        36.03       117.17 
TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IB 
      194.83       176.55        35.93        61.18        53.92        23.44 
TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X 
       68.09        28.60        10.49       215.44        15.68        29.82 
TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F 
        8.65        33.73        26.86         4.93       109.64        78.87 
TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N 
       47.84        13.97        39.62        32.19         2.56        18.58 
TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 
       56.42        37.35        55.89       345.96        17.92        46.82 
TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-EE-A2GB TCGA-EE-A2GC 
       78.94        24.43        39.25        58.75        47.54        43.23 
TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GH TCGA-EE-A2GI TCGA-EE-A2GJ TCGA-EE-A2GK 
      314.53       135.91       182.01        22.55        89.33        54.71 
TCGA-EE-A2GL TCGA-EE-A2GM TCGA-EE-A2GN TCGA-EE-A2GO TCGA-EE-A2GP TCGA-EE-A2GR 
       55.00        75.48        90.94       101.95        13.87        14.30 
TCGA-EE-A2GU TCGA-EE-A2M5 TCGA-EE-A2M6 TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC 
       67.13        21.67       129.24        28.80        19.76        61.51 
TCGA-EE-A2MD TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MJ TCGA-EE-A2MK 
       47.28       103.27       103.17        16.96        96.23       144.76 
TCGA-EE-A2ML TCGA-EE-A2MM TCGA-EE-A2MN TCGA-EE-A2MP TCGA-EE-A2MQ TCGA-EE-A2MR 
      203.01       167.87        47.54       248.61        43.23       103.56 
TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AC TCGA-EE-A3AD 
       41.59        53.26         4.24       122.73        25.84         3.68 
TCGA-EE-A3AE TCGA-EE-A3AF TCGA-EE-A3AG TCGA-EE-A3AH TCGA-ER-A19D TCGA-ER-A19F 
       26.73        13.81        23.47       138.77        12.59        26.37 
TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-ER-A3PL 
        6.41       131.08        44.05        79.99        80.32        33.21 
TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1Z4 TCGA-FS-A1Z7 
       80.48       160.60       216.92        48.59        28.08         7.76 
TCGA-FS-A1ZD TCGA-FS-A1ZG TCGA-FS-A1ZH TCGA-FS-A1ZJ TCGA-FS-A1ZM TCGA-FS-A1ZP 
       53.52         9.70        32.71        47.38       101.26        74.73 
TCGA-FS-A1ZR TCGA-FS-A1ZS TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC 
       11.41       148.77        49.48        77.79        12.43        49.45 
TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 
       22.98        76.41       120.46       117.93        84.72        10.09 
TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       64.41        62.76        32.48        39.58 

  6Q GAIN MUTATED 6Q GAIN WILD-TYPE 
            14.47              2.56 
  6Q GAIN MUTATED 6Q GAIN WILD-TYPE 
           204.62            345.96 
  6Q GAIN MUTATED 6Q GAIN WILD-TYPE 
            55.59             47.46 
[1] "14.5 - 204.6 (55.6)" "2.6 - 346.0 (47.5)" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE"   "6Q GAIN MUTATED" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE"   "6Q GAIN MUTATED" "6Q GAIN WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE"   "6Q GAIN MUTATED" "6Q GAIN WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"6Q GAIN WILD-TYPE"   "6Q GAIN MUTATED" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
  "6Q GAIN MUTATED"   "6Q GAIN MUTATED" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
  "6Q GAIN MUTATED" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"6Q GAIN WILD-TYPE"   "6Q GAIN MUTATED" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
  "6Q GAIN MUTATED" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-GN-A26D 
"6Q GAIN WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE"   "6Q GAIN MUTATED" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE"   "6Q GAIN MUTATED" "6Q GAIN WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE"   "6Q GAIN MUTATED" "6Q GAIN WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"6Q GAIN WILD-TYPE"   "6Q GAIN MUTATED" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
  "6Q GAIN MUTATED"   "6Q GAIN MUTATED" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
  "6Q GAIN MUTATED" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"6Q GAIN WILD-TYPE"   "6Q GAIN MUTATED" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
  "6Q GAIN MUTATED" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-GN-A26D 
"6Q GAIN WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE"   "6Q GAIN MUTATED" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE"   "6Q GAIN MUTATED" "6Q GAIN WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE"   "6Q GAIN MUTATED" "6Q GAIN WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"6Q GAIN WILD-TYPE"   "6Q GAIN MUTATED" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
  "6Q GAIN MUTATED"   "6Q GAIN MUTATED" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
  "6Q GAIN MUTATED" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"6Q GAIN WILD-TYPE"   "6Q GAIN MUTATED" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
  "6Q GAIN MUTATED" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-GN-A26D 
"6Q GAIN WILD-TYPE" 
[1] "hr=" "1.7"
D12V2, continuous
D12V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  6Q GAIN MUTATED      2    7
  6Q GAIN WILD-TYPE   33  105
                                                                                          clus
vv                                                                                         6Q GAIN MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)               2
  REGIONAL LYMPH NODE                                                                                    7
                                                                                          clus
vv                                                                                         6Q GAIN WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                33
  REGIONAL LYMPH NODE                                                                                    105
D12V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  6Q GAIN MUTATED      4    5
  6Q GAIN WILD-TYPE   48   90
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  FEMALE               4                48
  MALE                 5                90
                   vv
clus                 M0  M1 M1A M1B M1C
  6Q GAIN MUTATED     8   0   1   0   0
  6Q GAIN WILD-TYPE 120   1   1   2   1
D12V5, multiclass
                   vv
clus                N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  6Q GAIN MUTATED    6  0   0   2  0   0   0   0  1  0
  6Q GAIN WILD-TYPE 71  2   6  10  1   4  11   4 15  2
D12V6, multiclass
D12V7, continuous
                   vv
clus                I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  6Q GAIN MUTATED             0       0        0        3        1         1
  6Q GAIN WILD-TYPE           1      16        8       10       16         6
                   vv
clus                STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  6Q GAIN MUTATED           1         0         0          0          0
  6Q GAIN WILD-TYPE         7         4         8          5         16
                   vv
clus                STAGE IIIC STAGE IV
  6Q GAIN MUTATED            2        0
  6Q GAIN WILD-TYPE         19        4
D12V8, multiclass

Clustering(13) Variable = 7p gain mutation analysis
D13V1, survival
                   sevent
clus2                0  1
  7P GAIN MUTATED   31 31
  7P GAIN WILD-TYPE 45 38
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
               62                83 
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
               31                38 
$`7P GAIN MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q9 TCGA-D3-A2JD TCGA-D3-A3MO 
       16.57       112.54        71.80        31.59        11.87         9.30 
TCGA-D9-A149 TCGA-D9-A1JX TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HY TCGA-DA-A1I0 
       49.74         6.38         3.22        48.89       117.17        20.38 
TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IC TCGA-EE-A181 
      176.55        35.93        61.18        53.92        68.09        33.73 
TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29T 
       47.84        13.97        39.62        18.58        56.42       345.96 
TCGA-EE-A2A0 TCGA-EE-A2A6 TCGA-EE-A2GB TCGA-EE-A2GE TCGA-EE-A2GH TCGA-EE-A2GI 
       46.82        58.75        47.54       135.91       182.01        22.55 
TCGA-EE-A2GJ TCGA-EE-A2GM TCGA-EE-A2GN TCGA-EE-A2GO TCGA-EE-A2GP TCGA-EE-A2M6 
       89.33        75.48        90.94       101.95        13.87       129.24 
TCGA-EE-A2M7 TCGA-EE-A2MH TCGA-EE-A2MK TCGA-EE-A2MN TCGA-EE-A2MP TCGA-EE-A2MQ 
       28.80        16.96       144.76        47.54       248.61        43.23 
TCGA-EE-A2MS TCGA-EE-A2MU TCGA-EE-A3AD TCGA-EE-A3AE TCGA-EE-A3AF TCGA-EE-A3AG 
      136.44        53.26         3.68        26.73        13.81        23.47 
TCGA-EE-A3AH TCGA-ER-A19J TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FS-A1Z7 TCGA-FS-A1ZD 
      138.77         6.41        33.21        80.48         7.76        53.52 
TCGA-FS-A1ZH TCGA-FS-A1ZM TCGA-FS-A1ZR TCGA-GN-A264 TCGA-GN-A266 TCGA-GN-A267 
       32.71       101.26        11.41       117.93        10.09        64.41 
TCGA-GN-A26A TCGA-GN-A26D 
       32.48        39.58 

$`7P GAIN WILD-TYPE`
TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JK 
      121.22        28.08        43.40        65.49        23.77        12.10 
TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MV TCGA-D9-A148 
       58.03        71.24        60.23        24.53        21.47       148.31 
TCGA-D9-A1JW TCGA-D9-A3Z1 TCGA-DA-A1HW TCGA-DA-A1I1 TCGA-DA-A1IB TCGA-DA-A3F2 
        2.70        11.34        36.03       194.83        23.44        28.60 
TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A183 
       10.49       215.44        15.68        29.82         8.65        26.86 
TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29Q 
        4.93       109.64        78.87        32.19         2.56        37.35 
TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 
       14.47        55.89        17.92        78.94        24.43        39.25 
TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GR TCGA-EE-A2GS 
       43.23       314.53        54.71        55.00        14.30        55.59 
TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD 
       19.56        67.13        21.67        19.76        61.51        47.28 
TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2ML TCGA-EE-A2MM 
      103.27       103.17       204.62        96.23       203.01       167.87 
TCGA-EE-A2MR TCGA-EE-A2MT TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AC TCGA-ER-A19D 
      103.56        41.59         4.24       122.73        25.84        12.59 
TCGA-ER-A19F TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET 
       26.37       131.08        61.05        44.05        79.99        80.32 
TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1Z4 TCGA-FS-A1ZG TCGA-FS-A1ZJ 
      160.60       216.92        48.59        28.08         9.70        47.38 
TCGA-FS-A1ZP TCGA-FS-A1ZS TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC 
       74.73       148.77        49.48        77.79        12.43        49.45 
TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A265 TCGA-GN-A268 
       22.98        76.41       120.46        84.72        62.76 

  7P GAIN MUTATED 7P GAIN WILD-TYPE 
             3.22              2.56 
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
           345.96            314.53 
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
            47.54             48.59 
[1] "3.2 - 346.0 (47.5)" "2.6 - 314.5 (48.6)"
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
  "7P GAIN MUTATED"   "7P GAIN MUTATED"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
  "7P GAIN MUTATED" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED"   "7P GAIN MUTATED" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
  "7P GAIN MUTATED"   "7P GAIN MUTATED"   "7P GAIN MUTATED"   "7P GAIN MUTATED" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
  "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED"   "7P GAIN MUTATED"   "7P GAIN MUTATED" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED"   "7P GAIN MUTATED" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED"   "7P GAIN MUTATED"   "7P GAIN MUTATED" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
  "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
  "7P GAIN MUTATED"   "7P GAIN MUTATED"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
  "7P GAIN MUTATED"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED"   "7P GAIN MUTATED"   "7P GAIN MUTATED" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
  "7P GAIN MUTATED"   "7P GAIN MUTATED"   "7P GAIN MUTATED"   "7P GAIN MUTATED" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
  "7P GAIN MUTATED"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED"   "7P GAIN MUTATED" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
  "7P GAIN MUTATED"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" 
       TCGA-GN-A26D 
  "7P GAIN MUTATED" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
  "7P GAIN MUTATED"   "7P GAIN MUTATED"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
  "7P GAIN MUTATED" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED"   "7P GAIN MUTATED" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
  "7P GAIN MUTATED"   "7P GAIN MUTATED"   "7P GAIN MUTATED"   "7P GAIN MUTATED" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
  "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED"   "7P GAIN MUTATED"   "7P GAIN MUTATED" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED"   "7P GAIN MUTATED" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED"   "7P GAIN MUTATED"   "7P GAIN MUTATED" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
  "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
  "7P GAIN MUTATED"   "7P GAIN MUTATED"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
  "7P GAIN MUTATED"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED"   "7P GAIN MUTATED"   "7P GAIN MUTATED" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
  "7P GAIN MUTATED"   "7P GAIN MUTATED"   "7P GAIN MUTATED"   "7P GAIN MUTATED" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
  "7P GAIN MUTATED"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED"   "7P GAIN MUTATED" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
  "7P GAIN MUTATED"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" 
       TCGA-GN-A26D 
  "7P GAIN MUTATED" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
  "7P GAIN MUTATED"   "7P GAIN MUTATED"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
  "7P GAIN MUTATED" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED"   "7P GAIN MUTATED" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
  "7P GAIN MUTATED"   "7P GAIN MUTATED"   "7P GAIN MUTATED"   "7P GAIN MUTATED" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
  "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED"   "7P GAIN MUTATED"   "7P GAIN MUTATED" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED"   "7P GAIN MUTATED" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED"   "7P GAIN MUTATED"   "7P GAIN MUTATED" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
  "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
  "7P GAIN MUTATED"   "7P GAIN MUTATED"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
  "7P GAIN MUTATED"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED"   "7P GAIN MUTATED"   "7P GAIN MUTATED" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
  "7P GAIN MUTATED"   "7P GAIN MUTATED"   "7P GAIN MUTATED"   "7P GAIN MUTATED" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
  "7P GAIN MUTATED"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED"   "7P GAIN MUTATED" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"7P GAIN WILD-TYPE" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
  "7P GAIN MUTATED"   "7P GAIN MUTATED" "7P GAIN WILD-TYPE"   "7P GAIN MUTATED" 
       TCGA-GN-A26D 
  "7P GAIN MUTATED" 
[1] "hr=" "1.1"
D13V2, continuous
D13V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  7P GAIN MUTATED     19   44
  7P GAIN WILD-TYPE   16   68
                                                                                          clus
vv                                                                                         7P GAIN MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)              19
  REGIONAL LYMPH NODE                                                                                   44
                                                                                          clus
vv                                                                                         7P GAIN WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                16
  REGIONAL LYMPH NODE                                                                                     68
D13V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  7P GAIN MUTATED     19   44
  7P GAIN WILD-TYPE   33   51
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  FEMALE              19                33
  MALE                44                51
                   vv
clus                M0 M1 M1A M1B M1C
  7P GAIN MUTATED   53  1   2   0   1
  7P GAIN WILD-TYPE 75  0   0   2   0
D13V5, multiclass
                   vv
clus                N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  7P GAIN MUTATED   29  0   4   8  0   2   4   4  5  2
  7P GAIN WILD-TYPE 48  2   2   4  1   2   7   0 11  0
D13V6, multiclass
D13V7, continuous
                   vv
clus                I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  7P GAIN MUTATED             1       5        5        2        8         3
  7P GAIN WILD-TYPE           0      11        3       11        9         4
                   vv
clus                STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  7P GAIN MUTATED           0         3         3          4          9
  7P GAIN WILD-TYPE         8         1         5          1          7
                   vv
clus                STAGE IIIC STAGE IV
  7P GAIN MUTATED            8        3
  7P GAIN WILD-TYPE         13        1
D13V8, multiclass

Clustering(14) Variable = 7q gain mutation analysis
D14V1, survival
                   sevent
clus2                0  1
  7Q GAIN MUTATED   32 29
  7Q GAIN WILD-TYPE 44 40
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
               61                84 
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
               29                40 
$`7Q GAIN MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q9 TCGA-D3-A2JD TCGA-D3-A3MO 
       16.57       112.54        71.80        31.59        11.87         9.30 
TCGA-D3-A3MV TCGA-D9-A149 TCGA-D9-A1JX TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HY 
       21.47        49.74         6.38         3.22        48.89       117.17 
TCGA-DA-A1I0 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IC 
       20.38       176.55        35.93        61.18        53.92        68.09 
TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A29C TCGA-EE-A29E 
      215.44        15.68        33.73        26.86        47.84        39.62 
TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29T TCGA-EE-A2A0 TCGA-EE-A2A6 TCGA-EE-A2GB 
       18.58        56.42       345.96        46.82        58.75        47.54 
TCGA-EE-A2GE TCGA-EE-A2GH TCGA-EE-A2GI TCGA-EE-A2GM TCGA-EE-A2GO TCGA-EE-A2GP 
      135.91       182.01        22.55        75.48       101.95        13.87 
TCGA-EE-A2M6 TCGA-EE-A2M7 TCGA-EE-A2MH TCGA-EE-A2MK TCGA-EE-A2MP TCGA-EE-A2MQ 
      129.24        28.80        16.96       144.76       248.61        43.23 
TCGA-EE-A2MS TCGA-EE-A2MU TCGA-EE-A3AE TCGA-EE-A3AF TCGA-EE-A3AG TCGA-EE-A3AH 
      136.44        53.26        26.73        13.81        23.47       138.77 
TCGA-ER-A19J TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FS-A1Z7 TCGA-FS-A1ZD TCGA-FS-A1ZH 
        6.41        33.21        80.48         7.76        53.52        32.71 
TCGA-FS-A1ZM TCGA-FS-A1ZR TCGA-FS-A1ZS TCGA-GN-A264 TCGA-GN-A267 TCGA-GN-A26A 
      101.26        11.41       148.77       117.93        64.41        32.48 
TCGA-GN-A26D 
       39.58 

$`7Q GAIN WILD-TYPE`
TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JK 
      121.22        28.08        43.40        65.49        23.77        12.10 
TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D9-A148 TCGA-D9-A1JW 
       58.03        71.24        60.23        24.53       148.31         2.70 
TCGA-D9-A3Z1 TCGA-DA-A1HW TCGA-DA-A1I1 TCGA-DA-A1IB TCGA-DA-A3F2 TCGA-DA-A3F3 
       11.34        36.03       194.83        23.44        28.60        10.49 
TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29D 
       29.82         8.65         4.93       109.64        78.87        13.97 
TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29X 
       32.19         2.56        37.35        14.47        55.89        17.92 
TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GJ 
       78.94        24.43        39.25        43.23       314.53        89.33 
TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GN TCGA-EE-A2GR TCGA-EE-A2GS TCGA-EE-A2GT 
       54.71        55.00        90.94        14.30        55.59        19.56 
TCGA-EE-A2GU TCGA-EE-A2M5 TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME 
       67.13        21.67        19.76        61.51        47.28       103.27 
TCGA-EE-A2MG TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2ML TCGA-EE-A2MM TCGA-EE-A2MN 
      103.17       204.62        96.23       203.01       167.87        47.54 
TCGA-EE-A2MR TCGA-EE-A2MT TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AC TCGA-EE-A3AD 
      103.56        41.59         4.24       122.73        25.84         3.68 
TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 
       12.59        26.37       131.08        61.05        44.05        79.99 
TCGA-ER-A3ET TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1Z4 TCGA-FS-A1ZG 
       80.32       160.60       216.92        48.59        28.08         9.70 
TCGA-FS-A1ZJ TCGA-FS-A1ZP TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC 
       47.38        74.73        49.48        77.79        12.43        49.45 
TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A268 
       22.98        76.41       120.46        84.72        10.09        62.76 

  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
             3.22              2.56 
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
           345.96            314.53 
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
           47.540            48.065 
[1] "3.2 - 346.0 (47.5)" "2.6 - 314.5 (48.1)"
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
  "7Q GAIN MUTATED"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
  "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
  "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
  "7Q GAIN MUTATED"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
  "7Q GAIN MUTATED"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
  "7Q GAIN MUTATED"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
  "7Q GAIN MUTATED"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
  "7Q GAIN MUTATED"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
  "7Q GAIN MUTATED"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-GN-A26D 
  "7Q GAIN MUTATED" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
  "7Q GAIN MUTATED"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
  "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
  "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
  "7Q GAIN MUTATED"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
  "7Q GAIN MUTATED"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
  "7Q GAIN MUTATED"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
  "7Q GAIN MUTATED"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
  "7Q GAIN MUTATED"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
  "7Q GAIN MUTATED"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-GN-A26D 
  "7Q GAIN MUTATED" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
  "7Q GAIN MUTATED"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
  "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
  "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
  "7Q GAIN MUTATED"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
  "7Q GAIN MUTATED"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
  "7Q GAIN MUTATED"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
  "7Q GAIN MUTATED"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
  "7Q GAIN MUTATED"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
  "7Q GAIN MUTATED"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"7Q GAIN WILD-TYPE" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" "7Q GAIN WILD-TYPE"   "7Q GAIN MUTATED" 
       TCGA-GN-A26D 
  "7Q GAIN MUTATED" 
[1] "hr=" "1"  
D14V2, continuous
D14V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  7Q GAIN MUTATED     18   44
  7Q GAIN WILD-TYPE   17   68
                                                                                          clus
vv                                                                                         7Q GAIN MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)              18
  REGIONAL LYMPH NODE                                                                                   44
                                                                                          clus
vv                                                                                         7Q GAIN WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                17
  REGIONAL LYMPH NODE                                                                                     68
D14V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  7Q GAIN MUTATED     20   42
  7Q GAIN WILD-TYPE   32   53
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  FEMALE              20                32
  MALE                42                53
                   vv
clus                M0 M1 M1A M1B M1C
  7Q GAIN MUTATED   54  1   2   0   1
  7Q GAIN WILD-TYPE 74  0   0   2   0
D14V5, multiclass
                   vv
clus                N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  7Q GAIN MUTATED   28  0   4   7  0   3   5   4  6  2
  7Q GAIN WILD-TYPE 49  2   2   5  1   1   6   0 10  0
D14V6, multiclass
D14V7, continuous
                   vv
clus                I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  7Q GAIN MUTATED             1       5        4        2        9         2
  7Q GAIN WILD-TYPE           0      11        4       11        8         5
                   vv
clus                STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  7Q GAIN MUTATED           0         3         3          4         11
  7Q GAIN WILD-TYPE         8         1         5          1          5
                   vv
clus                STAGE IIIC STAGE IV
  7Q GAIN MUTATED            8        3
  7Q GAIN WILD-TYPE         13        1
D14V8, multiclass

Clustering(15) Variable = 8p gain mutation analysis
D15V1, survival
                   sevent
clus2                0  1
  8P GAIN MUTATED   13 16
  8P GAIN WILD-TYPE 63 53
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
               29               116 
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
               16                53 
$`8P GAIN MUTATED`
TCGA-D3-A1Q6 TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3MV TCGA-DA-A1HY TCGA-DA-A1I1 
       71.80        71.24        60.23        21.47       117.17       194.83 
TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A3F5 TCGA-EE-A181 TCGA-EE-A29R TCGA-EE-A2GM 
      176.55        35.93       215.44        33.73        14.47        75.48 
TCGA-EE-A2GN TCGA-EE-A2GO TCGA-EE-A2GP TCGA-EE-A2M6 TCGA-EE-A3AD TCGA-ER-A19J 
       90.94       101.95        13.87       129.24         3.68         6.41 
TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-FS-A1YW TCGA-FS-A1Z7 TCGA-FS-A1ZD 
      131.08        61.05        44.05       216.92         7.76        53.52 
TCGA-FS-A1ZP TCGA-FS-A1ZR TCGA-GN-A267 TCGA-GN-A26A TCGA-GN-A26D 
       74.73        11.41        64.41        32.48        39.58 

$`8P GAIN WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.57       112.54       121.22        28.08        31.59        43.40 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CF 
       65.49        23.77        11.87        12.10        58.03        24.53 
TCGA-D3-A3MO TCGA-D9-A148 TCGA-D9-A149 TCGA-D9-A1JW TCGA-D9-A1JX TCGA-D9-A3Z1 
        9.30       148.31        49.74         2.70         6.38        11.34 
TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1I0 TCGA-DA-A1I7 TCGA-DA-A1I8 
        3.22        48.89        36.03        20.38        61.18        53.92 
TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F8 TCGA-EE-A17X 
       23.44        68.09        28.60        10.49        15.68        29.82 
TCGA-EE-A17Z TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29C 
        8.65        26.86         4.93       109.64        78.87        47.84 
TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P 
       13.97        39.62        32.19         2.56        18.58        56.42 
TCGA-EE-A29Q TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 
       37.35        55.89       345.96        17.92        46.82        78.94 
TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-EE-A2GB TCGA-EE-A2GC TCGA-EE-A2GD 
       24.43        39.25        58.75        47.54        43.23       314.53 
TCGA-EE-A2GE TCGA-EE-A2GH TCGA-EE-A2GI TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL 
      135.91       182.01        22.55        89.33        54.71        55.00 
TCGA-EE-A2GR TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 TCGA-EE-A2M7 
       14.30        55.59        19.56        67.13        21.67        28.80 
TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MH 
       19.76        61.51        47.28       103.27       103.17        16.96 
TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2MK TCGA-EE-A2ML TCGA-EE-A2MM TCGA-EE-A2MN 
      204.62        96.23       144.76       203.01       167.87        47.54 
TCGA-EE-A2MP TCGA-EE-A2MQ TCGA-EE-A2MR TCGA-EE-A2MS TCGA-EE-A2MT TCGA-EE-A2MU 
      248.61        43.23       103.56       136.44        41.59        53.26 
TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AC TCGA-EE-A3AE TCGA-EE-A3AF TCGA-EE-A3AG 
        4.24       122.73        25.84        26.73        13.81        23.47 
TCGA-EE-A3AH TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-ER-A3PL 
      138.77        12.59        26.37        79.99        80.32        33.21 
TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1YX TCGA-FS-A1Z4 TCGA-FS-A1ZG TCGA-FS-A1ZH 
       80.48       160.60        48.59        28.08         9.70        32.71 
TCGA-FS-A1ZJ TCGA-FS-A1ZM TCGA-FS-A1ZS TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 
       47.38       101.26       148.77        49.48        77.79        12.43 
TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 
       49.45        22.98        76.41       120.46       117.93        84.72 
TCGA-GN-A266 TCGA-GN-A268 
       10.09        62.76 

  8P GAIN MUTATED 8P GAIN WILD-TYPE 
             3.68              2.56 
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
           216.92            345.96 
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
            61.05             47.33 
[1] "3.7 - 216.9 (61.0)" "2.6 - 346.0 (47.3)"
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
  "8P GAIN MUTATED"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
  "8P GAIN MUTATED" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"8P GAIN WILD-TYPE"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
  "8P GAIN MUTATED"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
  "8P GAIN MUTATED" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
  "8P GAIN MUTATED" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"8P GAIN WILD-TYPE"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
  "8P GAIN MUTATED"   "8P GAIN MUTATED"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
  "8P GAIN MUTATED" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED"   "8P GAIN MUTATED" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
  "8P GAIN MUTATED"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED"   "8P GAIN MUTATED" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
  "8P GAIN MUTATED"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"8P GAIN WILD-TYPE"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" 
       TCGA-GN-A26D 
  "8P GAIN MUTATED" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
  "8P GAIN MUTATED"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
  "8P GAIN MUTATED" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"8P GAIN WILD-TYPE"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
  "8P GAIN MUTATED"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
  "8P GAIN MUTATED" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
  "8P GAIN MUTATED" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"8P GAIN WILD-TYPE"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
  "8P GAIN MUTATED"   "8P GAIN MUTATED"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
  "8P GAIN MUTATED" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED"   "8P GAIN MUTATED" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
  "8P GAIN MUTATED"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED"   "8P GAIN MUTATED" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
  "8P GAIN MUTATED"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"8P GAIN WILD-TYPE"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" 
       TCGA-GN-A26D 
  "8P GAIN MUTATED" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
  "8P GAIN MUTATED"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
  "8P GAIN MUTATED" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"8P GAIN WILD-TYPE"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
  "8P GAIN MUTATED"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
  "8P GAIN MUTATED" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
  "8P GAIN MUTATED" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"8P GAIN WILD-TYPE"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
  "8P GAIN MUTATED"   "8P GAIN MUTATED"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
  "8P GAIN MUTATED" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED"   "8P GAIN MUTATED" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
  "8P GAIN MUTATED"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED"   "8P GAIN MUTATED" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
  "8P GAIN MUTATED"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"8P GAIN WILD-TYPE"   "8P GAIN MUTATED" "8P GAIN WILD-TYPE"   "8P GAIN MUTATED" 
       TCGA-GN-A26D 
  "8P GAIN MUTATED" 
[1] "hr=" "1"  
D15V2, continuous
D15V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8P GAIN MUTATED     11   18
  8P GAIN WILD-TYPE   24   94
                                                                                          clus
vv                                                                                         8P GAIN MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)              11
  REGIONAL LYMPH NODE                                                                                   18
                                                                                          clus
vv                                                                                         8P GAIN WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                24
  REGIONAL LYMPH NODE                                                                                     94
D15V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8P GAIN MUTATED      9   20
  8P GAIN WILD-TYPE   43   75
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  FEMALE               9                43
  MALE                20                75
                   vv
clus                 M0  M1 M1A M1B M1C
  8P GAIN MUTATED    24   1   0   0   0
  8P GAIN WILD-TYPE 104   0   2   2   1
D15V5, multiclass
                   vv
clus                N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  8P GAIN MUTATED   12  0   3   4  0   1   2   0  4  0
  8P GAIN WILD-TYPE 65  2   3   8  1   3   9   4 12  2
D15V6, multiclass
D15V7, continuous
                   vv
clus                I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  8P GAIN MUTATED             0       1        0        2        4         2
  8P GAIN WILD-TYPE           1      15        8       11       13         5
                   vv
clus                STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  8P GAIN MUTATED           0         3         2          2          3
  8P GAIN WILD-TYPE         8         1         6          3         13
                   vv
clus                STAGE IIIC STAGE IV
  8P GAIN MUTATED            6        1
  8P GAIN WILD-TYPE         15        3
D15V8, multiclass

Clustering(16) Variable = 8q gain mutation analysis
D16V1, survival
                   sevent
clus2                0  1
  8Q GAIN MUTATED   21 25
  8Q GAIN WILD-TYPE 55 44
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
               46                99 
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
               25                44 
$`8Q GAIN MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q6 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A3CC TCGA-D3-A3CE 
       16.57        71.80        31.59        43.40        71.24        60.23 
TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A1JW TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 
        9.30        21.47         2.70       117.17        20.38       194.83 
TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-EE-A17Z TCGA-EE-A181 
      176.55        35.93        10.49       215.44         8.65        33.73 
TCGA-EE-A29E TCGA-EE-A29R TCGA-EE-A29T TCGA-EE-A2A5 TCGA-EE-A2GH TCGA-EE-A2GM 
       39.62        14.47       345.96        39.25       182.01        75.48 
TCGA-EE-A2GN TCGA-EE-A2GO TCGA-EE-A2GP TCGA-EE-A2GS TCGA-EE-A2M6 TCGA-EE-A2MN 
       90.94       101.95        13.87        55.59       129.24        47.54 
TCGA-EE-A3AB TCGA-EE-A3AD TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N 
      122.73         3.68         6.41       131.08        61.05        44.05 
TCGA-ER-A3ET TCGA-FS-A1YW TCGA-FS-A1Z7 TCGA-FS-A1ZD TCGA-FS-A1ZP TCGA-FS-A1ZR 
       80.32       216.92         7.76        53.52        74.73        11.41 
TCGA-FS-A1ZS TCGA-GN-A267 TCGA-GN-A26A TCGA-GN-A26D 
      148.77        64.41        32.48        39.58 

$`8Q GAIN WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD 
      112.54       121.22        28.08        65.49        23.77        11.87 
TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CF TCGA-D9-A148 TCGA-D9-A149 TCGA-D9-A1JX 
       12.10        58.03        24.53       148.31        49.74         6.38 
TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1I7 TCGA-DA-A1I8 
       11.34         3.22        48.89        36.03        61.18        53.92 
TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A183 
       23.44        68.09        28.60        15.68        29.82        26.86 
TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29H 
        4.93       109.64        78.87        47.84        13.97        32.19 
TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29S TCGA-EE-A29X 
        2.56        18.58        56.42        37.35        55.89        17.92 
TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-EE-A2GB TCGA-EE-A2GC 
       46.82        78.94        24.43        58.75        47.54        43.23 
TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GI TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL 
      314.53       135.91        22.55        89.33        54.71        55.00 
TCGA-EE-A2GR TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 TCGA-EE-A2M7 TCGA-EE-A2M8 
       14.30        19.56        67.13        21.67        28.80        19.76 
TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MI 
       61.51        47.28       103.27       103.17        16.96       204.62 
TCGA-EE-A2MJ TCGA-EE-A2MK TCGA-EE-A2ML TCGA-EE-A2MM TCGA-EE-A2MP TCGA-EE-A2MQ 
       96.23       144.76       203.01       167.87       248.61        43.23 
TCGA-EE-A2MR TCGA-EE-A2MS TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AC 
      103.56       136.44        41.59        53.26         4.24        25.84 
TCGA-EE-A3AE TCGA-EE-A3AF TCGA-EE-A3AG TCGA-EE-A3AH TCGA-ER-A19D TCGA-ER-A19F 
       26.73        13.81        23.47       138.77        12.59        26.37 
TCGA-ER-A1A1 TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1YX TCGA-FS-A1Z4 
       79.99        33.21        80.48       160.60        48.59        28.08 
TCGA-FS-A1ZG TCGA-FS-A1ZH TCGA-FS-A1ZJ TCGA-FS-A1ZM TCGA-FS-A1ZW TCGA-FS-A4F0 
        9.70        32.71        47.38       101.26        49.48        77.79 
TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 
       12.43        49.45        22.98        76.41       120.46       117.93 
TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A268 
       84.72        10.09        62.76 

  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
             2.70              2.56 
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
           345.96            314.53 
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
            50.53             47.54 
[1] "2.7 - 346.0 (50.5)" "2.6 - 314.5 (47.5)"
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
  "8Q GAIN MUTATED"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED"   "8Q GAIN MUTATED"   "8Q GAIN MUTATED" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
  "8Q GAIN MUTATED"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
  "8Q GAIN MUTATED"   "8Q GAIN MUTATED"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED"   "8Q GAIN MUTATED" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
  "8Q GAIN MUTATED"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED"   "8Q GAIN MUTATED" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
  "8Q GAIN MUTATED"   "8Q GAIN MUTATED"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-GN-A26D 
  "8Q GAIN MUTATED" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
  "8Q GAIN MUTATED"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED"   "8Q GAIN MUTATED"   "8Q GAIN MUTATED" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
  "8Q GAIN MUTATED"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
  "8Q GAIN MUTATED"   "8Q GAIN MUTATED"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED"   "8Q GAIN MUTATED" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
  "8Q GAIN MUTATED"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED"   "8Q GAIN MUTATED" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
  "8Q GAIN MUTATED"   "8Q GAIN MUTATED"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-GN-A26D 
  "8Q GAIN MUTATED" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
  "8Q GAIN MUTATED"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED"   "8Q GAIN MUTATED"   "8Q GAIN MUTATED" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
  "8Q GAIN MUTATED"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
  "8Q GAIN MUTATED"   "8Q GAIN MUTATED"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
  "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED"   "8Q GAIN MUTATED" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
  "8Q GAIN MUTATED"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED"   "8Q GAIN MUTATED" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
  "8Q GAIN MUTATED"   "8Q GAIN MUTATED"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" "8Q GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" "8Q GAIN WILD-TYPE"   "8Q GAIN MUTATED" 
       TCGA-GN-A26D 
  "8Q GAIN MUTATED" 
[1] "hr=" "1.1"
D16V2, continuous
D16V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8Q GAIN MUTATED     15   31
  8Q GAIN WILD-TYPE   20   81
                                                                                          clus
vv                                                                                         8Q GAIN MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)              15
  REGIONAL LYMPH NODE                                                                                   31
                                                                                          clus
vv                                                                                         8Q GAIN WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                20
  REGIONAL LYMPH NODE                                                                                     81
D16V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8Q GAIN MUTATED     13   33
  8Q GAIN WILD-TYPE   39   62
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  FEMALE              13                39
  MALE                33                62
                   vv
clus                M0 M1 M1A M1B M1C
  8Q GAIN MUTATED   39  1   1   0   0
  8Q GAIN WILD-TYPE 89  0   1   2   1
D16V5, multiclass
                   vv
clus                N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  8Q GAIN MUTATED   19  0   4   5  0   3   3   1  6  1
  8Q GAIN WILD-TYPE 58  2   2   7  1   1   8   3 10  1
D16V6, multiclass
D16V7, continuous
                   vv
clus                I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  8Q GAIN MUTATED             0       3        0        4        5         2
  8Q GAIN WILD-TYPE           1      13        8        9       12         5
                   vv
clus                STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  8Q GAIN MUTATED           2         3         3          3          6
  8Q GAIN WILD-TYPE         6         1         5          2         10
                   vv
clus                STAGE IIIC STAGE IV
  8Q GAIN MUTATED            8        1
  8Q GAIN WILD-TYPE         13        3
D16V8, multiclass

Clustering(17) Variable = 9p gain mutation analysis
D17V1, survival
                   sevent
clus2                0  1
  9P GAIN MUTATED    1  2
  9P GAIN WILD-TYPE 75 67
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
                3               142 
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
                2                67 
$`9P GAIN MUTATED`
TCGA-D3-A1Q9 TCGA-ER-A3ET TCGA-FS-A1ZJ 
       31.59        80.32        47.38 

$`9P GAIN WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J6 
       16.57       112.54        71.80       121.22        28.08        43.40 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC 
       65.49        23.77        11.87        12.10        58.03        71.24 
TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A148 TCGA-D9-A149 
       60.23        24.53         9.30        21.47       148.31        49.74 
TCGA-D9-A1JW TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW 
        2.70         6.38        11.34         3.22        48.89        36.03 
TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 
      117.17        20.38       194.83       176.55        35.93        61.18 
TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 
       53.92        23.44        68.09        28.60        10.49       215.44 
TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 
       15.68        29.82         8.65        33.73        26.86         4.93 
TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H 
      109.64        78.87        47.84        13.97        39.62        32.19 
TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S 
        2.56        18.58        56.42        37.35        14.47        55.89 
TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 
      345.96        17.92        46.82        78.94        24.43        39.25 
TCGA-EE-A2A6 TCGA-EE-A2GB TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GH 
       58.75        47.54        43.23       314.53       135.91       182.01 
TCGA-EE-A2GI TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GM TCGA-EE-A2GN 
       22.55        89.33        54.71        55.00        75.48        90.94 
TCGA-EE-A2GO TCGA-EE-A2GP TCGA-EE-A2GR TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2GU 
      101.95        13.87        14.30        55.59        19.56        67.13 
TCGA-EE-A2M5 TCGA-EE-A2M6 TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD 
       21.67       129.24        28.80        19.76        61.51        47.28 
TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2MK 
      103.27       103.17        16.96       204.62        96.23       144.76 
TCGA-EE-A2ML TCGA-EE-A2MM TCGA-EE-A2MN TCGA-EE-A2MP TCGA-EE-A2MQ TCGA-EE-A2MR 
      203.01       167.87        47.54       248.61        43.23       103.56 
TCGA-EE-A2MS TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AC 
      136.44        41.59        53.26         4.24       122.73        25.84 
TCGA-EE-A3AD TCGA-EE-A3AE TCGA-EE-A3AF TCGA-EE-A3AG TCGA-EE-A3AH TCGA-ER-A19D 
        3.68        26.73        13.81        23.47       138.77        12.59 
TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 
       26.37         6.41       131.08        61.05        44.05        79.99 
TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1Z4 
       33.21        80.48       160.60       216.92        48.59        28.08 
TCGA-FS-A1Z7 TCGA-FS-A1ZD TCGA-FS-A1ZG TCGA-FS-A1ZH TCGA-FS-A1ZM TCGA-FS-A1ZP 
        7.76        53.52         9.70        32.71       101.26        74.73 
TCGA-FS-A1ZR TCGA-FS-A1ZS TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC 
       11.41       148.77        49.48        77.79        12.43        49.45 
TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 
       22.98        76.41       120.46       117.93        84.72        10.09 
TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       64.41        62.76        32.48        39.58 

  9P GAIN MUTATED 9P GAIN WILD-TYPE 
            31.59              2.56 
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
            80.32            345.96 
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
            47.38             47.69 
[1] "31.6 - 80.3 (47.4)" "2.6 - 346.0 (47.7)"
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"9P GAIN WILD-TYPE"   "9P GAIN MUTATED" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE"   "9P GAIN MUTATED" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE"   "9P GAIN MUTATED" "9P GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-GN-A26D 
"9P GAIN WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"9P GAIN WILD-TYPE"   "9P GAIN MUTATED" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE"   "9P GAIN MUTATED" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE"   "9P GAIN MUTATED" "9P GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-GN-A26D 
"9P GAIN WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"9P GAIN WILD-TYPE"   "9P GAIN MUTATED" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE"   "9P GAIN MUTATED" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE"   "9P GAIN MUTATED" "9P GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-GN-A26D 
"9P GAIN WILD-TYPE" 
[1] "hr=" "1.5"
D17V2, continuous
D17V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  9P GAIN MUTATED      1    2
  9P GAIN WILD-TYPE   34  110
                                                                                          clus
vv                                                                                         9P GAIN MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)               1
  REGIONAL LYMPH NODE                                                                                    2
                                                                                          clus
vv                                                                                         9P GAIN WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                34
  REGIONAL LYMPH NODE                                                                                    110
D17V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  9P GAIN MUTATED      2    1
  9P GAIN WILD-TYPE   50   94
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  FEMALE               2                50
  MALE                 1                94
                   vv
clus                 M0  M1 M1A M1B M1C
  9P GAIN MUTATED     3   0   0   0   0
  9P GAIN WILD-TYPE 125   1   2   2   1
D17V5, multiclass
                   vv
clus                N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  9P GAIN MUTATED    1  0   1   0  0   1   0   0  0  0
  9P GAIN WILD-TYPE 76  2   5  12  1   3  11   4 16  2
D17V6, multiclass
D17V7, continuous
                   vv
clus                I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  9P GAIN MUTATED             0       1        0        0        0         0
  9P GAIN WILD-TYPE           1      15        8       13       17         7
                   vv
clus                STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  9P GAIN MUTATED           0         0         0          1          1
  9P GAIN WILD-TYPE         8         4         8          4         15
                   vv
clus                STAGE IIIC STAGE IV
  9P GAIN MUTATED            0        0
  9P GAIN WILD-TYPE         21        4
D17V8, multiclass

Clustering(18) Variable = 9q gain mutation analysis
D18V1, survival
                   sevent
clus2                0  1
  9Q GAIN MUTATED    1  2
  9Q GAIN WILD-TYPE 75 67
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
                3               142 
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
                2                67 
$`9Q GAIN MUTATED`
TCGA-D3-A1Q9 TCGA-FR-A44A TCGA-FS-A1ZJ 
       31.59       160.60        47.38 

$`9Q GAIN WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J6 
       16.57       112.54        71.80       121.22        28.08        43.40 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC 
       65.49        23.77        11.87        12.10        58.03        71.24 
TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A148 TCGA-D9-A149 
       60.23        24.53         9.30        21.47       148.31        49.74 
TCGA-D9-A1JW TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW 
        2.70         6.38        11.34         3.22        48.89        36.03 
TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 
      117.17        20.38       194.83       176.55        35.93        61.18 
TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 
       53.92        23.44        68.09        28.60        10.49       215.44 
TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 
       15.68        29.82         8.65        33.73        26.86         4.93 
TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H 
      109.64        78.87        47.84        13.97        39.62        32.19 
TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S 
        2.56        18.58        56.42        37.35        14.47        55.89 
TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 
      345.96        17.92        46.82        78.94        24.43        39.25 
TCGA-EE-A2A6 TCGA-EE-A2GB TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GH 
       58.75        47.54        43.23       314.53       135.91       182.01 
TCGA-EE-A2GI TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GM TCGA-EE-A2GN 
       22.55        89.33        54.71        55.00        75.48        90.94 
TCGA-EE-A2GO TCGA-EE-A2GP TCGA-EE-A2GR TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2GU 
      101.95        13.87        14.30        55.59        19.56        67.13 
TCGA-EE-A2M5 TCGA-EE-A2M6 TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD 
       21.67       129.24        28.80        19.76        61.51        47.28 
TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2MK 
      103.27       103.17        16.96       204.62        96.23       144.76 
TCGA-EE-A2ML TCGA-EE-A2MM TCGA-EE-A2MN TCGA-EE-A2MP TCGA-EE-A2MQ TCGA-EE-A2MR 
      203.01       167.87        47.54       248.61        43.23       103.56 
TCGA-EE-A2MS TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AC 
      136.44        41.59        53.26         4.24       122.73        25.84 
TCGA-EE-A3AD TCGA-EE-A3AE TCGA-EE-A3AF TCGA-EE-A3AG TCGA-EE-A3AH TCGA-ER-A19D 
        3.68        26.73        13.81        23.47       138.77        12.59 
TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 
       26.37         6.41       131.08        61.05        44.05        79.99 
TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1Z4 
       80.32        33.21        80.48       216.92        48.59        28.08 
TCGA-FS-A1Z7 TCGA-FS-A1ZD TCGA-FS-A1ZG TCGA-FS-A1ZH TCGA-FS-A1ZM TCGA-FS-A1ZP 
        7.76        53.52         9.70        32.71       101.26        74.73 
TCGA-FS-A1ZR TCGA-FS-A1ZS TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC 
       11.41       148.77        49.48        77.79        12.43        49.45 
TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 
       22.98        76.41       120.46       117.93        84.72        10.09 
TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       64.41        62.76        32.48        39.58 

  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
            31.59              2.56 
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
           160.60            345.96 
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
            47.38             47.69 
[1] "31.6 - 160.6 (47.4)" "2.6 - 346.0 (47.7)" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"9Q GAIN WILD-TYPE"   "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE"   "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE"   "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-GN-A26D 
"9Q GAIN WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"9Q GAIN WILD-TYPE"   "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE"   "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE"   "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-GN-A26D 
"9Q GAIN WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"9Q GAIN WILD-TYPE"   "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE"   "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE"   "9Q GAIN MUTATED" "9Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-GN-A26D 
"9Q GAIN WILD-TYPE" 
[1] "hr=" "1.2"
D18V2, continuous
D18V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  9Q GAIN MUTATED      0    3
  9Q GAIN WILD-TYPE   35  109
                                                                                          clus
vv                                                                                         9Q GAIN MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)               0
  REGIONAL LYMPH NODE                                                                                    3
                                                                                          clus
vv                                                                                         9Q GAIN WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                35
  REGIONAL LYMPH NODE                                                                                    109
D18V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  9Q GAIN MUTATED      2    1
  9Q GAIN WILD-TYPE   50   94
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  FEMALE               2                50
  MALE                 1                94
                   vv
clus                 M0  M1 M1A M1B M1C
  9Q GAIN MUTATED     3   0   0   0   0
  9Q GAIN WILD-TYPE 125   1   2   2   1
D18V5, multiclass
                   vv
clus                N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  9Q GAIN MUTATED    2  0   0   0  0   1   0   0  0  0
  9Q GAIN WILD-TYPE 75  2   6  12  1   3  11   4 16  2
D18V6, multiclass
D18V7, continuous
                   vv
clus                I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  9Q GAIN MUTATED             0       1        0        0        1         0
  9Q GAIN WILD-TYPE           1      15        8       13       16         7
                   vv
clus                STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  9Q GAIN MUTATED           0         0         0          0          1
  9Q GAIN WILD-TYPE         8         4         8          5         15
                   vv
clus                STAGE IIIC STAGE IV
  9Q GAIN MUTATED            0        0
  9Q GAIN WILD-TYPE         21        4
D18V8, multiclass

Clustering(19) Variable = 11p gain mutation analysis
D19V1, survival
                    sevent
clus2                 0  1
  11P GAIN MUTATED    4  5
  11P GAIN WILD-TYPE 72 64
  11P GAIN MUTATED 11P GAIN WILD-TYPE 
                 9                136 
  11P GAIN MUTATED 11P GAIN WILD-TYPE 
                 5                 64 
$`11P GAIN MUTATED`
TCGA-D3-A3CE TCGA-DA-A3F3 TCGA-EE-A29T TCGA-EE-A2GB TCGA-EE-A2GP TCGA-EE-A2MC 
       60.23        10.49       345.96        47.54        13.87        61.51 
TCGA-ER-A19N TCGA-FS-A1ZD TCGA-FS-A1ZS 
       44.05        53.52       148.77 

$`11P GAIN WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 
       16.57       112.54        71.80       121.22        28.08        31.59 
TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 
       43.40        65.49        23.77        11.87        12.10        58.03 
TCGA-D3-A3CC TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A148 TCGA-D9-A149 
       71.24        24.53         9.30        21.47       148.31        49.74 
TCGA-D9-A1JW TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW 
        2.70         6.38        11.34         3.22        48.89        36.03 
TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 
      117.17        20.38       194.83       176.55        35.93        61.18 
TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F5 TCGA-DA-A3F8 
       53.92        23.44        68.09        28.60       215.44        15.68 
TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B 
       29.82         8.65        33.73        26.86         4.93       109.64 
TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L 
       78.87        47.84        13.97        39.62        32.19         2.56 
TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29X 
       18.58        56.42        37.35        14.47        55.89        17.92 
TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-EE-A2GC 
       46.82        78.94        24.43        39.25        58.75        43.23 
TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GH TCGA-EE-A2GI TCGA-EE-A2GJ TCGA-EE-A2GK 
      314.53       135.91       182.01        22.55        89.33        54.71 
TCGA-EE-A2GL TCGA-EE-A2GM TCGA-EE-A2GN TCGA-EE-A2GO TCGA-EE-A2GR TCGA-EE-A2GS 
       55.00        75.48        90.94       101.95        14.30        55.59 
TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 TCGA-EE-A2M6 TCGA-EE-A2M7 TCGA-EE-A2M8 
       19.56        67.13        21.67       129.24        28.80        19.76 
TCGA-EE-A2MD TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MJ 
       47.28       103.27       103.17        16.96       204.62        96.23 
TCGA-EE-A2MK TCGA-EE-A2ML TCGA-EE-A2MM TCGA-EE-A2MN TCGA-EE-A2MP TCGA-EE-A2MQ 
      144.76       203.01       167.87        47.54       248.61        43.23 
TCGA-EE-A2MR TCGA-EE-A2MS TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AB 
      103.56       136.44        41.59        53.26         4.24       122.73 
TCGA-EE-A3AC TCGA-EE-A3AD TCGA-EE-A3AE TCGA-EE-A3AF TCGA-EE-A3AG TCGA-EE-A3AH 
       25.84         3.68        26.73        13.81        23.47       138.77 
TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A1A1 
       12.59        26.37         6.41       131.08        61.05        79.99 
TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1YX 
       80.32        33.21        80.48       160.60       216.92        48.59 
TCGA-FS-A1Z4 TCGA-FS-A1Z7 TCGA-FS-A1ZG TCGA-FS-A1ZH TCGA-FS-A1ZJ TCGA-FS-A1ZM 
       28.08         7.76         9.70        32.71        47.38       101.26 
TCGA-FS-A1ZP TCGA-FS-A1ZR TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC 
       74.73        11.41        49.48        77.79        12.43        49.45 
TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 
       22.98        76.41       120.46       117.93        84.72        10.09 
TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       64.41        62.76        32.48        39.58 

  11P GAIN MUTATED 11P GAIN WILD-TYPE 
             10.49               2.56 
  11P GAIN MUTATED 11P GAIN WILD-TYPE 
            345.96             314.53 
  11P GAIN MUTATED 11P GAIN WILD-TYPE 
             53.52              47.46 
[1] "10.5 - 346.0 (53.5)" "2.6 - 314.5 (47.5)" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"11P GAIN WILD-TYPE"   "11P GAIN MUTATED" "11P GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE"   "11P GAIN MUTATED" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"11P GAIN WILD-TYPE"   "11P GAIN MUTATED" "11P GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE"   "11P GAIN MUTATED" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE"   "11P GAIN MUTATED" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE"   "11P GAIN MUTATED" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE"   "11P GAIN MUTATED" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
  "11P GAIN MUTATED" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"11P GAIN WILD-TYPE"   "11P GAIN MUTATED" "11P GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-GN-A26D 
"11P GAIN WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"11P GAIN WILD-TYPE"   "11P GAIN MUTATED" "11P GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE"   "11P GAIN MUTATED" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"11P GAIN WILD-TYPE"   "11P GAIN MUTATED" "11P GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE"   "11P GAIN MUTATED" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE"   "11P GAIN MUTATED" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE"   "11P GAIN MUTATED" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE"   "11P GAIN MUTATED" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
  "11P GAIN MUTATED" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"11P GAIN WILD-TYPE"   "11P GAIN MUTATED" "11P GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-GN-A26D 
"11P GAIN WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"11P GAIN WILD-TYPE"   "11P GAIN MUTATED" "11P GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE"   "11P GAIN MUTATED" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"11P GAIN WILD-TYPE"   "11P GAIN MUTATED" "11P GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE"   "11P GAIN MUTATED" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE"   "11P GAIN MUTATED" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE"   "11P GAIN MUTATED" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE"   "11P GAIN MUTATED" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
  "11P GAIN MUTATED" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"11P GAIN WILD-TYPE"   "11P GAIN MUTATED" "11P GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-GN-A26D 
"11P GAIN WILD-TYPE" 
[1] "hr=" "1"  
D19V2, continuous
D19V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  11P GAIN MUTATED      1    8
  11P GAIN WILD-TYPE   34  104
                                                                                          clus
vv                                                                                         11P GAIN MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                1
  REGIONAL LYMPH NODE                                                                                     8
                                                                                          clus
vv                                                                                         11P GAIN WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                 34
  REGIONAL LYMPH NODE                                                                                     104
D19V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  11P GAIN MUTATED      2    7
  11P GAIN WILD-TYPE   50   88
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  FEMALE                2                 50
  MALE                  7                 88
                    vv
clus                  M0  M1 M1A M1B M1C
  11P GAIN MUTATED     8   0   0   0   0
  11P GAIN WILD-TYPE 120   1   2   2   1
D19V5, multiclass
                    vv
clus                 N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  11P GAIN MUTATED    3  0   2   1  0   0   1   0  0  1
  11P GAIN WILD-TYPE 74  2   4  11  1   4  10   4 16  1
D19V6, multiclass
D19V7, continuous
                    vv
clus                 I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  11P GAIN MUTATED             0       1        0        0        1         1
  11P GAIN WILD-TYPE           1      15        8       13       16         6
                    vv
clus                 STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  11P GAIN MUTATED           0         0         1          1          2
  11P GAIN WILD-TYPE         8         4         7          4         14
                    vv
clus                 STAGE IIIC STAGE IV
  11P GAIN MUTATED            0        0
  11P GAIN WILD-TYPE         21        4
D19V8, multiclass

Clustering(20) Variable = 11q gain mutation analysis
D20V1, survival
                    sevent
clus2                 0  1
  11Q GAIN MUTATED    2  4
  11Q GAIN WILD-TYPE 74 65
  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
                 6                139 
  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
                 4                 65 
$`11Q GAIN MUTATED`
TCGA-D3-A3CE TCGA-DA-A3F3 TCGA-EE-A2GP TCGA-ER-A19N TCGA-FS-A1ZD TCGA-FS-A1ZS 
       60.23        10.49        13.87        44.05        53.52       148.77 

$`11Q GAIN WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 
       16.57       112.54        71.80       121.22        28.08        31.59 
TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 
       43.40        65.49        23.77        11.87        12.10        58.03 
TCGA-D3-A3CC TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A148 TCGA-D9-A149 
       71.24        24.53         9.30        21.47       148.31        49.74 
TCGA-D9-A1JW TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW 
        2.70         6.38        11.34         3.22        48.89        36.03 
TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 
      117.17        20.38       194.83       176.55        35.93        61.18 
TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F5 TCGA-DA-A3F8 
       53.92        23.44        68.09        28.60       215.44        15.68 
TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B 
       29.82         8.65        33.73        26.86         4.93       109.64 
TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L 
       78.87        47.84        13.97        39.62        32.19         2.56 
TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T 
       18.58        56.42        37.35        14.47        55.89       345.96 
TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 
       17.92        46.82        78.94        24.43        39.25        58.75 
TCGA-EE-A2GB TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GH TCGA-EE-A2GI 
       47.54        43.23       314.53       135.91       182.01        22.55 
TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GM TCGA-EE-A2GN TCGA-EE-A2GO 
       89.33        54.71        55.00        75.48        90.94       101.95 
TCGA-EE-A2GR TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 TCGA-EE-A2M6 
       14.30        55.59        19.56        67.13        21.67       129.24 
TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME TCGA-EE-A2MG 
       28.80        19.76        61.51        47.28       103.27       103.17 
TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2MK TCGA-EE-A2ML TCGA-EE-A2MM 
       16.96       204.62        96.23       144.76       203.01       167.87 
TCGA-EE-A2MN TCGA-EE-A2MP TCGA-EE-A2MQ TCGA-EE-A2MR TCGA-EE-A2MS TCGA-EE-A2MT 
       47.54       248.61        43.23       103.56       136.44        41.59 
TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AC TCGA-EE-A3AD TCGA-EE-A3AE 
       53.26         4.24       122.73        25.84         3.68        26.73 
TCGA-EE-A3AF TCGA-EE-A3AG TCGA-EE-A3AH TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J 
       13.81        23.47       138.77        12.59        26.37         6.41 
TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN 
      131.08        61.05        79.99        80.32        33.21        80.48 
TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1Z4 TCGA-FS-A1Z7 TCGA-FS-A1ZG 
      160.60       216.92        48.59        28.08         7.76         9.70 
TCGA-FS-A1ZH TCGA-FS-A1ZJ TCGA-FS-A1ZM TCGA-FS-A1ZP TCGA-FS-A1ZR TCGA-FS-A1ZW 
       32.71        47.38       101.26        74.73        11.41        49.48 
TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 
       77.79        12.43        49.45        22.98        76.41       120.46 
TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A 
      117.93        84.72        10.09        64.41        62.76        32.48 
TCGA-GN-A26D 
       39.58 

  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
             10.49               2.56 
  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
            148.77             345.96 
  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
            48.785             47.540 
[1] "10.5 - 148.8 (48.8)" "2.6 - 346.0 (47.5)" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"11Q GAIN WILD-TYPE"   "11Q GAIN MUTATED" "11Q GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE"   "11Q GAIN MUTATED" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE"   "11Q GAIN MUTATED" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE"   "11Q GAIN MUTATED" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
  "11Q GAIN MUTATED" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"11Q GAIN WILD-TYPE"   "11Q GAIN MUTATED" "11Q GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-GN-A26D 
"11Q GAIN WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"11Q GAIN WILD-TYPE"   "11Q GAIN MUTATED" "11Q GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE"   "11Q GAIN MUTATED" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE"   "11Q GAIN MUTATED" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE"   "11Q GAIN MUTATED" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
  "11Q GAIN MUTATED" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"11Q GAIN WILD-TYPE"   "11Q GAIN MUTATED" "11Q GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-GN-A26D 
"11Q GAIN WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"11Q GAIN WILD-TYPE"   "11Q GAIN MUTATED" "11Q GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE"   "11Q GAIN MUTATED" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE"   "11Q GAIN MUTATED" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE"   "11Q GAIN MUTATED" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
  "11Q GAIN MUTATED" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"11Q GAIN WILD-TYPE"   "11Q GAIN MUTATED" "11Q GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-GN-A26D 
"11Q GAIN WILD-TYPE" 
[1] "hr=" "1.7"
D20V2, continuous
D20V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  11Q GAIN MUTATED      1    5
  11Q GAIN WILD-TYPE   34  107
                                                                                          clus
vv                                                                                         11Q GAIN MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                1
  REGIONAL LYMPH NODE                                                                                     5
                                                                                          clus
vv                                                                                         11Q GAIN WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                 34
  REGIONAL LYMPH NODE                                                                                     107
D20V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  11Q GAIN MUTATED      1    5
  11Q GAIN WILD-TYPE   51   90
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  FEMALE                1                 51
  MALE                  5                 90
                    vv
clus                  M0  M1 M1A M1B M1C
  11Q GAIN MUTATED     5   0   0   0   0
  11Q GAIN WILD-TYPE 123   1   2   2   1
D20V5, multiclass
                    vv
clus                 N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  11Q GAIN MUTATED    2  0   1   1  0   0   1   0  0  0
  11Q GAIN WILD-TYPE 75  2   5  11  1   4  10   4 16  2
D20V6, multiclass
D20V7, continuous
                    vv
clus                 I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  11Q GAIN MUTATED             0       0        0        0        1         1
  11Q GAIN WILD-TYPE           1      16        8       13       16         6
                    vv
clus                 STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  11Q GAIN MUTATED           0         0         1          0          2
  11Q GAIN WILD-TYPE         8         4         7          5         14
                    vv
clus                 STAGE IIIC STAGE IV
  11Q GAIN MUTATED            0        0
  11Q GAIN WILD-TYPE         21        4
D20V8, multiclass

Clustering(21) Variable = 12p gain mutation analysis
D21V1, survival
                    sevent
clus2                 0  1
  12P GAIN MUTATED    8  8
  12P GAIN WILD-TYPE 68 61
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
                16                129 
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
                 8                 61 
$`12P GAIN MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q6 TCGA-D3-A1Q9 TCGA-D3-A3CE TCGA-D3-A3MV TCGA-DA-A1I7 
       16.57        71.80        31.59        60.23        21.47        61.18 
TCGA-DA-A3F5 TCGA-EE-A2A6 TCGA-EE-A2GB TCGA-EE-A2M6 TCGA-ER-A19J TCGA-ER-A19L 
      215.44        58.75        47.54       129.24         6.41       131.08 
TCGA-ER-A19M TCGA-ER-A3PL TCGA-FS-A1ZM TCGA-GN-A26A 
       61.05        33.21       101.26        32.48 

$`12P GAIN WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A2J9 
      112.54       121.22        28.08        43.40        65.49        23.77 
TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CF TCGA-D3-A3MO 
       11.87        12.10        58.03        71.24        24.53         9.30 
TCGA-D9-A148 TCGA-D9-A149 TCGA-D9-A1JW TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 
      148.31        49.74         2.70         6.38        11.34         3.22 
TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 
       48.89        36.03       117.17        20.38       194.83       176.55 
TCGA-DA-A1I4 TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 
       35.93        53.92        23.44        68.09        28.60        10.49 
TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 
       15.68        29.82         8.65        33.73        26.86         4.93 
TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H 
      109.64        78.87        47.84        13.97        39.62        32.19 
TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S 
        2.56        18.58        56.42        37.35        14.47        55.89 
TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 
      345.96        17.92        46.82        78.94        24.43        39.25 
TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GH TCGA-EE-A2GI TCGA-EE-A2GJ 
       43.23       314.53       135.91       182.01        22.55        89.33 
TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GM TCGA-EE-A2GN TCGA-EE-A2GO TCGA-EE-A2GP 
       54.71        55.00        75.48        90.94       101.95        13.87 
TCGA-EE-A2GR TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 TCGA-EE-A2M7 
       14.30        55.59        19.56        67.13        21.67        28.80 
TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MH 
       19.76        61.51        47.28       103.27       103.17        16.96 
TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2MK TCGA-EE-A2ML TCGA-EE-A2MM TCGA-EE-A2MN 
      204.62        96.23       144.76       203.01       167.87        47.54 
TCGA-EE-A2MP TCGA-EE-A2MQ TCGA-EE-A2MR TCGA-EE-A2MS TCGA-EE-A2MT TCGA-EE-A2MU 
      248.61        43.23       103.56       136.44        41.59        53.26 
TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AC TCGA-EE-A3AD TCGA-EE-A3AE TCGA-EE-A3AF 
        4.24       122.73        25.84         3.68        26.73        13.81 
TCGA-EE-A3AG TCGA-EE-A3AH TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19N TCGA-ER-A1A1 
       23.47       138.77        12.59        26.37        44.05        79.99 
TCGA-ER-A3ET TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1Z4 
       80.32        80.48       160.60       216.92        48.59        28.08 
TCGA-FS-A1Z7 TCGA-FS-A1ZD TCGA-FS-A1ZG TCGA-FS-A1ZH TCGA-FS-A1ZJ TCGA-FS-A1ZP 
        7.76        53.52         9.70        32.71        47.38        74.73 
TCGA-FS-A1ZR TCGA-FS-A1ZS TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC 
       11.41       148.77        49.48        77.79        12.43        49.45 
TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 
       22.98        76.41       120.46       117.93        84.72        10.09 
TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
       64.41        62.76        39.58 

  12P GAIN MUTATED 12P GAIN WILD-TYPE 
              6.41               2.56 
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
            215.44             345.96 
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
             59.49              47.38 
[1] "6.4 - 215.4 (59.5)" "2.6 - 346.0 (47.4)"
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "12P GAIN MUTATED" "12P GAIN WILD-TYPE"   "12P GAIN MUTATED" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE"   "12P GAIN MUTATED" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"12P GAIN WILD-TYPE"   "12P GAIN MUTATED" "12P GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"12P GAIN WILD-TYPE"   "12P GAIN MUTATED" "12P GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
  "12P GAIN MUTATED" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
  "12P GAIN MUTATED" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"12P GAIN WILD-TYPE"   "12P GAIN MUTATED"   "12P GAIN MUTATED" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE"   "12P GAIN MUTATED" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE"   "12P GAIN MUTATED" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
  "12P GAIN MUTATED"   "12P GAIN MUTATED" "12P GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE"   "12P GAIN MUTATED" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"12P GAIN WILD-TYPE"   "12P GAIN MUTATED" "12P GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE"   "12P GAIN MUTATED" 
        TCGA-GN-A26D 
"12P GAIN WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "12P GAIN MUTATED" "12P GAIN WILD-TYPE"   "12P GAIN MUTATED" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE"   "12P GAIN MUTATED" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"12P GAIN WILD-TYPE"   "12P GAIN MUTATED" "12P GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"12P GAIN WILD-TYPE"   "12P GAIN MUTATED" "12P GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
  "12P GAIN MUTATED" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
  "12P GAIN MUTATED" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"12P GAIN WILD-TYPE"   "12P GAIN MUTATED"   "12P GAIN MUTATED" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE"   "12P GAIN MUTATED" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE"   "12P GAIN MUTATED" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
  "12P GAIN MUTATED"   "12P GAIN MUTATED" "12P GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE"   "12P GAIN MUTATED" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"12P GAIN WILD-TYPE"   "12P GAIN MUTATED" "12P GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE"   "12P GAIN MUTATED" 
        TCGA-GN-A26D 
"12P GAIN WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "12P GAIN MUTATED" "12P GAIN WILD-TYPE"   "12P GAIN MUTATED" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE"   "12P GAIN MUTATED" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"12P GAIN WILD-TYPE"   "12P GAIN MUTATED" "12P GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"12P GAIN WILD-TYPE"   "12P GAIN MUTATED" "12P GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
  "12P GAIN MUTATED" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
  "12P GAIN MUTATED" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"12P GAIN WILD-TYPE"   "12P GAIN MUTATED"   "12P GAIN MUTATED" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE"   "12P GAIN MUTATED" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE"   "12P GAIN MUTATED" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
  "12P GAIN MUTATED"   "12P GAIN MUTATED" "12P GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE"   "12P GAIN MUTATED" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"12P GAIN WILD-TYPE"   "12P GAIN MUTATED" "12P GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"12P GAIN WILD-TYPE" "12P GAIN WILD-TYPE"   "12P GAIN MUTATED" 
        TCGA-GN-A26D 
"12P GAIN WILD-TYPE" 
[1] "hr=" "1"  
D21V2, continuous
D21V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  12P GAIN MUTATED      6   10
  12P GAIN WILD-TYPE   29  102
                                                                                          clus
vv                                                                                         12P GAIN MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                6
  REGIONAL LYMPH NODE                                                                                    10
                                                                                          clus
vv                                                                                         12P GAIN WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                 29
  REGIONAL LYMPH NODE                                                                                     102
D21V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  12P GAIN MUTATED      4   12
  12P GAIN WILD-TYPE   48   83
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  FEMALE                4                 48
  MALE                 12                 83
                    vv
clus                  M0  M1 M1A M1B M1C
  12P GAIN MUTATED    13   1   1   0   0
  12P GAIN WILD-TYPE 115   0   1   2   1
D21V5, multiclass
                    vv
clus                 N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  12P GAIN MUTATED    4  0   2   2  0   2   1   1  3  0
  12P GAIN WILD-TYPE 73  2   4  10  1   2  10   3 13  2
D21V6, multiclass
D21V7, continuous
                    vv
clus                 I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  12P GAIN MUTATED             0       1        1        1        0         0
  12P GAIN WILD-TYPE           1      15        7       12       17         7
                    vv
clus                 STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  12P GAIN MUTATED           0         0         3          2          3
  12P GAIN WILD-TYPE         8         4         5          3         13
                    vv
clus                 STAGE IIIC STAGE IV
  12P GAIN MUTATED            2        2
  12P GAIN WILD-TYPE         19        2
D21V8, multiclass

Clustering(22) Variable = 12q gain mutation analysis
D22V1, survival
                    sevent
clus2                 0  1
  12Q GAIN MUTATED    3  4
  12Q GAIN WILD-TYPE 73 65
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
                 7                138 
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
                 4                 65 
$`12Q GAIN MUTATED`
TCGA-D3-A1Q6 TCGA-D3-A1Q9 TCGA-DA-A3F5 TCGA-EE-A2A6 TCGA-EE-A2GB TCGA-ER-A19L 
       71.80        31.59       215.44        58.75        47.54       131.08 
TCGA-GN-A26A 
       32.48 

$`12Q GAIN WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J6 TCGA-D3-A2J8 
       16.57       112.54       121.22        28.08        43.40        65.49 
TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CE 
       23.77        11.87        12.10        58.03        71.24        60.23 
TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A148 TCGA-D9-A149 TCGA-D9-A1JW 
       24.53         9.30        21.47       148.31        49.74         2.70 
TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
        6.38        11.34         3.22        48.89        36.03       117.17 
TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 
       20.38       194.83       176.55        35.93        61.18        53.92 
TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F8 TCGA-EE-A17X 
       23.44        68.09        28.60        10.49        15.68        29.82 
TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F 
        8.65        33.73        26.86         4.93       109.64        78.87 
TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N 
       47.84        13.97        39.62        32.19         2.56        18.58 
TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X 
       56.42        37.35        14.47        55.89       345.96        17.92 
TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2GC TCGA-EE-A2GD 
       46.82        78.94        24.43        39.25        43.23       314.53 
TCGA-EE-A2GE TCGA-EE-A2GH TCGA-EE-A2GI TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL 
      135.91       182.01        22.55        89.33        54.71        55.00 
TCGA-EE-A2GM TCGA-EE-A2GN TCGA-EE-A2GO TCGA-EE-A2GP TCGA-EE-A2GR TCGA-EE-A2GS 
       75.48        90.94       101.95        13.87        14.30        55.59 
TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 TCGA-EE-A2M6 TCGA-EE-A2M7 TCGA-EE-A2M8 
       19.56        67.13        21.67       129.24        28.80        19.76 
TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MI 
       61.51        47.28       103.27       103.17        16.96       204.62 
TCGA-EE-A2MJ TCGA-EE-A2MK TCGA-EE-A2ML TCGA-EE-A2MM TCGA-EE-A2MN TCGA-EE-A2MP 
       96.23       144.76       203.01       167.87        47.54       248.61 
TCGA-EE-A2MQ TCGA-EE-A2MR TCGA-EE-A2MS TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA 
       43.23       103.56       136.44        41.59        53.26         4.24 
TCGA-EE-A3AB TCGA-EE-A3AC TCGA-EE-A3AD TCGA-EE-A3AE TCGA-EE-A3AF TCGA-EE-A3AG 
      122.73        25.84         3.68        26.73        13.81        23.47 
TCGA-EE-A3AH TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19M TCGA-ER-A19N 
      138.77        12.59        26.37         6.41        61.05        44.05 
TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1YW 
       79.99        80.32        33.21        80.48       160.60       216.92 
TCGA-FS-A1YX TCGA-FS-A1Z4 TCGA-FS-A1Z7 TCGA-FS-A1ZD TCGA-FS-A1ZG TCGA-FS-A1ZH 
       48.59        28.08         7.76        53.52         9.70        32.71 
TCGA-FS-A1ZJ TCGA-FS-A1ZM TCGA-FS-A1ZP TCGA-FS-A1ZR TCGA-FS-A1ZS TCGA-FS-A1ZW 
       47.38       101.26        74.73        11.41       148.77        49.48 
TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 
       77.79        12.43        49.45        22.98        76.41       120.46 
TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
      117.93        84.72        10.09        64.41        62.76        39.58 

  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
             31.59               2.56 
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
            215.44             345.96 
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
             58.75              47.46 
[1] "31.6 - 215.4 (58.8)" "2.6 - 346.0 (47.5)" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
  "12Q GAIN MUTATED" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED"   "12Q GAIN MUTATED" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
  "12Q GAIN MUTATED" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED" 
        TCGA-GN-A26D 
"12Q GAIN WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
  "12Q GAIN MUTATED" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED"   "12Q GAIN MUTATED" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
  "12Q GAIN MUTATED" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED" 
        TCGA-GN-A26D 
"12Q GAIN WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
  "12Q GAIN MUTATED" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED"   "12Q GAIN MUTATED" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
  "12Q GAIN MUTATED" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"12Q GAIN WILD-TYPE" "12Q GAIN WILD-TYPE"   "12Q GAIN MUTATED" 
        TCGA-GN-A26D 
"12Q GAIN WILD-TYPE" 
[1] "hr=" "1.1"
D22V2, continuous
D22V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  12Q GAIN MUTATED      2    5
  12Q GAIN WILD-TYPE   33  107
                                                                                          clus
vv                                                                                         12Q GAIN MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                2
  REGIONAL LYMPH NODE                                                                                     5
                                                                                          clus
vv                                                                                         12Q GAIN WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                 33
  REGIONAL LYMPH NODE                                                                                     107
D22V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  12Q GAIN MUTATED      1    6
  12Q GAIN WILD-TYPE   51   89
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  FEMALE                1                 51
  MALE                  6                 89
                    vv
clus                  M0  M1 M1A M1B M1C
  12Q GAIN MUTATED     6   0   0   0   0
  12Q GAIN WILD-TYPE 122   1   2   2   1
D22V5, multiclass
                    vv
clus                 N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  12Q GAIN MUTATED    1  0   2   1  0   1   0   0  1  0
  12Q GAIN WILD-TYPE 76  2   4  11  1   3  11   4 15  2
D22V6, multiclass
D22V7, continuous
                    vv
clus                 I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  12Q GAIN MUTATED             0       0        1        0        0         0
  12Q GAIN WILD-TYPE           1      16        7       13       17         7
                    vv
clus                 STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  12Q GAIN MUTATED           0         0         1          2          1
  12Q GAIN WILD-TYPE         8         4         7          3         15
                    vv
clus                 STAGE IIIC STAGE IV
  12Q GAIN MUTATED            1        0
  12Q GAIN WILD-TYPE         20        4
D22V8, multiclass

Clustering(23) Variable = 13q gain mutation analysis
D23V1, survival
                    sevent
clus2                 0  1
  13Q GAIN MUTATED    8 13
  13Q GAIN WILD-TYPE 68 56
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
                21                124 
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
                13                 56 
$`13Q GAIN MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A3CE TCGA-DA-A1I7 TCGA-DA-A3F3 TCGA-EE-A29P TCGA-EE-A29R 
       16.57        60.23        61.18        10.49        56.42        14.47 
TCGA-EE-A2A5 TCGA-EE-A2GB TCGA-EE-A2GM TCGA-EE-A2GN TCGA-EE-A2GP TCGA-EE-A3AF 
       39.25        47.54        75.48        90.94        13.87        13.81 
TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A3PL TCGA-FS-A1YW TCGA-FS-A1Z7 
      131.08        61.05        44.05        33.21       216.92         7.76 
TCGA-FS-A1ZJ TCGA-GN-A267 TCGA-GN-A268 
       47.38        64.41        62.76 

$`13Q GAIN WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
      112.54        71.80       121.22        28.08        31.59        43.40 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC 
       65.49        23.77        11.87        12.10        58.03        71.24 
TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A148 TCGA-D9-A149 TCGA-D9-A1JW 
       24.53         9.30        21.47       148.31        49.74         2.70 
TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
        6.38        11.34         3.22        48.89        36.03       117.17 
TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I8 TCGA-DA-A1IB 
       20.38       194.83       176.55        35.93        53.92        23.44 
TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z 
       68.09        28.60       215.44        15.68        29.82         8.65 
TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29C 
       33.73        26.86         4.93       109.64        78.87        47.84 
TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29Q 
       13.97        39.62        32.19         2.56        18.58        37.35 
TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 
       55.89       345.96        17.92        46.82        78.94        24.43 
TCGA-EE-A2A6 TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GH TCGA-EE-A2GI 
       58.75        43.23       314.53       135.91       182.01        22.55 
TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GO TCGA-EE-A2GR TCGA-EE-A2GS 
       89.33        54.71        55.00       101.95        14.30        55.59 
TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 TCGA-EE-A2M6 TCGA-EE-A2M7 TCGA-EE-A2M8 
       19.56        67.13        21.67       129.24        28.80        19.76 
TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MI 
       61.51        47.28       103.27       103.17        16.96       204.62 
TCGA-EE-A2MJ TCGA-EE-A2MK TCGA-EE-A2ML TCGA-EE-A2MM TCGA-EE-A2MN TCGA-EE-A2MP 
       96.23       144.76       203.01       167.87        47.54       248.61 
TCGA-EE-A2MQ TCGA-EE-A2MR TCGA-EE-A2MS TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA 
       43.23       103.56       136.44        41.59        53.26         4.24 
TCGA-EE-A3AB TCGA-EE-A3AC TCGA-EE-A3AD TCGA-EE-A3AE TCGA-EE-A3AG TCGA-EE-A3AH 
      122.73        25.84         3.68        26.73        23.47       138.77 
TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-FR-A3YN 
       12.59        26.37         6.41        79.99        80.32        80.48 
TCGA-FR-A44A TCGA-FS-A1YX TCGA-FS-A1Z4 TCGA-FS-A1ZD TCGA-FS-A1ZG TCGA-FS-A1ZH 
      160.60        48.59        28.08        53.52         9.70        32.71 
TCGA-FS-A1ZM TCGA-FS-A1ZP TCGA-FS-A1ZR TCGA-FS-A1ZS TCGA-FS-A1ZW TCGA-FS-A4F0 
      101.26        74.73        11.41       148.77        49.48        77.79 
TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 
       12.43        49.45        22.98        76.41       120.46       117.93 
TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A26A TCGA-GN-A26D 
       84.72        10.09        32.48        39.58 

  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
              7.76               2.56 
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
            216.92             345.96 
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
             47.54              47.69 
[1] "7.8 - 216.9 (47.5)" "2.6 - 346.0 (47.7)"
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
  "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
  "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
  "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
  "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
  "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
  "13Q GAIN MUTATED"   "13Q GAIN MUTATED"   "13Q GAIN MUTATED" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
  "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
  "13Q GAIN MUTATED"   "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" 
        TCGA-GN-A26D 
"13Q GAIN WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
  "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
  "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
  "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
  "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
  "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
  "13Q GAIN MUTATED"   "13Q GAIN MUTATED"   "13Q GAIN MUTATED" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
  "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
  "13Q GAIN MUTATED"   "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" 
        TCGA-GN-A26D 
"13Q GAIN WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
  "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
  "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
  "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
  "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
  "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
  "13Q GAIN MUTATED"   "13Q GAIN MUTATED"   "13Q GAIN MUTATED" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE"   "13Q GAIN MUTATED" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
  "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
  "13Q GAIN MUTATED"   "13Q GAIN MUTATED" "13Q GAIN WILD-TYPE" 
        TCGA-GN-A26D 
"13Q GAIN WILD-TYPE" 
[1] "hr=" "1.5"
D23V2, continuous
D23V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  13Q GAIN MUTATED      6   15
  13Q GAIN WILD-TYPE   29   97
                                                                                          clus
vv                                                                                         13Q GAIN MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                6
  REGIONAL LYMPH NODE                                                                                    15
                                                                                          clus
vv                                                                                         13Q GAIN WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                 29
  REGIONAL LYMPH NODE                                                                                      97
D23V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  13Q GAIN MUTATED      8   13
  13Q GAIN WILD-TYPE   44   82
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  FEMALE                8                 44
  MALE                 13                 82
                    vv
clus                  M0  M1 M1A M1B M1C
  13Q GAIN MUTATED    17   0   1   0   0
  13Q GAIN WILD-TYPE 111   1   1   2   1
D23V5, multiclass
                    vv
clus                 N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  13Q GAIN MUTATED    9  0   3   3  0   0   2   0  1  0
  13Q GAIN WILD-TYPE 68  2   3   9  1   4   9   4 15  2
D23V6, multiclass
D23V7, continuous
                    vv
clus                 I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  13Q GAIN MUTATED             0       1        0        3        0         1
  13Q GAIN WILD-TYPE           1      15        8       10       17         6
                    vv
clus                 STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  13Q GAIN MUTATED           1         2         1          2          3
  13Q GAIN WILD-TYPE         7         2         7          3         13
                    vv
clus                 STAGE IIIC STAGE IV
  13Q GAIN MUTATED            3        1
  13Q GAIN WILD-TYPE         18        3
D23V8, multiclass

Clustering(24) Variable = 14q gain mutation analysis
D24V1, survival
                    sevent
clus2                 0  1
  14Q GAIN MUTATED    6  6
  14Q GAIN WILD-TYPE 70 63
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
                12                133 
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
                 6                 63 
$`14Q GAIN MUTATED`
TCGA-D3-A1Q9 TCGA-DA-A1I2 TCGA-DA-A1I7 TCGA-EE-A29L TCGA-EE-A2GH TCGA-EE-A2GM 
       31.59       176.55        61.18         2.56       182.01        75.48 
TCGA-EE-A2GO TCGA-EE-A3AE TCGA-ER-A19L TCGA-ER-A19M TCGA-FS-A1ZP TCGA-GN-A26D 
      101.95        26.73       131.08        61.05        74.73        39.58 

$`14Q GAIN WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J6 
       16.57       112.54        71.80       121.22        28.08        43.40 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC 
       65.49        23.77        11.87        12.10        58.03        71.24 
TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A148 TCGA-D9-A149 
       60.23        24.53         9.30        21.47       148.31        49.74 
TCGA-D9-A1JW TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW 
        2.70         6.38        11.34         3.22        48.89        36.03 
TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I4 TCGA-DA-A1I8 TCGA-DA-A1IB 
      117.17        20.38       194.83        35.93        53.92        23.44 
TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X 
       68.09        28.60        10.49       215.44        15.68        29.82 
TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F 
        8.65        33.73        26.86         4.93       109.64        78.87 
TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29N TCGA-EE-A29P 
       47.84        13.97        39.62        32.19        18.58        56.42 
TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 
       37.35        14.47        55.89       345.96        17.92        46.82 
TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-EE-A2GB TCGA-EE-A2GC 
       78.94        24.43        39.25        58.75        47.54        43.23 
TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GI TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL 
      314.53       135.91        22.55        89.33        54.71        55.00 
TCGA-EE-A2GN TCGA-EE-A2GP TCGA-EE-A2GR TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2GU 
       90.94        13.87        14.30        55.59        19.56        67.13 
TCGA-EE-A2M5 TCGA-EE-A2M6 TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD 
       21.67       129.24        28.80        19.76        61.51        47.28 
TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2MK 
      103.27       103.17        16.96       204.62        96.23       144.76 
TCGA-EE-A2ML TCGA-EE-A2MM TCGA-EE-A2MN TCGA-EE-A2MP TCGA-EE-A2MQ TCGA-EE-A2MR 
      203.01       167.87        47.54       248.61        43.23       103.56 
TCGA-EE-A2MS TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AC 
      136.44        41.59        53.26         4.24       122.73        25.84 
TCGA-EE-A3AD TCGA-EE-A3AF TCGA-EE-A3AG TCGA-EE-A3AH TCGA-ER-A19D TCGA-ER-A19F 
        3.68        13.81        23.47       138.77        12.59        26.37 
TCGA-ER-A19J TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN 
        6.41        44.05        79.99        80.32        33.21        80.48 
TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1Z4 TCGA-FS-A1Z7 TCGA-FS-A1ZD 
      160.60       216.92        48.59        28.08         7.76        53.52 
TCGA-FS-A1ZG TCGA-FS-A1ZH TCGA-FS-A1ZJ TCGA-FS-A1ZM TCGA-FS-A1ZR TCGA-FS-A1ZS 
        9.70        32.71        47.38       101.26        11.41       148.77 
TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 
       49.48        77.79        12.43        49.45        22.98        76.41 
TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A268 
      120.46       117.93        84.72        10.09        64.41        62.76 
TCGA-GN-A26A 
       32.48 

  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
              2.56               2.70 
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
            182.01             345.96 
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
            67.955             47.380 
[1] "2.6 - 182.0 (68.0)" "2.7 - 346.0 (47.4)"
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" "14Q GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
  "14Q GAIN MUTATED" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
  "14Q GAIN MUTATED" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
  "14Q GAIN MUTATED"   "14Q GAIN MUTATED" "14Q GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-GN-A26D 
  "14Q GAIN MUTATED" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" "14Q GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
  "14Q GAIN MUTATED" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
  "14Q GAIN MUTATED" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
  "14Q GAIN MUTATED"   "14Q GAIN MUTATED" "14Q GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-GN-A26D 
  "14Q GAIN MUTATED" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" "14Q GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
  "14Q GAIN MUTATED" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
  "14Q GAIN MUTATED" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
  "14Q GAIN MUTATED"   "14Q GAIN MUTATED" "14Q GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE"   "14Q GAIN MUTATED" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-GN-A26D 
  "14Q GAIN MUTATED" 
[1] "hr=" "1.2"
D24V2, continuous
D24V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  14Q GAIN MUTATED      3    9
  14Q GAIN WILD-TYPE   32  103
                                                                                          clus
vv                                                                                         14Q GAIN MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                3
  REGIONAL LYMPH NODE                                                                                     9
                                                                                          clus
vv                                                                                         14Q GAIN WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                 32
  REGIONAL LYMPH NODE                                                                                     103
D24V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  14Q GAIN MUTATED      4    8
  14Q GAIN WILD-TYPE   48   87
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  FEMALE                4                 48
  MALE                  8                 87
                    vv
clus                  M0  M1 M1A M1B M1C
  14Q GAIN MUTATED    10   0   0   0   0
  14Q GAIN WILD-TYPE 118   1   2   2   1
D24V5, multiclass
                    vv
clus                 N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  14Q GAIN MUTATED    7  0   0   0  0   1   2   0  1  0
  14Q GAIN WILD-TYPE 70  2   6  12  1   3   9   4 15  2
D24V6, multiclass
D24V7, continuous
                    vv
clus                 I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  14Q GAIN MUTATED             0       1        1        1        2         0
  14Q GAIN WILD-TYPE           1      15        7       12       15         7
                    vv
clus                 STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  14Q GAIN MUTATED           0         2         0          0          2
  14Q GAIN WILD-TYPE         8         2         8          5         14
                    vv
clus                 STAGE IIIC STAGE IV
  14Q GAIN MUTATED            2        0
  14Q GAIN WILD-TYPE         19        4
D24V8, multiclass

Clustering(25) Variable = 15q gain mutation analysis
D25V1, survival
                    sevent
clus2                 0  1
  15Q GAIN MUTATED   10 11
  15Q GAIN WILD-TYPE 66 58
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                21                124 
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                11                 58 
$`15Q GAIN MUTATED`
TCGA-D3-A1Q5 TCGA-D3-A1Q9 TCGA-D3-A2J9 TCGA-D3-A3CE TCGA-D3-A3MV TCGA-D9-A149 
      112.54        31.59        23.77        60.23        21.47        49.74 
TCGA-DA-A1HW TCGA-DA-A1I7 TCGA-DA-A3F5 TCGA-EE-A183 TCGA-EE-A29D TCGA-EE-A2A1 
       36.03        61.18       215.44        26.86        13.97        78.94 
TCGA-EE-A2GM TCGA-EE-A2GO TCGA-EE-A2M6 TCGA-EE-A2MN TCGA-EE-A3AE TCGA-ER-A19M 
       75.48       101.95       129.24        47.54        26.73        61.05 
TCGA-FR-A44A TCGA-FS-A1ZD TCGA-GN-A264 
      160.60        53.52       117.93 

$`15Q GAIN WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J6 TCGA-D3-A2J8 
       16.57        71.80       121.22        28.08        43.40        65.49 
TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CF TCGA-D3-A3MO 
       11.87        12.10        58.03        71.24        24.53         9.30 
TCGA-D9-A148 TCGA-D9-A1JW TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV 
      148.31         2.70         6.38        11.34         3.22        48.89 
TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I8 
      117.17        20.38       194.83       176.55        35.93        53.92 
TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F8 TCGA-EE-A17X 
       23.44        68.09        28.60        10.49        15.68        29.82 
TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29C 
        8.65        33.73         4.93       109.64        78.87        47.84 
TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q 
       39.62        32.19         2.56        18.58        56.42        37.35 
TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A2 
       14.47        55.89       345.96        17.92        46.82        24.43 
TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-EE-A2GB TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GE 
       39.25        58.75        47.54        43.23       314.53       135.91 
TCGA-EE-A2GH TCGA-EE-A2GI TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GN 
      182.01        22.55        89.33        54.71        55.00        90.94 
TCGA-EE-A2GP TCGA-EE-A2GR TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 
       13.87        14.30        55.59        19.56        67.13        21.67 
TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME TCGA-EE-A2MG 
       28.80        19.76        61.51        47.28       103.27       103.17 
TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2MK TCGA-EE-A2ML TCGA-EE-A2MM 
       16.96       204.62        96.23       144.76       203.01       167.87 
TCGA-EE-A2MP TCGA-EE-A2MQ TCGA-EE-A2MR TCGA-EE-A2MS TCGA-EE-A2MT TCGA-EE-A2MU 
      248.61        43.23       103.56       136.44        41.59        53.26 
TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AC TCGA-EE-A3AD TCGA-EE-A3AF TCGA-EE-A3AG 
        4.24       122.73        25.84         3.68        13.81        23.47 
TCGA-EE-A3AH TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19N 
      138.77        12.59        26.37         6.41       131.08        44.05 
TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FS-A1YW TCGA-FS-A1YX 
       79.99        80.32        33.21        80.48       216.92        48.59 
TCGA-FS-A1Z4 TCGA-FS-A1Z7 TCGA-FS-A1ZG TCGA-FS-A1ZH TCGA-FS-A1ZJ TCGA-FS-A1ZM 
       28.08         7.76         9.70        32.71        47.38       101.26 
TCGA-FS-A1ZP TCGA-FS-A1ZR TCGA-FS-A1ZS TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 
       74.73        11.41       148.77        49.48        77.79        12.43 
TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A265 TCGA-GN-A266 
       49.45        22.98        76.41       120.46        84.72        10.09 
TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       64.41        62.76        32.48        39.58 

  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
             13.97               2.56 
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
            215.44             345.96 
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
             60.23              47.05 
[1] "14.0 - 215.4 (60.2)" "2.6 - 346.0 (47.0)" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
  "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
  "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
  "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
  "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
  "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
  "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
  "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-GN-A26D 
"15Q GAIN WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
  "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
  "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
  "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
  "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
  "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
  "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
  "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-GN-A26D 
"15Q GAIN WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
  "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
  "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
  "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
  "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
  "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"15Q GAIN WILD-TYPE"   "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
  "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
  "15Q GAIN MUTATED" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-GN-A26D 
"15Q GAIN WILD-TYPE" 
[1] "hr=" "1"  
D25V2, continuous
D25V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  15Q GAIN MUTATED      5   16
  15Q GAIN WILD-TYPE   30   96
                                                                                          clus
vv                                                                                         15Q GAIN MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                5
  REGIONAL LYMPH NODE                                                                                    16
                                                                                          clus
vv                                                                                         15Q GAIN WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                 30
  REGIONAL LYMPH NODE                                                                                      96
D25V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  15Q GAIN MUTATED      8   13
  15Q GAIN WILD-TYPE   44   82
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  FEMALE                8                 44
  MALE                 13                 82
                    vv
clus                  M0  M1 M1A M1B M1C
  15Q GAIN MUTATED    20   0   0   0   0
  15Q GAIN WILD-TYPE 108   1   2   2   1
D25V5, multiclass
                    vv
clus                 N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  15Q GAIN MUTATED   11  0   0   4  0   2   1   0  2  0
  15Q GAIN WILD-TYPE 66  2   6   8  1   2  10   4 14  2
D25V6, multiclass
D25V7, continuous
                    vv
clus                 I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  15Q GAIN MUTATED             1       3        1        2        2         1
  15Q GAIN WILD-TYPE           0      13        7       11       15         6
                    vv
clus                 STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  15Q GAIN MUTATED           0         1         1          0          4
  15Q GAIN WILD-TYPE         8         3         7          5         12
                    vv
clus                 STAGE IIIC STAGE IV
  15Q GAIN MUTATED            3        0
  15Q GAIN WILD-TYPE         18        4
D25V8, multiclass

Clustering(26) Variable = 16p gain mutation analysis
D26V1, survival
                    sevent
clus2                 0  1
  16P GAIN MUTATED    6  6
  16P GAIN WILD-TYPE 70 63
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
                12                133 
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
                 6                 63 
$`16P GAIN MUTATED`
TCGA-D3-A1Q6 TCGA-D3-A3CE TCGA-EE-A29R TCGA-EE-A2A5 TCGA-EE-A2GB TCGA-EE-A2GM 
       71.80        60.23        14.47        39.25        47.54        75.48 
TCGA-EE-A2GN TCGA-EE-A2M6 TCGA-EE-A3AE TCGA-ER-A19D TCGA-ER-A19M TCGA-FS-A1ZP 
       90.94       129.24        26.73        12.59        61.05        74.73 

$`16P GAIN WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.57       112.54       121.22        28.08        31.59        43.40 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC 
       65.49        23.77        11.87        12.10        58.03        71.24 
TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A148 TCGA-D9-A149 TCGA-D9-A1JW 
       24.53         9.30        21.47       148.31        49.74         2.70 
TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
        6.38        11.34         3.22        48.89        36.03       117.17 
TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 
       20.38       194.83       176.55        35.93        61.18        53.92 
TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 
       23.44        68.09        28.60        10.49       215.44        15.68 
TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B 
       29.82         8.65        33.73        26.86         4.93       109.64 
TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L 
       78.87        47.84        13.97        39.62        32.19         2.56 
TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X 
       18.58        56.42        37.35        55.89       345.96        17.92 
TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-EE-A2GC TCGA-EE-A2GD 
       46.82        78.94        24.43        58.75        43.23       314.53 
TCGA-EE-A2GE TCGA-EE-A2GH TCGA-EE-A2GI TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL 
      135.91       182.01        22.55        89.33        54.71        55.00 
TCGA-EE-A2GO TCGA-EE-A2GP TCGA-EE-A2GR TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2GU 
      101.95        13.87        14.30        55.59        19.56        67.13 
TCGA-EE-A2M5 TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME 
       21.67        28.80        19.76        61.51        47.28       103.27 
TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2MK TCGA-EE-A2ML 
      103.17        16.96       204.62        96.23       144.76       203.01 
TCGA-EE-A2MM TCGA-EE-A2MN TCGA-EE-A2MP TCGA-EE-A2MQ TCGA-EE-A2MR TCGA-EE-A2MS 
      167.87        47.54       248.61        43.23       103.56       136.44 
TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AC TCGA-EE-A3AD 
       41.59        53.26         4.24       122.73        25.84         3.68 
TCGA-EE-A3AF TCGA-EE-A3AG TCGA-EE-A3AH TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L 
       13.81        23.47       138.77        26.37         6.41       131.08 
TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A 
       44.05        79.99        80.32        33.21        80.48       160.60 
TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1Z4 TCGA-FS-A1Z7 TCGA-FS-A1ZD TCGA-FS-A1ZG 
      216.92        48.59        28.08         7.76        53.52         9.70 
TCGA-FS-A1ZH TCGA-FS-A1ZJ TCGA-FS-A1ZM TCGA-FS-A1ZR TCGA-FS-A1ZS TCGA-FS-A1ZW 
       32.71        47.38       101.26        11.41       148.77        49.48 
TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 
       77.79        12.43        49.45        22.98        76.41       120.46 
TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A 
      117.93        84.72        10.09        64.41        62.76        32.48 
TCGA-GN-A26D 
       39.58 

  16P GAIN MUTATED 16P GAIN WILD-TYPE 
             12.59               2.56 
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
            129.24             345.96 
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
             60.64              47.38 
[1] "12.6 - 129.2 (60.6)" "2.6 - 346.0 (47.4)" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE"   "16P GAIN MUTATED" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"16P GAIN WILD-TYPE"   "16P GAIN MUTATED" "16P GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE"   "16P GAIN MUTATED" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
  "16P GAIN MUTATED" "16P GAIN WILD-TYPE"   "16P GAIN MUTATED" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE"   "16P GAIN MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
  "16P GAIN MUTATED" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE"   "16P GAIN MUTATED" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE"   "16P GAIN MUTATED" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
  "16P GAIN MUTATED" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"16P GAIN WILD-TYPE"   "16P GAIN MUTATED" "16P GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE"   "16P GAIN MUTATED" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-GN-A26D 
"16P GAIN WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE"   "16P GAIN MUTATED" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"16P GAIN WILD-TYPE"   "16P GAIN MUTATED" "16P GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE"   "16P GAIN MUTATED" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
  "16P GAIN MUTATED" "16P GAIN WILD-TYPE"   "16P GAIN MUTATED" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE"   "16P GAIN MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
  "16P GAIN MUTATED" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE"   "16P GAIN MUTATED" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE"   "16P GAIN MUTATED" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
  "16P GAIN MUTATED" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"16P GAIN WILD-TYPE"   "16P GAIN MUTATED" "16P GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE"   "16P GAIN MUTATED" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-GN-A26D 
"16P GAIN WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE"   "16P GAIN MUTATED" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"16P GAIN WILD-TYPE"   "16P GAIN MUTATED" "16P GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE"   "16P GAIN MUTATED" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
  "16P GAIN MUTATED" "16P GAIN WILD-TYPE"   "16P GAIN MUTATED" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE"   "16P GAIN MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
  "16P GAIN MUTATED" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE"   "16P GAIN MUTATED" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE"   "16P GAIN MUTATED" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
  "16P GAIN MUTATED" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"16P GAIN WILD-TYPE"   "16P GAIN MUTATED" "16P GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE"   "16P GAIN MUTATED" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-GN-A26D 
"16P GAIN WILD-TYPE" 
[1] "hr=" "1.1"
D26V2, continuous
D26V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  16P GAIN MUTATED      5    7
  16P GAIN WILD-TYPE   30  105
                                                                                          clus
vv                                                                                         16P GAIN MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                5
  REGIONAL LYMPH NODE                                                                                     7
                                                                                          clus
vv                                                                                         16P GAIN WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                 30
  REGIONAL LYMPH NODE                                                                                     105
D26V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  16P GAIN MUTATED      5    7
  16P GAIN WILD-TYPE   47   88
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  FEMALE                5                 47
  MALE                  7                 88
                    vv
clus                  M0  M1 M1A M1B M1C
  16P GAIN MUTATED    12   0   0   0   0
  16P GAIN WILD-TYPE 116   1   2   2   1
D26V5, multiclass
                    vv
clus                 N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  16P GAIN MUTATED    8  0   1   3  0   0   0   0  0  0
  16P GAIN WILD-TYPE 69  2   5   9  1   4  11   4 16  2
D26V6, multiclass
D26V7, continuous
                    vv
clus                 I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  16P GAIN MUTATED             0       1        1        3        1         1
  16P GAIN WILD-TYPE           1      15        7       10       16         6
                    vv
clus                 STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  16P GAIN MUTATED           0         1         2          1          0
  16P GAIN WILD-TYPE         8         3         6          4         16
                    vv
clus                 STAGE IIIC STAGE IV
  16P GAIN MUTATED            1        0
  16P GAIN WILD-TYPE         20        4
D26V8, multiclass

Clustering(27) Variable = 16q gain mutation analysis
D27V1, survival
                    sevent
clus2                 0  1
  16Q GAIN MUTATED    5  4
  16Q GAIN WILD-TYPE 71 65
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
                 9                136 
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
                 4                 65 
$`16Q GAIN MUTATED`
TCGA-D3-A1Q6 TCGA-D3-A3CE TCGA-EE-A29R TCGA-EE-A2GB TCGA-EE-A2GM TCGA-EE-A2GN 
       71.80        60.23        14.47        47.54        75.48        90.94 
TCGA-EE-A2M6 TCGA-ER-A19D TCGA-ER-A19M 
      129.24        12.59        61.05 

$`16Q GAIN WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.57       112.54       121.22        28.08        31.59        43.40 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC 
       65.49        23.77        11.87        12.10        58.03        71.24 
TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A148 TCGA-D9-A149 TCGA-D9-A1JW 
       24.53         9.30        21.47       148.31        49.74         2.70 
TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
        6.38        11.34         3.22        48.89        36.03       117.17 
TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 
       20.38       194.83       176.55        35.93        61.18        53.92 
TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 
       23.44        68.09        28.60        10.49       215.44        15.68 
TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B 
       29.82         8.65        33.73        26.86         4.93       109.64 
TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L 
       78.87        47.84        13.97        39.62        32.19         2.56 
TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X 
       18.58        56.42        37.35        55.89       345.96        17.92 
TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-EE-A2GC 
       46.82        78.94        24.43        39.25        58.75        43.23 
TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GH TCGA-EE-A2GI TCGA-EE-A2GJ TCGA-EE-A2GK 
      314.53       135.91       182.01        22.55        89.33        54.71 
TCGA-EE-A2GL TCGA-EE-A2GO TCGA-EE-A2GP TCGA-EE-A2GR TCGA-EE-A2GS TCGA-EE-A2GT 
       55.00       101.95        13.87        14.30        55.59        19.56 
TCGA-EE-A2GU TCGA-EE-A2M5 TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD 
       67.13        21.67        28.80        19.76        61.51        47.28 
TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2MK 
      103.27       103.17        16.96       204.62        96.23       144.76 
TCGA-EE-A2ML TCGA-EE-A2MM TCGA-EE-A2MN TCGA-EE-A2MP TCGA-EE-A2MQ TCGA-EE-A2MR 
      203.01       167.87        47.54       248.61        43.23       103.56 
TCGA-EE-A2MS TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AC 
      136.44        41.59        53.26         4.24       122.73        25.84 
TCGA-EE-A3AD TCGA-EE-A3AE TCGA-EE-A3AF TCGA-EE-A3AG TCGA-EE-A3AH TCGA-ER-A19F 
        3.68        26.73        13.81        23.47       138.77        26.37 
TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-ER-A3PL 
        6.41       131.08        44.05        79.99        80.32        33.21 
TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1Z4 TCGA-FS-A1Z7 
       80.48       160.60       216.92        48.59        28.08         7.76 
TCGA-FS-A1ZD TCGA-FS-A1ZG TCGA-FS-A1ZH TCGA-FS-A1ZJ TCGA-FS-A1ZM TCGA-FS-A1ZP 
       53.52         9.70        32.71        47.38       101.26        74.73 
TCGA-FS-A1ZR TCGA-FS-A1ZS TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC 
       11.41       148.77        49.48        77.79        12.43        49.45 
TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 
       22.98        76.41       120.46       117.93        84.72        10.09 
TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       64.41        62.76        32.48        39.58 

  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
             12.59               2.56 
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
            129.24             345.96 
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
             61.05              47.33 
[1] "12.6 - 129.2 (61.0)" "2.6 - 346.0 (47.3)" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" "16Q GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
  "16Q GAIN MUTATED" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
  "16Q GAIN MUTATED" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" "16Q GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-GN-A26D 
"16Q GAIN WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" "16Q GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
  "16Q GAIN MUTATED" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
  "16Q GAIN MUTATED" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" "16Q GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-GN-A26D 
"16Q GAIN WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" "16Q GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
  "16Q GAIN MUTATED" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
  "16Q GAIN MUTATED" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"16Q GAIN WILD-TYPE"   "16Q GAIN MUTATED" "16Q GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-GN-A26D 
"16Q GAIN WILD-TYPE" 
[1] "hr=" "1.1"
D27V2, continuous
D27V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  16Q GAIN MUTATED      4    6
  16Q GAIN WILD-TYPE   31  106
                                                                                          clus
vv                                                                                         16Q GAIN MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                4
  REGIONAL LYMPH NODE                                                                                     6
                                                                                          clus
vv                                                                                         16Q GAIN WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                 31
  REGIONAL LYMPH NODE                                                                                     106
D27V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  16Q GAIN MUTATED      4    6
  16Q GAIN WILD-TYPE   48   89
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  FEMALE                4                 48
  MALE                  6                 89
                    vv
clus                  M0  M1 M1A M1B M1C
  16Q GAIN MUTATED    10   0   0   0   0
  16Q GAIN WILD-TYPE 118   1   2   2   1
D27V5, multiclass
                    vv
clus                 N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  16Q GAIN MUTATED    5  0   1   4  0   0   0   0  0  0
  16Q GAIN WILD-TYPE 72  2   5   8  1   4  11   4 16  2
D27V6, multiclass
D27V7, continuous
                    vv
clus                 I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  16Q GAIN MUTATED             0       1        0        2        0         1
  16Q GAIN WILD-TYPE           1      15        8       11       17         6
                    vv
clus                 STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  16Q GAIN MUTATED           0         1         2          1          1
  16Q GAIN WILD-TYPE         8         3         6          4         15
                    vv
clus                 STAGE IIIC STAGE IV
  16Q GAIN MUTATED            1        0
  16Q GAIN WILD-TYPE         20        4
D27V8, multiclass

Clustering(28) Variable = 17p gain mutation analysis
D28V1, survival
                    sevent
clus2                 0  1
  17P GAIN MUTATED    9  4
  17P GAIN WILD-TYPE 67 65
  17P GAIN MUTATED 17P GAIN WILD-TYPE 
                13                132 
  17P GAIN MUTATED 17P GAIN WILD-TYPE 
                 4                 65 
$`17P GAIN MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A3CE TCGA-D3-A3MV TCGA-DA-A1I7 TCGA-EE-A20F TCGA-EE-A29N 
       16.57        60.23        21.47        61.18        78.87        18.58 
TCGA-EE-A29P TCGA-EE-A2A6 TCGA-EE-A2GM TCGA-EE-A3AG TCGA-ER-A3PL TCGA-FS-A1ZD 
       56.42        58.75        75.48        23.47        33.21        53.52 
TCGA-GN-A26D 
       39.58 

$`17P GAIN WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
      112.54        71.80       121.22        28.08        31.59        43.40 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC 
       65.49        23.77        11.87        12.10        58.03        71.24 
TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D9-A148 TCGA-D9-A149 TCGA-D9-A1JW TCGA-D9-A1JX 
       24.53         9.30       148.31        49.74         2.70         6.38 
TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I0 
       11.34         3.22        48.89        36.03       117.17        20.38 
TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC 
      194.83       176.55        35.93        53.92        23.44        68.09 
TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z 
       28.60        10.49       215.44        15.68        29.82         8.65 
TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A29C TCGA-EE-A29D 
       33.73        26.86         4.93       109.64        47.84        13.97 
TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S 
       39.62        32.19         2.56        37.35        14.47        55.89 
TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 
      345.96        17.92        46.82        78.94        24.43        39.25 
TCGA-EE-A2GB TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GH TCGA-EE-A2GI 
       47.54        43.23       314.53       135.91       182.01        22.55 
TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GN TCGA-EE-A2GO TCGA-EE-A2GP 
       89.33        54.71        55.00        90.94       101.95        13.87 
TCGA-EE-A2GR TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 TCGA-EE-A2M6 
       14.30        55.59        19.56        67.13        21.67       129.24 
TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME TCGA-EE-A2MG 
       28.80        19.76        61.51        47.28       103.27       103.17 
TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2MK TCGA-EE-A2ML TCGA-EE-A2MM 
       16.96       204.62        96.23       144.76       203.01       167.87 
TCGA-EE-A2MN TCGA-EE-A2MP TCGA-EE-A2MQ TCGA-EE-A2MR TCGA-EE-A2MS TCGA-EE-A2MT 
       47.54       248.61        43.23       103.56       136.44        41.59 
TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AC TCGA-EE-A3AD TCGA-EE-A3AE 
       53.26         4.24       122.73        25.84         3.68        26.73 
TCGA-EE-A3AF TCGA-EE-A3AH TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L 
       13.81       138.77        12.59        26.37         6.41       131.08 
TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-FR-A3YN TCGA-FR-A44A 
       61.05        44.05        79.99        80.32        80.48       160.60 
TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1Z4 TCGA-FS-A1Z7 TCGA-FS-A1ZG TCGA-FS-A1ZH 
      216.92        48.59        28.08         7.76         9.70        32.71 
TCGA-FS-A1ZJ TCGA-FS-A1ZM TCGA-FS-A1ZP TCGA-FS-A1ZR TCGA-FS-A1ZS TCGA-FS-A1ZW 
       47.38       101.26        74.73        11.41       148.77        49.48 
TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 
       77.79        12.43        49.45        22.98        76.41       120.46 
TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A 
      117.93        84.72        10.09        64.41        62.76        32.48 

  17P GAIN MUTATED 17P GAIN WILD-TYPE 
             16.57               2.56 
  17P GAIN MUTATED 17P GAIN WILD-TYPE 
             78.87             345.96 
  17P GAIN MUTATED 17P GAIN WILD-TYPE 
             53.52              47.54 
[1] "16.6 - 78.9 (53.5)" "2.6 - 346.0 (47.5)"
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "17P GAIN MUTATED" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"17P GAIN WILD-TYPE"   "17P GAIN MUTATED" "17P GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"17P GAIN WILD-TYPE"   "17P GAIN MUTATED" "17P GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
  "17P GAIN MUTATED" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE"   "17P GAIN MUTATED" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE"   "17P GAIN MUTATED" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
  "17P GAIN MUTATED" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"17P GAIN WILD-TYPE"   "17P GAIN MUTATED" "17P GAIN WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE"   "17P GAIN MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"17P GAIN WILD-TYPE"   "17P GAIN MUTATED" "17P GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE"   "17P GAIN MUTATED" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
  "17P GAIN MUTATED" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-GN-A26D 
  "17P GAIN MUTATED" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "17P GAIN MUTATED" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"17P GAIN WILD-TYPE"   "17P GAIN MUTATED" "17P GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"17P GAIN WILD-TYPE"   "17P GAIN MUTATED" "17P GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
  "17P GAIN MUTATED" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE"   "17P GAIN MUTATED" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE"   "17P GAIN MUTATED" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
  "17P GAIN MUTATED" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"17P GAIN WILD-TYPE"   "17P GAIN MUTATED" "17P GAIN WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE"   "17P GAIN MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"17P GAIN WILD-TYPE"   "17P GAIN MUTATED" "17P GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE"   "17P GAIN MUTATED" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
  "17P GAIN MUTATED" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-GN-A26D 
  "17P GAIN MUTATED" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "17P GAIN MUTATED" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"17P GAIN WILD-TYPE"   "17P GAIN MUTATED" "17P GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"17P GAIN WILD-TYPE"   "17P GAIN MUTATED" "17P GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
  "17P GAIN MUTATED" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE"   "17P GAIN MUTATED" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE"   "17P GAIN MUTATED" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
  "17P GAIN MUTATED" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"17P GAIN WILD-TYPE"   "17P GAIN MUTATED" "17P GAIN WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE"   "17P GAIN MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"17P GAIN WILD-TYPE"   "17P GAIN MUTATED" "17P GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE"   "17P GAIN MUTATED" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
  "17P GAIN MUTATED" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-GN-A26D 
  "17P GAIN MUTATED" 
[1] "hr=" "1.3"
D28V2, continuous
D28V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  17P GAIN MUTATED      5    8
  17P GAIN WILD-TYPE   30  104
                                                                                          clus
vv                                                                                         17P GAIN MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                5
  REGIONAL LYMPH NODE                                                                                     8
                                                                                          clus
vv                                                                                         17P GAIN WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                 30
  REGIONAL LYMPH NODE                                                                                     104
D28V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  17P GAIN MUTATED      6    7
  17P GAIN WILD-TYPE   46   88
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  FEMALE                6                 46
  MALE                  7                 88
                    vv
clus                  M0  M1 M1A M1B M1C
  17P GAIN MUTATED    10   0   1   0   0
  17P GAIN WILD-TYPE 118   1   1   2   1
D28V5, multiclass
                    vv
clus                 N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  17P GAIN MUTATED    8  0   0   1  0   1   1   0  1  0
  17P GAIN WILD-TYPE 69  2   6  11  1   3  10   4 15  2
D28V6, multiclass
D28V7, continuous
                    vv
clus                 I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  17P GAIN MUTATED             0       0        1        0        1         1
  17P GAIN WILD-TYPE           1      16        7       13       16         6
                    vv
clus                 STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  17P GAIN MUTATED           0         3         1          0          2
  17P GAIN WILD-TYPE         8         1         7          5         14
                    vv
clus                 STAGE IIIC STAGE IV
  17P GAIN MUTATED            1        1
  17P GAIN WILD-TYPE         20        3
D28V8, multiclass

Clustering(29) Variable = 17q gain mutation analysis
D29V1, survival
                    sevent
clus2                 0  1
  17Q GAIN MUTATED   11 10
  17Q GAIN WILD-TYPE 65 59
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
                21                124 
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
                10                 59 
$`17Q GAIN MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A2JD TCGA-D3-A3CE TCGA-D3-A3MV TCGA-D9-A1JW TCGA-DA-A1I7 
       16.57        11.87        60.23        21.47         2.70        61.18 
TCGA-DA-A1IC TCGA-EE-A181 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29N TCGA-EE-A29P 
       68.09        33.73         4.93        78.87        18.58        56.42 
TCGA-EE-A2A6 TCGA-EE-A2GM TCGA-EE-A2MD TCGA-EE-A3AC TCGA-ER-A3PL TCGA-FR-A3YN 
       58.75        75.48        47.28        25.84        33.21        80.48 
TCGA-FS-A1ZD TCGA-GN-A268 TCGA-GN-A26D 
       53.52        62.76        39.58 

$`17Q GAIN WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
      112.54        71.80       121.22        28.08        31.59        43.40 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CF 
       65.49        23.77        12.10        58.03        71.24        24.53 
TCGA-D3-A3MO TCGA-D9-A148 TCGA-D9-A149 TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 
        9.30       148.31        49.74         6.38        11.34         3.22 
TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 
       48.89        36.03       117.17        20.38       194.83       176.55 
TCGA-DA-A1I4 TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 
       35.93        53.92        23.44        28.60        10.49       215.44 
TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A183 TCGA-EE-A20B TCGA-EE-A29C 
       15.68        29.82         8.65        26.86       109.64        47.84 
TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29Q TCGA-EE-A29R 
       13.97        39.62        32.19         2.56        37.35        14.47 
TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 
       55.89       345.96        17.92        46.82        78.94        24.43 
TCGA-EE-A2A5 TCGA-EE-A2GB TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GH 
       39.25        47.54        43.23       314.53       135.91       182.01 
TCGA-EE-A2GI TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GN TCGA-EE-A2GO 
       22.55        89.33        54.71        55.00        90.94       101.95 
TCGA-EE-A2GP TCGA-EE-A2GR TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 
       13.87        14.30        55.59        19.56        67.13        21.67 
TCGA-EE-A2M6 TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2ME TCGA-EE-A2MG 
      129.24        28.80        19.76        61.51       103.27       103.17 
TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2MK TCGA-EE-A2ML TCGA-EE-A2MM 
       16.96       204.62        96.23       144.76       203.01       167.87 
TCGA-EE-A2MN TCGA-EE-A2MP TCGA-EE-A2MQ TCGA-EE-A2MR TCGA-EE-A2MS TCGA-EE-A2MT 
       47.54       248.61        43.23       103.56       136.44        41.59 
TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AD TCGA-EE-A3AE TCGA-EE-A3AF 
       53.26         4.24       122.73         3.68        26.73        13.81 
TCGA-EE-A3AG TCGA-EE-A3AH TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L 
       23.47       138.77        12.59        26.37         6.41       131.08 
TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-FR-A44A TCGA-FS-A1YW 
       61.05        44.05        79.99        80.32       160.60       216.92 
TCGA-FS-A1YX TCGA-FS-A1Z4 TCGA-FS-A1Z7 TCGA-FS-A1ZG TCGA-FS-A1ZH TCGA-FS-A1ZJ 
       48.59        28.08         7.76         9.70        32.71        47.38 
TCGA-FS-A1ZM TCGA-FS-A1ZP TCGA-FS-A1ZR TCGA-FS-A1ZS TCGA-FS-A1ZW TCGA-FS-A4F0 
      101.26        74.73        11.41       148.77        49.48        77.79 
TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 
       12.43        49.45        22.98        76.41       120.46       117.93 
TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A26A 
       84.72        10.09        64.41        32.48 

  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
              2.70               2.56 
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
             80.48             345.96 
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
             47.28              47.69 
[1] "2.7 - 80.5 (47.3)"  "2.6 - 346.0 (47.7)"
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" 
        TCGA-GN-A26D 
  "17Q GAIN MUTATED" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" 
        TCGA-GN-A26D 
  "17Q GAIN MUTATED" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
  "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"17Q GAIN WILD-TYPE"   "17Q GAIN MUTATED" "17Q GAIN WILD-TYPE" 
        TCGA-GN-A26D 
  "17Q GAIN MUTATED" 
[1] "hr=" "1.4"
D29V2, continuous
D29V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  17Q GAIN MUTATED      5   16
  17Q GAIN WILD-TYPE   30   96
                                                                                          clus
vv                                                                                         17Q GAIN MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                5
  REGIONAL LYMPH NODE                                                                                    16
                                                                                          clus
vv                                                                                         17Q GAIN WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                 30
  REGIONAL LYMPH NODE                                                                                      96
D29V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  17Q GAIN MUTATED      9   12
  17Q GAIN WILD-TYPE   43   83
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  FEMALE                9                 43
  MALE                 12                 83
                    vv
clus                  M0  M1 M1A M1B M1C
  17Q GAIN MUTATED    18   0   1   0   0
  17Q GAIN WILD-TYPE 110   1   1   2   1
D29V5, multiclass
                    vv
clus                 N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  17Q GAIN MUTATED   12  0   0   2  0   2   1   1  2  0
  17Q GAIN WILD-TYPE 65  2   6  10  1   2  10   3 14  2
D29V6, multiclass
D29V7, continuous
                    vv
clus                 I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  17Q GAIN MUTATED             0       0        1        1        3         1
  17Q GAIN WILD-TYPE           1      16        7       12       14         6
                    vv
clus                 STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  17Q GAIN MUTATED           1         3         1          0          3
  17Q GAIN WILD-TYPE         7         1         7          5         13
                    vv
clus                 STAGE IIIC STAGE IV
  17Q GAIN MUTATED            3        1
  17Q GAIN WILD-TYPE         18        3
D29V8, multiclass

Clustering(30) Variable = 18p gain mutation analysis
D30V1, survival
                    sevent
clus2                 0  1
  18P GAIN MUTATED   10  9
  18P GAIN WILD-TYPE 66 60
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
                19                126 
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
                 9                 60 
$`18P GAIN MUTATED`
TCGA-D3-A1Q5 TCGA-D3-A1Q9 TCGA-D3-A3CC TCGA-D3-A3CE TCGA-DA-A1I0 TCGA-DA-A1I1 
      112.54        31.59        71.24        60.23        20.38       194.83 
TCGA-EE-A181 TCGA-EE-A29E TCGA-EE-A29L TCGA-EE-A29P TCGA-EE-A2GB TCGA-EE-A2GH 
       33.73        39.62         2.56        56.42        47.54       182.01 
TCGA-EE-A2GM TCGA-EE-A2MP TCGA-EE-A3AD TCGA-FS-A1ZJ TCGA-GN-A267 TCGA-GN-A26A 
       75.48       248.61         3.68        47.38        64.41        32.48 
TCGA-GN-A26D 
       39.58 

$`18P GAIN WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J6 TCGA-D3-A2J8 
       16.57        71.80       121.22        28.08        43.40        65.49 
TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CF TCGA-D3-A3MO 
       23.77        11.87        12.10        58.03        24.53         9.30 
TCGA-D3-A3MV TCGA-D9-A148 TCGA-D9-A149 TCGA-D9-A1JW TCGA-D9-A1JX TCGA-D9-A3Z1 
       21.47       148.31        49.74         2.70         6.38        11.34 
TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I2 TCGA-DA-A1I4 
        3.22        48.89        36.03       117.17       176.55        35.93 
TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 
       61.18        53.92        23.44        68.09        28.60        10.49 
TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A183 TCGA-EE-A185 
      215.44        15.68        29.82         8.65        26.86         4.93 
TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29H TCGA-EE-A29N 
      109.64        78.87        47.84        13.97        32.19        18.58 
TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 
       37.35        14.47        55.89       345.96        17.92        46.82 
TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-EE-A2GC TCGA-EE-A2GD 
       78.94        24.43        39.25        58.75        43.23       314.53 
TCGA-EE-A2GE TCGA-EE-A2GI TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GN 
      135.91        22.55        89.33        54.71        55.00        90.94 
TCGA-EE-A2GO TCGA-EE-A2GP TCGA-EE-A2GR TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2GU 
      101.95        13.87        14.30        55.59        19.56        67.13 
TCGA-EE-A2M5 TCGA-EE-A2M6 TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD 
       21.67       129.24        28.80        19.76        61.51        47.28 
TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2MK 
      103.27       103.17        16.96       204.62        96.23       144.76 
TCGA-EE-A2ML TCGA-EE-A2MM TCGA-EE-A2MN TCGA-EE-A2MQ TCGA-EE-A2MR TCGA-EE-A2MS 
      203.01       167.87        47.54        43.23       103.56       136.44 
TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AC TCGA-EE-A3AE 
       41.59        53.26         4.24       122.73        25.84        26.73 
TCGA-EE-A3AF TCGA-EE-A3AG TCGA-EE-A3AH TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J 
       13.81        23.47       138.77        12.59        26.37         6.41 
TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-ER-A3PL 
      131.08        61.05        44.05        79.99        80.32        33.21 
TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1Z4 TCGA-FS-A1Z7 
       80.48       160.60       216.92        48.59        28.08         7.76 
TCGA-FS-A1ZD TCGA-FS-A1ZG TCGA-FS-A1ZH TCGA-FS-A1ZM TCGA-FS-A1ZP TCGA-FS-A1ZR 
       53.52         9.70        32.71       101.26        74.73        11.41 
TCGA-FS-A1ZS TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 
      148.77        49.48        77.79        12.43        49.45        22.98 
TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A268 
       76.41       120.46       117.93        84.72        10.09        62.76 

  18P GAIN MUTATED 18P GAIN WILD-TYPE 
              2.56               2.70 
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
            248.61             345.96 
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
             47.54              47.69 
[1] "2.6 - 248.6 (47.5)" "2.7 - 346.0 (47.7)"
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"18P GAIN WILD-TYPE"   "18P GAIN MUTATED" "18P GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE"   "18P GAIN MUTATED" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
  "18P GAIN MUTATED"   "18P GAIN MUTATED" "18P GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE"   "18P GAIN MUTATED" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
  "18P GAIN MUTATED" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"18P GAIN WILD-TYPE"   "18P GAIN MUTATED" "18P GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE"   "18P GAIN MUTATED" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"18P GAIN WILD-TYPE"   "18P GAIN MUTATED" "18P GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
  "18P GAIN MUTATED" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE"   "18P GAIN MUTATED" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
  "18P GAIN MUTATED" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE"   "18P GAIN MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"18P GAIN WILD-TYPE"   "18P GAIN MUTATED" "18P GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"18P GAIN WILD-TYPE"   "18P GAIN MUTATED" "18P GAIN WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
  "18P GAIN MUTATED" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
  "18P GAIN MUTATED" "18P GAIN WILD-TYPE"   "18P GAIN MUTATED" 
        TCGA-GN-A26D 
  "18P GAIN MUTATED" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"18P GAIN WILD-TYPE"   "18P GAIN MUTATED" "18P GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE"   "18P GAIN MUTATED" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
  "18P GAIN MUTATED"   "18P GAIN MUTATED" "18P GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE"   "18P GAIN MUTATED" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
  "18P GAIN MUTATED" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"18P GAIN WILD-TYPE"   "18P GAIN MUTATED" "18P GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE"   "18P GAIN MUTATED" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"18P GAIN WILD-TYPE"   "18P GAIN MUTATED" "18P GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
  "18P GAIN MUTATED" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE"   "18P GAIN MUTATED" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
  "18P GAIN MUTATED" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE"   "18P GAIN MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"18P GAIN WILD-TYPE"   "18P GAIN MUTATED" "18P GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"18P GAIN WILD-TYPE"   "18P GAIN MUTATED" "18P GAIN WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
  "18P GAIN MUTATED" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
  "18P GAIN MUTATED" "18P GAIN WILD-TYPE"   "18P GAIN MUTATED" 
        TCGA-GN-A26D 
  "18P GAIN MUTATED" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"18P GAIN WILD-TYPE"   "18P GAIN MUTATED" "18P GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE"   "18P GAIN MUTATED" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
  "18P GAIN MUTATED"   "18P GAIN MUTATED" "18P GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE"   "18P GAIN MUTATED" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
  "18P GAIN MUTATED" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"18P GAIN WILD-TYPE"   "18P GAIN MUTATED" "18P GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE"   "18P GAIN MUTATED" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"18P GAIN WILD-TYPE"   "18P GAIN MUTATED" "18P GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
  "18P GAIN MUTATED" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE"   "18P GAIN MUTATED" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
  "18P GAIN MUTATED" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE"   "18P GAIN MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"18P GAIN WILD-TYPE"   "18P GAIN MUTATED" "18P GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"18P GAIN WILD-TYPE"   "18P GAIN MUTATED" "18P GAIN WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
  "18P GAIN MUTATED" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
  "18P GAIN MUTATED" "18P GAIN WILD-TYPE"   "18P GAIN MUTATED" 
        TCGA-GN-A26D 
  "18P GAIN MUTATED" 
[1] "hr=" "1.1"
D30V2, continuous
D30V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18P GAIN MUTATED      5   14
  18P GAIN WILD-TYPE   30   98
                                                                                          clus
vv                                                                                         18P GAIN MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                5
  REGIONAL LYMPH NODE                                                                                    14
                                                                                          clus
vv                                                                                         18P GAIN WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                 30
  REGIONAL LYMPH NODE                                                                                      98
D30V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18P GAIN MUTATED      9   10
  18P GAIN WILD-TYPE   43   85
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  FEMALE                9                 43
  MALE                 10                 85
                    vv
clus                  M0  M1 M1A M1B M1C
  18P GAIN MUTATED    16   0   1   0   0
  18P GAIN WILD-TYPE 112   1   1   2   1
D30V5, multiclass
                    vv
clus                 N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  18P GAIN MUTATED    9  0   3   2  0   1   0   0  3  0
  18P GAIN WILD-TYPE 68  2   3  10  1   3  11   4 13  2
D30V6, multiclass
D30V7, continuous
                    vv
clus                 I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  18P GAIN MUTATED             1       3        0        0        1         0
  18P GAIN WILD-TYPE           0      13        8       13       16         7
                    vv
clus                 STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  18P GAIN MUTATED           0         4         1          3          2
  18P GAIN WILD-TYPE         8         0         7          2         14
                    vv
clus                 STAGE IIIC STAGE IV
  18P GAIN MUTATED            3        0
  18P GAIN WILD-TYPE         18        4
D30V8, multiclass

Clustering(31) Variable = 18q gain mutation analysis
D31V1, survival
                    sevent
clus2                 0  1
  18Q GAIN MUTATED    6  4
  18Q GAIN WILD-TYPE 70 65
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
                10                135 
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
                 4                 65 
$`18Q GAIN MUTATED`
TCGA-D3-A1Q5 TCGA-D3-A3CC TCGA-DA-A1I1 TCGA-EE-A29L TCGA-EE-A2GH TCGA-EE-A2GM 
      112.54        71.24       194.83         2.56       182.01        75.48 
TCGA-EE-A3AD TCGA-GN-A267 TCGA-GN-A26A TCGA-GN-A26D 
        3.68        64.41        32.48        39.58 

$`18Q GAIN WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.57        71.80       121.22        28.08        31.59        43.40 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
       65.49        23.77        11.87        12.10        58.03        60.23 
TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A148 TCGA-D9-A149 TCGA-D9-A1JW 
       24.53         9.30        21.47       148.31        49.74         2.70 
TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
        6.38        11.34         3.22        48.89        36.03       117.17 
TCGA-DA-A1I0 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IB 
       20.38       176.55        35.93        61.18        53.92        23.44 
TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X 
       68.09        28.60        10.49       215.44        15.68        29.82 
TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F 
        8.65        33.73        26.86         4.93       109.64        78.87 
TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29N TCGA-EE-A29P 
       47.84        13.97        39.62        32.19        18.58        56.42 
TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 
       37.35        14.47        55.89       345.96        17.92        46.82 
TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-EE-A2GB TCGA-EE-A2GC 
       78.94        24.43        39.25        58.75        47.54        43.23 
TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GI TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL 
      314.53       135.91        22.55        89.33        54.71        55.00 
TCGA-EE-A2GN TCGA-EE-A2GO TCGA-EE-A2GP TCGA-EE-A2GR TCGA-EE-A2GS TCGA-EE-A2GT 
       90.94       101.95        13.87        14.30        55.59        19.56 
TCGA-EE-A2GU TCGA-EE-A2M5 TCGA-EE-A2M6 TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC 
       67.13        21.67       129.24        28.80        19.76        61.51 
TCGA-EE-A2MD TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MJ 
       47.28       103.27       103.17        16.96       204.62        96.23 
TCGA-EE-A2MK TCGA-EE-A2ML TCGA-EE-A2MM TCGA-EE-A2MN TCGA-EE-A2MP TCGA-EE-A2MQ 
      144.76       203.01       167.87        47.54       248.61        43.23 
TCGA-EE-A2MR TCGA-EE-A2MS TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AB 
      103.56       136.44        41.59        53.26         4.24       122.73 
TCGA-EE-A3AC TCGA-EE-A3AE TCGA-EE-A3AF TCGA-EE-A3AG TCGA-EE-A3AH TCGA-ER-A19D 
       25.84        26.73        13.81        23.47       138.77        12.59 
TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 
       26.37         6.41       131.08        61.05        44.05        79.99 
TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1YX 
       80.32        33.21        80.48       160.60       216.92        48.59 
TCGA-FS-A1Z4 TCGA-FS-A1Z7 TCGA-FS-A1ZD TCGA-FS-A1ZG TCGA-FS-A1ZH TCGA-FS-A1ZJ 
       28.08         7.76        53.52         9.70        32.71        47.38 
TCGA-FS-A1ZM TCGA-FS-A1ZP TCGA-FS-A1ZR TCGA-FS-A1ZS TCGA-FS-A1ZW TCGA-FS-A4F0 
      101.26        74.73        11.41       148.77        49.48        77.79 
TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 
       12.43        49.45        22.98        76.41       120.46       117.93 
TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A268 
       84.72        10.09        62.76 

  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
              2.56               2.70 
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
            194.83             345.96 
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
            67.825             47.540 
[1] "2.6 - 194.8 (67.8)" "2.7 - 346.0 (47.5)"
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"18Q GAIN WILD-TYPE"   "18Q GAIN MUTATED" "18Q GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
  "18Q GAIN MUTATED" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
  "18Q GAIN MUTATED" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"18Q GAIN WILD-TYPE"   "18Q GAIN MUTATED" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
  "18Q GAIN MUTATED" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE"   "18Q GAIN MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"18Q GAIN WILD-TYPE"   "18Q GAIN MUTATED" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
  "18Q GAIN MUTATED" "18Q GAIN WILD-TYPE"   "18Q GAIN MUTATED" 
        TCGA-GN-A26D 
  "18Q GAIN MUTATED" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"18Q GAIN WILD-TYPE"   "18Q GAIN MUTATED" "18Q GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
  "18Q GAIN MUTATED" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
  "18Q GAIN MUTATED" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"18Q GAIN WILD-TYPE"   "18Q GAIN MUTATED" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
  "18Q GAIN MUTATED" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE"   "18Q GAIN MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"18Q GAIN WILD-TYPE"   "18Q GAIN MUTATED" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
  "18Q GAIN MUTATED" "18Q GAIN WILD-TYPE"   "18Q GAIN MUTATED" 
        TCGA-GN-A26D 
  "18Q GAIN MUTATED" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"18Q GAIN WILD-TYPE"   "18Q GAIN MUTATED" "18Q GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
  "18Q GAIN MUTATED" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
  "18Q GAIN MUTATED" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"18Q GAIN WILD-TYPE"   "18Q GAIN MUTATED" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
  "18Q GAIN MUTATED" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE"   "18Q GAIN MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"18Q GAIN WILD-TYPE"   "18Q GAIN MUTATED" "18Q GAIN WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
  "18Q GAIN MUTATED" "18Q GAIN WILD-TYPE"   "18Q GAIN MUTATED" 
        TCGA-GN-A26D 
  "18Q GAIN MUTATED" 
[1] "hr=" "1.5"
D31V2, continuous
D31V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18Q GAIN MUTATED      4    6
  18Q GAIN WILD-TYPE   31  106
                                                                                          clus
vv                                                                                         18Q GAIN MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                4
  REGIONAL LYMPH NODE                                                                                     6
                                                                                          clus
vv                                                                                         18Q GAIN WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                 31
  REGIONAL LYMPH NODE                                                                                     106
D31V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18Q GAIN MUTATED      4    6
  18Q GAIN WILD-TYPE   48   89
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  FEMALE                4                 48
  MALE                  6                 89
                    vv
clus                  M0  M1 M1A M1B M1C
  18Q GAIN MUTATED     8   0   0   0   0
  18Q GAIN WILD-TYPE 120   1   2   2   1
D31V5, multiclass
                    vv
clus                 N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  18Q GAIN MUTATED    5  0   2   0  0   0   0   0  2  0
  18Q GAIN WILD-TYPE 72  2   4  12  1   4  11   4 14  2
D31V6, multiclass
D31V7, continuous
                    vv
clus                 I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  18Q GAIN MUTATED             1       1        0        0        0         0
  18Q GAIN WILD-TYPE           0      15        8       13       17         7
                    vv
clus                 STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  18Q GAIN MUTATED           0         3         0          2          0
  18Q GAIN WILD-TYPE         8         1         8          3         16
                    vv
clus                 STAGE IIIC STAGE IV
  18Q GAIN MUTATED            2        0
  18Q GAIN WILD-TYPE         19        4
D31V8, multiclass

Clustering(32) Variable = 19p gain mutation analysis
D32V1, survival
                    sevent
clus2                 0  1
  19P GAIN MUTATED    3  4
  19P GAIN WILD-TYPE 73 65
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
                 7                138 
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
                 4                 65 
$`19P GAIN MUTATED`
TCGA-D3-A1Q5 TCGA-EE-A29L TCGA-EE-A29R TCGA-EE-A2GS TCGA-EE-A2M6 TCGA-EE-A2MM 
      112.54         2.56        14.47        55.59       129.24       167.87 
TCGA-FS-A1ZD 
       53.52 

$`19P GAIN WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.57        71.80       121.22        28.08        31.59        43.40 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC 
       65.49        23.77        11.87        12.10        58.03        71.24 
TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A148 TCGA-D9-A149 
       60.23        24.53         9.30        21.47       148.31        49.74 
TCGA-D9-A1JW TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW 
        2.70         6.38        11.34         3.22        48.89        36.03 
TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 
      117.17        20.38       194.83       176.55        35.93        61.18 
TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 
       53.92        23.44        68.09        28.60        10.49       215.44 
TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 
       15.68        29.82         8.65        33.73        26.86         4.93 
TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H 
      109.64        78.87        47.84        13.97        39.62        32.19 
TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X 
       18.58        56.42        37.35        55.89       345.96        17.92 
TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-EE-A2GB 
       46.82        78.94        24.43        39.25        58.75        47.54 
TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GH TCGA-EE-A2GI TCGA-EE-A2GJ 
       43.23       314.53       135.91       182.01        22.55        89.33 
TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GM TCGA-EE-A2GN TCGA-EE-A2GO TCGA-EE-A2GP 
       54.71        55.00        75.48        90.94       101.95        13.87 
TCGA-EE-A2GR TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 TCGA-EE-A2M7 TCGA-EE-A2M8 
       14.30        19.56        67.13        21.67        28.80        19.76 
TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MI 
       61.51        47.28       103.27       103.17        16.96       204.62 
TCGA-EE-A2MJ TCGA-EE-A2MK TCGA-EE-A2ML TCGA-EE-A2MN TCGA-EE-A2MP TCGA-EE-A2MQ 
       96.23       144.76       203.01        47.54       248.61        43.23 
TCGA-EE-A2MR TCGA-EE-A2MS TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AB 
      103.56       136.44        41.59        53.26         4.24       122.73 
TCGA-EE-A3AC TCGA-EE-A3AD TCGA-EE-A3AE TCGA-EE-A3AF TCGA-EE-A3AG TCGA-EE-A3AH 
       25.84         3.68        26.73        13.81        23.47       138.77 
TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N 
       12.59        26.37         6.41       131.08        61.05        44.05 
TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1YW 
       79.99        80.32        33.21        80.48       160.60       216.92 
TCGA-FS-A1YX TCGA-FS-A1Z4 TCGA-FS-A1Z7 TCGA-FS-A1ZG TCGA-FS-A1ZH TCGA-FS-A1ZJ 
       48.59        28.08         7.76         9.70        32.71        47.38 
TCGA-FS-A1ZM TCGA-FS-A1ZP TCGA-FS-A1ZR TCGA-FS-A1ZS TCGA-FS-A1ZW TCGA-FS-A4F0 
      101.26        74.73        11.41       148.77        49.48        77.79 
TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 
       12.43        49.45        22.98        76.41       120.46       117.93 
TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       84.72        10.09        64.41        62.76        32.48        39.58 

  19P GAIN MUTATED 19P GAIN WILD-TYPE 
              2.56               2.70 
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
            167.87             345.96 
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
             55.59              47.46 
[1] "2.6 - 167.9 (55.6)" "2.7 - 346.0 (47.5)"
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"19P GAIN WILD-TYPE"   "19P GAIN MUTATED" "19P GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"19P GAIN WILD-TYPE"   "19P GAIN MUTATED" "19P GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE"   "19P GAIN MUTATED" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"19P GAIN WILD-TYPE"   "19P GAIN MUTATED" "19P GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE"   "19P GAIN MUTATED" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE"   "19P GAIN MUTATED" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
  "19P GAIN MUTATED" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-GN-A26D 
"19P GAIN WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"19P GAIN WILD-TYPE"   "19P GAIN MUTATED" "19P GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"19P GAIN WILD-TYPE"   "19P GAIN MUTATED" "19P GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE"   "19P GAIN MUTATED" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"19P GAIN WILD-TYPE"   "19P GAIN MUTATED" "19P GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE"   "19P GAIN MUTATED" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE"   "19P GAIN MUTATED" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
  "19P GAIN MUTATED" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-GN-A26D 
"19P GAIN WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"19P GAIN WILD-TYPE"   "19P GAIN MUTATED" "19P GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"19P GAIN WILD-TYPE"   "19P GAIN MUTATED" "19P GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE"   "19P GAIN MUTATED" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"19P GAIN WILD-TYPE"   "19P GAIN MUTATED" "19P GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE"   "19P GAIN MUTATED" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE"   "19P GAIN MUTATED" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
  "19P GAIN MUTATED" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-GN-A26D 
"19P GAIN WILD-TYPE" 
[1] "hr=" "1.1"
D32V2, continuous
D32V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  19P GAIN MUTATED      0    7
  19P GAIN WILD-TYPE   35  105
                                                                                          clus
vv                                                                                         19P GAIN MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                0
  REGIONAL LYMPH NODE                                                                                     7
                                                                                          clus
vv                                                                                         19P GAIN WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                 35
  REGIONAL LYMPH NODE                                                                                     105
D32V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  19P GAIN MUTATED      3    4
  19P GAIN WILD-TYPE   49   91
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  FEMALE                3                 49
  MALE                  4                 91
                    vv
clus                  M0  M1 M1A M1B M1C
  19P GAIN MUTATED     7   0   0   0   0
  19P GAIN WILD-TYPE 121   1   2   2   1
D32V5, multiclass
                    vv
clus                 N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  19P GAIN MUTATED    5  0   0   1  0   0   0   0  1  0
  19P GAIN WILD-TYPE 72  2   6  11  1   4  11   4 15  2
D32V6, multiclass
D32V7, continuous
                    vv
clus                 I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  19P GAIN MUTATED             1       2        0        1        0         1
  19P GAIN WILD-TYPE           0      14        8       12       17         6
                    vv
clus                 STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  19P GAIN MUTATED           0         0         0          0          0
  19P GAIN WILD-TYPE         8         4         8          5         16
                    vv
clus                 STAGE IIIC STAGE IV
  19P GAIN MUTATED            2        0
  19P GAIN WILD-TYPE         19        4
D32V8, multiclass

Clustering(33) Variable = 19q gain mutation analysis
D33V1, survival
                    sevent
clus2                 0  1
  19Q GAIN MUTATED    6  5
  19Q GAIN WILD-TYPE 70 64
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
                11                134 
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
                 5                 64 
$`19Q GAIN MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A3CE TCGA-EE-A29L TCGA-EE-A29R TCGA-EE-A29T 
       16.57       112.54        60.23         2.56        14.47       345.96 
TCGA-EE-A2GD TCGA-EE-A2GS TCGA-EE-A2M6 TCGA-ER-A3ET TCGA-FS-A1ZD 
      314.53        55.59       129.24        80.32        53.52 

$`19Q GAIN WILD-TYPE`
TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A2J8 
       71.80       121.22        28.08        31.59        43.40        65.49 
TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CF 
       23.77        11.87        12.10        58.03        71.24        24.53 
TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A148 TCGA-D9-A149 TCGA-D9-A1JW TCGA-D9-A1JX 
        9.30        21.47       148.31        49.74         2.70         6.38 
TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I0 
       11.34         3.22        48.89        36.03       117.17        20.38 
TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IB 
      194.83       176.55        35.93        61.18        53.92        23.44 
TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X 
       68.09        28.60        10.49       215.44        15.68        29.82 
TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F 
        8.65        33.73        26.86         4.93       109.64        78.87 
TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29N TCGA-EE-A29P 
       47.84        13.97        39.62        32.19        18.58        56.42 
TCGA-EE-A29Q TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 
       37.35        55.89        17.92        46.82        78.94        24.43 
TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-EE-A2GB TCGA-EE-A2GC TCGA-EE-A2GE TCGA-EE-A2GH 
       39.25        58.75        47.54        43.23       135.91       182.01 
TCGA-EE-A2GI TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GM TCGA-EE-A2GN 
       22.55        89.33        54.71        55.00        75.48        90.94 
TCGA-EE-A2GO TCGA-EE-A2GP TCGA-EE-A2GR TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 
      101.95        13.87        14.30        19.56        67.13        21.67 
TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME TCGA-EE-A2MG 
       28.80        19.76        61.51        47.28       103.27       103.17 
TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2MK TCGA-EE-A2ML TCGA-EE-A2MM 
       16.96       204.62        96.23       144.76       203.01       167.87 
TCGA-EE-A2MN TCGA-EE-A2MP TCGA-EE-A2MQ TCGA-EE-A2MR TCGA-EE-A2MS TCGA-EE-A2MT 
       47.54       248.61        43.23       103.56       136.44        41.59 
TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AC TCGA-EE-A3AD TCGA-EE-A3AE 
       53.26         4.24       122.73        25.84         3.68        26.73 
TCGA-EE-A3AF TCGA-EE-A3AG TCGA-EE-A3AH TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J 
       13.81        23.47       138.77        12.59        26.37         6.41 
TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3PL TCGA-FR-A3YN 
      131.08        61.05        44.05        79.99        33.21        80.48 
TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1Z4 TCGA-FS-A1Z7 TCGA-FS-A1ZG 
      160.60       216.92        48.59        28.08         7.76         9.70 
TCGA-FS-A1ZH TCGA-FS-A1ZJ TCGA-FS-A1ZM TCGA-FS-A1ZP TCGA-FS-A1ZR TCGA-FS-A1ZS 
       32.71        47.38       101.26        74.73        11.41       148.77 
TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 
       49.48        77.79        12.43        49.45        22.98        76.41 
TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A268 
      120.46       117.93        84.72        10.09        64.41        62.76 
TCGA-GN-A26A TCGA-GN-A26D 
       32.48        39.58 

  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
              2.56               2.70 
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
            345.96             248.61 
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
             60.23              47.33 
[1] "2.6 - 346.0 (60.2)" "2.7 - 248.6 (47.3)"
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "19Q GAIN MUTATED"   "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
  "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-GN-A26D 
"19Q GAIN WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "19Q GAIN MUTATED"   "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
  "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-GN-A26D 
"19Q GAIN WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "19Q GAIN MUTATED"   "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"19Q GAIN WILD-TYPE"   "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
  "19Q GAIN MUTATED" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-GN-A26D 
"19Q GAIN WILD-TYPE" 
[1] "hr=" "1.5"
D33V2, continuous
D33V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  19Q GAIN MUTATED      2    9
  19Q GAIN WILD-TYPE   33  103
                                                                                          clus
vv                                                                                         19Q GAIN MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                2
  REGIONAL LYMPH NODE                                                                                     9
                                                                                          clus
vv                                                                                         19Q GAIN WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                 33
  REGIONAL LYMPH NODE                                                                                     103
D33V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  19Q GAIN MUTATED      7    4
  19Q GAIN WILD-TYPE   45   91
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  FEMALE                7                 45
  MALE                  4                 91
                    vv
clus                  M0  M1 M1A M1B M1C
  19Q GAIN MUTATED    11   0   0   0   0
  19Q GAIN WILD-TYPE 117   1   2   2   1
D33V5, multiclass
                    vv
clus                 N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  19Q GAIN MUTATED    5  0   1   2  0   0   0   0  2  1
  19Q GAIN WILD-TYPE 72  2   5  10  1   4  11   4 14  1
D33V6, multiclass
D33V7, continuous
                    vv
clus                 I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  19Q GAIN MUTATED             1       1        0        1        0         1
  19Q GAIN WILD-TYPE           0      15        8       12       17         6
                    vv
clus                 STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  19Q GAIN MUTATED           1         0         1          1          0
  19Q GAIN WILD-TYPE         7         4         7          4         16
                    vv
clus                 STAGE IIIC STAGE IV
  19Q GAIN MUTATED            3        0
  19Q GAIN WILD-TYPE         18        4
D33V8, multiclass

Clustering(34) Variable = 20p gain mutation analysis
D34V1, survival
                    sevent
clus2                 0  1
  20P GAIN MUTATED   24 19
  20P GAIN WILD-TYPE 52 50
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
                43                102 
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
                19                 50 
$`20P GAIN MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q9 TCGA-D3-A3CE TCGA-D3-A3MV TCGA-D9-A1JX 
       16.57       112.54        31.59        60.23        21.47         6.38 
TCGA-DA-A1I0 TCGA-DA-A1I2 TCGA-DA-A1I7 TCGA-DA-A3F5 TCGA-EE-A20B TCGA-EE-A29R 
       20.38       176.55        61.18       215.44       109.64        14.47 
TCGA-EE-A2A1 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-EE-A2GB TCGA-EE-A2GH TCGA-EE-A2GI 
       78.94        39.25        58.75        47.54       182.01        22.55 
TCGA-EE-A2GM TCGA-EE-A2GN TCGA-EE-A2GO TCGA-EE-A2GP TCGA-EE-A2GU TCGA-EE-A2M5 
       75.48        90.94       101.95        13.87        67.13        21.67 
TCGA-EE-A2M6 TCGA-EE-A2MH TCGA-EE-A2MP TCGA-EE-A2MU TCGA-EE-A3AC TCGA-EE-A3AE 
      129.24        16.96       248.61        53.26        25.84        26.73 
TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-FR-A3YN TCGA-FS-A1Z7 TCGA-FS-A1ZD 
        6.41       131.08        61.05        80.48         7.76        53.52 
TCGA-FS-A1ZG TCGA-FS-A1ZJ TCGA-FS-A1ZM TCGA-FS-A1ZS TCGA-GN-A264 TCGA-GN-A26A 
        9.70        47.38       101.26       148.77       117.93        32.48 
TCGA-GN-A26D 
       39.58 

$`20P GAIN WILD-TYPE`
TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A2J9 
       71.80       121.22        28.08        43.40        65.49        23.77 
TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CF TCGA-D3-A3MO 
       11.87        12.10        58.03        71.24        24.53         9.30 
TCGA-D9-A148 TCGA-D9-A149 TCGA-D9-A1JW TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV 
      148.31        49.74         2.70        11.34         3.22        48.89 
TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I1 TCGA-DA-A1I4 TCGA-DA-A1I8 TCGA-DA-A1IB 
       36.03       117.17       194.83        35.93        53.92        23.44 
TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z 
       68.09        28.60        10.49        15.68        29.82         8.65 
TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D 
       33.73        26.86         4.93        78.87        47.84        13.97 
TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q 
       39.62        32.19         2.56        18.58        56.42        37.35 
TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A2 TCGA-EE-A2GC 
       55.89       345.96        17.92        46.82        24.43        43.23 
TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GR 
      314.53       135.91        89.33        54.71        55.00        14.30 
TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD 
       55.59        19.56        28.80        19.76        61.51        47.28 
TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2MK TCGA-EE-A2ML 
      103.27       103.17       204.62        96.23       144.76       203.01 
TCGA-EE-A2MM TCGA-EE-A2MN TCGA-EE-A2MQ TCGA-EE-A2MR TCGA-EE-A2MS TCGA-EE-A2MT 
      167.87        47.54        43.23       103.56       136.44        41.59 
TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AD TCGA-EE-A3AF TCGA-EE-A3AG TCGA-EE-A3AH 
        4.24       122.73         3.68        13.81        23.47       138.77 
TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-ER-A3PL 
       12.59        26.37        44.05        79.99        80.32        33.21 
TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1Z4 TCGA-FS-A1ZH TCGA-FS-A1ZP 
      160.60       216.92        48.59        28.08        32.71        74.73 
TCGA-FS-A1ZR TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 
       11.41        49.48        77.79        12.43        49.45        22.98 
TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A268 
       76.41       120.46        84.72        10.09        64.41        62.76 

  20P GAIN MUTATED 20P GAIN WILD-TYPE 
              6.38               2.56 
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
            248.61             345.96 
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
             53.52              47.05 
[1] "6.4 - 248.6 (53.5)" "2.6 - 346.0 (47.0)"
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "20P GAIN MUTATED"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
  "20P GAIN MUTATED"   "20P GAIN MUTATED"   "20P GAIN MUTATED" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
  "20P GAIN MUTATED"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
  "20P GAIN MUTATED"   "20P GAIN MUTATED"   "20P GAIN MUTATED" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
  "20P GAIN MUTATED"   "20P GAIN MUTATED"   "20P GAIN MUTATED" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
  "20P GAIN MUTATED"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
  "20P GAIN MUTATED"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
  "20P GAIN MUTATED"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-GN-A26D 
  "20P GAIN MUTATED" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "20P GAIN MUTATED"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
  "20P GAIN MUTATED"   "20P GAIN MUTATED"   "20P GAIN MUTATED" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
  "20P GAIN MUTATED"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
  "20P GAIN MUTATED"   "20P GAIN MUTATED"   "20P GAIN MUTATED" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
  "20P GAIN MUTATED"   "20P GAIN MUTATED"   "20P GAIN MUTATED" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
  "20P GAIN MUTATED"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
  "20P GAIN MUTATED"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
  "20P GAIN MUTATED"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-GN-A26D 
  "20P GAIN MUTATED" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "20P GAIN MUTATED"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
  "20P GAIN MUTATED"   "20P GAIN MUTATED"   "20P GAIN MUTATED" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
  "20P GAIN MUTATED"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
  "20P GAIN MUTATED"   "20P GAIN MUTATED"   "20P GAIN MUTATED" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
  "20P GAIN MUTATED"   "20P GAIN MUTATED"   "20P GAIN MUTATED" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
  "20P GAIN MUTATED"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
  "20P GAIN MUTATED"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
  "20P GAIN MUTATED"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"20P GAIN WILD-TYPE"   "20P GAIN MUTATED" "20P GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
  "20P GAIN MUTATED" "20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"20P GAIN WILD-TYPE" "20P GAIN WILD-TYPE"   "20P GAIN MUTATED" 
        TCGA-GN-A26D 
  "20P GAIN MUTATED" 
[1] "hr=" "1.2"
D34V2, continuous
D34V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  20P GAIN MUTATED     12   31
  20P GAIN WILD-TYPE   23   81
                                                                                          clus
vv                                                                                         20P GAIN MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)               12
  REGIONAL LYMPH NODE                                                                                    31
                                                                                          clus
vv                                                                                         20P GAIN WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                 23
  REGIONAL LYMPH NODE                                                                                      81
D34V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  20P GAIN MUTATED     15   28
  20P GAIN WILD-TYPE   37   67
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  FEMALE               15                 37
  MALE                 28                 67
                    vv
clus                 M0 M1 M1A M1B M1C
  20P GAIN MUTATED   37  1   1   0   0
  20P GAIN WILD-TYPE 91  0   1   2   1
D34V5, multiclass
                    vv
clus                 N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  20P GAIN MUTATED   23  0   3   3  0   2   3   1  4  1
  20P GAIN WILD-TYPE 54  2   3   9  1   2   8   3 12  1
D34V6, multiclass
D34V7, continuous
                    vv
clus                 I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  20P GAIN MUTATED             1       5        5        4        4         2
  20P GAIN WILD-TYPE           0      11        3        9       13         5
                    vv
clus                 STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  20P GAIN MUTATED           0         2         2          2          4
  20P GAIN WILD-TYPE         8         2         6          3         12
                    vv
clus                 STAGE IIIC STAGE IV
  20P GAIN MUTATED            7        1
  20P GAIN WILD-TYPE         14        3
D34V8, multiclass

Clustering(35) Variable = 20q gain mutation analysis
D35V1, survival
                    sevent
clus2                 0  1
  20Q GAIN MUTATED   33 20
  20Q GAIN WILD-TYPE 43 49
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
                53                 92 
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
                20                 49 
$`20Q GAIN MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q9 TCGA-D3-A3CE TCGA-D3-A3MV TCGA-D9-A148 
       16.57       112.54        31.59        60.23        21.47       148.31 
TCGA-D9-A1JX TCGA-DA-A1HV TCGA-DA-A1I0 TCGA-DA-A1I2 TCGA-DA-A1I7 TCGA-DA-A3F5 
        6.38        48.89        20.38       176.55        61.18       215.44 
TCGA-EE-A20B TCGA-EE-A29E TCGA-EE-A29L TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A2A1 
      109.64        39.62         2.56        56.42        14.47        78.94 
TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-EE-A2GB TCGA-EE-A2GH TCGA-EE-A2GI TCGA-EE-A2GM 
       39.25        58.75        47.54       182.01        22.55        75.48 
TCGA-EE-A2GN TCGA-EE-A2GO TCGA-EE-A2GP TCGA-EE-A2GU TCGA-EE-A2M5 TCGA-EE-A2M6 
       90.94       101.95        13.87        67.13        21.67       129.24 
TCGA-EE-A2MH TCGA-EE-A2MP TCGA-EE-A2MS TCGA-EE-A2MU TCGA-EE-A3AC TCGA-EE-A3AD 
       16.96       248.61       136.44        53.26        25.84         3.68 
TCGA-EE-A3AE TCGA-EE-A3AG TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A3PL 
       26.73        23.47         6.41       131.08        61.05        33.21 
TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1Z7 TCGA-FS-A1ZD TCGA-FS-A1ZG TCGA-FS-A1ZJ 
       80.48       160.60         7.76        53.52         9.70        47.38 
TCGA-FS-A1ZM TCGA-FS-A1ZS TCGA-GN-A264 TCGA-GN-A26A TCGA-GN-A26D 
      101.26       148.77       117.93        32.48        39.58 

$`20Q GAIN WILD-TYPE`
TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A2J9 
       71.80       121.22        28.08        43.40        65.49        23.77 
TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CF TCGA-D3-A3MO 
       11.87        12.10        58.03        71.24        24.53         9.30 
TCGA-D9-A149 TCGA-D9-A1JW TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HW TCGA-DA-A1HY 
       49.74         2.70        11.34         3.22        36.03       117.17 
TCGA-DA-A1I1 TCGA-DA-A1I4 TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 
      194.83        35.93        53.92        23.44        68.09        28.60 
TCGA-DA-A3F3 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 
       10.49        15.68        29.82         8.65        33.73        26.86 
TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29H TCGA-EE-A29N 
        4.93        78.87        47.84        13.97        32.19        18.58 
TCGA-EE-A29Q TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A2 
       37.35        55.89       345.96        17.92        46.82        24.43 
TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL 
       43.23       314.53       135.91        89.33        54.71        55.00 
TCGA-EE-A2GR TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC 
       14.30        55.59        19.56        28.80        19.76        61.51 
TCGA-EE-A2MD TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2MK 
       47.28       103.27       103.17       204.62        96.23       144.76 
TCGA-EE-A2ML TCGA-EE-A2MM TCGA-EE-A2MN TCGA-EE-A2MQ TCGA-EE-A2MR TCGA-EE-A2MT 
      203.01       167.87        47.54        43.23       103.56        41.59 
TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AF TCGA-EE-A3AH TCGA-ER-A19D TCGA-ER-A19F 
        4.24       122.73        13.81       138.77        12.59        26.37 
TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1Z4 
       44.05        79.99        80.32       216.92        48.59        28.08 
TCGA-FS-A1ZH TCGA-FS-A1ZP TCGA-FS-A1ZR TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 
       32.71        74.73        11.41        49.48        77.79        12.43 
TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A265 TCGA-GN-A266 
       49.45        22.98        76.41       120.46        84.72        10.09 
TCGA-GN-A267 TCGA-GN-A268 
       64.41        62.76 

  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
              2.56               2.70 
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
            248.61             345.96 
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
             53.26              47.05 
[1] "2.6 - 248.6 (53.3)" "2.7 - 346.0 (47.0)"
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-GN-A26D 
  "20Q GAIN MUTATED" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-GN-A26D 
  "20Q GAIN MUTATED" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED"   "20Q GAIN MUTATED" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
  "20Q GAIN MUTATED"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
  "20Q GAIN MUTATED" "20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"20Q GAIN WILD-TYPE" "20Q GAIN WILD-TYPE"   "20Q GAIN MUTATED" 
        TCGA-GN-A26D 
  "20Q GAIN MUTATED" 
[1] "hr=" "1.5"
D35V2, continuous
D35V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  20Q GAIN MUTATED     14   39
  20Q GAIN WILD-TYPE   21   73
                                                                                          clus
vv                                                                                         20Q GAIN MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)               14
  REGIONAL LYMPH NODE                                                                                    39
                                                                                          clus
vv                                                                                         20Q GAIN WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                 21
  REGIONAL LYMPH NODE                                                                                      73
D35V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  20Q GAIN MUTATED     18   35
  20Q GAIN WILD-TYPE   34   60
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  FEMALE               18                 34
  MALE                 35                 60
                    vv
clus                 M0 M1 M1A M1B M1C
  20Q GAIN MUTATED   43  1   2   1   0
  20Q GAIN WILD-TYPE 85  0   0   1   1
D35V5, multiclass
                    vv
clus                 N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  20Q GAIN MUTATED   27  0   3   4  0   2   4   1  6  1
  20Q GAIN WILD-TYPE 50  2   3   8  1   2   7   3 10  1
D35V6, multiclass
D35V7, continuous
                    vv
clus                 I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  20Q GAIN MUTATED             1       5        5        4        6         2
  20Q GAIN WILD-TYPE           0      11        3        9       11         5
                    vv
clus                 STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  20Q GAIN MUTATED           0         3         2          2          6
  20Q GAIN WILD-TYPE         8         1         6          3         10
                    vv
clus                 STAGE IIIC STAGE IV
  20Q GAIN MUTATED            8        2
  20Q GAIN WILD-TYPE         13        2
D35V8, multiclass

Clustering(36) Variable = 21q gain mutation analysis
D36V1, survival
                    sevent
clus2                 0  1
  21Q GAIN MUTATED    9  8
  21Q GAIN WILD-TYPE 67 61
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
                17                128 
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
                 8                 61 
$`21Q GAIN MUTATED`
TCGA-D3-A3MV TCGA-EE-A29L TCGA-EE-A29R TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A5 
       21.47         2.56        14.47        46.82        78.94        39.25 
TCGA-EE-A2GM TCGA-EE-A2GN TCGA-EE-A2MQ TCGA-ER-A19D TCGA-ER-A19L TCGA-ER-A3PL 
       75.48        90.94        43.23        12.59       131.08        33.21 
TCGA-FR-A3YN TCGA-FS-A1ZD TCGA-FS-A1ZJ TCGA-FS-A1ZS TCGA-GN-A26D 
       80.48        53.52        47.38       148.77        39.58 

$`21Q GAIN WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 
       16.57       112.54        71.80       121.22        28.08        31.59 
TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 
       43.40        65.49        23.77        11.87        12.10        58.03 
TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D9-A148 TCGA-D9-A149 
       71.24        60.23        24.53         9.30       148.31        49.74 
TCGA-D9-A1JW TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW 
        2.70         6.38        11.34         3.22        48.89        36.03 
TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 
      117.17        20.38       194.83       176.55        35.93        61.18 
TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 
       53.92        23.44        68.09        28.60        10.49       215.44 
TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 
       15.68        29.82         8.65        33.73        26.86         4.93 
TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H 
      109.64        78.87        47.84        13.97        39.62        32.19 
TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X 
       18.58        56.42        37.35        55.89       345.96        17.92 
TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-EE-A2GB TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GE 
       24.43        58.75        47.54        43.23       314.53       135.91 
TCGA-EE-A2GH TCGA-EE-A2GI TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GO 
      182.01        22.55        89.33        54.71        55.00       101.95 
TCGA-EE-A2GP TCGA-EE-A2GR TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 
       13.87        14.30        55.59        19.56        67.13        21.67 
TCGA-EE-A2M6 TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME 
      129.24        28.80        19.76        61.51        47.28       103.27 
TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2MK TCGA-EE-A2ML 
      103.17        16.96       204.62        96.23       144.76       203.01 
TCGA-EE-A2MM TCGA-EE-A2MN TCGA-EE-A2MP TCGA-EE-A2MR TCGA-EE-A2MS TCGA-EE-A2MT 
      167.87        47.54       248.61       103.56       136.44        41.59 
TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AC TCGA-EE-A3AD TCGA-EE-A3AE 
       53.26         4.24       122.73        25.84         3.68        26.73 
TCGA-EE-A3AF TCGA-EE-A3AG TCGA-EE-A3AH TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19M 
       13.81        23.47       138.77        26.37         6.41        61.05 
TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1YX 
       44.05        79.99        80.32       160.60       216.92        48.59 
TCGA-FS-A1Z4 TCGA-FS-A1Z7 TCGA-FS-A1ZG TCGA-FS-A1ZH TCGA-FS-A1ZM TCGA-FS-A1ZP 
       28.08         7.76         9.70        32.71       101.26        74.73 
TCGA-FS-A1ZR TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 
       11.41        49.48        77.79        12.43        49.45        22.98 
TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A267 
       76.41       120.46       117.93        84.72        10.09        64.41 
TCGA-GN-A268 TCGA-GN-A26A 
       62.76        32.48 

  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
              2.56               2.70 
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
            148.77             345.96 
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
            46.820             48.215 
[1] "2.6 - 148.8 (46.8)" "2.7 - 346.0 (48.2)"
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
  "21Q GAIN MUTATED"   "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-GN-A26D 
  "21Q GAIN MUTATED" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
  "21Q GAIN MUTATED"   "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-GN-A26D 
  "21Q GAIN MUTATED" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
  "21Q GAIN MUTATED"   "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
  "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"21Q GAIN WILD-TYPE"   "21Q GAIN MUTATED" "21Q GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-GN-A26D 
  "21Q GAIN MUTATED" 
[1] "hr=" "1.1"
D36V2, continuous
D36V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  21Q GAIN MUTATED      6   11
  21Q GAIN WILD-TYPE   29  101
                                                                                          clus
vv                                                                                         21Q GAIN MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                6
  REGIONAL LYMPH NODE                                                                                    11
                                                                                          clus
vv                                                                                         21Q GAIN WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                 29
  REGIONAL LYMPH NODE                                                                                     101
D36V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  21Q GAIN MUTATED      8    9
  21Q GAIN WILD-TYPE   44   86
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  FEMALE                8                 44
  MALE                  9                 86
                    vv
clus                  M0  M1 M1A M1B M1C
  21Q GAIN MUTATED    14   0   1   0   0
  21Q GAIN WILD-TYPE 114   1   1   2   1
D36V5, multiclass
                    vv
clus                 N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  21Q GAIN MUTATED   12  0   0   1  0   2   0   0  1  0
  21Q GAIN WILD-TYPE 65  2   6  11  1   2  11   4 15  2
D36V6, multiclass
D36V7, continuous
                    vv
clus                 I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  21Q GAIN MUTATED             0       1        0        4        1         3
  21Q GAIN WILD-TYPE           1      15        8        9       16         4
                    vv
clus                 STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  21Q GAIN MUTATED           0         2         0          1          1
  21Q GAIN WILD-TYPE         8         2         8          4         15
                    vv
clus                 STAGE IIIC STAGE IV
  21Q GAIN MUTATED            2        1
  21Q GAIN WILD-TYPE         19        3
D36V8, multiclass

Clustering(37) Variable = 22q gain mutation analysis
D37V1, survival
                    sevent
clus2                 0  1
  22Q GAIN MUTATED   23 14
  22Q GAIN WILD-TYPE 53 55
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
                37                108 
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
                14                 55 
$`22Q GAIN MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q9 TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A148 TCGA-DA-A1HV 
       16.57        31.59         9.30        21.47       148.31        48.89 
TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A3F5 
       20.38       194.83        61.18        53.92        23.44       215.44 
TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29R TCGA-EE-A2GB TCGA-EE-A2GH TCGA-EE-A2GM 
        2.56        18.58        14.47        47.54       182.01        75.48 
TCGA-EE-A2GN TCGA-EE-A2GO TCGA-EE-A2M6 TCGA-EE-A2MJ TCGA-EE-A2MQ TCGA-EE-A2MS 
       90.94       101.95       129.24        96.23        43.23       136.44 
TCGA-EE-A3AE TCGA-EE-A3AG TCGA-ER-A19M TCGA-ER-A3ET TCGA-FR-A3YN TCGA-FR-A44A 
       26.73        23.47        61.05        80.32        80.48       160.60 
TCGA-FS-A1ZD TCGA-FS-A1ZM TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A26A 
       53.52       101.26       117.93        84.72        64.41        32.48 
TCGA-GN-A26D 
       39.58 

$`22Q GAIN WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J6 TCGA-D3-A2J8 
      112.54        71.80       121.22        28.08        43.40        65.49 
TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CE 
       23.77        11.87        12.10        58.03        71.24        60.23 
TCGA-D3-A3CF TCGA-D9-A149 TCGA-D9-A1JW TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 
       24.53        49.74         2.70         6.38        11.34         3.22 
TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1IC TCGA-DA-A3F2 
       36.03       117.17       176.55        35.93        68.09        28.60 
TCGA-DA-A3F3 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 
       10.49        15.68        29.82         8.65        33.73        26.86 
TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E 
        4.93       109.64        78.87        47.84        13.97        39.62 
TCGA-EE-A29H TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X 
       32.19        56.42        37.35        55.89       345.96        17.92 
TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-EE-A2GC 
       46.82        78.94        24.43        39.25        58.75        43.23 
TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GI TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL 
      314.53       135.91        22.55        89.33        54.71        55.00 
TCGA-EE-A2GP TCGA-EE-A2GR TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 
       13.87        14.30        55.59        19.56        67.13        21.67 
TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME TCGA-EE-A2MG 
       28.80        19.76        61.51        47.28       103.27       103.17 
TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MK TCGA-EE-A2ML TCGA-EE-A2MM TCGA-EE-A2MN 
       16.96       204.62       144.76       203.01       167.87        47.54 
TCGA-EE-A2MP TCGA-EE-A2MR TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AB 
      248.61       103.56        41.59        53.26         4.24       122.73 
TCGA-EE-A3AC TCGA-EE-A3AD TCGA-EE-A3AF TCGA-EE-A3AH TCGA-ER-A19D TCGA-ER-A19F 
       25.84         3.68        13.81       138.77        12.59        26.37 
TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3PL TCGA-FS-A1YW 
        6.41       131.08        44.05        79.99        33.21       216.92 
TCGA-FS-A1YX TCGA-FS-A1Z4 TCGA-FS-A1Z7 TCGA-FS-A1ZG TCGA-FS-A1ZH TCGA-FS-A1ZJ 
       48.59        28.08         7.76         9.70        32.71        47.38 
TCGA-FS-A1ZP TCGA-FS-A1ZR TCGA-FS-A1ZS TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 
       74.73        11.41       148.77        49.48        77.79        12.43 
TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A266 TCGA-GN-A268 
       49.45        22.98        76.41       120.46        10.09        62.76 

  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
              2.56               2.70 
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
            215.44             345.96 
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
            61.050             45.435 
[1] "2.6 - 215.4 (61.0)" "2.7 - 346.0 (45.4)"
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
  "22Q GAIN MUTATED"   "22Q GAIN MUTATED"   "22Q GAIN MUTATED" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
  "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
  "22Q GAIN MUTATED"   "22Q GAIN MUTATED"   "22Q GAIN MUTATED" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
  "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED"   "22Q GAIN MUTATED" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
  "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
  "22Q GAIN MUTATED"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
  "22Q GAIN MUTATED"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
  "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
  "22Q GAIN MUTATED"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
  "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" 
        TCGA-GN-A26D 
  "22Q GAIN MUTATED" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
  "22Q GAIN MUTATED"   "22Q GAIN MUTATED"   "22Q GAIN MUTATED" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
  "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
  "22Q GAIN MUTATED"   "22Q GAIN MUTATED"   "22Q GAIN MUTATED" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
  "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED"   "22Q GAIN MUTATED" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
  "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
  "22Q GAIN MUTATED"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
  "22Q GAIN MUTATED"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
  "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
  "22Q GAIN MUTATED"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
  "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" 
        TCGA-GN-A26D 
  "22Q GAIN MUTATED" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
  "22Q GAIN MUTATED"   "22Q GAIN MUTATED"   "22Q GAIN MUTATED" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
  "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
  "22Q GAIN MUTATED"   "22Q GAIN MUTATED"   "22Q GAIN MUTATED" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
  "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED"   "22Q GAIN MUTATED" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
  "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
  "22Q GAIN MUTATED"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
  "22Q GAIN MUTATED"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
  "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
  "22Q GAIN MUTATED"   "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
  "22Q GAIN MUTATED" "22Q GAIN WILD-TYPE"   "22Q GAIN MUTATED" 
        TCGA-GN-A26D 
  "22Q GAIN MUTATED" 
[1] "hr=" "1.6"
D37V2, continuous
D37V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  22Q GAIN MUTATED     13   24
  22Q GAIN WILD-TYPE   22   88
                                                                                          clus
vv                                                                                         22Q GAIN MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)               13
  REGIONAL LYMPH NODE                                                                                    24
                                                                                          clus
vv                                                                                         22Q GAIN WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                 22
  REGIONAL LYMPH NODE                                                                                      88
D37V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  22Q GAIN MUTATED     14   23
  22Q GAIN WILD-TYPE   38   72
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  FEMALE               14                 38
  MALE                 23                 72
                    vv
clus                 M0 M1 M1A M1B M1C
  22Q GAIN MUTATED   31  0   1   1   0
  22Q GAIN WILD-TYPE 97  1   1   1   1
D37V5, multiclass
                    vv
clus                 N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  22Q GAIN MUTATED   14  0   4   1  0   3   3   2  7  0
  22Q GAIN WILD-TYPE 63  2   2  11  1   1   8   2  9  2
D37V6, multiclass
D37V7, continuous
                    vv
clus                 I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  22Q GAIN MUTATED             0       2        1        2        4         2
  22Q GAIN WILD-TYPE           1      14        7       11       13         5
                    vv
clus                 STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  22Q GAIN MUTATED           0         2         2          5          4
  22Q GAIN WILD-TYPE         8         2         6          0         12
                    vv
clus                 STAGE IIIC STAGE IV
  22Q GAIN MUTATED            8        0
  22Q GAIN WILD-TYPE         13        4
D37V8, multiclass

Clustering(38) Variable = 1p loss mutation analysis
D38V1, survival
                   sevent
clus2                0  1
  1P LOSS MUTATED    9  2
  1P LOSS WILD-TYPE 67 67
  1P LOSS MUTATED 1P LOSS WILD-TYPE 
               11               134 
  1P LOSS MUTATED 1P LOSS WILD-TYPE 
                2                67 
$`1P LOSS MUTATED`
TCGA-D3-A1Q9 TCGA-D3-A3CC TCGA-DA-A1I7 TCGA-EE-A29R TCGA-EE-A2GO TCGA-EE-A2GR 
       31.59        71.24        61.18        14.47       101.95        14.30 
TCGA-EE-A2MK TCGA-EE-A2MS TCGA-EE-A3AD TCGA-ER-A19L TCGA-GN-A26D 
      144.76       136.44         3.68       131.08        39.58 

$`1P LOSS WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J6 
       16.57       112.54        71.80       121.22        28.08        43.40 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
       65.49        23.77        11.87        12.10        58.03        60.23 
TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A148 TCGA-D9-A149 TCGA-D9-A1JW 
       24.53         9.30        21.47       148.31        49.74         2.70 
TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
        6.38        11.34         3.22        48.89        36.03       117.17 
TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I8 TCGA-DA-A1IB 
       20.38       194.83       176.55        35.93        53.92        23.44 
TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X 
       68.09        28.60        10.49       215.44        15.68        29.82 
TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F 
        8.65        33.73        26.86         4.93       109.64        78.87 
TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N 
       47.84        13.97        39.62        32.19         2.56        18.58 
TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 
       56.42        37.35        55.89       345.96        17.92        46.82 
TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-EE-A2GB TCGA-EE-A2GC 
       78.94        24.43        39.25        58.75        47.54        43.23 
TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GH TCGA-EE-A2GI TCGA-EE-A2GJ TCGA-EE-A2GK 
      314.53       135.91       182.01        22.55        89.33        54.71 
TCGA-EE-A2GL TCGA-EE-A2GM TCGA-EE-A2GN TCGA-EE-A2GP TCGA-EE-A2GS TCGA-EE-A2GT 
       55.00        75.48        90.94        13.87        55.59        19.56 
TCGA-EE-A2GU TCGA-EE-A2M5 TCGA-EE-A2M6 TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC 
       67.13        21.67       129.24        28.80        19.76        61.51 
TCGA-EE-A2MD TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MJ 
       47.28       103.27       103.17        16.96       204.62        96.23 
TCGA-EE-A2ML TCGA-EE-A2MM TCGA-EE-A2MN TCGA-EE-A2MP TCGA-EE-A2MQ TCGA-EE-A2MR 
      203.01       167.87        47.54       248.61        43.23       103.56 
TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AC TCGA-EE-A3AE 
       41.59        53.26         4.24       122.73        25.84        26.73 
TCGA-EE-A3AF TCGA-EE-A3AG TCGA-EE-A3AH TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J 
       13.81        23.47       138.77        12.59        26.37         6.41 
TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN 
       61.05        44.05        79.99        80.32        33.21        80.48 
TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1Z4 TCGA-FS-A1Z7 TCGA-FS-A1ZD 
      160.60       216.92        48.59        28.08         7.76        53.52 
TCGA-FS-A1ZG TCGA-FS-A1ZH TCGA-FS-A1ZJ TCGA-FS-A1ZM TCGA-FS-A1ZP TCGA-FS-A1ZR 
        9.70        32.71        47.38       101.26        74.73        11.41 
TCGA-FS-A1ZS TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 
      148.77        49.48        77.79        12.43        49.45        22.98 
TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A267 
       76.41       120.46       117.93        84.72        10.09        64.41 
TCGA-GN-A268 TCGA-GN-A26A 
       62.76        32.48 

  1P LOSS MUTATED 1P LOSS WILD-TYPE 
             3.68              2.56 
  1P LOSS MUTATED 1P LOSS WILD-TYPE 
           144.76            345.96 
  1P LOSS MUTATED 1P LOSS WILD-TYPE 
            61.18             47.54 
[1] "3.7 - 144.8 (61.2)" "2.6 - 346.0 (47.5)"
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"1P LOSS WILD-TYPE"   "1P LOSS MUTATED" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
  "1P LOSS MUTATED" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE"   "1P LOSS MUTATED" "1P LOSS WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"1P LOSS WILD-TYPE"   "1P LOSS MUTATED" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"1P LOSS WILD-TYPE"   "1P LOSS MUTATED" "1P LOSS WILD-TYPE"   "1P LOSS MUTATED" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE"   "1P LOSS MUTATED" "1P LOSS WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"1P LOSS WILD-TYPE"   "1P LOSS MUTATED" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE"   "1P LOSS MUTATED" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE"   "1P LOSS MUTATED" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-GN-A26D 
  "1P LOSS MUTATED" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"1P LOSS WILD-TYPE"   "1P LOSS MUTATED" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
  "1P LOSS MUTATED" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE"   "1P LOSS MUTATED" "1P LOSS WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"1P LOSS WILD-TYPE"   "1P LOSS MUTATED" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"1P LOSS WILD-TYPE"   "1P LOSS MUTATED" "1P LOSS WILD-TYPE"   "1P LOSS MUTATED" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE"   "1P LOSS MUTATED" "1P LOSS WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"1P LOSS WILD-TYPE"   "1P LOSS MUTATED" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE"   "1P LOSS MUTATED" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE"   "1P LOSS MUTATED" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-GN-A26D 
  "1P LOSS MUTATED" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"1P LOSS WILD-TYPE"   "1P LOSS MUTATED" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
  "1P LOSS MUTATED" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE"   "1P LOSS MUTATED" "1P LOSS WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"1P LOSS WILD-TYPE"   "1P LOSS MUTATED" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"1P LOSS WILD-TYPE"   "1P LOSS MUTATED" "1P LOSS WILD-TYPE"   "1P LOSS MUTATED" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE"   "1P LOSS MUTATED" "1P LOSS WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"1P LOSS WILD-TYPE"   "1P LOSS MUTATED" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE"   "1P LOSS MUTATED" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE"   "1P LOSS MUTATED" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-GN-A26D 
  "1P LOSS MUTATED" 
[1] "hr=" "2.9"
D38V2, continuous
D38V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1P LOSS MUTATED      4    8
  1P LOSS WILD-TYPE   31  104
                                                                                          clus
vv                                                                                         1P LOSS MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)               4
  REGIONAL LYMPH NODE                                                                                    8
                                                                                          clus
vv                                                                                         1P LOSS WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                31
  REGIONAL LYMPH NODE                                                                                    104
D38V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1P LOSS MUTATED      6    6
  1P LOSS WILD-TYPE   46   89
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  FEMALE               6                46
  MALE                 6                89
                   vv
clus                 M0  M1 M1A M1B M1C
  1P LOSS MUTATED     9   0   0   0   0
  1P LOSS WILD-TYPE 119   1   2   2   1
D38V5, multiclass
                   vv
clus                N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  1P LOSS MUTATED    6  0   0   1  0   1   2   0  0  0
  1P LOSS WILD-TYPE 71  2   6  11  1   3   9   4 16  2
D38V6, multiclass
D38V7, continuous
                   vv
clus                I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  1P LOSS MUTATED             0       0        0        0        4         0
  1P LOSS WILD-TYPE           1      16        8       13       13         7
                   vv
clus                STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  1P LOSS MUTATED           0         2         1          0          2
  1P LOSS WILD-TYPE         8         2         7          5         14
                   vv
clus                STAGE IIIC STAGE IV
  1P LOSS MUTATED            1        0
  1P LOSS WILD-TYPE         20        4
D38V8, multiclass

Clustering(39) Variable = 1q loss mutation analysis
D39V1, survival
                   sevent
clus2                0  1
  1Q LOSS MUTATED    2  2
  1Q LOSS WILD-TYPE 74 67
  1Q LOSS MUTATED 1Q LOSS WILD-TYPE 
                4               141 
  1Q LOSS MUTATED 1Q LOSS WILD-TYPE 
                2                67 
$`1Q LOSS MUTATED`
TCGA-D3-A3CC TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-EE-A29X 
       71.24        61.18        53.92        17.92 

$`1Q LOSS WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 
       16.57       112.54        71.80       121.22        28.08        31.59 
TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 
       43.40        65.49        23.77        11.87        12.10        58.03 
TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A148 TCGA-D9-A149 
       60.23        24.53         9.30        21.47       148.31        49.74 
TCGA-D9-A1JW TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW 
        2.70         6.38        11.34         3.22        48.89        36.03 
TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1IB 
      117.17        20.38       194.83       176.55        35.93        23.44 
TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X 
       68.09        28.60        10.49       215.44        15.68        29.82 
TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F 
        8.65        33.73        26.86         4.93       109.64        78.87 
TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N 
       47.84        13.97        39.62        32.19         2.56        18.58 
TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A2A0 
       56.42        37.35        14.47        55.89       345.96        46.82 
TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-EE-A2GB TCGA-EE-A2GC 
       78.94        24.43        39.25        58.75        47.54        43.23 
TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GH TCGA-EE-A2GI TCGA-EE-A2GJ TCGA-EE-A2GK 
      314.53       135.91       182.01        22.55        89.33        54.71 
TCGA-EE-A2GL TCGA-EE-A2GM TCGA-EE-A2GN TCGA-EE-A2GO TCGA-EE-A2GP TCGA-EE-A2GR 
       55.00        75.48        90.94       101.95        13.87        14.30 
TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 TCGA-EE-A2M6 TCGA-EE-A2M7 
       55.59        19.56        67.13        21.67       129.24        28.80 
TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MH 
       19.76        61.51        47.28       103.27       103.17        16.96 
TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2MK TCGA-EE-A2ML TCGA-EE-A2MM TCGA-EE-A2MN 
      204.62        96.23       144.76       203.01       167.87        47.54 
TCGA-EE-A2MP TCGA-EE-A2MQ TCGA-EE-A2MR TCGA-EE-A2MS TCGA-EE-A2MT TCGA-EE-A2MU 
      248.61        43.23       103.56       136.44        41.59        53.26 
TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AC TCGA-EE-A3AD TCGA-EE-A3AE TCGA-EE-A3AF 
        4.24       122.73        25.84         3.68        26.73        13.81 
TCGA-EE-A3AG TCGA-EE-A3AH TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L 
       23.47       138.77        12.59        26.37         6.41       131.08 
TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN 
       61.05        44.05        79.99        80.32        33.21        80.48 
TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1Z4 TCGA-FS-A1Z7 TCGA-FS-A1ZD 
      160.60       216.92        48.59        28.08         7.76        53.52 
TCGA-FS-A1ZG TCGA-FS-A1ZH TCGA-FS-A1ZJ TCGA-FS-A1ZM TCGA-FS-A1ZP TCGA-FS-A1ZR 
        9.70        32.71        47.38       101.26        74.73        11.41 
TCGA-FS-A1ZS TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 
      148.77        49.48        77.79        12.43        49.45        22.98 
TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A267 
       76.41       120.46       117.93        84.72        10.09        64.41 
TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       62.76        32.48        39.58 

  1Q LOSS MUTATED 1Q LOSS WILD-TYPE 
            17.92              2.56 
  1Q LOSS MUTATED 1Q LOSS WILD-TYPE 
            71.24            345.96 
  1Q LOSS MUTATED 1Q LOSS WILD-TYPE 
            57.55             47.54 
[1] "17.9 - 71.2 (57.5)" "2.6 - 346.0 (47.5)"
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
  "1Q LOSS MUTATED" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE"   "1Q LOSS MUTATED"   "1Q LOSS MUTATED" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
  "1Q LOSS MUTATED" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-GN-A26D 
"1Q LOSS WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
  "1Q LOSS MUTATED" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE"   "1Q LOSS MUTATED"   "1Q LOSS MUTATED" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
  "1Q LOSS MUTATED" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-GN-A26D 
"1Q LOSS WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
  "1Q LOSS MUTATED" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE"   "1Q LOSS MUTATED"   "1Q LOSS MUTATED" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
  "1Q LOSS MUTATED" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-GN-A26D 
"1Q LOSS WILD-TYPE" 
[1] "hr=" "1.2"
D39V2, continuous
D39V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1Q LOSS MUTATED      3    1
  1Q LOSS WILD-TYPE   32  111
                                                                                          clus
vv                                                                                         1Q LOSS MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)               3
  REGIONAL LYMPH NODE                                                                                    1
                                                                                          clus
vv                                                                                         1Q LOSS WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                32
  REGIONAL LYMPH NODE                                                                                    111
D39V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1Q LOSS MUTATED      3    1
  1Q LOSS WILD-TYPE   49   94
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  FEMALE               3                49
  MALE                 1                94
                   vv
clus                 M0  M1 M1A M1B M1C
  1Q LOSS MUTATED     4   0   0   0   0
  1Q LOSS WILD-TYPE 124   1   2   2   1
D39V5, multiclass
                   vv
clus                N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  1Q LOSS MUTATED    2  0   0   0  0   0   1   0  1  0
  1Q LOSS WILD-TYPE 75  2   6  12  1   4  10   4 15  2
D39V6, multiclass
D39V7, continuous
                   vv
clus                I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  1Q LOSS MUTATED             0       0        0        1        0         0
  1Q LOSS WILD-TYPE           1      16        8       12       17         7
                   vv
clus                STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  1Q LOSS MUTATED           0         1         0          0          1
  1Q LOSS WILD-TYPE         8         3         8          5         15
                   vv
clus                STAGE IIIC STAGE IV
  1Q LOSS MUTATED            1        0
  1Q LOSS WILD-TYPE         20        4
D39V8, multiclass

Clustering(40) Variable = 2p loss mutation analysis
D40V1, survival
                   sevent
clus2                0  1
  2P LOSS MUTATED    9  5
  2P LOSS WILD-TYPE 67 64
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
               14               131 
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
                5                64 
$`2P LOSS MUTATED`
TCGA-D3-A3C6 TCGA-D3-A3CF TCGA-D9-A3Z3 TCGA-DA-A1I2 TCGA-EE-A20B TCGA-EE-A20F 
       58.03        24.53         3.22       176.55       109.64        78.87 
TCGA-EE-A2GC TCGA-EE-A2GR TCGA-EE-A2MK TCGA-EE-A2MS TCGA-EE-A3AD TCGA-FS-A1YW 
       43.23        14.30       144.76       136.44         3.68       216.92 
TCGA-GN-A264 TCGA-GN-A26D 
      117.93        39.58 

$`2P LOSS WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 
       16.57       112.54        71.80       121.22        28.08        31.59 
TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3CC 
       43.40        65.49        23.77        11.87        12.10        71.24 
TCGA-D3-A3CE TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A148 TCGA-D9-A149 TCGA-D9-A1JW 
       60.23         9.30        21.47       148.31        49.74         2.70 
TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I0 
        6.38        11.34        48.89        36.03       117.17        20.38 
TCGA-DA-A1I1 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC 
      194.83        35.93        61.18        53.92        23.44        68.09 
TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z 
       28.60        10.49       215.44        15.68        29.82         8.65 
TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E 
       33.73        26.86         4.93        47.84        13.97        39.62 
TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29R 
       32.19         2.56        18.58        56.42        37.35        14.47 
TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 
       55.89       345.96        17.92        46.82        78.94        24.43 
TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-EE-A2GB TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GH 
       39.25        58.75        47.54       314.53       135.91       182.01 
TCGA-EE-A2GI TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GM TCGA-EE-A2GN 
       22.55        89.33        54.71        55.00        75.48        90.94 
TCGA-EE-A2GO TCGA-EE-A2GP TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 
      101.95        13.87        55.59        19.56        67.13        21.67 
TCGA-EE-A2M6 TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME 
      129.24        28.80        19.76        61.51        47.28       103.27 
TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2ML TCGA-EE-A2MM 
      103.17        16.96       204.62        96.23       203.01       167.87 
TCGA-EE-A2MN TCGA-EE-A2MP TCGA-EE-A2MQ TCGA-EE-A2MR TCGA-EE-A2MT TCGA-EE-A2MU 
       47.54       248.61        43.23       103.56        41.59        53.26 
TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AC TCGA-EE-A3AE TCGA-EE-A3AF TCGA-EE-A3AG 
        4.24       122.73        25.84        26.73        13.81        23.47 
TCGA-EE-A3AH TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M 
      138.77        12.59        26.37         6.41       131.08        61.05 
TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A 
       44.05        79.99        80.32        33.21        80.48       160.60 
TCGA-FS-A1YX TCGA-FS-A1Z4 TCGA-FS-A1Z7 TCGA-FS-A1ZD TCGA-FS-A1ZG TCGA-FS-A1ZH 
       48.59        28.08         7.76        53.52         9.70        32.71 
TCGA-FS-A1ZJ TCGA-FS-A1ZM TCGA-FS-A1ZP TCGA-FS-A1ZR TCGA-FS-A1ZS TCGA-FS-A1ZW 
       47.38       101.26        74.73        11.41       148.77        49.48 
TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 
       77.79        12.43        49.45        22.98        76.41       120.46 
TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A 
       84.72        10.09        64.41        62.76        32.48 

  2P LOSS MUTATED 2P LOSS WILD-TYPE 
             3.22              2.56 
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
           216.92            345.96 
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
            68.45             47.54 
[1] "3.2 - 216.9 (68.5)" "2.6 - 346.0 (47.5)"
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE"   "2P LOSS MUTATED" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE"   "2P LOSS MUTATED" "2P LOSS WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE"   "2P LOSS MUTATED" "2P LOSS WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
  "2P LOSS MUTATED" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE"   "2P LOSS MUTATED" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
  "2P LOSS MUTATED" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE"   "2P LOSS MUTATED" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE"   "2P LOSS MUTATED" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE"   "2P LOSS MUTATED" "2P LOSS WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"2P LOSS WILD-TYPE"   "2P LOSS MUTATED" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE"   "2P LOSS MUTATED" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE"   "2P LOSS MUTATED" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE"   "2P LOSS MUTATED" "2P LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-GN-A26D 
  "2P LOSS MUTATED" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE"   "2P LOSS MUTATED" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE"   "2P LOSS MUTATED" "2P LOSS WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE"   "2P LOSS MUTATED" "2P LOSS WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
  "2P LOSS MUTATED" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE"   "2P LOSS MUTATED" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
  "2P LOSS MUTATED" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE"   "2P LOSS MUTATED" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE"   "2P LOSS MUTATED" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE"   "2P LOSS MUTATED" "2P LOSS WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"2P LOSS WILD-TYPE"   "2P LOSS MUTATED" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE"   "2P LOSS MUTATED" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE"   "2P LOSS MUTATED" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE"   "2P LOSS MUTATED" "2P LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-GN-A26D 
  "2P LOSS MUTATED" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE"   "2P LOSS MUTATED" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE"   "2P LOSS MUTATED" "2P LOSS WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE"   "2P LOSS MUTATED" "2P LOSS WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
  "2P LOSS MUTATED" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE"   "2P LOSS MUTATED" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
  "2P LOSS MUTATED" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE"   "2P LOSS MUTATED" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE"   "2P LOSS MUTATED" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE"   "2P LOSS MUTATED" "2P LOSS WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"2P LOSS WILD-TYPE"   "2P LOSS MUTATED" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE"   "2P LOSS MUTATED" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE"   "2P LOSS MUTATED" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE"   "2P LOSS MUTATED" "2P LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-GN-A26D 
  "2P LOSS MUTATED" 
[1] "hr=" "1.8"
D40V2, continuous
D40V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  2P LOSS MUTATED      2   12
  2P LOSS WILD-TYPE   33  100
                                                                                          clus
vv                                                                                         2P LOSS MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)               2
  REGIONAL LYMPH NODE                                                                                   12
                                                                                          clus
vv                                                                                         2P LOSS WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                33
  REGIONAL LYMPH NODE                                                                                    100
D40V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  2P LOSS MUTATED      5    9
  2P LOSS WILD-TYPE   47   86
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  FEMALE               5                47
  MALE                 9                86
                   vv
clus                 M0  M1 M1A M1B M1C
  2P LOSS MUTATED    11   0   0   0   0
  2P LOSS WILD-TYPE 117   1   2   2   1
D40V5, multiclass
                   vv
clus                N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  2P LOSS MUTATED    9  0   0   1  0   0   1   0  1  0
  2P LOSS WILD-TYPE 68  2   6  11  1   4  10   4 15  2
D40V6, multiclass
D40V7, continuous
                   vv
clus                I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  2P LOSS MUTATED             0       0        0        2        5         0
  2P LOSS WILD-TYPE           1      16        8       11       12         7
                   vv
clus                STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  2P LOSS MUTATED           1         1         0          0          1
  2P LOSS WILD-TYPE         7         3         8          5         15
                   vv
clus                STAGE IIIC STAGE IV
  2P LOSS MUTATED            2        0
  2P LOSS WILD-TYPE         19        4
D40V8, multiclass

Clustering(41) Variable = 2q loss mutation analysis
D41V1, survival
                   sevent
clus2                0  1
  2Q LOSS MUTATED    8  5
  2Q LOSS WILD-TYPE 68 64
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
               13               132 
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
                5                64 
$`2Q LOSS MUTATED`
TCGA-D3-A3C6 TCGA-D3-A3CF TCGA-D9-A148 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29D 
       58.03        24.53       148.31       109.64        78.87        13.97 
TCGA-EE-A2GC TCGA-EE-A2GR TCGA-EE-A2MK TCGA-EE-A2MS TCGA-EE-A3AF TCGA-FS-A1YW 
       43.23        14.30       144.76       136.44        13.81       216.92 
TCGA-GN-A26D 
       39.58 

$`2Q LOSS WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 
       16.57       112.54        71.80       121.22        28.08        31.59 
TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3CC 
       43.40        65.49        23.77        11.87        12.10        71.24 
TCGA-D3-A3CE TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A149 TCGA-D9-A1JW TCGA-D9-A1JX 
       60.23         9.30        21.47        49.74         2.70         6.38 
TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I0 
       11.34         3.22        48.89        36.03       117.17        20.38 
TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IB 
      194.83       176.55        35.93        61.18        53.92        23.44 
TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X 
       68.09        28.60        10.49       215.44        15.68        29.82 
TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A29C TCGA-EE-A29E 
        8.65        33.73        26.86         4.93        47.84        39.62 
TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29R 
       32.19         2.56        18.58        56.42        37.35        14.47 
TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 
       55.89       345.96        17.92        46.82        78.94        24.43 
TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-EE-A2GB TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GH 
       39.25        58.75        47.54       314.53       135.91       182.01 
TCGA-EE-A2GI TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GM TCGA-EE-A2GN 
       22.55        89.33        54.71        55.00        75.48        90.94 
TCGA-EE-A2GO TCGA-EE-A2GP TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 
      101.95        13.87        55.59        19.56        67.13        21.67 
TCGA-EE-A2M6 TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME 
      129.24        28.80        19.76        61.51        47.28       103.27 
TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2ML TCGA-EE-A2MM 
      103.17        16.96       204.62        96.23       203.01       167.87 
TCGA-EE-A2MN TCGA-EE-A2MP TCGA-EE-A2MQ TCGA-EE-A2MR TCGA-EE-A2MT TCGA-EE-A2MU 
       47.54       248.61        43.23       103.56        41.59        53.26 
TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AC TCGA-EE-A3AD TCGA-EE-A3AE TCGA-EE-A3AG 
        4.24       122.73        25.84         3.68        26.73        23.47 
TCGA-EE-A3AH TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M 
      138.77        12.59        26.37         6.41       131.08        61.05 
TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A 
       44.05        79.99        80.32        33.21        80.48       160.60 
TCGA-FS-A1YX TCGA-FS-A1Z4 TCGA-FS-A1Z7 TCGA-FS-A1ZD TCGA-FS-A1ZG TCGA-FS-A1ZH 
       48.59        28.08         7.76        53.52         9.70        32.71 
TCGA-FS-A1ZJ TCGA-FS-A1ZM TCGA-FS-A1ZP TCGA-FS-A1ZR TCGA-FS-A1ZS TCGA-FS-A1ZW 
       47.38       101.26        74.73        11.41       148.77        49.48 
TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 
       77.79        12.43        49.45        22.98        76.41       120.46 
TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A 
      117.93        84.72        10.09        64.41        62.76        32.48 

  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
            13.81              2.56 
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
           216.92            345.96 
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
            58.03             47.54 
[1] "13.8 - 216.9 (58.0)" "2.6 - 346.0 (47.5)" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
  "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-GN-A26D 
  "2Q LOSS MUTATED" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
  "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-GN-A26D 
  "2Q LOSS MUTATED" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
  "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE"   "2Q LOSS MUTATED" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-GN-A26D 
  "2Q LOSS MUTATED" 
[1] "hr=" "1.6"
D41V2, continuous
D41V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  2Q LOSS MUTATED      2   11
  2Q LOSS WILD-TYPE   33  101
                                                                                          clus
vv                                                                                         2Q LOSS MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)               2
  REGIONAL LYMPH NODE                                                                                   11
                                                                                          clus
vv                                                                                         2Q LOSS WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                33
  REGIONAL LYMPH NODE                                                                                    101
D41V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  2Q LOSS MUTATED      6    7
  2Q LOSS WILD-TYPE   46   88
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  FEMALE               6                46
  MALE                 7                88
                   vv
clus                 M0  M1 M1A M1B M1C
  2Q LOSS MUTATED    10   0   0   1   0
  2Q LOSS WILD-TYPE 118   1   2   1   1
D41V5, multiclass
                   vv
clus                N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  2Q LOSS MUTATED    9  0   0   1  0   0   0   0  2  0
  2Q LOSS WILD-TYPE 68  2   6  11  1   4  11   4 14  2
D41V6, multiclass
D41V7, continuous
                   vv
clus                I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  2Q LOSS MUTATED             0       0        0        2        5         0
  2Q LOSS WILD-TYPE           1      16        8       11       12         7
                   vv
clus                STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  2Q LOSS MUTATED           1         1         0          0          0
  2Q LOSS WILD-TYPE         7         3         8          5         16
                   vv
clus                STAGE IIIC STAGE IV
  2Q LOSS MUTATED            2        0
  2Q LOSS WILD-TYPE         19        4
D41V8, multiclass

Clustering(42) Variable = 3p loss mutation analysis
D42V1, survival
                   sevent
clus2                0  1
  3P LOSS MUTATED    5  5
  3P LOSS WILD-TYPE 71 64
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
               10               135 
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
                5                64 
$`3P LOSS MUTATED`
TCGA-D3-A1Q5 TCGA-D3-A3C6 TCGA-DA-A1HW TCGA-DA-A1I2 TCGA-DA-A1I7 TCGA-EE-A2M6 
      112.54        58.03        36.03       176.55        61.18       129.24 
TCGA-EE-A3AG TCGA-FS-A1YX TCGA-FS-A1ZM TCGA-GN-A262 
       23.47        48.59       101.26       120.46 

$`3P LOSS WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.57        71.80       121.22        28.08        31.59        43.40 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3CC TCGA-D3-A3CE 
       65.49        23.77        11.87        12.10        71.24        60.23 
TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A148 TCGA-D9-A149 TCGA-D9-A1JW 
       24.53         9.30        21.47       148.31        49.74         2.70 
TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HY TCGA-DA-A1I0 
        6.38        11.34         3.22        48.89       117.17        20.38 
TCGA-DA-A1I1 TCGA-DA-A1I4 TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 
      194.83        35.93        53.92        23.44        68.09        28.60 
TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 
       10.49       215.44        15.68        29.82         8.65        33.73 
TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D 
       26.86         4.93       109.64        78.87        47.84        13.97 
TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q 
       39.62        32.19         2.56        18.58        56.42        37.35 
TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 
       14.47        55.89       345.96        17.92        46.82        78.94 
TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-EE-A2GB TCGA-EE-A2GC TCGA-EE-A2GD 
       24.43        39.25        58.75        47.54        43.23       314.53 
TCGA-EE-A2GE TCGA-EE-A2GH TCGA-EE-A2GI TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL 
      135.91       182.01        22.55        89.33        54.71        55.00 
TCGA-EE-A2GM TCGA-EE-A2GN TCGA-EE-A2GO TCGA-EE-A2GP TCGA-EE-A2GR TCGA-EE-A2GS 
       75.48        90.94       101.95        13.87        14.30        55.59 
TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC 
       19.56        67.13        21.67        28.80        19.76        61.51 
TCGA-EE-A2MD TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MJ 
       47.28       103.27       103.17        16.96       204.62        96.23 
TCGA-EE-A2MK TCGA-EE-A2ML TCGA-EE-A2MM TCGA-EE-A2MN TCGA-EE-A2MP TCGA-EE-A2MQ 
      144.76       203.01       167.87        47.54       248.61        43.23 
TCGA-EE-A2MR TCGA-EE-A2MS TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AB 
      103.56       136.44        41.59        53.26         4.24       122.73 
TCGA-EE-A3AC TCGA-EE-A3AD TCGA-EE-A3AE TCGA-EE-A3AF TCGA-EE-A3AH TCGA-ER-A19D 
       25.84         3.68        26.73        13.81       138.77        12.59 
TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 
       26.37         6.41       131.08        61.05        44.05        79.99 
TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1Z4 
       80.32        33.21        80.48       160.60       216.92        28.08 
TCGA-FS-A1Z7 TCGA-FS-A1ZD TCGA-FS-A1ZG TCGA-FS-A1ZH TCGA-FS-A1ZJ TCGA-FS-A1ZP 
        7.76        53.52         9.70        32.71        47.38        74.73 
TCGA-FS-A1ZR TCGA-FS-A1ZS TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC 
       11.41       148.77        49.48        77.79        12.43        49.45 
TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A267 
       22.98        76.41       117.93        84.72        10.09        64.41 
TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       62.76        32.48        39.58 

  3P LOSS MUTATED 3P LOSS WILD-TYPE 
            23.47              2.56 
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
           176.55            345.96 
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
            81.22             47.28 
[1] "23.5 - 176.6 (81.2)" "2.6 - 346.0 (47.3)" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"3P LOSS WILD-TYPE"   "3P LOSS MUTATED" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE"   "3P LOSS MUTATED" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
  "3P LOSS MUTATED" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
  "3P LOSS MUTATED" "3P LOSS WILD-TYPE"   "3P LOSS MUTATED" "3P LOSS WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
  "3P LOSS MUTATED" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE"   "3P LOSS MUTATED" "3P LOSS WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
  "3P LOSS MUTATED" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE"   "3P LOSS MUTATED" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"3P LOSS WILD-TYPE"   "3P LOSS MUTATED" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-GN-A26D 
"3P LOSS WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"3P LOSS WILD-TYPE"   "3P LOSS MUTATED" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE"   "3P LOSS MUTATED" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
  "3P LOSS MUTATED" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
  "3P LOSS MUTATED" "3P LOSS WILD-TYPE"   "3P LOSS MUTATED" "3P LOSS WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
  "3P LOSS MUTATED" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE"   "3P LOSS MUTATED" "3P LOSS WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
  "3P LOSS MUTATED" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE"   "3P LOSS MUTATED" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"3P LOSS WILD-TYPE"   "3P LOSS MUTATED" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-GN-A26D 
"3P LOSS WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"3P LOSS WILD-TYPE"   "3P LOSS MUTATED" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE"   "3P LOSS MUTATED" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
  "3P LOSS MUTATED" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
  "3P LOSS MUTATED" "3P LOSS WILD-TYPE"   "3P LOSS MUTATED" "3P LOSS WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
  "3P LOSS MUTATED" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE"   "3P LOSS MUTATED" "3P LOSS WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
  "3P LOSS MUTATED" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE"   "3P LOSS MUTATED" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"3P LOSS WILD-TYPE"   "3P LOSS MUTATED" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" "3P LOSS WILD-TYPE" 
       TCGA-GN-A26D 
"3P LOSS WILD-TYPE" 
[1] "hr=" "1.3"
D42V2, continuous
D42V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  3P LOSS MUTATED      5    5
  3P LOSS WILD-TYPE   30  107
                                                                                          clus
vv                                                                                         3P LOSS MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)               5
  REGIONAL LYMPH NODE                                                                                    5
                                                                                          clus
vv                                                                                         3P LOSS WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                30
  REGIONAL LYMPH NODE                                                                                    107
D42V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  3P LOSS MUTATED      4    6
  3P LOSS WILD-TYPE   48   89
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  FEMALE               4                48
  MALE                 6                89
                   vv
clus                 M0  M1 M1A M1B M1C
  3P LOSS MUTATED     8   0   0   0   0
  3P LOSS WILD-TYPE 120   1   2   2   1
D42V5, multiclass
                   vv
clus                N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  3P LOSS MUTATED    4  0   0   1  0   0   2   1  0  0
  3P LOSS WILD-TYPE 73  2   6  11  1   4   9   3 16  2
D42V6, multiclass
D42V7, continuous
                   vv
clus                I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  3P LOSS MUTATED             1       2        0        1        0         0
  3P LOSS WILD-TYPE           0      14        8       12       17         7
                   vv
clus                STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  3P LOSS MUTATED           0         0         1          0          2
  3P LOSS WILD-TYPE         8         4         7          5         14
                   vv
clus                STAGE IIIC STAGE IV
  3P LOSS MUTATED            1        0
  3P LOSS WILD-TYPE         20        4
D42V8, multiclass

Clustering(43) Variable = 3q loss mutation analysis
D43V1, survival
                   sevent
clus2                0  1
  3Q LOSS MUTATED    5  7
  3Q LOSS WILD-TYPE 71 62
  3Q LOSS MUTATED 3Q LOSS WILD-TYPE 
               12               133 
  3Q LOSS MUTATED 3Q LOSS WILD-TYPE 
                7                62 
$`3Q LOSS MUTATED`
TCGA-D3-A1Q5 TCGA-D3-A3C6 TCGA-DA-A1HW TCGA-DA-A1I2 TCGA-DA-A1I7 TCGA-EE-A29H 
      112.54        58.03        36.03       176.55        61.18        32.19 
TCGA-EE-A2GJ TCGA-FS-A1YX TCGA-FS-A1ZM TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A268 
       89.33        48.59       101.26       120.46       117.93        62.76 

$`3Q LOSS WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.57        71.80       121.22        28.08        31.59        43.40 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3CC TCGA-D3-A3CE 
       65.49        23.77        11.87        12.10        71.24        60.23 
TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A148 TCGA-D9-A149 TCGA-D9-A1JW 
       24.53         9.30        21.47       148.31        49.74         2.70 
TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HY TCGA-DA-A1I0 
        6.38        11.34         3.22        48.89       117.17        20.38 
TCGA-DA-A1I1 TCGA-DA-A1I4 TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 
      194.83        35.93        53.92        23.44        68.09        28.60 
TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 
       10.49       215.44        15.68        29.82         8.65        33.73 
TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D 
       26.86         4.93       109.64        78.87        47.84        13.97 
TCGA-EE-A29E TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29R 
       39.62         2.56        18.58        56.42        37.35        14.47 
TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 
       55.89       345.96        17.92        46.82        78.94        24.43 
TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-EE-A2GB TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GE 
       39.25        58.75        47.54        43.23       314.53       135.91 
TCGA-EE-A2GH TCGA-EE-A2GI TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GM TCGA-EE-A2GN 
      182.01        22.55        54.71        55.00        75.48        90.94 
TCGA-EE-A2GO TCGA-EE-A2GP TCGA-EE-A2GR TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2GU 
      101.95        13.87        14.30        55.59        19.56        67.13 
TCGA-EE-A2M5 TCGA-EE-A2M6 TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD 
       21.67       129.24        28.80        19.76        61.51        47.28 
TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2MK 
      103.27       103.17        16.96       204.62        96.23       144.76 
TCGA-EE-A2ML TCGA-EE-A2MM TCGA-EE-A2MN TCGA-EE-A2MP TCGA-EE-A2MQ TCGA-EE-A2MR 
      203.01       167.87        47.54       248.61        43.23       103.56 
TCGA-EE-A2MS TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AC 
      136.44        41.59        53.26         4.24       122.73        25.84 
TCGA-EE-A3AD TCGA-EE-A3AE TCGA-EE-A3AF TCGA-EE-A3AG TCGA-EE-A3AH TCGA-ER-A19D 
        3.68        26.73        13.81        23.47       138.77        12.59 
TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 
       26.37         6.41       131.08        61.05        44.05        79.99 
TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1Z4 
       80.32        33.21        80.48       160.60       216.92        28.08 
TCGA-FS-A1Z7 TCGA-FS-A1ZD TCGA-FS-A1ZG TCGA-FS-A1ZH TCGA-FS-A1ZJ TCGA-FS-A1ZP 
        7.76        53.52         9.70        32.71        47.38        74.73 
TCGA-FS-A1ZR TCGA-FS-A1ZS TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC 
       11.41       148.77        49.48        77.79        12.43        49.45 
TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A26A 
       22.98        76.41        84.72        10.09        64.41        32.48 
TCGA-GN-A26D 
       39.58 

  3Q LOSS MUTATED 3Q LOSS WILD-TYPE 
            32.19              2.56 
  3Q LOSS MUTATED 3Q LOSS WILD-TYPE 
           176.55            345.96 
  3Q LOSS MUTATED 3Q LOSS WILD-TYPE 
           76.045            46.820 
[1] "32.2 - 176.6 (76.0)" "2.6 - 346.0 (46.8)" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"3Q LOSS WILD-TYPE"   "3Q LOSS MUTATED" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE"   "3Q LOSS MUTATED" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
  "3Q LOSS MUTATED" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
  "3Q LOSS MUTATED" "3Q LOSS WILD-TYPE"   "3Q LOSS MUTATED" "3Q LOSS WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
  "3Q LOSS MUTATED" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
  "3Q LOSS MUTATED" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
  "3Q LOSS MUTATED" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE"   "3Q LOSS MUTATED" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"3Q LOSS WILD-TYPE"   "3Q LOSS MUTATED"   "3Q LOSS MUTATED" "3Q LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE"   "3Q LOSS MUTATED" "3Q LOSS WILD-TYPE" 
       TCGA-GN-A26D 
"3Q LOSS WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"3Q LOSS WILD-TYPE"   "3Q LOSS MUTATED" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE"   "3Q LOSS MUTATED" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
  "3Q LOSS MUTATED" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
  "3Q LOSS MUTATED" "3Q LOSS WILD-TYPE"   "3Q LOSS MUTATED" "3Q LOSS WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
  "3Q LOSS MUTATED" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
  "3Q LOSS MUTATED" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
  "3Q LOSS MUTATED" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE"   "3Q LOSS MUTATED" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"3Q LOSS WILD-TYPE"   "3Q LOSS MUTATED"   "3Q LOSS MUTATED" "3Q LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE"   "3Q LOSS MUTATED" "3Q LOSS WILD-TYPE" 
       TCGA-GN-A26D 
"3Q LOSS WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"3Q LOSS WILD-TYPE"   "3Q LOSS MUTATED" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE"   "3Q LOSS MUTATED" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
  "3Q LOSS MUTATED" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
  "3Q LOSS MUTATED" "3Q LOSS WILD-TYPE"   "3Q LOSS MUTATED" "3Q LOSS WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
  "3Q LOSS MUTATED" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
  "3Q LOSS MUTATED" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
  "3Q LOSS MUTATED" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE"   "3Q LOSS MUTATED" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"3Q LOSS WILD-TYPE"   "3Q LOSS MUTATED"   "3Q LOSS MUTATED" "3Q LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"3Q LOSS WILD-TYPE" "3Q LOSS WILD-TYPE"   "3Q LOSS MUTATED" "3Q LOSS WILD-TYPE" 
       TCGA-GN-A26D 
"3Q LOSS WILD-TYPE" 
[1] "hr=" "1.1"
D43V2, continuous
D43V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  3Q LOSS MUTATED      4    8
  3Q LOSS WILD-TYPE   31  104
                                                                                          clus
vv                                                                                         3Q LOSS MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)               4
  REGIONAL LYMPH NODE                                                                                    8
                                                                                          clus
vv                                                                                         3Q LOSS WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                31
  REGIONAL LYMPH NODE                                                                                    104
D43V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  3Q LOSS MUTATED      6    6
  3Q LOSS WILD-TYPE   46   89
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  FEMALE               6                46
  MALE                 6                89
                   vv
clus                 M0  M1 M1A M1B M1C
  3Q LOSS MUTATED    10   0   0   0   0
  3Q LOSS WILD-TYPE 118   1   2   2   1
D43V5, multiclass
                   vv
clus                N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  3Q LOSS MUTATED    6  0   0   1  0   0   2   1  0  0
  3Q LOSS WILD-TYPE 71  2   6  11  1   4   9   3 16  2
D43V6, multiclass
D43V7, continuous
                   vv
clus                I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  3Q LOSS MUTATED             1       1        2        1        0         0
  3Q LOSS WILD-TYPE           0      15        6       12       17         7
                   vv
clus                STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  3Q LOSS MUTATED           1         0         1          0          2
  3Q LOSS WILD-TYPE         7         4         7          5         14
                   vv
clus                STAGE IIIC STAGE IV
  3Q LOSS MUTATED            1        0
  3Q LOSS WILD-TYPE         20        4
D43V8, multiclass

Clustering(44) Variable = 4p loss mutation analysis
D44V1, survival
                   sevent
clus2                0  1
  4P LOSS MUTATED    8  7
  4P LOSS WILD-TYPE 68 62
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
               15               130 
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
                7                62 
$`4P LOSS MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A2J6 TCGA-D3-A3CC TCGA-D9-A148 TCGA-D9-A3Z3 TCGA-DA-A1HW 
       16.57        43.40        71.24       148.31         3.22        36.03 
TCGA-EE-A29C TCGA-EE-A2GM TCGA-EE-A2GO TCGA-EE-A2MM TCGA-EE-A2MQ TCGA-EE-A2MS 
       47.84        75.48       101.95       167.87        43.23       136.44 
TCGA-EE-A3AG TCGA-ER-A19D TCGA-GN-A266 
       23.47        12.59        10.09 

$`4P LOSS WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J8 
      112.54        71.80       121.22        28.08        31.59        65.49 
TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE TCGA-D3-A3CF 
       23.77        11.87        12.10        58.03        60.23        24.53 
TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A149 TCGA-D9-A1JW TCGA-D9-A1JX TCGA-D9-A3Z1 
        9.30        21.47        49.74         2.70         6.38        11.34 
TCGA-DA-A1HV TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 
       48.89       117.17        20.38       194.83       176.55        35.93 
TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 
       61.18        53.92        23.44        68.09        28.60        10.49 
TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 
      215.44        15.68        29.82         8.65        33.73        26.86 
TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H 
        4.93       109.64        78.87        13.97        39.62        32.19 
TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S 
        2.56        18.58        56.42        37.35        14.47        55.89 
TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 
      345.96        17.92        46.82        78.94        24.43        39.25 
TCGA-EE-A2A6 TCGA-EE-A2GB TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GH 
       58.75        47.54        43.23       314.53       135.91       182.01 
TCGA-EE-A2GI TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GN TCGA-EE-A2GP 
       22.55        89.33        54.71        55.00        90.94        13.87 
TCGA-EE-A2GR TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 TCGA-EE-A2M6 
       14.30        55.59        19.56        67.13        21.67       129.24 
TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME TCGA-EE-A2MG 
       28.80        19.76        61.51        47.28       103.27       103.17 
TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2MK TCGA-EE-A2ML TCGA-EE-A2MN 
       16.96       204.62        96.23       144.76       203.01        47.54 
TCGA-EE-A2MP TCGA-EE-A2MR TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AB 
      248.61       103.56        41.59        53.26         4.24       122.73 
TCGA-EE-A3AC TCGA-EE-A3AD TCGA-EE-A3AE TCGA-EE-A3AF TCGA-EE-A3AH TCGA-ER-A19F 
       25.84         3.68        26.73        13.81       138.77        26.37 
TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET 
        6.41       131.08        61.05        44.05        79.99        80.32 
TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1Z4 
       33.21        80.48       160.60       216.92        48.59        28.08 
TCGA-FS-A1Z7 TCGA-FS-A1ZD TCGA-FS-A1ZG TCGA-FS-A1ZH TCGA-FS-A1ZJ TCGA-FS-A1ZM 
        7.76        53.52         9.70        32.71        47.38       101.26 
TCGA-FS-A1ZP TCGA-FS-A1ZR TCGA-FS-A1ZS TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 
       74.73        11.41       148.77        49.48        77.79        12.43 
TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 
       49.45        22.98        76.41       120.46       117.93        84.72 
TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       64.41        62.76        32.48        39.58 

  4P LOSS MUTATED 4P LOSS WILD-TYPE 
             3.22              2.56 
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
           167.87            345.96 
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
           43.400            48.065 
[1] "3.2 - 167.9 (43.4)" "2.6 - 346.0 (48.1)"
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
  "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
  "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
  "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
  "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
  "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
  "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-GN-A26D 
"4P LOSS WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
  "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
  "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
  "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
  "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
  "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
  "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-GN-A26D 
"4P LOSS WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
  "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
  "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
  "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
  "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE"   "4P LOSS MUTATED" "4P LOSS WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
  "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
  "4P LOSS MUTATED" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-GN-A26D 
"4P LOSS WILD-TYPE" 
[1] "hr=" "1"  
D44V2, continuous
D44V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  4P LOSS MUTATED      6    9
  4P LOSS WILD-TYPE   29  103
                                                                                          clus
vv                                                                                         4P LOSS MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)               6
  REGIONAL LYMPH NODE                                                                                    9
                                                                                          clus
vv                                                                                         4P LOSS WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                29
  REGIONAL LYMPH NODE                                                                                    103
D44V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  4P LOSS MUTATED      8    7
  4P LOSS WILD-TYPE   44   88
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  FEMALE               8                44
  MALE                 7                88
                   vv
clus                 M0  M1 M1A M1B M1C
  4P LOSS MUTATED    12   0   0   1   0
  4P LOSS WILD-TYPE 116   1   2   1   1
D44V5, multiclass
                   vv
clus                N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  4P LOSS MUTATED    8  0   0   2  0   1   0   0  2  0
  4P LOSS WILD-TYPE 69  2   6  10  1   3  11   4 14  2
D44V6, multiclass
D44V7, continuous
                   vv
clus                I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  4P LOSS MUTATED             0       1        0        2        2         0
  4P LOSS WILD-TYPE           1      15        8       11       15         7
                   vv
clus                STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  4P LOSS MUTATED           1         2         0          1          2
  4P LOSS WILD-TYPE         7         2         8          4         14
                   vv
clus                STAGE IIIC STAGE IV
  4P LOSS MUTATED            1        0
  4P LOSS WILD-TYPE         20        4
D44V8, multiclass

Clustering(45) Variable = 4q loss mutation analysis
D45V1, survival
                   sevent
clus2                0  1
  4Q LOSS MUTATED    8  8
  4Q LOSS WILD-TYPE 68 61
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
               16               129 
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
                8                61 
$`4Q LOSS MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q8 TCGA-D3-A3CC TCGA-D9-A148 TCGA-D9-A3Z3 TCGA-DA-A1HW 
       16.57        28.08        71.24       148.31         3.22        36.03 
TCGA-EE-A181 TCGA-EE-A29C TCGA-EE-A2GM TCGA-EE-A2GO TCGA-EE-A2MM TCGA-EE-A2MQ 
       33.73        47.84        75.48       101.95       167.87        43.23 
TCGA-EE-A2MS TCGA-EE-A3AG TCGA-ER-A19D TCGA-GN-A266 
      136.44        23.47        12.59        10.09 

$`4Q LOSS WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A2J8 
      112.54        71.80       121.22        31.59        43.40        65.49 
TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE TCGA-D3-A3CF 
       23.77        11.87        12.10        58.03        60.23        24.53 
TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A149 TCGA-D9-A1JW TCGA-D9-A1JX TCGA-D9-A3Z1 
        9.30        21.47        49.74         2.70         6.38        11.34 
TCGA-DA-A1HV TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 
       48.89       117.17        20.38       194.83       176.55        35.93 
TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 
       61.18        53.92        23.44        68.09        28.60        10.49 
TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A183 TCGA-EE-A185 
      215.44        15.68        29.82         8.65        26.86         4.93 
TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L 
      109.64        78.87        13.97        39.62        32.19         2.56 
TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T 
       18.58        56.42        37.35        14.47        55.89       345.96 
TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 
       17.92        46.82        78.94        24.43        39.25        58.75 
TCGA-EE-A2GB TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GH TCGA-EE-A2GI 
       47.54        43.23       314.53       135.91       182.01        22.55 
TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GN TCGA-EE-A2GP TCGA-EE-A2GR 
       89.33        54.71        55.00        90.94        13.87        14.30 
TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 TCGA-EE-A2M6 TCGA-EE-A2M7 
       55.59        19.56        67.13        21.67       129.24        28.80 
TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MH 
       19.76        61.51        47.28       103.27       103.17        16.96 
TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2MK TCGA-EE-A2ML TCGA-EE-A2MN TCGA-EE-A2MP 
      204.62        96.23       144.76       203.01        47.54       248.61 
TCGA-EE-A2MR TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AC 
      103.56        41.59        53.26         4.24       122.73        25.84 
TCGA-EE-A3AD TCGA-EE-A3AE TCGA-EE-A3AF TCGA-EE-A3AH TCGA-ER-A19F TCGA-ER-A19J 
        3.68        26.73        13.81       138.77        26.37         6.41 
TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-ER-A3PL 
      131.08        61.05        44.05        79.99        80.32        33.21 
TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1Z4 TCGA-FS-A1Z7 
       80.48       160.60       216.92        48.59        28.08         7.76 
TCGA-FS-A1ZD TCGA-FS-A1ZG TCGA-FS-A1ZH TCGA-FS-A1ZJ TCGA-FS-A1ZM TCGA-FS-A1ZP 
       53.52         9.70        32.71        47.38       101.26        74.73 
TCGA-FS-A1ZR TCGA-FS-A1ZS TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC 
       11.41       148.77        49.48        77.79        12.43        49.45 
TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 
       22.98        76.41       120.46       117.93        84.72        64.41 
TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       62.76        32.48        39.58 

  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
             3.22              2.56 
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
           167.87            345.96 
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
            39.63             48.59 
[1] "3.2 - 167.9 (39.6)" "2.6 - 346.0 (48.6)"
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-GN-A26D 
"4Q LOSS WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-GN-A26D 
"4Q LOSS WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE"   "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
  "4Q LOSS MUTATED" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-GN-A26D 
"4Q LOSS WILD-TYPE" 
[1] "hr=" "1.2"
D45V2, continuous
D45V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  4Q LOSS MUTATED      6   10
  4Q LOSS WILD-TYPE   29  102
                                                                                          clus
vv                                                                                         4Q LOSS MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)               6
  REGIONAL LYMPH NODE                                                                                   10
                                                                                          clus
vv                                                                                         4Q LOSS WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                29
  REGIONAL LYMPH NODE                                                                                    102
D45V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  4Q LOSS MUTATED      9    7
  4Q LOSS WILD-TYPE   43   88
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  FEMALE               9                43
  MALE                 7                88
                   vv
clus                 M0  M1 M1A M1B M1C
  4Q LOSS MUTATED    12   0   0   2   0
  4Q LOSS WILD-TYPE 116   1   2   0   1
D45V5, multiclass
                   vv
clus                N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  4Q LOSS MUTATED    8  0   0   2  0   1   0   0  3  0
  4Q LOSS WILD-TYPE 69  2   6  10  1   3  11   4 13  2
D45V6, multiclass
D45V7, continuous
                   vv
clus                I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  4Q LOSS MUTATED             0       1        0        2        3         0
  4Q LOSS WILD-TYPE           1      15        8       11       14         7
                   vv
clus                STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  4Q LOSS MUTATED           0         2         0          1          2
  4Q LOSS WILD-TYPE         8         2         8          4         14
                   vv
clus                STAGE IIIC STAGE IV
  4Q LOSS MUTATED            1        1
  4Q LOSS WILD-TYPE         20        3
D45V8, multiclass

Clustering(46) Variable = 5p loss mutation analysis
D46V1, survival
                   sevent
clus2                0  1
  5P LOSS MUTATED   10  8
  5P LOSS WILD-TYPE 66 61
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
               18               127 
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
                8                61 
$`5P LOSS MUTATED`
TCGA-D3-A1Q1 TCGA-DA-A1HV TCGA-EE-A17X TCGA-EE-A185 TCGA-EE-A29C TCGA-EE-A29E 
       16.57        48.89        29.82         4.93        47.84        39.62 
TCGA-EE-A2A2 TCGA-EE-A2GE TCGA-EE-A2GJ TCGA-EE-A2GR TCGA-EE-A2MM TCGA-EE-A2MQ 
       24.43       135.91        89.33        14.30       167.87        43.23 
TCGA-EE-A3AD TCGA-FS-A1ZG TCGA-FS-A1ZM TCGA-GN-A262 TCGA-GN-A266 TCGA-GN-A268 
        3.68         9.70       101.26       120.46        10.09        62.76 

$`5P LOSS WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
      112.54        71.80       121.22        28.08        31.59        43.40 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC 
       65.49        23.77        11.87        12.10        58.03        71.24 
TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A148 TCGA-D9-A149 
       60.23        24.53         9.30        21.47       148.31        49.74 
TCGA-D9-A1JW TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HW TCGA-DA-A1HY 
        2.70         6.38        11.34         3.22        36.03       117.17 
TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 
       20.38       194.83       176.55        35.93        61.18        53.92 
TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 
       23.44        68.09        28.60        10.49       215.44        15.68 
TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29D 
        8.65        33.73        26.86       109.64        78.87        13.97 
TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29R 
       32.19         2.56        18.58        56.42        37.35        14.47 
TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A5 
       55.89       345.96        17.92        46.82        78.94        39.25 
TCGA-EE-A2A6 TCGA-EE-A2GB TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GH TCGA-EE-A2GI 
       58.75        47.54        43.23       314.53       182.01        22.55 
TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GM TCGA-EE-A2GN TCGA-EE-A2GO TCGA-EE-A2GP 
       54.71        55.00        75.48        90.94       101.95        13.87 
TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 TCGA-EE-A2M6 TCGA-EE-A2M7 
       55.59        19.56        67.13        21.67       129.24        28.80 
TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MH 
       19.76        61.51        47.28       103.27       103.17        16.96 
TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2MK TCGA-EE-A2ML TCGA-EE-A2MN TCGA-EE-A2MP 
      204.62        96.23       144.76       203.01        47.54       248.61 
TCGA-EE-A2MR TCGA-EE-A2MS TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AB 
      103.56       136.44        41.59        53.26         4.24       122.73 
TCGA-EE-A3AC TCGA-EE-A3AE TCGA-EE-A3AF TCGA-EE-A3AG TCGA-EE-A3AH TCGA-ER-A19D 
       25.84        26.73        13.81        23.47       138.77        12.59 
TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 
       26.37         6.41       131.08        61.05        44.05        79.99 
TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1YX 
       80.32        33.21        80.48       160.60       216.92        48.59 
TCGA-FS-A1Z4 TCGA-FS-A1Z7 TCGA-FS-A1ZD TCGA-FS-A1ZH TCGA-FS-A1ZJ TCGA-FS-A1ZP 
       28.08         7.76        53.52        32.71        47.38        74.73 
TCGA-FS-A1ZR TCGA-FS-A1ZS TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC 
       11.41       148.77        49.48        77.79        12.43        49.45 
TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A26A 
       22.98        76.41       117.93        84.72        64.41        32.48 
TCGA-GN-A26D 
       39.58 

  5P LOSS MUTATED 5P LOSS WILD-TYPE 
             3.68              2.56 
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
           167.87            345.96 
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
           41.425            48.590 
[1] "3.7 - 167.9 (41.4)" "2.6 - 346.0 (48.6)"
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
  "5P LOSS MUTATED" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
  "5P LOSS MUTATED" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
  "5P LOSS MUTATED" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
  "5P LOSS MUTATED" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
  "5P LOSS MUTATED" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" 
       TCGA-GN-A26D 
"5P LOSS WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
  "5P LOSS MUTATED" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
  "5P LOSS MUTATED" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
  "5P LOSS MUTATED" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
  "5P LOSS MUTATED" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
  "5P LOSS MUTATED" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" 
       TCGA-GN-A26D 
"5P LOSS WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
  "5P LOSS MUTATED" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
  "5P LOSS MUTATED" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
  "5P LOSS MUTATED" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
  "5P LOSS MUTATED" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
  "5P LOSS MUTATED" "5P LOSS WILD-TYPE"   "5P LOSS MUTATED" "5P LOSS WILD-TYPE" 
       TCGA-GN-A26D 
"5P LOSS WILD-TYPE" 
[1] "hr=" "1.1"
D46V2, continuous
D46V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5P LOSS MUTATED      4   14
  5P LOSS WILD-TYPE   31   98
                                                                                          clus
vv                                                                                         5P LOSS MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)               4
  REGIONAL LYMPH NODE                                                                                   14
                                                                                          clus
vv                                                                                         5P LOSS WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                31
  REGIONAL LYMPH NODE                                                                                     98
D46V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5P LOSS MUTATED      8   10
  5P LOSS WILD-TYPE   44   85
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  FEMALE               8                44
  MALE                10                85
                   vv
clus                 M0  M1 M1A M1B M1C
  5P LOSS MUTATED    15   0   0   0   0
  5P LOSS WILD-TYPE 113   1   2   2   1
D46V5, multiclass
                   vv
clus                N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  5P LOSS MUTATED    7  0   0   2  0   1   2   1  2  0
  5P LOSS WILD-TYPE 70  2   6  10  1   3   9   3 14  2
D46V6, multiclass
D46V7, continuous
                   vv
clus                I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  5P LOSS MUTATED             0       2        2        1        1         0
  5P LOSS WILD-TYPE           1      14        6       12       16         7
                   vv
clus                STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  5P LOSS MUTATED           1         0         1          1          3
  5P LOSS WILD-TYPE         7         4         7          4         13
                   vv
clus                STAGE IIIC STAGE IV
  5P LOSS MUTATED            3        0
  5P LOSS WILD-TYPE         18        4
D46V8, multiclass

Clustering(47) Variable = 5q loss mutation analysis
D47V1, survival
                   sevent
clus2                0  1
  5Q LOSS MUTATED   16 15
  5Q LOSS WILD-TYPE 60 54
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
               31               114 
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
               15                54 
$`5Q LOSS MUTATED`
TCGA-D3-A1Q8 TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CF TCGA-D9-A1JX TCGA-D9-A3Z1 
       28.08        12.10        58.03        24.53         6.38        11.34 
TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1I0 TCGA-DA-A1I7 TCGA-EE-A17X TCGA-EE-A185 
       48.89        36.03        20.38        61.18        29.82         4.93 
TCGA-EE-A29C TCGA-EE-A29E TCGA-EE-A2A2 TCGA-EE-A2GE TCGA-EE-A2GJ TCGA-EE-A2GR 
       47.84        39.62        24.43       135.91        89.33        14.30 
TCGA-EE-A2GT TCGA-EE-A2M6 TCGA-EE-A2MM TCGA-EE-A2MQ TCGA-EE-A3AB TCGA-EE-A3AD 
       19.56       129.24       167.87        43.23       122.73         3.68 
TCGA-EE-A3AH TCGA-FS-A1YX TCGA-FS-A1ZG TCGA-FS-A1ZM TCGA-GN-A262 TCGA-GN-A266 
      138.77        48.59         9.70       101.26       120.46        10.09 
TCGA-GN-A268 
       62.76 

$`5Q LOSS WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.57       112.54        71.80       121.22        31.59        43.40 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3MO 
       65.49        23.77        11.87        71.24        60.23         9.30 
TCGA-D3-A3MV TCGA-D9-A148 TCGA-D9-A149 TCGA-D9-A1JW TCGA-D9-A3Z3 TCGA-DA-A1HY 
       21.47       148.31        49.74         2.70         3.22       117.17 
TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC 
      194.83       176.55        35.93        53.92        23.44        68.09 
TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17Z TCGA-EE-A181 
       28.60        10.49       215.44        15.68         8.65        33.73 
TCGA-EE-A183 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29D TCGA-EE-A29H TCGA-EE-A29L 
       26.86       109.64        78.87        13.97        32.19         2.56 
TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T 
       18.58        56.42        37.35        14.47        55.89       345.96 
TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-EE-A2GB 
       17.92        46.82        78.94        39.25        58.75        47.54 
TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GH TCGA-EE-A2GI TCGA-EE-A2GK TCGA-EE-A2GL 
       43.23       314.53       182.01        22.55        54.71        55.00 
TCGA-EE-A2GM TCGA-EE-A2GN TCGA-EE-A2GO TCGA-EE-A2GP TCGA-EE-A2GS TCGA-EE-A2GU 
       75.48        90.94       101.95        13.87        55.59        67.13 
TCGA-EE-A2M5 TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME 
       21.67        28.80        19.76        61.51        47.28       103.27 
TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2MK TCGA-EE-A2ML 
      103.17        16.96       204.62        96.23       144.76       203.01 
TCGA-EE-A2MN TCGA-EE-A2MP TCGA-EE-A2MR TCGA-EE-A2MS TCGA-EE-A2MT TCGA-EE-A2MU 
       47.54       248.61       103.56       136.44        41.59        53.26 
TCGA-EE-A3AA TCGA-EE-A3AC TCGA-EE-A3AE TCGA-EE-A3AF TCGA-EE-A3AG TCGA-ER-A19D 
        4.24        25.84        26.73        13.81        23.47        12.59 
TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 
       26.37         6.41       131.08        61.05        44.05        79.99 
TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1Z4 
       80.32        33.21        80.48       160.60       216.92        28.08 
TCGA-FS-A1Z7 TCGA-FS-A1ZD TCGA-FS-A1ZH TCGA-FS-A1ZJ TCGA-FS-A1ZP TCGA-FS-A1ZR 
        7.76        53.52        32.71        47.38        74.73        11.41 
TCGA-FS-A1ZS TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 
      148.77        49.48        77.79        12.43        49.45        22.98 
TCGA-GN-A261 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A26A TCGA-GN-A26D 
       76.41       117.93        84.72        64.41        32.48        39.58 

  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
             3.68              2.56 
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
           167.87            345.96 
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
           39.620            49.465 
[1] "3.7 - 167.9 (39.6)" "2.6 - 346.0 (49.5)"
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
  "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED"   "5Q LOSS MUTATED" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
  "5Q LOSS MUTATED"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
  "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
  "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
  "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
  "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
  "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
  "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
  "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-GN-A26D 
"5Q LOSS WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
  "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED"   "5Q LOSS MUTATED" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
  "5Q LOSS MUTATED"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
  "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
  "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
  "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
  "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
  "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
  "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
  "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-GN-A26D 
"5Q LOSS WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
  "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED"   "5Q LOSS MUTATED" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
  "5Q LOSS MUTATED"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
  "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
  "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
  "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
  "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
  "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
  "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
  "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE"   "5Q LOSS MUTATED" "5Q LOSS WILD-TYPE" 
       TCGA-GN-A26D 
"5Q LOSS WILD-TYPE" 
[1] "hr=" "1.3"
D47V2, continuous
D47V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5Q LOSS MUTATED      7   24
  5Q LOSS WILD-TYPE   28   88
                                                                                          clus
vv                                                                                         5Q LOSS MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)               7
  REGIONAL LYMPH NODE                                                                                   24
                                                                                          clus
vv                                                                                         5Q LOSS WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                28
  REGIONAL LYMPH NODE                                                                                     88
D47V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5Q LOSS MUTATED     12   19
  5Q LOSS WILD-TYPE   40   76
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  FEMALE              12                40
  MALE                19                76
                   vv
clus                 M0  M1 M1A M1B M1C
  5Q LOSS MUTATED    25   0   1   1   0
  5Q LOSS WILD-TYPE 103   1   1   1   1
D47V5, multiclass
                   vv
clus                N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  5Q LOSS MUTATED   12  0   0   3  0   1   4   1  5  1
  5Q LOSS WILD-TYPE 65  2   6   9  1   3   7   3 11  1
D47V6, multiclass
D47V7, continuous
                   vv
clus                I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  5Q LOSS MUTATED             0       4        2        2        2         1
  5Q LOSS WILD-TYPE           1      12        6       11       15         6
                   vv
clus                STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  5Q LOSS MUTATED           1         0         1          1          5
  5Q LOSS WILD-TYPE         7         4         7          4         11
                   vv
clus                STAGE IIIC STAGE IV
  5Q LOSS MUTATED            6        1
  5Q LOSS WILD-TYPE         15        3
D47V8, multiclass

Clustering(48) Variable = 6p loss mutation analysis
D48V1, survival
                   sevent
clus2                0  1
  6P LOSS MUTATED    4  7
  6P LOSS WILD-TYPE 72 62
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
               11               134 
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
                7                62 
$`6P LOSS MUTATED`
TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-DA-A1HY TCGA-DA-A1I8 TCGA-EE-A29D TCGA-EE-A29Q 
       31.59        43.40       117.17        53.92        13.97        37.35 
TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2MT TCGA-FS-A1YX TCGA-FS-A1ZS 
       17.92        46.82        41.59        48.59       148.77 

$`6P LOSS WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J8 
       16.57       112.54        71.80       121.22        28.08        65.49 
TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CE 
       23.77        11.87        12.10        58.03        71.24        60.23 
TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A148 TCGA-D9-A149 TCGA-D9-A1JW 
       24.53         9.30        21.47       148.31        49.74         2.70 
TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1I0 
        6.38        11.34         3.22        48.89        36.03        20.38 
TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1IB TCGA-DA-A1IC 
      194.83       176.55        35.93        61.18        23.44        68.09 
TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z 
       28.60        10.49       215.44        15.68        29.82         8.65 
TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29C 
       33.73        26.86         4.93       109.64        78.87        47.84 
TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R 
       39.62        32.19         2.56        18.58        56.42        14.47 
TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 
       55.89       345.96        78.94        24.43        39.25        58.75 
TCGA-EE-A2GB TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GH TCGA-EE-A2GI 
       47.54        43.23       314.53       135.91       182.01        22.55 
TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GM TCGA-EE-A2GN TCGA-EE-A2GO 
       89.33        54.71        55.00        75.48        90.94       101.95 
TCGA-EE-A2GP TCGA-EE-A2GR TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 
       13.87        14.30        55.59        19.56        67.13        21.67 
TCGA-EE-A2M6 TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME 
      129.24        28.80        19.76        61.51        47.28       103.27 
TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2MK TCGA-EE-A2ML 
      103.17        16.96       204.62        96.23       144.76       203.01 
TCGA-EE-A2MM TCGA-EE-A2MN TCGA-EE-A2MP TCGA-EE-A2MQ TCGA-EE-A2MR TCGA-EE-A2MS 
      167.87        47.54       248.61        43.23       103.56       136.44 
TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AC TCGA-EE-A3AD TCGA-EE-A3AE 
       53.26         4.24       122.73        25.84         3.68        26.73 
TCGA-EE-A3AF TCGA-EE-A3AG TCGA-EE-A3AH TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J 
       13.81        23.47       138.77        12.59        26.37         6.41 
TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-ER-A3PL 
      131.08        61.05        44.05        79.99        80.32        33.21 
TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1Z4 TCGA-FS-A1Z7 TCGA-FS-A1ZD 
       80.48       160.60       216.92        28.08         7.76        53.52 
TCGA-FS-A1ZG TCGA-FS-A1ZH TCGA-FS-A1ZJ TCGA-FS-A1ZM TCGA-FS-A1ZP TCGA-FS-A1ZR 
        9.70        32.71        47.38       101.26        74.73        11.41 
TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 
       49.48        77.79        12.43        49.45        22.98        76.41 
TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A268 
      120.46       117.93        84.72        10.09        64.41        62.76 
TCGA-GN-A26A TCGA-GN-A26D 
       32.48        39.58 

  6P LOSS MUTATED 6P LOSS WILD-TYPE 
            13.97              2.56 
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
           148.77            345.96 
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
           43.400            48.365 
[1] "14.0 - 148.8 (43.4)" "2.6 - 346.0 (48.4)" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"6P LOSS WILD-TYPE"   "6P LOSS MUTATED"   "6P LOSS MUTATED" "6P LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"6P LOSS WILD-TYPE"   "6P LOSS MUTATED" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE"   "6P LOSS MUTATED" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE"   "6P LOSS MUTATED" "6P LOSS WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
  "6P LOSS MUTATED" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
  "6P LOSS MUTATED"   "6P LOSS MUTATED" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE"   "6P LOSS MUTATED" "6P LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
  "6P LOSS MUTATED" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE"   "6P LOSS MUTATED" "6P LOSS WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-GN-A26D 
"6P LOSS WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"6P LOSS WILD-TYPE"   "6P LOSS MUTATED"   "6P LOSS MUTATED" "6P LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"6P LOSS WILD-TYPE"   "6P LOSS MUTATED" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE"   "6P LOSS MUTATED" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE"   "6P LOSS MUTATED" "6P LOSS WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
  "6P LOSS MUTATED" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
  "6P LOSS MUTATED"   "6P LOSS MUTATED" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE"   "6P LOSS MUTATED" "6P LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
  "6P LOSS MUTATED" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE"   "6P LOSS MUTATED" "6P LOSS WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-GN-A26D 
"6P LOSS WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"6P LOSS WILD-TYPE"   "6P LOSS MUTATED"   "6P LOSS MUTATED" "6P LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"6P LOSS WILD-TYPE"   "6P LOSS MUTATED" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE"   "6P LOSS MUTATED" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE"   "6P LOSS MUTATED" "6P LOSS WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
  "6P LOSS MUTATED" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
  "6P LOSS MUTATED"   "6P LOSS MUTATED" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE"   "6P LOSS MUTATED" "6P LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
  "6P LOSS MUTATED" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE"   "6P LOSS MUTATED" "6P LOSS WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-GN-A26D 
"6P LOSS WILD-TYPE" 
[1] "hr=" "1.6"
D48V2, continuous
D48V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  6P LOSS MUTATED      3    8
  6P LOSS WILD-TYPE   32  104
                                                                                          clus
vv                                                                                         6P LOSS MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)               3
  REGIONAL LYMPH NODE                                                                                    8
                                                                                          clus
vv                                                                                         6P LOSS WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                32
  REGIONAL LYMPH NODE                                                                                    104
D48V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  6P LOSS MUTATED      5    6
  6P LOSS WILD-TYPE   47   89
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  FEMALE               5                47
  MALE                 6                89
                   vv
clus                 M0  M1 M1A M1B M1C
  6P LOSS MUTATED    11   0   0   0   0
  6P LOSS WILD-TYPE 117   1   2   2   1
D48V5, multiclass
                   vv
clus                N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  6P LOSS MUTATED    7  0   0   1  0   1   0   0  2  0
  6P LOSS WILD-TYPE 70  2   6  11  1   3  11   4 14  2
D48V6, multiclass
D48V7, continuous
                   vv
clus                I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  6P LOSS MUTATED             0       1        0        2        1         1
  6P LOSS WILD-TYPE           1      15        8       11       16         6
                   vv
clus                STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  6P LOSS MUTATED           2         0         0          0          1
  6P LOSS WILD-TYPE         6         4         8          5         15
                   vv
clus                STAGE IIIC STAGE IV
  6P LOSS MUTATED            3        0
  6P LOSS WILD-TYPE         18        4
D48V8, multiclass

Clustering(49) Variable = 6q loss mutation analysis
D49V1, survival
                   sevent
clus2                0  1
  6Q LOSS MUTATED   28 24
  6Q LOSS WILD-TYPE 48 45
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
               52                93 
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
               24                45 
$`6Q LOSS MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A3C6 TCGA-D9-A148 
       16.57       112.54        31.59        43.40        58.03       148.31 
TCGA-D9-A1JX TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HY TCGA-DA-A1I1 TCGA-DA-A1I4 
        6.38         3.22        48.89       117.17       194.83        35.93 
TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IC TCGA-DA-A3F5 TCGA-EE-A185 TCGA-EE-A20B 
       61.18        53.92        68.09       215.44         4.93       109.64 
TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29H TCGA-EE-A29Q TCGA-EE-A29S TCGA-EE-A29X 
       47.84        13.97        32.19        37.35        55.89        17.92 
TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-EE-A2GD 
       46.82        78.94        24.43        39.25        58.75       314.53 
TCGA-EE-A2GO TCGA-EE-A2GU TCGA-EE-A2M7 TCGA-EE-A2MT TCGA-EE-A3AC TCGA-EE-A3AD 
      101.95        67.13        28.80        41.59        25.84         3.68 
TCGA-EE-A3AG TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A3PL TCGA-FS-A1YX 
       23.47        12.59        26.37         6.41        33.21        48.59 
TCGA-FS-A1ZG TCGA-FS-A1ZH TCGA-FS-A1ZJ TCGA-FS-A1ZM TCGA-FS-A1ZR TCGA-FS-A1ZS 
        9.70        32.71        47.38       101.26        11.41       148.77 
TCGA-FS-A1ZW TCGA-FW-A3R5 TCGA-GN-A268 TCGA-GN-A26A 
       49.48        22.98        62.76        32.48 

$`6Q LOSS WILD-TYPE`
TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD 
       71.80       121.22        28.08        65.49        23.77        11.87 
TCGA-D3-A2JK TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV 
       12.10        71.24        60.23        24.53         9.30        21.47 
TCGA-D9-A149 TCGA-D9-A1JW TCGA-D9-A3Z1 TCGA-DA-A1HW TCGA-DA-A1I0 TCGA-DA-A1I2 
       49.74         2.70        11.34        36.03        20.38       176.55 
TCGA-DA-A1IB TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z 
       23.44        28.60        10.49        15.68        29.82         8.65 
TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A20F TCGA-EE-A29E TCGA-EE-A29L TCGA-EE-A29N 
       33.73        26.86        78.87        39.62         2.56        18.58 
TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29T TCGA-EE-A2GB TCGA-EE-A2GC TCGA-EE-A2GE 
       56.42        14.47       345.96        47.54        43.23       135.91 
TCGA-EE-A2GH TCGA-EE-A2GI TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GM 
      182.01        22.55        89.33        54.71        55.00        75.48 
TCGA-EE-A2GN TCGA-EE-A2GP TCGA-EE-A2GR TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2M5 
       90.94        13.87        14.30        55.59        19.56        21.67 
TCGA-EE-A2M6 TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME TCGA-EE-A2MG 
      129.24        19.76        61.51        47.28       103.27       103.17 
TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2MK TCGA-EE-A2ML TCGA-EE-A2MM 
       16.96       204.62        96.23       144.76       203.01       167.87 
TCGA-EE-A2MN TCGA-EE-A2MP TCGA-EE-A2MQ TCGA-EE-A2MR TCGA-EE-A2MS TCGA-EE-A2MU 
       47.54       248.61        43.23       103.56       136.44        53.26 
TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AE TCGA-EE-A3AF TCGA-EE-A3AH TCGA-ER-A19L 
        4.24       122.73        26.73        13.81       138.77       131.08 
TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-FR-A3YN TCGA-FR-A44A 
       61.05        44.05        79.99        80.32        80.48       160.60 
TCGA-FS-A1YW TCGA-FS-A1Z4 TCGA-FS-A1Z7 TCGA-FS-A1ZD TCGA-FS-A1ZP TCGA-FS-A4F0 
      216.92        28.08         7.76        53.52        74.73        77.79 
TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 
       12.43        49.45        76.41       120.46       117.93        84.72 
TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A26D 
       10.09        64.41        39.58 

  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
             3.22              2.56 
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
           314.53            345.96 
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
           42.495            53.260 
[1] "3.2 - 314.5 (42.5)" "2.6 - 346.0 (53.3)"
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
  "6Q LOSS MUTATED"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
  "6Q LOSS MUTATED"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
  "6Q LOSS MUTATED"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
  "6Q LOSS MUTATED"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
  "6Q LOSS MUTATED"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" 
       TCGA-GN-A26D 
"6Q LOSS WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
  "6Q LOSS MUTATED"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
  "6Q LOSS MUTATED"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
  "6Q LOSS MUTATED"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
  "6Q LOSS MUTATED"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
  "6Q LOSS MUTATED"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" 
       TCGA-GN-A26D 
"6Q LOSS WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
  "6Q LOSS MUTATED"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
  "6Q LOSS MUTATED"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
  "6Q LOSS MUTATED"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
  "6Q LOSS MUTATED"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
  "6Q LOSS MUTATED" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
  "6Q LOSS MUTATED"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"6Q LOSS WILD-TYPE" "6Q LOSS WILD-TYPE"   "6Q LOSS MUTATED"   "6Q LOSS MUTATED" 
       TCGA-GN-A26D 
"6Q LOSS WILD-TYPE" 
[1] "hr=" "1.1"
D49V2, continuous
D49V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  6Q LOSS MUTATED     17   36
  6Q LOSS WILD-TYPE   18   76
                                                                                          clus
vv                                                                                         6Q LOSS MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)              17
  REGIONAL LYMPH NODE                                                                                   36
                                                                                          clus
vv                                                                                         6Q LOSS WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                18
  REGIONAL LYMPH NODE                                                                                     76
D49V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  6Q LOSS MUTATED     21   32
  6Q LOSS WILD-TYPE   31   63
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  FEMALE              21                31
  MALE                32                63
                   vv
clus                M0 M1 M1A M1B M1C
  6Q LOSS MUTATED   46  1   1   1   1
  6Q LOSS WILD-TYPE 82  0   1   1   0
D49V5, multiclass
                   vv
clus                N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  6Q LOSS MUTATED   26  0   2   4  1   1   4   3  8  1
  6Q LOSS WILD-TYPE 51  2   4   8  0   3   7   1  8  1
D49V6, multiclass
D49V7, continuous
                   vv
clus                I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  6Q LOSS MUTATED             1       2        3        7        5         2
  6Q LOSS WILD-TYPE           0      14        5        6       12         5
                   vv
clus                STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  6Q LOSS MUTATED           4         0         2          1          9
  6Q LOSS WILD-TYPE         4         4         6          4          7
                   vv
clus                STAGE IIIC STAGE IV
  6Q LOSS MUTATED            8        3
  6Q LOSS WILD-TYPE         13        1
D49V8, multiclass

Clustering(50) Variable = 8p loss mutation analysis
D50V1, survival
                   sevent
clus2                0  1
  8P LOSS MUTATED    7  9
  8P LOSS WILD-TYPE 69 60
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
               16               129 
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
                9                60 
$`8P LOSS MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A3C6 TCGA-D3-A3MO TCGA-D9-A148 TCGA-D9-A1JW TCGA-EE-A183 
       16.57        58.03         9.30       148.31         2.70        26.86 
TCGA-EE-A29C TCGA-EE-A29H TCGA-EE-A2A5 TCGA-EE-A2MM TCGA-EE-A2MN TCGA-EE-A2MS 
       47.84        32.19        39.25       167.87        47.54       136.44 
TCGA-EE-A3AA TCGA-EE-A3AC TCGA-FS-A1ZJ TCGA-GN-A264 
        4.24        25.84        47.38       117.93 

$`8P LOSS WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
      112.54        71.80       121.22        28.08        31.59        43.40 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3CC TCGA-D3-A3CE 
       65.49        23.77        11.87        12.10        71.24        60.23 
TCGA-D3-A3CF TCGA-D3-A3MV TCGA-D9-A149 TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 
       24.53        21.47        49.74         6.38        11.34         3.22 
TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 
       48.89        36.03       117.17        20.38       194.83       176.55 
TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 
       35.93        61.18        53.92        23.44        68.09        28.60 
TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 
       10.49       215.44        15.68        29.82         8.65        33.73 
TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29L 
        4.93       109.64        78.87        13.97        39.62         2.56 
TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T 
       18.58        56.42        37.35        14.47        55.89       345.96 
TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-EE-A2GB 
       17.92        46.82        78.94        24.43        58.75        47.54 
TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GH TCGA-EE-A2GI TCGA-EE-A2GJ 
       43.23       314.53       135.91       182.01        22.55        89.33 
TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GM TCGA-EE-A2GN TCGA-EE-A2GO TCGA-EE-A2GP 
       54.71        55.00        75.48        90.94       101.95        13.87 
TCGA-EE-A2GR TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 TCGA-EE-A2M6 
       14.30        55.59        19.56        67.13        21.67       129.24 
TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME TCGA-EE-A2MG 
       28.80        19.76        61.51        47.28       103.27       103.17 
TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2MK TCGA-EE-A2ML TCGA-EE-A2MP 
       16.96       204.62        96.23       144.76       203.01       248.61 
TCGA-EE-A2MQ TCGA-EE-A2MR TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AB TCGA-EE-A3AD 
       43.23       103.56        41.59        53.26       122.73         3.68 
TCGA-EE-A3AE TCGA-EE-A3AF TCGA-EE-A3AG TCGA-EE-A3AH TCGA-ER-A19D TCGA-ER-A19F 
       26.73        13.81        23.47       138.77        12.59        26.37 
TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET 
        6.41       131.08        61.05        44.05        79.99        80.32 
TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1Z4 
       33.21        80.48       160.60       216.92        48.59        28.08 
TCGA-FS-A1Z7 TCGA-FS-A1ZD TCGA-FS-A1ZG TCGA-FS-A1ZH TCGA-FS-A1ZM TCGA-FS-A1ZP 
        7.76        53.52         9.70        32.71       101.26        74.73 
TCGA-FS-A1ZR TCGA-FS-A1ZS TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC 
       11.41       148.77        49.48        77.79        12.43        49.45 
TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A267 
       22.98        76.41       120.46        84.72        10.09        64.41 
TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       62.76        32.48        39.58 

  8P LOSS MUTATED 8P LOSS WILD-TYPE 
             2.70              2.56 
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
           167.87            345.96 
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
           43.315            48.890 
[1] "2.7 - 167.9 (43.3)" "2.6 - 346.0 (48.9)"
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
  "8P LOSS MUTATED"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-GN-A26D 
"8P LOSS WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
  "8P LOSS MUTATED"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-GN-A26D 
"8P LOSS WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
  "8P LOSS MUTATED"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
  "8P LOSS MUTATED" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE"   "8P LOSS MUTATED" "8P LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" "8P LOSS WILD-TYPE" 
       TCGA-GN-A26D 
"8P LOSS WILD-TYPE" 
[1] "hr=" "1.4"
D50V2, continuous
D50V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8P LOSS MUTATED      2   14
  8P LOSS WILD-TYPE   33   98
                                                                                          clus
vv                                                                                         8P LOSS MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)               2
  REGIONAL LYMPH NODE                                                                                   14
                                                                                          clus
vv                                                                                         8P LOSS WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                33
  REGIONAL LYMPH NODE                                                                                     98
D50V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8P LOSS MUTATED      5   11
  8P LOSS WILD-TYPE   47   84
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  FEMALE               5                47
  MALE                11                84
                   vv
clus                 M0  M1 M1A M1B M1C
  8P LOSS MUTATED    12   0   0   1   0
  8P LOSS WILD-TYPE 116   1   2   1   1
D50V5, multiclass
                   vv
clus                N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  8P LOSS MUTATED    9  0   0   0  0   1   0   1  2  0
  8P LOSS WILD-TYPE 68  2   6  12  1   3  11   3 14  2
D50V6, multiclass
D50V7, continuous
                   vv
clus                I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  8P LOSS MUTATED             0       4        1        3        1         0
  8P LOSS WILD-TYPE           1      12        7       10       16         7
                   vv
clus                STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  8P LOSS MUTATED           0         0         1          0          0
  8P LOSS WILD-TYPE         8         4         7          5         16
                   vv
clus                STAGE IIIC STAGE IV
  8P LOSS MUTATED            1        0
  8P LOSS WILD-TYPE         20        4
D50V8, multiclass

Clustering(51) Variable = 9p loss mutation analysis
D51V1, survival
                   sevent
clus2                0  1
  9P LOSS MUTATED   40 41
  9P LOSS WILD-TYPE 36 28
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
               81                64 
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
               41                28 
$`9P LOSS MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q8 TCGA-D3-A2J6 TCGA-D3-A2JK 
       16.57       112.54        71.80        28.08        43.40        12.10 
TCGA-D3-A3C6 TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D9-A148 TCGA-D9-A149 TCGA-D9-A3Z3 
       58.03        24.53         9.30       148.31        49.74         3.22 
TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 
       48.89        36.03       117.17       194.83       176.55        35.93 
TCGA-DA-A1I8 TCGA-DA-A1IC TCGA-EE-A17X TCGA-EE-A181 TCGA-EE-A185 TCGA-EE-A20B 
       53.92        68.09        29.82        33.73         4.93       109.64 
TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29L TCGA-EE-A29N 
       78.87        47.84        13.97        39.62         2.56        18.58 
TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A5 
       56.42        37.35        55.89        17.92        46.82        39.25 
TCGA-EE-A2GB TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GI TCGA-EE-A2GM TCGA-EE-A2GN 
       47.54        43.23       314.53        22.55        75.48        90.94 
TCGA-EE-A2GO TCGA-EE-A2GP TCGA-EE-A2GR TCGA-EE-A2GS TCGA-EE-A2GU TCGA-EE-A2M6 
      101.95        13.87        14.30        55.59        67.13       129.24 
TCGA-EE-A2MD TCGA-EE-A2MH TCGA-EE-A2MK TCGA-EE-A2ML TCGA-EE-A2MN TCGA-EE-A2MS 
       47.28        16.96       144.76       203.01        47.54       136.44 
TCGA-EE-A3AB TCGA-EE-A3AD TCGA-EE-A3AF TCGA-EE-A3AG TCGA-EE-A3AH TCGA-ER-A19D 
      122.73         3.68        13.81        23.47       138.77        12.59 
TCGA-ER-A19F TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FS-A1YW 
       26.37       131.08        61.05        33.21        80.48       216.92 
TCGA-FS-A1YX TCGA-FS-A1Z7 TCGA-FS-A1ZD TCGA-FS-A1ZH TCGA-FS-A1ZM TCGA-FS-A1ZR 
       48.59         7.76        53.52        32.71       101.26        11.41 
TCGA-FS-A1ZS TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 
      148.77        49.48        77.79        12.43        49.45        22.98 
TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       62.76        32.48        39.58 

$`9P LOSS WILD-TYPE`
TCGA-D3-A1Q7 TCGA-D3-A1Q9 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A3CC 
      121.22        31.59        65.49        23.77        11.87        71.24 
TCGA-D3-A3CE TCGA-D3-A3MV TCGA-D9-A1JW TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-DA-A1I0 
       60.23        21.47         2.70         6.38        11.34        20.38 
TCGA-DA-A1I7 TCGA-DA-A1IB TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 
       61.18        23.44        28.60        10.49       215.44        15.68 
TCGA-EE-A17Z TCGA-EE-A183 TCGA-EE-A29H TCGA-EE-A29R TCGA-EE-A29T TCGA-EE-A2A1 
        8.65        26.86        32.19        14.47       345.96        78.94 
TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-EE-A2GE TCGA-EE-A2GH TCGA-EE-A2GJ TCGA-EE-A2GK 
       24.43        58.75       135.91       182.01        89.33        54.71 
TCGA-EE-A2GL TCGA-EE-A2GT TCGA-EE-A2M5 TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC 
       55.00        19.56        21.67        28.80        19.76        61.51 
TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2MM TCGA-EE-A2MP 
      103.27       103.17       204.62        96.23       167.87       248.61 
TCGA-EE-A2MQ TCGA-EE-A2MR TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AC 
       43.23       103.56        41.59        53.26         4.24        25.84 
TCGA-EE-A3AE TCGA-ER-A19J TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-FR-A44A 
       26.73         6.41        44.05        79.99        80.32       160.60 
TCGA-FS-A1Z4 TCGA-FS-A1ZG TCGA-FS-A1ZJ TCGA-FS-A1ZP TCGA-GN-A261 TCGA-GN-A262 
       28.08         9.70        47.38        74.73        76.41       120.46 
TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A267 
      117.93        84.72        10.09        64.41 

  9P LOSS MUTATED 9P LOSS WILD-TYPE 
             2.56              2.70 
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
           314.53            345.96 
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
            47.54             50.32 
[1] "2.6 - 314.5 (47.5)" "2.7 - 346.0 (50.3)"
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
  "9P LOSS MUTATED"   "9P LOSS MUTATED"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
  "9P LOSS MUTATED"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
  "9P LOSS MUTATED"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
  "9P LOSS MUTATED"   "9P LOSS MUTATED"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
  "9P LOSS MUTATED"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
  "9P LOSS MUTATED"   "9P LOSS MUTATED"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
  "9P LOSS MUTATED"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
  "9P LOSS MUTATED"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
  "9P LOSS MUTATED"   "9P LOSS MUTATED"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-GN-A26D 
  "9P LOSS MUTATED" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
  "9P LOSS MUTATED"   "9P LOSS MUTATED"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
  "9P LOSS MUTATED"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
  "9P LOSS MUTATED"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
  "9P LOSS MUTATED"   "9P LOSS MUTATED"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
  "9P LOSS MUTATED"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
  "9P LOSS MUTATED"   "9P LOSS MUTATED"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
  "9P LOSS MUTATED"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
  "9P LOSS MUTATED"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
  "9P LOSS MUTATED"   "9P LOSS MUTATED"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-GN-A26D 
  "9P LOSS MUTATED" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
  "9P LOSS MUTATED"   "9P LOSS MUTATED"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
  "9P LOSS MUTATED"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
  "9P LOSS MUTATED"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
  "9P LOSS MUTATED"   "9P LOSS MUTATED"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
  "9P LOSS MUTATED"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
  "9P LOSS MUTATED"   "9P LOSS MUTATED"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
  "9P LOSS MUTATED"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
  "9P LOSS MUTATED"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
  "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
  "9P LOSS MUTATED"   "9P LOSS MUTATED"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"9P LOSS WILD-TYPE" "9P LOSS WILD-TYPE"   "9P LOSS MUTATED"   "9P LOSS MUTATED" 
       TCGA-GN-A26D 
  "9P LOSS MUTATED" 
[1] "hr=" "1.2"
D51V2, continuous
D51V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  9P LOSS MUTATED     25   57
  9P LOSS WILD-TYPE   10   55
                                                                                          clus
vv                                                                                         9P LOSS MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)              25
  REGIONAL LYMPH NODE                                                                                   57
                                                                                          clus
vv                                                                                         9P LOSS WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                10
  REGIONAL LYMPH NODE                                                                                     55
D51V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  9P LOSS MUTATED     29   53
  9P LOSS WILD-TYPE   23   42
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  FEMALE              29                23
  MALE                53                42
                   vv
clus                M0 M1 M1A M1B M1C
  9P LOSS MUTATED   72  0   1   2   1
  9P LOSS WILD-TYPE 56  1   1   0   0
D51V5, multiclass
                   vv
clus                N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  9P LOSS MUTATED   46  0   4   8  1   0   4   4 10  0
  9P LOSS WILD-TYPE 31  2   2   4  0   4   7   0  6  2
D51V6, multiclass
D51V7, continuous
                   vv
clus                I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  9P LOSS MUTATED             1       3        3        9       13         5
  9P LOSS WILD-TYPE           0      13        5        4        4         2
                   vv
clus                STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  9P LOSS MUTATED           6         3         4          2          9
  9P LOSS WILD-TYPE         2         1         4          3          7
                   vv
clus                STAGE IIIC STAGE IV
  9P LOSS MUTATED           12        3
  9P LOSS WILD-TYPE          9        1
D51V8, multiclass

Clustering(52) Variable = 9q loss mutation analysis
D52V1, survival
                   sevent
clus2                0  1
  9Q LOSS MUTATED   33 27
  9Q LOSS WILD-TYPE 43 42
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
               60                85 
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
               27                42 
$`9Q LOSS MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q8 TCGA-D3-A3C6 TCGA-D9-A148 TCGA-D9-A149 
       16.57       112.54        28.08        58.03       148.31        49.74 
TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I8 
       48.89        36.03       194.83       176.55        35.93        53.92 
TCGA-DA-A1IC TCGA-EE-A181 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29D TCGA-EE-A29L 
       68.09        33.73       109.64        78.87        13.97         2.56 
TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A0 
       18.58        56.42        37.35        55.89        17.92        46.82 
TCGA-EE-A2A2 TCGA-EE-A2GB TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GI TCGA-EE-A2GJ 
       24.43        47.54        43.23       314.53        22.55        89.33 
TCGA-EE-A2GM TCGA-EE-A2GP TCGA-EE-A2GS TCGA-EE-A2M6 TCGA-EE-A2MH TCGA-EE-A2MK 
       75.48        13.87        55.59       129.24        16.96       144.76 
TCGA-EE-A2ML TCGA-EE-A2MQ TCGA-EE-A2MS TCGA-EE-A3AB TCGA-EE-A3AD TCGA-EE-A3AF 
      203.01        43.23       136.44       122.73         3.68        13.81 
TCGA-EE-A3AG TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19M TCGA-ER-A3PL TCGA-FS-A1YW 
       23.47        12.59        26.37        61.05        33.21       216.92 
TCGA-FS-A1ZH TCGA-FS-A1ZM TCGA-FS-A1ZR TCGA-FS-A1ZS TCGA-FS-A1ZW TCGA-FS-A4F0 
       32.71       101.26        11.41       148.77        49.48        77.79 
TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A262 TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       49.45        22.98       120.46        62.76        32.48        39.58 

$`9Q LOSS WILD-TYPE`
TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A2J9 
       71.80       121.22        31.59        43.40        65.49        23.77 
TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO 
       11.87        12.10        71.24        60.23        24.53         9.30 
TCGA-D3-A3MV TCGA-D9-A1JW TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HY 
       21.47         2.70         6.38        11.34         3.22       117.17 
TCGA-DA-A1I0 TCGA-DA-A1I7 TCGA-DA-A1IB TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 
       20.38        61.18        23.44        28.60        10.49       215.44 
TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A29C 
       15.68        29.82         8.65        26.86         4.93        47.84 
TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29R TCGA-EE-A29T TCGA-EE-A2A1 TCGA-EE-A2A5 
       39.62        32.19        14.47       345.96        78.94        39.25 
TCGA-EE-A2A6 TCGA-EE-A2GE TCGA-EE-A2GH TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GN 
       58.75       135.91       182.01        54.71        55.00        90.94 
TCGA-EE-A2GO TCGA-EE-A2GR TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 TCGA-EE-A2M7 
      101.95        14.30        19.56        67.13        21.67        28.80 
TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MI 
       19.76        61.51        47.28       103.27       103.17       204.62 
TCGA-EE-A2MJ TCGA-EE-A2MM TCGA-EE-A2MN TCGA-EE-A2MP TCGA-EE-A2MR TCGA-EE-A2MT 
       96.23       167.87        47.54       248.61       103.56        41.59 
TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AC TCGA-EE-A3AE TCGA-EE-A3AH TCGA-ER-A19J 
       53.26         4.24        25.84        26.73       138.77         6.41 
TCGA-ER-A19L TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-FR-A3YN TCGA-FR-A44A 
      131.08        44.05        79.99        80.32        80.48       160.60 
TCGA-FS-A1YX TCGA-FS-A1Z4 TCGA-FS-A1Z7 TCGA-FS-A1ZD TCGA-FS-A1ZG TCGA-FS-A1ZJ 
       48.59        28.08         7.76        53.52         9.70        47.38 
TCGA-FS-A1ZP TCGA-FS-A4F9 TCGA-GN-A261 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 
       74.73        12.43        76.41       117.93        84.72        10.09 
TCGA-GN-A267 
       64.41 

  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
             2.56              2.70 
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
           314.53            345.96 
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
            49.17             47.38 
[1] "2.6 - 314.5 (49.2)" "2.7 - 346.0 (47.4)"
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
  "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
  "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
  "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
  "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" 
       TCGA-GN-A26D 
  "9Q LOSS MUTATED" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
  "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
  "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
  "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
  "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" 
       TCGA-GN-A26D 
  "9Q LOSS MUTATED" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
  "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
  "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
  "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
  "9Q LOSS MUTATED"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
  "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED" "9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"9Q LOSS WILD-TYPE" "9Q LOSS WILD-TYPE"   "9Q LOSS MUTATED"   "9Q LOSS MUTATED" 
       TCGA-GN-A26D 
  "9Q LOSS MUTATED" 
[1] "hr=" "1.2"
D52V2, continuous
D52V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  9Q LOSS MUTATED     19   42
  9Q LOSS WILD-TYPE   16   70
                                                                                          clus
vv                                                                                         9Q LOSS MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)              19
  REGIONAL LYMPH NODE                                                                                   42
                                                                                          clus
vv                                                                                         9Q LOSS WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                16
  REGIONAL LYMPH NODE                                                                                     70
D52V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  9Q LOSS MUTATED     27   34
  9Q LOSS WILD-TYPE   25   61
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  FEMALE              27                25
  MALE                34                61
                   vv
clus                M0 M1 M1A M1B M1C
  9Q LOSS MUTATED   51  0   1   2   1
  9Q LOSS WILD-TYPE 77  1   1   0   0
D52V5, multiclass
                   vv
clus                N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  9Q LOSS MUTATED   33  0   4   4  1   1   4   3  6  0
  9Q LOSS WILD-TYPE 44  2   2   8  0   3   7   1 10  2
D52V6, multiclass
D52V7, continuous
                   vv
clus                I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  9Q LOSS MUTATED             1       1        2        6        9         3
  9Q LOSS WILD-TYPE           0      15        6        7        8         4
                   vv
clus                STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  9Q LOSS MUTATED           5         3         3          3          7
  9Q LOSS WILD-TYPE         3         1         5          2          9
                   vv
clus                STAGE IIIC STAGE IV
  9Q LOSS MUTATED            6        3
  9Q LOSS WILD-TYPE         15        1
D52V8, multiclass

Clustering(53) Variable = 10p loss mutation analysis
D53V1, survival
                    sevent
clus2                 0  1
  10P LOSS MUTATED   27 36
  10P LOSS WILD-TYPE 49 33
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
                63                 82 
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
                36                 33 
$`10P LOSS MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2JK 
       16.57       112.54        71.80       121.22        28.08        12.10 
TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D9-A3Z3 TCGA-DA-A1HW TCGA-DA-A1I1 
       60.23        24.53         9.30         3.22        36.03       194.83 
TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-EE-A17Z TCGA-EE-A185 
      176.55        35.93        61.18        53.92         8.65         4.93 
TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29P TCGA-EE-A29X 
      109.64        78.87        32.19         2.56        56.42        17.92 
TCGA-EE-A2A5 TCGA-EE-A2GB TCGA-EE-A2GC TCGA-EE-A2GE TCGA-EE-A2GI TCGA-EE-A2GJ 
       39.25        47.54        43.23       135.91        22.55        89.33 
TCGA-EE-A2GM TCGA-EE-A2GN TCGA-EE-A2GO TCGA-EE-A2GP TCGA-EE-A2GS TCGA-EE-A2M6 
       75.48        90.94       101.95        13.87        55.59       129.24 
TCGA-EE-A2M7 TCGA-EE-A2MH TCGA-EE-A2MK TCGA-EE-A2MM TCGA-EE-A2MP TCGA-EE-A2MS 
       28.80        16.96       144.76       167.87       248.61       136.44 
TCGA-EE-A3AD TCGA-EE-A3AE TCGA-EE-A3AH TCGA-ER-A19D TCGA-ER-A19L TCGA-ER-A3ET 
        3.68        26.73       138.77        12.59       131.08        80.32 
TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FS-A1YX TCGA-FS-A1Z7 TCGA-FS-A1ZD TCGA-FS-A1ZG 
       33.21        80.48        48.59         7.76        53.52         9.70 
TCGA-FS-A1ZH TCGA-FS-A1ZJ TCGA-FS-A1ZM TCGA-FS-A1ZR TCGA-GN-A264 TCGA-GN-A266 
       32.71        47.38       101.26        11.41       117.93        10.09 
TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A 
       64.41        62.76        32.48 

$`10P LOSS WILD-TYPE`
TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A3C6 
       31.59        43.40        65.49        23.77        11.87        58.03 
TCGA-D3-A3CC TCGA-D3-A3MV TCGA-D9-A148 TCGA-D9-A149 TCGA-D9-A1JW TCGA-D9-A1JX 
       71.24        21.47       148.31        49.74         2.70         6.38 
TCGA-D9-A3Z1 TCGA-DA-A1HV TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1IB TCGA-DA-A1IC 
       11.34        48.89       117.17        20.38        23.44        68.09 
TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A181 
       28.60        10.49       215.44        15.68        29.82        33.73 
TCGA-EE-A183 TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29N TCGA-EE-A29Q 
       26.86        47.84        13.97        39.62        18.58        37.35 
TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 
       14.47        55.89       345.96        46.82        78.94        24.43 
TCGA-EE-A2A6 TCGA-EE-A2GD TCGA-EE-A2GH TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GR 
       58.75       314.53       182.01        54.71        55.00        14.30 
TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD 
       19.56        67.13        21.67        19.76        61.51        47.28 
TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2ML TCGA-EE-A2MN 
      103.27       103.17       204.62        96.23       203.01        47.54 
TCGA-EE-A2MQ TCGA-EE-A2MR TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AB 
       43.23       103.56        41.59        53.26         4.24       122.73 
TCGA-EE-A3AC TCGA-EE-A3AF TCGA-EE-A3AG TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19M 
       25.84        13.81        23.47        26.37         6.41        61.05 
TCGA-ER-A19N TCGA-ER-A1A1 TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1Z4 TCGA-FS-A1ZP 
       44.05        79.99       160.60       216.92        28.08        74.73 
TCGA-FS-A1ZS TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 
      148.77        49.48        77.79        12.43        49.45        22.98 
TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A265 TCGA-GN-A26D 
       76.41       120.46        84.72        39.58 

  10P LOSS MUTATED 10P LOSS WILD-TYPE 
              2.56               2.70 
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
            248.61             345.96 
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
             48.59              47.41 
[1] "2.6 - 248.6 (48.6)" "2.7 - 346.0 (47.4)"
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "10P LOSS MUTATED"   "10P LOSS MUTATED"   "10P LOSS MUTATED" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
  "10P LOSS MUTATED"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED"   "10P LOSS MUTATED" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
  "10P LOSS MUTATED"   "10P LOSS MUTATED"   "10P LOSS MUTATED" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
  "10P LOSS MUTATED"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
  "10P LOSS MUTATED"   "10P LOSS MUTATED"   "10P LOSS MUTATED" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
  "10P LOSS MUTATED"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED"   "10P LOSS MUTATED" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
  "10P LOSS MUTATED"   "10P LOSS MUTATED"   "10P LOSS MUTATED" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED"   "10P LOSS MUTATED" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED"   "10P LOSS MUTATED" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
  "10P LOSS MUTATED"   "10P LOSS MUTATED"   "10P LOSS MUTATED" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
  "10P LOSS MUTATED"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
  "10P LOSS MUTATED"   "10P LOSS MUTATED"   "10P LOSS MUTATED" 
        TCGA-GN-A26D 
"10P LOSS WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "10P LOSS MUTATED"   "10P LOSS MUTATED"   "10P LOSS MUTATED" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
  "10P LOSS MUTATED"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED"   "10P LOSS MUTATED" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
  "10P LOSS MUTATED"   "10P LOSS MUTATED"   "10P LOSS MUTATED" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
  "10P LOSS MUTATED"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
  "10P LOSS MUTATED"   "10P LOSS MUTATED"   "10P LOSS MUTATED" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
  "10P LOSS MUTATED"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED"   "10P LOSS MUTATED" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
  "10P LOSS MUTATED"   "10P LOSS MUTATED"   "10P LOSS MUTATED" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED"   "10P LOSS MUTATED" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED"   "10P LOSS MUTATED" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
  "10P LOSS MUTATED"   "10P LOSS MUTATED"   "10P LOSS MUTATED" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
  "10P LOSS MUTATED"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
  "10P LOSS MUTATED"   "10P LOSS MUTATED"   "10P LOSS MUTATED" 
        TCGA-GN-A26D 
"10P LOSS WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "10P LOSS MUTATED"   "10P LOSS MUTATED"   "10P LOSS MUTATED" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
  "10P LOSS MUTATED"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED"   "10P LOSS MUTATED" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
  "10P LOSS MUTATED"   "10P LOSS MUTATED"   "10P LOSS MUTATED" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
  "10P LOSS MUTATED"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
  "10P LOSS MUTATED"   "10P LOSS MUTATED"   "10P LOSS MUTATED" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
  "10P LOSS MUTATED"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED"   "10P LOSS MUTATED" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
  "10P LOSS MUTATED"   "10P LOSS MUTATED"   "10P LOSS MUTATED" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED"   "10P LOSS MUTATED" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"10P LOSS WILD-TYPE"   "10P LOSS MUTATED"   "10P LOSS MUTATED" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
  "10P LOSS MUTATED"   "10P LOSS MUTATED"   "10P LOSS MUTATED" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
  "10P LOSS MUTATED"   "10P LOSS MUTATED" "10P LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
  "10P LOSS MUTATED" "10P LOSS WILD-TYPE"   "10P LOSS MUTATED" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
  "10P LOSS MUTATED"   "10P LOSS MUTATED"   "10P LOSS MUTATED" 
        TCGA-GN-A26D 
"10P LOSS WILD-TYPE" 
[1] "hr=" "1.4"
D53V2, continuous
D53V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  10P LOSS MUTATED     20   44
  10P LOSS WILD-TYPE   15   68
                                                                                          clus
vv                                                                                         10P LOSS MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)               20
  REGIONAL LYMPH NODE                                                                                    44
                                                                                          clus
vv                                                                                         10P LOSS WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                 15
  REGIONAL LYMPH NODE                                                                                      68
D53V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  10P LOSS MUTATED     27   37
  10P LOSS WILD-TYPE   25   58
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  FEMALE               27                 25
  MALE                 37                 58
                    vv
clus                 M0 M1 M1A M1B M1C
  10P LOSS MUTATED   57  0   1   1   1
  10P LOSS WILD-TYPE 71  1   1   1   0
D53V5, multiclass
                    vv
clus                 N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  10P LOSS MUTATED   34  0   5   5  0   0   6   3  7  0
  10P LOSS WILD-TYPE 43  2   1   7  1   4   5   1  9  2
D53V6, multiclass
D53V7, continuous
                    vv
clus                 I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  10P LOSS MUTATED             1       6        4        6        9         2
  10P LOSS WILD-TYPE           0      10        4        7        8         5
                    vv
clus                 STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  10P LOSS MUTATED           3         2         5          4          5
  10P LOSS WILD-TYPE         5         2         3          1         11
                    vv
clus                 STAGE IIIC STAGE IV
  10P LOSS MUTATED           10        3
  10P LOSS WILD-TYPE         11        1
D53V8, multiclass

Clustering(54) Variable = 10q loss mutation analysis
D54V1, survival
                    sevent
clus2                 0  1
  10Q LOSS MUTATED   32 38
  10Q LOSS WILD-TYPE 44 31
  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
                70                 75 
  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
                38                 31 
$`10Q LOSS MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 
       16.57       112.54        71.80       121.22        28.08        31.59 
TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE TCGA-D3-A3MO TCGA-D9-A148 TCGA-D9-A3Z3 
       12.10        58.03        60.23         9.30       148.31         3.22 
TCGA-DA-A1HW TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 
       36.03       194.83       176.55        35.93        61.18        53.92 
TCGA-DA-A3F8 TCGA-EE-A17Z TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29H 
       15.68         8.65         4.93       109.64        78.87        32.19 
TCGA-EE-A29L TCGA-EE-A29P TCGA-EE-A29X TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-EE-A2GB 
        2.56        56.42        17.92        39.25        58.75        47.54 
TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GI TCGA-EE-A2GJ TCGA-EE-A2GM 
       43.23       314.53       135.91        22.55        89.33        75.48 
TCGA-EE-A2GN TCGA-EE-A2GO TCGA-EE-A2GP TCGA-EE-A2GS TCGA-EE-A2GU TCGA-EE-A2M6 
       90.94       101.95        13.87        55.59        67.13       129.24 
TCGA-EE-A2M7 TCGA-EE-A2MD TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MK TCGA-EE-A2MM 
       28.80        47.28        16.96       204.62       144.76       167.87 
TCGA-EE-A2MP TCGA-EE-A3AD TCGA-EE-A3AE TCGA-EE-A3AF TCGA-EE-A3AG TCGA-EE-A3AH 
      248.61         3.68        26.73        13.81        23.47       138.77 
TCGA-ER-A19D TCGA-ER-A19L TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FS-A1YX TCGA-FS-A1Z7 
       12.59       131.08        33.21        80.48        48.59         7.76 
TCGA-FS-A1ZD TCGA-FS-A1ZH TCGA-FS-A1ZJ TCGA-FS-A1ZM TCGA-FS-A1ZR TCGA-GN-A262 
       53.52        32.71        47.38       101.26        11.41       120.46 
TCGA-GN-A264 TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A26A 
      117.93        10.09        64.41        32.48 

$`10Q LOSS WILD-TYPE`
TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A3CC TCGA-D3-A3CF 
       43.40        65.49        23.77        11.87        71.24        24.53 
TCGA-D3-A3MV TCGA-D9-A149 TCGA-D9-A1JW TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-DA-A1HV 
       21.47        49.74         2.70         6.38        11.34        48.89 
TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 
      117.17        20.38        23.44        68.09        28.60        10.49 
TCGA-DA-A3F5 TCGA-EE-A17X TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A29C TCGA-EE-A29D 
      215.44        29.82        33.73        26.86        47.84        13.97 
TCGA-EE-A29E TCGA-EE-A29N TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T 
       39.62        18.58        37.35        14.47        55.89       345.96 
TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2GH TCGA-EE-A2GK TCGA-EE-A2GL 
       46.82        78.94        24.43       182.01        54.71        55.00 
TCGA-EE-A2GR TCGA-EE-A2GT TCGA-EE-A2M5 TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2ME 
       14.30        19.56        21.67        19.76        61.51       103.27 
TCGA-EE-A2MG TCGA-EE-A2MJ TCGA-EE-A2ML TCGA-EE-A2MN TCGA-EE-A2MQ TCGA-EE-A2MR 
      103.17        96.23       203.01        47.54        43.23       103.56 
TCGA-EE-A2MS TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AC 
      136.44        41.59        53.26         4.24       122.73        25.84 
TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET 
       26.37         6.41        61.05        44.05        79.99        80.32 
TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1Z4 TCGA-FS-A1ZG TCGA-FS-A1ZP TCGA-FS-A1ZS 
      160.60       216.92        28.08         9.70        74.73       148.77 
TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 
       49.48        77.79        12.43        49.45        22.98        76.41 
TCGA-GN-A265 TCGA-GN-A268 TCGA-GN-A26D 
       84.72        62.76        39.58 

  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
              2.56               2.70 
  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
            314.53             345.96 
  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
            51.055             46.820 
[1] "2.6 - 314.5 (51.1)" "2.7 - 346.0 (46.8)"
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED"   "10Q LOSS MUTATED" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED"   "10Q LOSS MUTATED" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED"   "10Q LOSS MUTATED" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED"   "10Q LOSS MUTATED" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED"   "10Q LOSS MUTATED" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED"   "10Q LOSS MUTATED" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED"   "10Q LOSS MUTATED" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED"   "10Q LOSS MUTATED" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED"   "10Q LOSS MUTATED" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED"   "10Q LOSS MUTATED" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED"   "10Q LOSS MUTATED" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-GN-A26D 
"10Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED"   "10Q LOSS MUTATED" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED"   "10Q LOSS MUTATED" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED"   "10Q LOSS MUTATED" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED"   "10Q LOSS MUTATED" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED"   "10Q LOSS MUTATED" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED"   "10Q LOSS MUTATED" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED"   "10Q LOSS MUTATED" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED"   "10Q LOSS MUTATED" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED"   "10Q LOSS MUTATED" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED"   "10Q LOSS MUTATED" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED"   "10Q LOSS MUTATED" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-GN-A26D 
"10Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED"   "10Q LOSS MUTATED" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED"   "10Q LOSS MUTATED" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED"   "10Q LOSS MUTATED" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED"   "10Q LOSS MUTATED" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED"   "10Q LOSS MUTATED" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED"   "10Q LOSS MUTATED" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED"   "10Q LOSS MUTATED" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED"   "10Q LOSS MUTATED" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED"   "10Q LOSS MUTATED" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED"   "10Q LOSS MUTATED" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED"   "10Q LOSS MUTATED" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
  "10Q LOSS MUTATED"   "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"10Q LOSS WILD-TYPE" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
  "10Q LOSS MUTATED" "10Q LOSS WILD-TYPE"   "10Q LOSS MUTATED" 
        TCGA-GN-A26D 
"10Q LOSS WILD-TYPE" 
[1] "hr=" "1.2"
D54V2, continuous
D54V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  10Q LOSS MUTATED     22   49
  10Q LOSS WILD-TYPE   13   63
                                                                                          clus
vv                                                                                         10Q LOSS MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)               22
  REGIONAL LYMPH NODE                                                                                    49
                                                                                          clus
vv                                                                                         10Q LOSS WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                 13
  REGIONAL LYMPH NODE                                                                                      63
D54V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  10Q LOSS MUTATED     28   43
  10Q LOSS WILD-TYPE   24   52
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  FEMALE               28                 24
  MALE                 43                 52
                    vv
clus                 M0 M1 M1A M1B M1C
  10Q LOSS MUTATED   60  0   1   2   1
  10Q LOSS WILD-TYPE 68  1   1   0   0
D54V5, multiclass
                    vv
clus                 N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  10Q LOSS MUTATED   38  0   4   5  0   1   6   3  7  0
  10Q LOSS WILD-TYPE 39  2   2   7  1   3   5   1  9  2
D54V6, multiclass
D54V7, continuous
                    vv
clus                 I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  10Q LOSS MUTATED             1       6        6        7        9         2
  10Q LOSS WILD-TYPE           0      10        2        6        8         5
                    vv
clus                 STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  10Q LOSS MUTATED           4         2         5          3          7
  10Q LOSS WILD-TYPE         4         2         3          2          9
                    vv
clus                 STAGE IIIC STAGE IV
  10Q LOSS MUTATED            8        3
  10Q LOSS WILD-TYPE         13        1
D54V8, multiclass

Clustering(55) Variable = 11p loss mutation analysis
D55V1, survival
                    sevent
clus2                 0  1
  11P LOSS MUTATED   17 18
  11P LOSS WILD-TYPE 59 51
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
                35                110 
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
                18                 51 
$`11P LOSS MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A3MO TCGA-D9-A1JX 
       16.57       112.54        31.59        43.40         9.30         6.38 
TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1I1 TCGA-DA-A1I8 TCGA-EE-A29C 
        3.22        48.89        36.03       194.83        53.92        47.84 
TCGA-EE-A29D TCGA-EE-A29L TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29X TCGA-EE-A2A2 
       13.97         2.56        37.35        14.47        17.92        24.43 
TCGA-EE-A2A5 TCGA-EE-A2GC TCGA-EE-A2GM TCGA-EE-A2MN TCGA-EE-A2MS TCGA-EE-A3AB 
       39.25        43.23        75.48        47.54       136.44       122.73 
TCGA-EE-A3AD TCGA-EE-A3AE TCGA-ER-A19D TCGA-ER-A19L TCGA-FR-A3YN TCGA-FS-A1ZH 
        3.68        26.73        12.59       131.08        80.48        32.71 
TCGA-FS-A4F9 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A267 TCGA-GN-A26A 
       12.43       120.46       117.93        64.41        32.48 

$`11P LOSS WILD-TYPE`
TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD 
       71.80       121.22        28.08        65.49        23.77        11.87 
TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MV 
       12.10        58.03        71.24        60.23        24.53        21.47 
TCGA-D9-A148 TCGA-D9-A149 TCGA-D9-A1JW TCGA-D9-A3Z1 TCGA-DA-A1HY TCGA-DA-A1I0 
      148.31        49.74         2.70        11.34       117.17        20.38 
TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 
      176.55        35.93        61.18        23.44        68.09        28.60 
TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 
       10.49       215.44        15.68        29.82         8.65        33.73 
TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29E TCGA-EE-A29H 
       26.86         4.93       109.64        78.87        39.62        32.19 
TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A2A0 TCGA-EE-A2A1 
       18.58        56.42        55.89       345.96        46.82        78.94 
TCGA-EE-A2A6 TCGA-EE-A2GB TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GH TCGA-EE-A2GI 
       58.75        47.54       314.53       135.91       182.01        22.55 
TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GN TCGA-EE-A2GO TCGA-EE-A2GP 
       89.33        54.71        55.00        90.94       101.95        13.87 
TCGA-EE-A2GR TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 TCGA-EE-A2M6 
       14.30        55.59        19.56        67.13        21.67       129.24 
TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME TCGA-EE-A2MG 
       28.80        19.76        61.51        47.28       103.27       103.17 
TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2MK TCGA-EE-A2ML TCGA-EE-A2MM 
       16.96       204.62        96.23       144.76       203.01       167.87 
TCGA-EE-A2MP TCGA-EE-A2MQ TCGA-EE-A2MR TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA 
      248.61        43.23       103.56        41.59        53.26         4.24 
TCGA-EE-A3AC TCGA-EE-A3AF TCGA-EE-A3AG TCGA-EE-A3AH TCGA-ER-A19F TCGA-ER-A19J 
       25.84        13.81        23.47       138.77        26.37         6.41 
TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A44A 
       61.05        44.05        79.99        80.32        33.21       160.60 
TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1Z4 TCGA-FS-A1Z7 TCGA-FS-A1ZD TCGA-FS-A1ZG 
      216.92        48.59        28.08         7.76        53.52         9.70 
TCGA-FS-A1ZJ TCGA-FS-A1ZM TCGA-FS-A1ZP TCGA-FS-A1ZR TCGA-FS-A1ZS TCGA-FS-A1ZW 
       47.38       101.26        74.73        11.41       148.77        49.48 
TCGA-FS-A4F0 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A265 TCGA-GN-A266 
       77.79        49.45        22.98        76.41        84.72        10.09 
TCGA-GN-A268 TCGA-GN-A26D 
       62.76        39.58 

  11P LOSS MUTATED 11P LOSS WILD-TYPE 
              2.56               2.70 
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
            194.83             345.96 
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
             37.35              51.50 
[1] "2.6 - 194.8 (37.4)" "2.7 - 346.0 (51.5)"
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "11P LOSS MUTATED"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED"   "11P LOSS MUTATED" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
  "11P LOSS MUTATED"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED"   "11P LOSS MUTATED" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED"   "11P LOSS MUTATED" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-GN-A26D 
"11P LOSS WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "11P LOSS MUTATED"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED"   "11P LOSS MUTATED" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
  "11P LOSS MUTATED"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED"   "11P LOSS MUTATED" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED"   "11P LOSS MUTATED" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-GN-A26D 
"11P LOSS WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "11P LOSS MUTATED"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED"   "11P LOSS MUTATED" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
  "11P LOSS MUTATED"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED"   "11P LOSS MUTATED" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED"   "11P LOSS MUTATED" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"11P LOSS WILD-TYPE"   "11P LOSS MUTATED" "11P LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
  "11P LOSS MUTATED" "11P LOSS WILD-TYPE"   "11P LOSS MUTATED" 
        TCGA-GN-A26D 
"11P LOSS WILD-TYPE" 
[1] "hr=" "1.4"
D55V2, continuous
D55V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  11P LOSS MUTATED      9   26
  11P LOSS WILD-TYPE   26   86
                                                                                          clus
vv                                                                                         11P LOSS MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                9
  REGIONAL LYMPH NODE                                                                                    26
                                                                                          clus
vv                                                                                         11P LOSS WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                 26
  REGIONAL LYMPH NODE                                                                                      86
D55V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  11P LOSS MUTATED     14   21
  11P LOSS WILD-TYPE   38   74
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  FEMALE               14                 38
  MALE                 21                 74
                    vv
clus                 M0 M1 M1A M1B M1C
  11P LOSS MUTATED   29  0   0   0   1
  11P LOSS WILD-TYPE 99  1   2   2   0
D55V5, multiclass
                    vv
clus                 N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  11P LOSS MUTATED   13  0   2   5  0   1   1   2  5  1
  11P LOSS WILD-TYPE 64  2   4   7  1   3  10   2 11  1
D55V6, multiclass
D55V7, continuous
                    vv
clus                 I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  11P LOSS MUTATED             1       1        1        5        1         0
  11P LOSS WILD-TYPE           0      15        7        8       16         7
                    vv
clus                 STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  11P LOSS MUTATED           3         1         1          2          5
  11P LOSS WILD-TYPE         5         3         7          3         11
                    vv
clus                 STAGE IIIC STAGE IV
  11P LOSS MUTATED            7        1
  11P LOSS WILD-TYPE         14        3
D55V8, multiclass

Clustering(56) Variable = 11q loss mutation analysis
D56V1, survival
                    sevent
clus2                 0  1
  11Q LOSS MUTATED   19 20
  11Q LOSS WILD-TYPE 57 49
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
                39                106 
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
                20                 49 
$`11Q LOSS MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A3MO 
       16.57       112.54       121.22        31.59        43.40         9.30 
TCGA-D9-A1JX TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1I1 TCGA-DA-A1I8 
        6.38         3.22        48.89        36.03       194.83        53.92 
TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29L TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A2A2 
       47.84        13.97         2.56        37.35        14.47        24.43 
TCGA-EE-A2A5 TCGA-EE-A2GB TCGA-EE-A2GC TCGA-EE-A2GM TCGA-EE-A2MD TCGA-EE-A2MN 
       39.25        47.54        43.23        75.48        47.28        47.54 
TCGA-EE-A2MT TCGA-EE-A3AB TCGA-EE-A3AD TCGA-EE-A3AE TCGA-ER-A19D TCGA-ER-A19L 
       41.59       122.73         3.68        26.73        12.59       131.08 
TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FS-A1Z7 TCGA-FS-A1ZH TCGA-FS-A1ZJ TCGA-GN-A264 
       33.21        80.48         7.76        32.71        47.38       117.93 
TCGA-GN-A267 TCGA-GN-A26A TCGA-GN-A26D 
       64.41        32.48        39.58 

$`11Q LOSS WILD-TYPE`
TCGA-D3-A1Q6 TCGA-D3-A1Q8 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK 
       71.80        28.08        65.49        23.77        11.87        12.10 
TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MV TCGA-D9-A148 
       58.03        71.24        60.23        24.53        21.47       148.31 
TCGA-D9-A149 TCGA-D9-A1JW TCGA-D9-A3Z1 TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I2 
       49.74         2.70        11.34       117.17        20.38       176.55 
TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 
       35.93        61.18        23.44        68.09        28.60        10.49 
TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 
      215.44        15.68        29.82         8.65        33.73        26.86 
TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29N 
        4.93       109.64        78.87        39.62        32.19        18.58 
TCGA-EE-A29P TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 
       56.42        55.89       345.96        17.92        46.82        78.94 
TCGA-EE-A2A6 TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GH TCGA-EE-A2GI TCGA-EE-A2GJ 
       58.75       314.53       135.91       182.01        22.55        89.33 
TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GN TCGA-EE-A2GO TCGA-EE-A2GP TCGA-EE-A2GR 
       54.71        55.00        90.94       101.95        13.87        14.30 
TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 TCGA-EE-A2M6 TCGA-EE-A2M7 
       55.59        19.56        67.13        21.67       129.24        28.80 
TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MI 
       19.76        61.51       103.27       103.17        16.96       204.62 
TCGA-EE-A2MJ TCGA-EE-A2MK TCGA-EE-A2ML TCGA-EE-A2MM TCGA-EE-A2MP TCGA-EE-A2MQ 
       96.23       144.76       203.01       167.87       248.61        43.23 
TCGA-EE-A2MR TCGA-EE-A2MS TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AC TCGA-EE-A3AF 
      103.56       136.44        53.26         4.24        25.84        13.81 
TCGA-EE-A3AG TCGA-EE-A3AH TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19M TCGA-ER-A19N 
       23.47       138.77        26.37         6.41        61.05        44.05 
TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1Z4 
       79.99        80.32       160.60       216.92        48.59        28.08 
TCGA-FS-A1ZD TCGA-FS-A1ZG TCGA-FS-A1ZM TCGA-FS-A1ZP TCGA-FS-A1ZR TCGA-FS-A1ZS 
       53.52         9.70       101.26        74.73        11.41       148.77 
TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 
       49.48        77.79        12.43        49.45        22.98        76.41 
TCGA-GN-A262 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A268 
      120.46        84.72        10.09        62.76 

  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
              2.56               2.70 
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
            194.83             345.96 
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
            39.580             54.855 
[1] "2.6 - 194.8 (39.6)" "2.7 - 346.0 (54.9)"
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "11Q LOSS MUTATED"   "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED"   "11Q LOSS MUTATED" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
  "11Q LOSS MUTATED"   "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED"   "11Q LOSS MUTATED" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED"   "11Q LOSS MUTATED" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-GN-A26D 
  "11Q LOSS MUTATED" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "11Q LOSS MUTATED"   "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED"   "11Q LOSS MUTATED" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
  "11Q LOSS MUTATED"   "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED"   "11Q LOSS MUTATED" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED"   "11Q LOSS MUTATED" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-GN-A26D 
  "11Q LOSS MUTATED" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "11Q LOSS MUTATED"   "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED"   "11Q LOSS MUTATED" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
  "11Q LOSS MUTATED"   "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED"   "11Q LOSS MUTATED" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED"   "11Q LOSS MUTATED" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE" "11Q LOSS WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
  "11Q LOSS MUTATED" "11Q LOSS WILD-TYPE"   "11Q LOSS MUTATED" 
        TCGA-GN-A26D 
  "11Q LOSS MUTATED" 
[1] "hr=" "1.5"
D56V2, continuous
D56V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  11Q LOSS MUTATED      9   30
  11Q LOSS WILD-TYPE   26   82
                                                                                          clus
vv                                                                                         11Q LOSS MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                9
  REGIONAL LYMPH NODE                                                                                    30
                                                                                          clus
vv                                                                                         11Q LOSS WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                 26
  REGIONAL LYMPH NODE                                                                                      82
D56V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  11Q LOSS MUTATED     15   24
  11Q LOSS WILD-TYPE   37   71
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  FEMALE               15                 37
  MALE                 24                 71
                    vv
clus                 M0 M1 M1A M1B M1C
  11Q LOSS MUTATED   32  0   1   0   1
  11Q LOSS WILD-TYPE 96  1   1   2   0
D56V5, multiclass
                    vv
clus                 N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  11Q LOSS MUTATED   17  0   3   6  0   1   1   2  4  1
  11Q LOSS WILD-TYPE 60  2   3   6  1   3  10   2 12  1
D56V6, multiclass
D56V7, continuous
                    vv
clus                 I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  11Q LOSS MUTATED             1       2        1        6        1         0
  11Q LOSS WILD-TYPE           0      14        7        7       16         7
                    vv
clus                 STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  11Q LOSS MUTATED           3         2         1          3          5
  11Q LOSS WILD-TYPE         5         2         7          2         11
                    vv
clus                 STAGE IIIC STAGE IV
  11Q LOSS MUTATED            7        2
  11Q LOSS WILD-TYPE         14        2
D56V8, multiclass

Clustering(57) Variable = 12p loss mutation analysis
D57V1, survival
                    sevent
clus2                 0  1
  12P LOSS MUTATED    5  3
  12P LOSS WILD-TYPE 71 66
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
                 8                137 
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
                 3                 66 
$`12P LOSS MUTATED`
TCGA-D3-A2J6 TCGA-DA-A1I1 TCGA-EE-A29Q TCGA-EE-A29S TCGA-EE-A2A2 TCGA-EE-A2MK 
       43.40       194.83        37.35        55.89        24.43       144.76 
TCGA-FS-A1YX TCGA-FS-A1ZH 
       48.59        32.71 

$`12P LOSS WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 
       16.57       112.54        71.80       121.22        28.08        31.59 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC 
       65.49        23.77        11.87        12.10        58.03        71.24 
TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A148 TCGA-D9-A149 
       60.23        24.53         9.30        21.47       148.31        49.74 
TCGA-D9-A1JW TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW 
        2.70         6.38        11.34         3.22        48.89        36.03 
TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 
      117.17        20.38       176.55        35.93        61.18        53.92 
TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 
       23.44        68.09        28.60        10.49       215.44        15.68 
TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B 
       29.82         8.65        33.73        26.86         4.93       109.64 
TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L 
       78.87        47.84        13.97        39.62        32.19         2.56 
TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 
       18.58        56.42        14.47       345.96        17.92        46.82 
TCGA-EE-A2A1 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-EE-A2GB TCGA-EE-A2GC TCGA-EE-A2GD 
       78.94        39.25        58.75        47.54        43.23       314.53 
TCGA-EE-A2GE TCGA-EE-A2GH TCGA-EE-A2GI TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL 
      135.91       182.01        22.55        89.33        54.71        55.00 
TCGA-EE-A2GM TCGA-EE-A2GN TCGA-EE-A2GO TCGA-EE-A2GP TCGA-EE-A2GR TCGA-EE-A2GS 
       75.48        90.94       101.95        13.87        14.30        55.59 
TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 TCGA-EE-A2M6 TCGA-EE-A2M7 TCGA-EE-A2M8 
       19.56        67.13        21.67       129.24        28.80        19.76 
TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MI 
       61.51        47.28       103.27       103.17        16.96       204.62 
TCGA-EE-A2MJ TCGA-EE-A2ML TCGA-EE-A2MM TCGA-EE-A2MN TCGA-EE-A2MP TCGA-EE-A2MQ 
       96.23       203.01       167.87        47.54       248.61        43.23 
TCGA-EE-A2MR TCGA-EE-A2MS TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AB 
      103.56       136.44        41.59        53.26         4.24       122.73 
TCGA-EE-A3AC TCGA-EE-A3AD TCGA-EE-A3AE TCGA-EE-A3AF TCGA-EE-A3AG TCGA-EE-A3AH 
       25.84         3.68        26.73        13.81        23.47       138.77 
TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N 
       12.59        26.37         6.41       131.08        61.05        44.05 
TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1YW 
       79.99        80.32        33.21        80.48       160.60       216.92 
TCGA-FS-A1Z4 TCGA-FS-A1Z7 TCGA-FS-A1ZD TCGA-FS-A1ZG TCGA-FS-A1ZJ TCGA-FS-A1ZM 
       28.08         7.76        53.52         9.70        47.38       101.26 
TCGA-FS-A1ZP TCGA-FS-A1ZR TCGA-FS-A1ZS TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 
       74.73        11.41       148.77        49.48        77.79        12.43 
TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 
       49.45        22.98        76.41       120.46       117.93        84.72 
TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       10.09        64.41        62.76        32.48        39.58 

  12P LOSS MUTATED 12P LOSS WILD-TYPE 
             24.43               2.56 
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
            194.83             345.96 
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
            45.995             47.540 
[1] "24.4 - 194.8 (46.0)" "2.6 - 346.0 (47.5)" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
  "12P LOSS MUTATED" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
  "12P LOSS MUTATED" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"12P LOSS WILD-TYPE"   "12P LOSS MUTATED" "12P LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
  "12P LOSS MUTATED" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE"   "12P LOSS MUTATED" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
  "12P LOSS MUTATED" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
  "12P LOSS MUTATED" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE"   "12P LOSS MUTATED" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-GN-A26D 
"12P LOSS WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
  "12P LOSS MUTATED" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
  "12P LOSS MUTATED" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"12P LOSS WILD-TYPE"   "12P LOSS MUTATED" "12P LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
  "12P LOSS MUTATED" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE"   "12P LOSS MUTATED" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
  "12P LOSS MUTATED" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
  "12P LOSS MUTATED" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE"   "12P LOSS MUTATED" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-GN-A26D 
"12P LOSS WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
  "12P LOSS MUTATED" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
  "12P LOSS MUTATED" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"12P LOSS WILD-TYPE"   "12P LOSS MUTATED" "12P LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
  "12P LOSS MUTATED" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE"   "12P LOSS MUTATED" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
  "12P LOSS MUTATED" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
  "12P LOSS MUTATED" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE"   "12P LOSS MUTATED" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-GN-A26D 
"12P LOSS WILD-TYPE" 
[1] "hr=" "1.4"
D57V2, continuous
D57V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  12P LOSS MUTATED      3    5
  12P LOSS WILD-TYPE   32  107
                                                                                          clus
vv                                                                                         12P LOSS MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                3
  REGIONAL LYMPH NODE                                                                                     5
                                                                                          clus
vv                                                                                         12P LOSS WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                 32
  REGIONAL LYMPH NODE                                                                                     107
D57V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  12P LOSS MUTATED      4    4
  12P LOSS WILD-TYPE   48   91
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  FEMALE                4                 48
  MALE                  4                 91
                    vv
clus                  M0  M1 M1A M1B M1C
  12P LOSS MUTATED     7   0   0   0   1
  12P LOSS WILD-TYPE 121   1   2   2   0
D57V5, multiclass
                    vv
clus                 N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  12P LOSS MUTATED    5  0   0   1  0   0   0   1  1  0
  12P LOSS WILD-TYPE 72  2   6  11  1   4  11   3 15  2
D57V6, multiclass
D57V7, continuous
                    vv
clus                 I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  12P LOSS MUTATED             0       1        0        0        1         1
  12P LOSS WILD-TYPE           1      15        8       13       16         6
                    vv
clus                 STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  12P LOSS MUTATED           2         0         0          0          1
  12P LOSS WILD-TYPE         6         4         8          5         15
                    vv
clus                 STAGE IIIC STAGE IV
  12P LOSS MUTATED            1        1
  12P LOSS WILD-TYPE         20        3
D57V8, multiclass

Clustering(58) Variable = 12q loss mutation analysis
D58V1, survival
                    sevent
clus2                 0  1
  12Q LOSS MUTATED   10  5
  12Q LOSS WILD-TYPE 66 64
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
                15                130 
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
                 5                 64 
$`12Q LOSS MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A3CC TCGA-DA-A1I1 TCGA-EE-A29Q TCGA-EE-A29S TCGA-EE-A29X 
       16.57        71.24       194.83        37.35        55.89        17.92 
TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2GR TCGA-EE-A2GU TCGA-EE-A2MK TCGA-EE-A3AD 
       24.43        39.25        14.30        67.13       144.76         3.68 
TCGA-ER-A3PL TCGA-FS-A1YX TCGA-FS-A1ZH 
       33.21        48.59        32.71 

$`12Q LOSS WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
      112.54        71.80       121.22        28.08        31.59        43.40 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
       65.49        23.77        11.87        12.10        58.03        60.23 
TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A148 TCGA-D9-A149 TCGA-D9-A1JW 
       24.53         9.30        21.47       148.31        49.74         2.70 
TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
        6.38        11.34         3.22        48.89        36.03       117.17 
TCGA-DA-A1I0 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IB 
       20.38       176.55        35.93        61.18        53.92        23.44 
TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X 
       68.09        28.60        10.49       215.44        15.68        29.82 
TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F 
        8.65        33.73        26.86         4.93       109.64        78.87 
TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N 
       47.84        13.97        39.62        32.19         2.56        18.58 
TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29T TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A6 
       56.42        14.47       345.96        46.82        78.94        58.75 
TCGA-EE-A2GB TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GH TCGA-EE-A2GI 
       47.54        43.23       314.53       135.91       182.01        22.55 
TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GM TCGA-EE-A2GN TCGA-EE-A2GO 
       89.33        54.71        55.00        75.48        90.94       101.95 
TCGA-EE-A2GP TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2M5 TCGA-EE-A2M6 TCGA-EE-A2M7 
       13.87        55.59        19.56        21.67       129.24        28.80 
TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MH 
       19.76        61.51        47.28       103.27       103.17        16.96 
TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2ML TCGA-EE-A2MM TCGA-EE-A2MN TCGA-EE-A2MP 
      204.62        96.23       203.01       167.87        47.54       248.61 
TCGA-EE-A2MQ TCGA-EE-A2MR TCGA-EE-A2MS TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA 
       43.23       103.56       136.44        41.59        53.26         4.24 
TCGA-EE-A3AB TCGA-EE-A3AC TCGA-EE-A3AE TCGA-EE-A3AF TCGA-EE-A3AG TCGA-EE-A3AH 
      122.73        25.84        26.73        13.81        23.47       138.77 
TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N 
       12.59        26.37         6.41       131.08        61.05        44.05 
TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1Z4 
       79.99        80.32        80.48       160.60       216.92        28.08 
TCGA-FS-A1Z7 TCGA-FS-A1ZD TCGA-FS-A1ZG TCGA-FS-A1ZJ TCGA-FS-A1ZM TCGA-FS-A1ZP 
        7.76        53.52         9.70        47.38       101.26        74.73 
TCGA-FS-A1ZR TCGA-FS-A1ZS TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC 
       11.41       148.77        49.48        77.79        12.43        49.45 
TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 
       22.98        76.41       120.46       117.93        84.72        10.09 
TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       64.41        62.76        32.48        39.58 

  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
              3.68               2.56 
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
            194.83             345.96 
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
            37.350             48.365 
[1] "3.7 - 194.8 (37.4)" "2.6 - 346.0 (48.4)"
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
  "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
  "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"12Q LOSS WILD-TYPE"   "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
  "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE"   "12Q LOSS MUTATED" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE"   "12Q LOSS MUTATED" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
  "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
  "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
  "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
  "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"12Q LOSS WILD-TYPE"   "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE"   "12Q LOSS MUTATED" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
  "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE"   "12Q LOSS MUTATED" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-GN-A26D 
"12Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
  "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
  "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"12Q LOSS WILD-TYPE"   "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
  "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE"   "12Q LOSS MUTATED" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE"   "12Q LOSS MUTATED" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
  "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
  "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
  "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
  "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"12Q LOSS WILD-TYPE"   "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE"   "12Q LOSS MUTATED" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
  "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE"   "12Q LOSS MUTATED" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-GN-A26D 
"12Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
  "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
  "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"12Q LOSS WILD-TYPE"   "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
  "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE"   "12Q LOSS MUTATED" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE"   "12Q LOSS MUTATED" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
  "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
  "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
  "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
  "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"12Q LOSS WILD-TYPE"   "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE"   "12Q LOSS MUTATED" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
  "12Q LOSS MUTATED" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE"   "12Q LOSS MUTATED" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-GN-A26D 
"12Q LOSS WILD-TYPE" 
[1] "hr=" "1.2"
D58V2, continuous
D58V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  12Q LOSS MUTATED      7    8
  12Q LOSS WILD-TYPE   28  104
                                                                                          clus
vv                                                                                         12Q LOSS MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                7
  REGIONAL LYMPH NODE                                                                                     8
                                                                                          clus
vv                                                                                         12Q LOSS WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                 28
  REGIONAL LYMPH NODE                                                                                     104
D58V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  12Q LOSS MUTATED      8    7
  12Q LOSS WILD-TYPE   44   88
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  FEMALE                8                 44
  MALE                  7                 88
                    vv
clus                  M0  M1 M1A M1B M1C
  12Q LOSS MUTATED    12   0   1   0   1
  12Q LOSS WILD-TYPE 116   1   1   2   0
D58V5, multiclass
                    vv
clus                 N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  12Q LOSS MUTATED   10  0   0   1  0   0   0   1  2  0
  12Q LOSS WILD-TYPE 67  2   6  11  1   4  11   3 14  2
D58V6, multiclass
D58V7, continuous
                    vv
clus                 I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  12Q LOSS MUTATED             0       1        1        2        2         1
  12Q LOSS WILD-TYPE           1      15        7       11       15         6
                    vv
clus                 STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  12Q LOSS MUTATED           1         1         0          0          1
  12Q LOSS WILD-TYPE         7         3         8          5         15
                    vv
clus                 STAGE IIIC STAGE IV
  12Q LOSS MUTATED            2        2
  12Q LOSS WILD-TYPE         19        2
D58V8, multiclass

Clustering(59) Variable = 13q loss mutation analysis
D59V1, survival
                    sevent
clus2                 0  1
  13Q LOSS MUTATED   12 11
  13Q LOSS WILD-TYPE 64 58
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
                23                122 
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
                11                 58 
$`13Q LOSS MUTATED`
TCGA-D3-A1Q8 TCGA-D9-A148 TCGA-D9-A149 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1I2 
       28.08       148.31        49.74         3.22        48.89       176.55 
TCGA-DA-A1I4 TCGA-DA-A1I8 TCGA-DA-A1IC TCGA-EE-A181 TCGA-EE-A29C TCGA-EE-A29D 
       35.93        53.92        68.09        33.73        47.84        13.97 
TCGA-EE-A29N TCGA-EE-A29Q TCGA-EE-A29T TCGA-EE-A2GJ TCGA-EE-A2MS TCGA-EE-A3AD 
       18.58        37.35       345.96        89.33       136.44         3.68 
TCGA-EE-A3AH TCGA-FR-A3YN TCGA-FS-A1ZH TCGA-GN-A266 TCGA-GN-A26D 
      138.77        80.48        32.71        10.09        39.58 

$`13Q LOSS WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.57       112.54        71.80       121.22        31.59        43.40 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC 
       65.49        23.77        11.87        12.10        58.03        71.24 
TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A1JW TCGA-D9-A1JX 
       60.23        24.53         9.30        21.47         2.70         6.38 
TCGA-D9-A3Z1 TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I7 
       11.34        36.03       117.17        20.38       194.83        61.18 
TCGA-DA-A1IB TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X 
       23.44        28.60        10.49       215.44        15.68        29.82 
TCGA-EE-A17Z TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29E 
        8.65        26.86         4.93       109.64        78.87        39.62 
TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29X 
       32.19         2.56        56.42        14.47        55.89        17.92 
TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-EE-A2GB 
       46.82        78.94        24.43        39.25        58.75        47.54 
TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GH TCGA-EE-A2GI TCGA-EE-A2GK 
       43.23       314.53       135.91       182.01        22.55        54.71 
TCGA-EE-A2GL TCGA-EE-A2GM TCGA-EE-A2GN TCGA-EE-A2GO TCGA-EE-A2GP TCGA-EE-A2GR 
       55.00        75.48        90.94       101.95        13.87        14.30 
TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 TCGA-EE-A2M6 TCGA-EE-A2M7 
       55.59        19.56        67.13        21.67       129.24        28.80 
TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MH 
       19.76        61.51        47.28       103.27       103.17        16.96 
TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2MK TCGA-EE-A2ML TCGA-EE-A2MM TCGA-EE-A2MN 
      204.62        96.23       144.76       203.01       167.87        47.54 
TCGA-EE-A2MP TCGA-EE-A2MQ TCGA-EE-A2MR TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA 
      248.61        43.23       103.56        41.59        53.26         4.24 
TCGA-EE-A3AB TCGA-EE-A3AC TCGA-EE-A3AE TCGA-EE-A3AF TCGA-EE-A3AG TCGA-ER-A19D 
      122.73        25.84        26.73        13.81        23.47        12.59 
TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 
       26.37         6.41       131.08        61.05        44.05        79.99 
TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1Z4 
       80.32        33.21       160.60       216.92        48.59        28.08 
TCGA-FS-A1Z7 TCGA-FS-A1ZD TCGA-FS-A1ZG TCGA-FS-A1ZJ TCGA-FS-A1ZM TCGA-FS-A1ZP 
        7.76        53.52         9.70        47.38       101.26        74.73 
TCGA-FS-A1ZR TCGA-FS-A1ZS TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC 
       11.41       148.77        49.48        77.79        12.43        49.45 
TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 
       22.98        76.41       120.46       117.93        84.72        64.41 
TCGA-GN-A268 TCGA-GN-A26A 
       62.76        32.48 

  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
              3.22               2.56 
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
            345.96             314.53 
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
             47.84              47.54 
[1] "3.2 - 346.0 (47.8)" "2.6 - 314.5 (47.5)"
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
  "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED"   "13Q LOSS MUTATED" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED"   "13Q LOSS MUTATED" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
  "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
  "13Q LOSS MUTATED"   "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
  "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-GN-A26D 
  "13Q LOSS MUTATED" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
  "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED"   "13Q LOSS MUTATED" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED"   "13Q LOSS MUTATED" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
  "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
  "13Q LOSS MUTATED"   "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
  "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-GN-A26D 
  "13Q LOSS MUTATED" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
  "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED"   "13Q LOSS MUTATED" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED"   "13Q LOSS MUTATED" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
  "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
  "13Q LOSS MUTATED"   "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
  "13Q LOSS MUTATED" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE"   "13Q LOSS MUTATED" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-GN-A26D 
  "13Q LOSS MUTATED" 
[1] "hr=" "1.1"
D59V2, continuous
D59V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  13Q LOSS MUTATED      6   17
  13Q LOSS WILD-TYPE   29   95
                                                                                          clus
vv                                                                                         13Q LOSS MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                6
  REGIONAL LYMPH NODE                                                                                    17
                                                                                          clus
vv                                                                                         13Q LOSS WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                 29
  REGIONAL LYMPH NODE                                                                                      95
D59V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  13Q LOSS MUTATED      8   15
  13Q LOSS WILD-TYPE   44   80
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  FEMALE                8                 44
  MALE                 15                 80
                    vv
clus                  M0  M1 M1A M1B M1C
  13Q LOSS MUTATED    17   0   0   2   1
  13Q LOSS WILD-TYPE 111   1   2   0   0
D59V5, multiclass
                    vv
clus                 N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  13Q LOSS MUTATED    9  0   0   3  0   0   3   2  3  1
  13Q LOSS WILD-TYPE 68  2   6   9  1   4   8   2 13  1
D59V6, multiclass
D59V7, continuous
                    vv
clus                 I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  13Q LOSS MUTATED             0       0        1        2        3         0
  13Q LOSS WILD-TYPE           1      16        7       11       14         7
                    vv
clus                 STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  13Q LOSS MUTATED           1         1         0          0          4
  13Q LOSS WILD-TYPE         7         3         8          5         12
                    vv
clus                 STAGE IIIC STAGE IV
  13Q LOSS MUTATED            3        2
  13Q LOSS WILD-TYPE         18        2
D59V8, multiclass

Clustering(60) Variable = 14q loss mutation analysis
D60V1, survival
                    sevent
clus2                 0  1
  14Q LOSS MUTATED   15 20
  14Q LOSS WILD-TYPE 61 49
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
                35                110 
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
                20                 49 
$`14Q LOSS MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A2J6 TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D9-A149 TCGA-DA-A1HV 
       16.57        43.40        71.24        60.23        49.74        48.89 
TCGA-DA-A1HY TCGA-DA-A1I1 TCGA-DA-A3F5 TCGA-EE-A181 TCGA-EE-A29C TCGA-EE-A29X 
      117.17       194.83       215.44        33.73        47.84        17.92 
TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-EE-A2GE TCGA-EE-A2GP TCGA-EE-A2M6 TCGA-EE-A2M7 
       39.25        58.75       135.91        13.87       129.24        28.80 
TCGA-EE-A2MD TCGA-EE-A2MH TCGA-EE-A2MK TCGA-EE-A2MN TCGA-EE-A2MS TCGA-EE-A3AH 
       47.28        16.96       144.76        47.54       136.44       138.77 
TCGA-ER-A3PL TCGA-FS-A1YX TCGA-FS-A1Z7 TCGA-FS-A1ZH TCGA-FS-A1ZM TCGA-FS-A1ZR 
       33.21        48.59         7.76        32.71       101.26        11.41 
TCGA-FS-A4F9 TCGA-GN-A264 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A 
       12.43       117.93        64.41        62.76        32.48 

$`14Q LOSS WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J8 
      112.54        71.80       121.22        28.08        31.59        65.49 
TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CF TCGA-D3-A3MO 
       23.77        11.87        12.10        58.03        24.53         9.30 
TCGA-D3-A3MV TCGA-D9-A148 TCGA-D9-A1JW TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 
       21.47       148.31         2.70         6.38        11.34         3.22 
TCGA-DA-A1HW TCGA-DA-A1I0 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 
       36.03        20.38       176.55        35.93        61.18        53.92 
TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F8 TCGA-EE-A17X 
       23.44        68.09        28.60        10.49        15.68        29.82 
TCGA-EE-A17Z TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29D 
        8.65        26.86         4.93       109.64        78.87        13.97 
TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q 
       39.62        32.19         2.56        18.58        56.42        37.35 
TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 
       14.47        55.89       345.96        46.82        78.94        24.43 
TCGA-EE-A2GB TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GH TCGA-EE-A2GI TCGA-EE-A2GJ 
       47.54        43.23       314.53       182.01        22.55        89.33 
TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GM TCGA-EE-A2GN TCGA-EE-A2GO TCGA-EE-A2GR 
       54.71        55.00        75.48        90.94       101.95        14.30 
TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 TCGA-EE-A2M8 TCGA-EE-A2MC 
       55.59        19.56        67.13        21.67        19.76        61.51 
TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2ML TCGA-EE-A2MM 
      103.27       103.17       204.62        96.23       203.01       167.87 
TCGA-EE-A2MP TCGA-EE-A2MQ TCGA-EE-A2MR TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA 
      248.61        43.23       103.56        41.59        53.26         4.24 
TCGA-EE-A3AB TCGA-EE-A3AC TCGA-EE-A3AD TCGA-EE-A3AE TCGA-EE-A3AF TCGA-EE-A3AG 
      122.73        25.84         3.68        26.73        13.81        23.47 
TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N 
       12.59        26.37         6.41       131.08        61.05        44.05 
TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1Z4 
       79.99        80.32        80.48       160.60       216.92        28.08 
TCGA-FS-A1ZD TCGA-FS-A1ZG TCGA-FS-A1ZJ TCGA-FS-A1ZP TCGA-FS-A1ZS TCGA-FS-A1ZW 
       53.52         9.70        47.38        74.73       148.77        49.48 
TCGA-FS-A4F0 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A265 
       77.79        49.45        22.98        76.41       120.46        84.72 
TCGA-GN-A266 TCGA-GN-A26D 
       10.09        39.58 

  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
              7.76               2.56 
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
            215.44             345.96 
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
             48.59              47.10 
[1] "7.8 - 215.4 (48.6)" "2.6 - 346.0 (47.1)"
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
  "14Q LOSS MUTATED"   "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
  "14Q LOSS MUTATED"   "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
  "14Q LOSS MUTATED"   "14Q LOSS MUTATED"   "14Q LOSS MUTATED" 
        TCGA-GN-A26D 
"14Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
  "14Q LOSS MUTATED"   "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
  "14Q LOSS MUTATED"   "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
  "14Q LOSS MUTATED"   "14Q LOSS MUTATED"   "14Q LOSS MUTATED" 
        TCGA-GN-A26D 
"14Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
  "14Q LOSS MUTATED"   "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
  "14Q LOSS MUTATED"   "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"14Q LOSS WILD-TYPE"   "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
  "14Q LOSS MUTATED" "14Q LOSS WILD-TYPE" "14Q LOSS WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
  "14Q LOSS MUTATED"   "14Q LOSS MUTATED"   "14Q LOSS MUTATED" 
        TCGA-GN-A26D 
"14Q LOSS WILD-TYPE" 
[1] "hr=" "1.2"
D60V2, continuous
D60V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  14Q LOSS MUTATED     10   25
  14Q LOSS WILD-TYPE   25   87
                                                                                          clus
vv                                                                                         14Q LOSS MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)               10
  REGIONAL LYMPH NODE                                                                                    25
                                                                                          clus
vv                                                                                         14Q LOSS WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                 25
  REGIONAL LYMPH NODE                                                                                      87
D60V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  14Q LOSS MUTATED     12   23
  14Q LOSS WILD-TYPE   40   72
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  FEMALE               12                 40
  MALE                 23                 72
                    vv
clus                 M0 M1 M1A M1B M1C
  14Q LOSS MUTATED   32  0   1   0   1
  14Q LOSS WILD-TYPE 96  1   1   2   0
D60V5, multiclass
                    vv
clus                 N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  14Q LOSS MUTATED   20  0   3   3  0   0   1   2  5  0
  14Q LOSS WILD-TYPE 57  2   3   9  1   4  10   2 11  2
D60V6, multiclass
D60V7, continuous
                    vv
clus                 I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  14Q LOSS MUTATED             0       4        1        3        8         0
  14Q LOSS WILD-TYPE           1      12        7       10        9         7
                    vv
clus                 STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  14Q LOSS MUTATED           2         1         2          2          2
  14Q LOSS WILD-TYPE         6         3         6          3         14
                    vv
clus                 STAGE IIIC STAGE IV
  14Q LOSS MUTATED            6        2
  14Q LOSS WILD-TYPE         15        2
D60V8, multiclass

Clustering(61) Variable = 15q loss mutation analysis
D61V1, survival
                    sevent
clus2                 0  1
  15Q LOSS MUTATED    6  6
  15Q LOSS WILD-TYPE 70 63
  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
                12                133 
  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
                 6                 63 
$`15Q LOSS MUTATED`
TCGA-D3-A3C6 TCGA-D9-A148 TCGA-DA-A1I1 TCGA-EE-A29L TCGA-EE-A29P TCGA-EE-A2A5 
       58.03       148.31       194.83         2.56        56.42        39.25 
TCGA-EE-A2MK TCGA-EE-A3AB TCGA-FS-A1YX TCGA-FS-A1ZM TCGA-GN-A266 TCGA-GN-A267 
      144.76       122.73        48.59       101.26        10.09        64.41 

$`15Q LOSS WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 
       16.57       112.54        71.80       121.22        28.08        31.59 
TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3CC 
       43.40        65.49        23.77        11.87        12.10        71.24 
TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A149 TCGA-D9-A1JW 
       60.23        24.53         9.30        21.47        49.74         2.70 
TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
        6.38        11.34         3.22        48.89        36.03       117.17 
TCGA-DA-A1I0 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IB 
       20.38       176.55        35.93        61.18        53.92        23.44 
TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X 
       68.09        28.60        10.49       215.44        15.68        29.82 
TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F 
        8.65        33.73        26.86         4.93       109.64        78.87 
TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29N TCGA-EE-A29Q 
       47.84        13.97        39.62        32.19        18.58        37.35 
TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 
       14.47        55.89       345.96        17.92        46.82        78.94 
TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-EE-A2GB TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GE 
       24.43        58.75        47.54        43.23       314.53       135.91 
TCGA-EE-A2GH TCGA-EE-A2GI TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GM 
      182.01        22.55        89.33        54.71        55.00        75.48 
TCGA-EE-A2GN TCGA-EE-A2GO TCGA-EE-A2GP TCGA-EE-A2GR TCGA-EE-A2GS TCGA-EE-A2GT 
       90.94       101.95        13.87        14.30        55.59        19.56 
TCGA-EE-A2GU TCGA-EE-A2M5 TCGA-EE-A2M6 TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC 
       67.13        21.67       129.24        28.80        19.76        61.51 
TCGA-EE-A2MD TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MJ 
       47.28       103.27       103.17        16.96       204.62        96.23 
TCGA-EE-A2ML TCGA-EE-A2MM TCGA-EE-A2MN TCGA-EE-A2MP TCGA-EE-A2MQ TCGA-EE-A2MR 
      203.01       167.87        47.54       248.61        43.23       103.56 
TCGA-EE-A2MS TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AC TCGA-EE-A3AD 
      136.44        41.59        53.26         4.24        25.84         3.68 
TCGA-EE-A3AE TCGA-EE-A3AF TCGA-EE-A3AG TCGA-EE-A3AH TCGA-ER-A19D TCGA-ER-A19F 
       26.73        13.81        23.47       138.77        12.59        26.37 
TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET 
        6.41       131.08        61.05        44.05        79.99        80.32 
TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1Z4 TCGA-FS-A1Z7 
       33.21        80.48       160.60       216.92        28.08         7.76 
TCGA-FS-A1ZD TCGA-FS-A1ZG TCGA-FS-A1ZH TCGA-FS-A1ZJ TCGA-FS-A1ZP TCGA-FS-A1ZR 
       53.52         9.70        32.71        47.38        74.73        11.41 
TCGA-FS-A1ZS TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 
      148.77        49.48        77.79        12.43        49.45        22.98 
TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A268 TCGA-GN-A26A 
       76.41       120.46       117.93        84.72        62.76        32.48 
TCGA-GN-A26D 
       39.58 

  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
              2.56               2.70 
  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
            194.83             345.96 
  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
             61.22              47.28 
[1] "2.6 - 194.8 (61.2)" "2.7 - 346.0 (47.3)"
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
  "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
  "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
  "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
  "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
  "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
  "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-GN-A26D 
"15Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
  "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
  "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
  "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
  "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
  "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
  "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-GN-A26D 
"15Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
  "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
  "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
  "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
  "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
  "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE"   "15Q LOSS MUTATED" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
  "15Q LOSS MUTATED" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-GN-A26D 
"15Q LOSS WILD-TYPE" 
[1] "hr=" "1.2"
D61V2, continuous
D61V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  15Q LOSS MUTATED      5    7
  15Q LOSS WILD-TYPE   30  105
                                                                                          clus
vv                                                                                         15Q LOSS MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                5
  REGIONAL LYMPH NODE                                                                                     7
                                                                                          clus
vv                                                                                         15Q LOSS WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                 30
  REGIONAL LYMPH NODE                                                                                     105
D61V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  15Q LOSS MUTATED      4    8
  15Q LOSS WILD-TYPE   48   87
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  FEMALE                4                 48
  MALE                  8                 87
                    vv
clus                  M0  M1 M1A M1B M1C
  15Q LOSS MUTATED     9   0   0   1   0
  15Q LOSS WILD-TYPE 119   1   2   1   1
D61V5, multiclass
                    vv
clus                 N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  15Q LOSS MUTATED    5  0   1   0  0   0   0   1  3  0
  15Q LOSS WILD-TYPE 72  2   5  12  1   4  11   3 13  2
D61V6, multiclass
D61V7, continuous
                    vv
clus                 I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  15Q LOSS MUTATED             0       1        0        2        1         0
  15Q LOSS WILD-TYPE           1      15        8       11       16         7
                    vv
clus                 STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  15Q LOSS MUTATED           0         1         1          1          0
  15Q LOSS WILD-TYPE         8         3         7          4         16
                    vv
clus                 STAGE IIIC STAGE IV
  15Q LOSS MUTATED            2        0
  15Q LOSS WILD-TYPE         19        4
D61V8, multiclass

Clustering(62) Variable = 16p loss mutation analysis
D62V1, survival
                    sevent
clus2                 0  1
  16P LOSS MUTATED    3  6
  16P LOSS WILD-TYPE 73 63
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
                 9                136 
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
                 6                 63 
$`16P LOSS MUTATED`
TCGA-D3-A1Q5 TCGA-DA-A1HW TCGA-DA-A1I2 TCGA-EE-A17Z TCGA-EE-A29D TCGA-EE-A29X 
      112.54        36.03       176.55         8.65        13.97        17.92 
TCGA-EE-A2GC TCGA-EE-A2MK TCGA-GN-A262 
       43.23       144.76       120.46 

$`16P LOSS WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.57        71.80       121.22        28.08        31.59        43.40 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC 
       65.49        23.77        11.87        12.10        58.03        71.24 
TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A148 TCGA-D9-A149 
       60.23        24.53         9.30        21.47       148.31        49.74 
TCGA-D9-A1JW TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HY 
        2.70         6.38        11.34         3.22        48.89       117.17 
TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IB 
       20.38       194.83        35.93        61.18        53.92        23.44 
TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X 
       68.09        28.60        10.49       215.44        15.68        29.82 
TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29C 
       33.73        26.86         4.93       109.64        78.87        47.84 
TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q 
       39.62        32.19         2.56        18.58        56.42        37.35 
TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 
       14.47        55.89       345.96        46.82        78.94        24.43 
TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-EE-A2GB TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GH 
       39.25        58.75        47.54       314.53       135.91       182.01 
TCGA-EE-A2GI TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GM TCGA-EE-A2GN 
       22.55        89.33        54.71        55.00        75.48        90.94 
TCGA-EE-A2GO TCGA-EE-A2GP TCGA-EE-A2GR TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2GU 
      101.95        13.87        14.30        55.59        19.56        67.13 
TCGA-EE-A2M5 TCGA-EE-A2M6 TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD 
       21.67       129.24        28.80        19.76        61.51        47.28 
TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2ML 
      103.27       103.17        16.96       204.62        96.23       203.01 
TCGA-EE-A2MM TCGA-EE-A2MN TCGA-EE-A2MP TCGA-EE-A2MQ TCGA-EE-A2MR TCGA-EE-A2MS 
      167.87        47.54       248.61        43.23       103.56       136.44 
TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AC TCGA-EE-A3AD 
       41.59        53.26         4.24       122.73        25.84         3.68 
TCGA-EE-A3AE TCGA-EE-A3AF TCGA-EE-A3AG TCGA-EE-A3AH TCGA-ER-A19D TCGA-ER-A19F 
       26.73        13.81        23.47       138.77        12.59        26.37 
TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET 
        6.41       131.08        61.05        44.05        79.99        80.32 
TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1Z4 
       33.21        80.48       160.60       216.92        48.59        28.08 
TCGA-FS-A1Z7 TCGA-FS-A1ZD TCGA-FS-A1ZG TCGA-FS-A1ZH TCGA-FS-A1ZJ TCGA-FS-A1ZM 
        7.76        53.52         9.70        32.71        47.38       101.26 
TCGA-FS-A1ZP TCGA-FS-A1ZR TCGA-FS-A1ZS TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 
       74.73        11.41       148.77        49.48        77.79        12.43 
TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 
       49.45        22.98        76.41       117.93        84.72        10.09 
TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       64.41        62.76        32.48        39.58 

  16P LOSS MUTATED 16P LOSS WILD-TYPE 
              8.65               2.56 
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
            176.55             345.96 
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
             43.23              47.69 
[1] "8.7 - 176.6 (43.2)" "2.6 - 346.0 (47.7)"
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"16P LOSS WILD-TYPE"   "16P LOSS MUTATED" "16P LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
  "16P LOSS MUTATED" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"16P LOSS WILD-TYPE"   "16P LOSS MUTATED" "16P LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
  "16P LOSS MUTATED" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"16P LOSS WILD-TYPE"   "16P LOSS MUTATED" "16P LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE"   "16P LOSS MUTATED" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
  "16P LOSS MUTATED" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
  "16P LOSS MUTATED" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE"   "16P LOSS MUTATED" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-GN-A26D 
"16P LOSS WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"16P LOSS WILD-TYPE"   "16P LOSS MUTATED" "16P LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
  "16P LOSS MUTATED" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"16P LOSS WILD-TYPE"   "16P LOSS MUTATED" "16P LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
  "16P LOSS MUTATED" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"16P LOSS WILD-TYPE"   "16P LOSS MUTATED" "16P LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE"   "16P LOSS MUTATED" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
  "16P LOSS MUTATED" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
  "16P LOSS MUTATED" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE"   "16P LOSS MUTATED" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-GN-A26D 
"16P LOSS WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"16P LOSS WILD-TYPE"   "16P LOSS MUTATED" "16P LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
  "16P LOSS MUTATED" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"16P LOSS WILD-TYPE"   "16P LOSS MUTATED" "16P LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
  "16P LOSS MUTATED" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"16P LOSS WILD-TYPE"   "16P LOSS MUTATED" "16P LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE"   "16P LOSS MUTATED" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
  "16P LOSS MUTATED" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
  "16P LOSS MUTATED" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE"   "16P LOSS MUTATED" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-GN-A26D 
"16P LOSS WILD-TYPE" 
[1] "hr=" "1.3"
D62V2, continuous
D62V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  16P LOSS MUTATED      1    8
  16P LOSS WILD-TYPE   34  104
                                                                                          clus
vv                                                                                         16P LOSS MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                1
  REGIONAL LYMPH NODE                                                                                     8
                                                                                          clus
vv                                                                                         16P LOSS WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                 34
  REGIONAL LYMPH NODE                                                                                     104
D62V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  16P LOSS MUTATED      4    5
  16P LOSS WILD-TYPE   48   90
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  FEMALE                4                 48
  MALE                  5                 90
                    vv
clus                  M0  M1 M1A M1B M1C
  16P LOSS MUTATED     8   0   0   0   0
  16P LOSS WILD-TYPE 120   1   2   2   1
D62V5, multiclass
                    vv
clus                 N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  16P LOSS MUTATED    5  0   0   2  0   0   1   0  0  0
  16P LOSS WILD-TYPE 72  2   6  10  1   4  10   4 16  2
D62V6, multiclass
D62V7, continuous
                    vv
clus                 I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  16P LOSS MUTATED             1       0        0        1        1         0
  16P LOSS WILD-TYPE           0      16        8       12       16         7
                    vv
clus                 STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  16P LOSS MUTATED           2         0         0          0          1
  16P LOSS WILD-TYPE         6         4         8          5         15
                    vv
clus                 STAGE IIIC STAGE IV
  16P LOSS MUTATED            2        0
  16P LOSS WILD-TYPE         19        4
D62V8, multiclass

Clustering(63) Variable = 16q loss mutation analysis
D63V1, survival
                    sevent
clus2                 0  1
  16Q LOSS MUTATED    7 13
  16Q LOSS WILD-TYPE 69 56
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
                20                125 
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
                13                 56 
$`16Q LOSS MUTATED`
TCGA-D3-A1Q5 TCGA-D9-A148 TCGA-D9-A149 TCGA-D9-A3Z3 TCGA-DA-A1HW TCGA-DA-A1I2 
      112.54       148.31        49.74         3.22        36.03       176.55 
TCGA-DA-A1I4 TCGA-DA-A3F8 TCGA-EE-A17Z TCGA-EE-A185 TCGA-EE-A29D TCGA-EE-A29X 
       35.93        15.68         8.65         4.93        13.97        17.92 
TCGA-EE-A2A5 TCGA-EE-A2GC TCGA-EE-A2GP TCGA-EE-A2MD TCGA-EE-A2MK TCGA-EE-A3AF 
       39.25        43.23        13.87        47.28       144.76        13.81 
TCGA-GN-A262 TCGA-GN-A267 
      120.46        64.41 

$`16Q LOSS WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.57        71.80       121.22        28.08        31.59        43.40 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC 
       65.49        23.77        11.87        12.10        58.03        71.24 
TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A1JW TCGA-D9-A1JX 
       60.23        24.53         9.30        21.47         2.70         6.38 
TCGA-D9-A3Z1 TCGA-DA-A1HV TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I7 
       11.34        48.89       117.17        20.38       194.83        61.18 
TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 
       53.92        23.44        68.09        28.60        10.49       215.44 
TCGA-EE-A17X TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29C 
       29.82        33.73        26.86       109.64        78.87        47.84 
TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q 
       39.62        32.19         2.56        18.58        56.42        37.35 
TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 
       14.47        55.89       345.96        46.82        78.94        24.43 
TCGA-EE-A2A6 TCGA-EE-A2GB TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GH TCGA-EE-A2GI 
       58.75        47.54       314.53       135.91       182.01        22.55 
TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GM TCGA-EE-A2GN TCGA-EE-A2GO 
       89.33        54.71        55.00        75.48        90.94       101.95 
TCGA-EE-A2GR TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 TCGA-EE-A2M6 
       14.30        55.59        19.56        67.13        21.67       129.24 
TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MH 
       28.80        19.76        61.51       103.27       103.17        16.96 
TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2ML TCGA-EE-A2MM TCGA-EE-A2MN TCGA-EE-A2MP 
      204.62        96.23       203.01       167.87        47.54       248.61 
TCGA-EE-A2MQ TCGA-EE-A2MR TCGA-EE-A2MS TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA 
       43.23       103.56       136.44        41.59        53.26         4.24 
TCGA-EE-A3AB TCGA-EE-A3AC TCGA-EE-A3AD TCGA-EE-A3AE TCGA-EE-A3AG TCGA-EE-A3AH 
      122.73        25.84         3.68        26.73        23.47       138.77 
TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N 
       12.59        26.37         6.41       131.08        61.05        44.05 
TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1YW 
       79.99        80.32        33.21        80.48       160.60       216.92 
TCGA-FS-A1YX TCGA-FS-A1Z4 TCGA-FS-A1Z7 TCGA-FS-A1ZD TCGA-FS-A1ZG TCGA-FS-A1ZH 
       48.59        28.08         7.76        53.52         9.70        32.71 
TCGA-FS-A1ZJ TCGA-FS-A1ZM TCGA-FS-A1ZP TCGA-FS-A1ZR TCGA-FS-A1ZS TCGA-FS-A1ZW 
       47.38       101.26        74.73        11.41       148.77        49.48 
TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A264 
       77.79        12.43        49.45        22.98        76.41       117.93 
TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       84.72        10.09        62.76        32.48        39.58 

  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
              3.22               2.56 
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
            176.55             345.96 
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
             37.64              48.89 
[1] "3.2 - 176.6 (37.6)" "2.6 - 346.0 (48.9)"
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
  "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
  "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED"   "16Q LOSS MUTATED" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
  "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
  "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
  "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
  "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
  "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
  "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
  "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
  "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-GN-A26D 
"16Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
  "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
  "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED"   "16Q LOSS MUTATED" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
  "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
  "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
  "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
  "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
  "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
  "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
  "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
  "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-GN-A26D 
"16Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
  "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
  "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED"   "16Q LOSS MUTATED" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
  "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
  "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
  "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
  "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
  "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
  "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
  "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE"   "16Q LOSS MUTATED" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
  "16Q LOSS MUTATED" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-GN-A26D 
"16Q LOSS WILD-TYPE" 
[1] "hr=" "1.7"
D63V2, continuous
D63V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  16Q LOSS MUTATED      5   15
  16Q LOSS WILD-TYPE   30   97
                                                                                          clus
vv                                                                                         16Q LOSS MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                5
  REGIONAL LYMPH NODE                                                                                    15
                                                                                          clus
vv                                                                                         16Q LOSS WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                 30
  REGIONAL LYMPH NODE                                                                                      97
D63V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  16Q LOSS MUTATED      7   13
  16Q LOSS WILD-TYPE   45   82
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  FEMALE                7                 45
  MALE                 13                 82
                    vv
clus                  M0  M1 M1A M1B M1C
  16Q LOSS MUTATED    17   0   0   1   0
  16Q LOSS WILD-TYPE 111   1   2   1   1
D63V5, multiclass
                    vv
clus                 N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  16Q LOSS MUTATED    7  0   2   4  0   0   3   0  2  0
  16Q LOSS WILD-TYPE 70  2   4   8  1   4   8   4 14  2
D63V6, multiclass
D63V7, continuous
                    vv
clus                 I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  16Q LOSS MUTATED             1       0        0        2        2         0
  16Q LOSS WILD-TYPE           0      16        8       11       15         7
                    vv
clus                 STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  16Q LOSS MUTATED           2         0         0          1          5
  16Q LOSS WILD-TYPE         6         4         8          4         11
                    vv
clus                 STAGE IIIC STAGE IV
  16Q LOSS MUTATED            3        0
  16Q LOSS WILD-TYPE         18        4
D63V8, multiclass

Clustering(64) Variable = 17p loss mutation analysis
D64V1, survival
                    sevent
clus2                 0  1
  17P LOSS MUTATED   17 16
  17P LOSS WILD-TYPE 59 53
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
                33                112 
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
                16                 53 
$`17P LOSS MUTATED`
TCGA-D3-A2J6 TCGA-D3-A3MO TCGA-D9-A148 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
       43.40         9.30       148.31        48.89        36.03       117.17 
TCGA-DA-A3F3 TCGA-EE-A185 TCGA-EE-A29C TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29S 
       10.49         4.93        47.84        32.19         2.56        55.89 
TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2GC 
      345.96        17.92        78.94        24.43        39.25        43.23 
TCGA-EE-A2GI TCGA-EE-A2GJ TCGA-EE-A2GP TCGA-EE-A2GT TCGA-EE-A2M6 TCGA-EE-A2MD 
       22.55        89.33        13.87        19.56       129.24        47.28 
TCGA-EE-A2MN TCGA-EE-A2MQ TCGA-FR-A3YN TCGA-FS-A1YX TCGA-FS-A1ZH TCGA-FS-A1ZJ 
       47.54        43.23        80.48        48.59        32.71        47.38 
TCGA-FS-A4F9 TCGA-FW-A3R5 TCGA-GN-A266 
       12.43        22.98        10.09 

$`17P LOSS WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 
       16.57       112.54        71.80       121.22        28.08        31.59 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC 
       65.49        23.77        11.87        12.10        58.03        71.24 
TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MV TCGA-D9-A149 TCGA-D9-A1JW TCGA-D9-A1JX 
       60.23        24.53        21.47        49.74         2.70         6.38 
TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 
       11.34         3.22        20.38       194.83       176.55        35.93 
TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F5 
       61.18        53.92        23.44        68.09        28.60       215.44 
TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A20B 
       15.68        29.82         8.65        33.73        26.86       109.64 
TCGA-EE-A20F TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q 
       78.87        13.97        39.62        18.58        56.42        37.35 
TCGA-EE-A29R TCGA-EE-A2A0 TCGA-EE-A2A6 TCGA-EE-A2GB TCGA-EE-A2GD TCGA-EE-A2GE 
       14.47        46.82        58.75        47.54       314.53       135.91 
TCGA-EE-A2GH TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GM TCGA-EE-A2GN TCGA-EE-A2GO 
      182.01        54.71        55.00        75.48        90.94       101.95 
TCGA-EE-A2GR TCGA-EE-A2GS TCGA-EE-A2GU TCGA-EE-A2M5 TCGA-EE-A2M7 TCGA-EE-A2M8 
       14.30        55.59        67.13        21.67        28.80        19.76 
TCGA-EE-A2MC TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MJ 
       61.51       103.27       103.17        16.96       204.62        96.23 
TCGA-EE-A2MK TCGA-EE-A2ML TCGA-EE-A2MM TCGA-EE-A2MP TCGA-EE-A2MR TCGA-EE-A2MS 
      144.76       203.01       167.87       248.61       103.56       136.44 
TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AC TCGA-EE-A3AD 
       41.59        53.26         4.24       122.73        25.84         3.68 
TCGA-EE-A3AE TCGA-EE-A3AF TCGA-EE-A3AG TCGA-EE-A3AH TCGA-ER-A19D TCGA-ER-A19F 
       26.73        13.81        23.47       138.77        12.59        26.37 
TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET 
        6.41       131.08        61.05        44.05        79.99        80.32 
TCGA-ER-A3PL TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1Z4 TCGA-FS-A1Z7 TCGA-FS-A1ZD 
       33.21       160.60       216.92        28.08         7.76        53.52 
TCGA-FS-A1ZG TCGA-FS-A1ZM TCGA-FS-A1ZP TCGA-FS-A1ZR TCGA-FS-A1ZS TCGA-FS-A1ZW 
        9.70       101.26        74.73        11.41       148.77        49.48 
TCGA-FS-A4F0 TCGA-FS-A4FC TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 
       77.79        49.45        76.41       120.46       117.93        84.72 
TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       64.41        62.76        32.48        39.58 

  17P LOSS MUTATED 17P LOSS WILD-TYPE 
              2.56               2.70 
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
            345.96             314.53 
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
             43.23              53.72 
[1] "2.6 - 346.0 (43.2)" "2.7 - 314.5 (53.7)"
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
  "17P LOSS MUTATED"   "17P LOSS MUTATED" "17P LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
  "17P LOSS MUTATED"   "17P LOSS MUTATED" "17P LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
  "17P LOSS MUTATED"   "17P LOSS MUTATED"   "17P LOSS MUTATED" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED"   "17P LOSS MUTATED" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED"   "17P LOSS MUTATED" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED" "17P LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-GN-A26D 
"17P LOSS WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
  "17P LOSS MUTATED"   "17P LOSS MUTATED" "17P LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
  "17P LOSS MUTATED"   "17P LOSS MUTATED" "17P LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
  "17P LOSS MUTATED"   "17P LOSS MUTATED"   "17P LOSS MUTATED" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED"   "17P LOSS MUTATED" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED"   "17P LOSS MUTATED" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED" "17P LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-GN-A26D 
"17P LOSS WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
  "17P LOSS MUTATED"   "17P LOSS MUTATED" "17P LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
  "17P LOSS MUTATED"   "17P LOSS MUTATED" "17P LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
  "17P LOSS MUTATED"   "17P LOSS MUTATED"   "17P LOSS MUTATED" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED"   "17P LOSS MUTATED" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED"   "17P LOSS MUTATED" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"17P LOSS WILD-TYPE"   "17P LOSS MUTATED" "17P LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
  "17P LOSS MUTATED" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE"   "17P LOSS MUTATED" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" "17P LOSS WILD-TYPE" 
        TCGA-GN-A26D 
"17P LOSS WILD-TYPE" 
[1] "hr=" "1.3"
D64V2, continuous
D64V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  17P LOSS MUTATED      5   28
  17P LOSS WILD-TYPE   30   84
                                                                                          clus
vv                                                                                         17P LOSS MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                5
  REGIONAL LYMPH NODE                                                                                    28
                                                                                          clus
vv                                                                                         17P LOSS WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                 30
  REGIONAL LYMPH NODE                                                                                      84
D64V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  17P LOSS MUTATED     10   23
  17P LOSS WILD-TYPE   42   72
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  FEMALE               10                 42
  MALE                 23                 72
                    vv
clus                 M0 M1 M1A M1B M1C
  17P LOSS MUTATED   30  0   0   1   1
  17P LOSS WILD-TYPE 98  1   2   1   0
D64V5, multiclass
                    vv
clus                 N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  17P LOSS MUTATED   17  0   1   2  1   1   2   2  5  1
  17P LOSS WILD-TYPE 60  2   5  10  0   3   9   2 11  1
D64V6, multiclass
D64V7, continuous
                    vv
clus                 I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  17P LOSS MUTATED             0       4        3        5        1         2
  17P LOSS WILD-TYPE           1      12        5        8       16         5
                    vv
clus                 STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  17P LOSS MUTATED           2         0         2          1          5
  17P LOSS WILD-TYPE         6         4         6          4         11
                    vv
clus                 STAGE IIIC STAGE IV
  17P LOSS MUTATED            4        1
  17P LOSS WILD-TYPE         17        3
D64V8, multiclass

Clustering(65) Variable = 17q loss mutation analysis
D65V1, survival
                    sevent
clus2                 0  1
  17Q LOSS MUTATED    5  7
  17Q LOSS WILD-TYPE 71 62
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
                12                133 
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
                 7                 62 
$`17Q LOSS MUTATED`
TCGA-D3-A2J6 TCGA-DA-A1HW TCGA-EE-A29C TCGA-EE-A29X TCGA-EE-A2GI TCGA-EE-A2GP 
       43.40        36.03        47.84        17.92        22.55        13.87 
TCGA-EE-A2GT TCGA-EE-A2M6 TCGA-EE-A2MQ TCGA-ER-A19L TCGA-FS-A1ZH TCGA-FS-A4F9 
       19.56       129.24        43.23       131.08        32.71        12.43 

$`17Q LOSS WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 
       16.57       112.54        71.80       121.22        28.08        31.59 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC 
       65.49        23.77        11.87        12.10        58.03        71.24 
TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A148 TCGA-D9-A149 
       60.23        24.53         9.30        21.47       148.31        49.74 
TCGA-D9-A1JW TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HY 
        2.70         6.38        11.34         3.22        48.89       117.17 
TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 
       20.38       194.83       176.55        35.93        61.18        53.92 
TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 
       23.44        68.09        28.60        10.49       215.44        15.68 
TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B 
       29.82         8.65        33.73        26.86         4.93       109.64 
TCGA-EE-A20F TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N 
       78.87        13.97        39.62        32.19         2.56        18.58 
TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A2A0 
       56.42        37.35        14.47        55.89       345.96        46.82 
TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-EE-A2GB TCGA-EE-A2GC 
       78.94        24.43        39.25        58.75        47.54        43.23 
TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GH TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL 
      314.53       135.91       182.01        89.33        54.71        55.00 
TCGA-EE-A2GM TCGA-EE-A2GN TCGA-EE-A2GO TCGA-EE-A2GR TCGA-EE-A2GS TCGA-EE-A2GU 
       75.48        90.94       101.95        14.30        55.59        67.13 
TCGA-EE-A2M5 TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME 
       21.67        28.80        19.76        61.51        47.28       103.27 
TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2MK TCGA-EE-A2ML 
      103.17        16.96       204.62        96.23       144.76       203.01 
TCGA-EE-A2MM TCGA-EE-A2MN TCGA-EE-A2MP TCGA-EE-A2MR TCGA-EE-A2MS TCGA-EE-A2MT 
      167.87        47.54       248.61       103.56       136.44        41.59 
TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AC TCGA-EE-A3AD TCGA-EE-A3AE 
       53.26         4.24       122.73        25.84         3.68        26.73 
TCGA-EE-A3AF TCGA-EE-A3AG TCGA-EE-A3AH TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J 
       13.81        23.47       138.77        12.59        26.37         6.41 
TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN 
       61.05        44.05        79.99        80.32        33.21        80.48 
TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1Z4 TCGA-FS-A1Z7 TCGA-FS-A1ZD 
      160.60       216.92        48.59        28.08         7.76        53.52 
TCGA-FS-A1ZG TCGA-FS-A1ZJ TCGA-FS-A1ZM TCGA-FS-A1ZP TCGA-FS-A1ZR TCGA-FS-A1ZS 
        9.70        47.38       101.26        74.73        11.41       148.77 
TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 
       49.48        77.79        49.45        22.98        76.41       120.46 
TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A 
      117.93        84.72        10.09        64.41        62.76        32.48 
TCGA-GN-A26D 
       39.58 

  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
             12.43               2.56 
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
            131.08             345.96 
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
             34.37              49.45 
[1] "12.4 - 131.1 (34.4)" "2.6 - 346.0 (49.5)" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
  "17Q LOSS MUTATED" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
  "17Q LOSS MUTATED" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
  "17Q LOSS MUTATED" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE"   "17Q LOSS MUTATED" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"17Q LOSS WILD-TYPE"   "17Q LOSS MUTATED" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE"   "17Q LOSS MUTATED" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE"   "17Q LOSS MUTATED" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE"   "17Q LOSS MUTATED" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE"   "17Q LOSS MUTATED" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
  "17Q LOSS MUTATED" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE"   "17Q LOSS MUTATED" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"17Q LOSS WILD-TYPE"   "17Q LOSS MUTATED" "17Q LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-GN-A26D 
"17Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
  "17Q LOSS MUTATED" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
  "17Q LOSS MUTATED" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
  "17Q LOSS MUTATED" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE"   "17Q LOSS MUTATED" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"17Q LOSS WILD-TYPE"   "17Q LOSS MUTATED" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE"   "17Q LOSS MUTATED" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE"   "17Q LOSS MUTATED" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE"   "17Q LOSS MUTATED" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE"   "17Q LOSS MUTATED" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
  "17Q LOSS MUTATED" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE"   "17Q LOSS MUTATED" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"17Q LOSS WILD-TYPE"   "17Q LOSS MUTATED" "17Q LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-GN-A26D 
"17Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
  "17Q LOSS MUTATED" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
  "17Q LOSS MUTATED" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
  "17Q LOSS MUTATED" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE"   "17Q LOSS MUTATED" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"17Q LOSS WILD-TYPE"   "17Q LOSS MUTATED" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE"   "17Q LOSS MUTATED" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE"   "17Q LOSS MUTATED" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE"   "17Q LOSS MUTATED" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE"   "17Q LOSS MUTATED" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
  "17Q LOSS MUTATED" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE"   "17Q LOSS MUTATED" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"17Q LOSS WILD-TYPE"   "17Q LOSS MUTATED" "17Q LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" "17Q LOSS WILD-TYPE" 
        TCGA-GN-A26D 
"17Q LOSS WILD-TYPE" 
[1] "hr=" "1.7"
D65V2, continuous
D65V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  17Q LOSS MUTATED      1   11
  17Q LOSS WILD-TYPE   34  101
                                                                                          clus
vv                                                                                         17Q LOSS MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                1
  REGIONAL LYMPH NODE                                                                                    11
                                                                                          clus
vv                                                                                         17Q LOSS WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                 34
  REGIONAL LYMPH NODE                                                                                     101
D65V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  17Q LOSS MUTATED      4    8
  17Q LOSS WILD-TYPE   48   87
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  FEMALE                4                 48
  MALE                  8                 87
                    vv
clus                  M0  M1 M1A M1B M1C
  17Q LOSS MUTATED    10   0   0   0   1
  17Q LOSS WILD-TYPE 118   1   2   2   0
D65V5, multiclass
                    vv
clus                 N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  17Q LOSS MUTATED    6  0   1   1  0   1   0   1  1  0
  17Q LOSS WILD-TYPE 71  2   5  11  1   3  11   3 15  2
D65V6, multiclass
D65V7, continuous
                    vv
clus                 I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  17Q LOSS MUTATED             0       1        1        2        0         1
  17Q LOSS WILD-TYPE           1      15        7       11       17         6
                    vv
clus                 STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  17Q LOSS MUTATED           1         0         0          1          2
  17Q LOSS WILD-TYPE         7         4         8          4         14
                    vv
clus                 STAGE IIIC STAGE IV
  17Q LOSS MUTATED            1        1
  17Q LOSS WILD-TYPE         20        3
D65V8, multiclass

Clustering(66) Variable = 18p loss mutation analysis
D66V1, survival
                    sevent
clus2                 0  1
  18P LOSS MUTATED   15 11
  18P LOSS WILD-TYPE 61 58
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
                26                119 
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
                11                 58 
$`18P LOSS MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q6 TCGA-D3-A3C6 TCGA-D9-A1JX TCGA-DA-A1HV TCGA-DA-A1I2 
       16.57        71.80        58.03         6.38        48.89       176.55 
TCGA-DA-A1I7 TCGA-DA-A3F5 TCGA-EE-A20B TCGA-EE-A29D TCGA-EE-A29T TCGA-EE-A29X 
       61.18       215.44       109.64        13.97       345.96        17.92 
TCGA-EE-A2GI TCGA-EE-A2GP TCGA-EE-A2GR TCGA-EE-A2MK TCGA-EE-A2MM TCGA-EE-A2MQ 
       22.55        13.87        14.30       144.76       167.87        43.23 
TCGA-EE-A2MS TCGA-EE-A3AE TCGA-EE-A3AG TCGA-EE-A3AH TCGA-FS-A1ZM TCGA-FS-A1ZR 
      136.44        26.73        23.47       138.77       101.26        11.41 
TCGA-FS-A1ZS TCGA-FS-A1ZW 
      148.77        49.48 

$`18P LOSS WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A2J8 
      112.54       121.22        28.08        31.59        43.40        65.49 
TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3CF 
       23.77        11.87        12.10        71.24        60.23        24.53 
TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A148 TCGA-D9-A149 TCGA-D9-A1JW TCGA-D9-A3Z1 
        9.30        21.47       148.31        49.74         2.70        11.34 
TCGA-D9-A3Z3 TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I4 
        3.22        36.03       117.17        20.38       194.83        35.93 
TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F8 
       53.92        23.44        68.09        28.60        10.49        15.68 
TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F 
       29.82         8.65        33.73        26.86         4.93        78.87 
TCGA-EE-A29C TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P 
       47.84        39.62        32.19         2.56        18.58        56.42 
TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 
       37.35        14.47        55.89        46.82        78.94        24.43 
TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-EE-A2GB TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GE 
       39.25        58.75        47.54        43.23       314.53       135.91 
TCGA-EE-A2GH TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GM TCGA-EE-A2GN 
      182.01        89.33        54.71        55.00        75.48        90.94 
TCGA-EE-A2GO TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 TCGA-EE-A2M6 
      101.95        55.59        19.56        67.13        21.67       129.24 
TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME TCGA-EE-A2MG 
       28.80        19.76        61.51        47.28       103.27       103.17 
TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2ML TCGA-EE-A2MN TCGA-EE-A2MP 
       16.96       204.62        96.23       203.01        47.54       248.61 
TCGA-EE-A2MR TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AC 
      103.56        41.59        53.26         4.24       122.73        25.84 
TCGA-EE-A3AD TCGA-EE-A3AF TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L 
        3.68        13.81        12.59        26.37         6.41       131.08 
TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN 
       61.05        44.05        79.99        80.32        33.21        80.48 
TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1Z4 TCGA-FS-A1Z7 TCGA-FS-A1ZD 
      160.60       216.92        48.59        28.08         7.76        53.52 
TCGA-FS-A1ZG TCGA-FS-A1ZH TCGA-FS-A1ZJ TCGA-FS-A1ZP TCGA-FS-A4F0 TCGA-FS-A4F9 
        9.70        32.71        47.38        74.73        77.79        12.43 
TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 
       49.45        22.98        76.41       120.46       117.93        84.72 
TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       10.09        64.41        62.76        32.48        39.58 

  18P LOSS MUTATED 18P LOSS WILD-TYPE 
              6.38               2.56 
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
            345.96             314.53 
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
            53.755             47.380 
[1] "6.4 - 346.0 (53.8)" "2.6 - 314.5 (47.4)"
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "18P LOSS MUTATED" "18P LOSS WILD-TYPE"   "18P LOSS MUTATED" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE"   "18P LOSS MUTATED" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE"   "18P LOSS MUTATED" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE"   "18P LOSS MUTATED" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"18P LOSS WILD-TYPE"   "18P LOSS MUTATED" "18P LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
  "18P LOSS MUTATED" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
  "18P LOSS MUTATED" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"18P LOSS WILD-TYPE"   "18P LOSS MUTATED" "18P LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"18P LOSS WILD-TYPE"   "18P LOSS MUTATED" "18P LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"18P LOSS WILD-TYPE"   "18P LOSS MUTATED"   "18P LOSS MUTATED" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"18P LOSS WILD-TYPE"   "18P LOSS MUTATED" "18P LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE"   "18P LOSS MUTATED" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
  "18P LOSS MUTATED" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
  "18P LOSS MUTATED" "18P LOSS WILD-TYPE"   "18P LOSS MUTATED" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE"   "18P LOSS MUTATED" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"18P LOSS WILD-TYPE"   "18P LOSS MUTATED" "18P LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE"   "18P LOSS MUTATED" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"18P LOSS WILD-TYPE"   "18P LOSS MUTATED"   "18P LOSS MUTATED" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"18P LOSS WILD-TYPE"   "18P LOSS MUTATED" "18P LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
  "18P LOSS MUTATED"   "18P LOSS MUTATED"   "18P LOSS MUTATED" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-GN-A26D 
"18P LOSS WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "18P LOSS MUTATED" "18P LOSS WILD-TYPE"   "18P LOSS MUTATED" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE"   "18P LOSS MUTATED" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE"   "18P LOSS MUTATED" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE"   "18P LOSS MUTATED" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"18P LOSS WILD-TYPE"   "18P LOSS MUTATED" "18P LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
  "18P LOSS MUTATED" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
  "18P LOSS MUTATED" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"18P LOSS WILD-TYPE"   "18P LOSS MUTATED" "18P LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"18P LOSS WILD-TYPE"   "18P LOSS MUTATED" "18P LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"18P LOSS WILD-TYPE"   "18P LOSS MUTATED"   "18P LOSS MUTATED" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"18P LOSS WILD-TYPE"   "18P LOSS MUTATED" "18P LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE"   "18P LOSS MUTATED" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
  "18P LOSS MUTATED" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
  "18P LOSS MUTATED" "18P LOSS WILD-TYPE"   "18P LOSS MUTATED" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE"   "18P LOSS MUTATED" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"18P LOSS WILD-TYPE"   "18P LOSS MUTATED" "18P LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE"   "18P LOSS MUTATED" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"18P LOSS WILD-TYPE"   "18P LOSS MUTATED"   "18P LOSS MUTATED" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"18P LOSS WILD-TYPE"   "18P LOSS MUTATED" "18P LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
  "18P LOSS MUTATED"   "18P LOSS MUTATED"   "18P LOSS MUTATED" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-GN-A26D 
"18P LOSS WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "18P LOSS MUTATED" "18P LOSS WILD-TYPE"   "18P LOSS MUTATED" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE"   "18P LOSS MUTATED" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE"   "18P LOSS MUTATED" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE"   "18P LOSS MUTATED" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"18P LOSS WILD-TYPE"   "18P LOSS MUTATED" "18P LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
  "18P LOSS MUTATED" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
  "18P LOSS MUTATED" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"18P LOSS WILD-TYPE"   "18P LOSS MUTATED" "18P LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"18P LOSS WILD-TYPE"   "18P LOSS MUTATED" "18P LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"18P LOSS WILD-TYPE"   "18P LOSS MUTATED"   "18P LOSS MUTATED" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"18P LOSS WILD-TYPE"   "18P LOSS MUTATED" "18P LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE"   "18P LOSS MUTATED" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
  "18P LOSS MUTATED" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
  "18P LOSS MUTATED" "18P LOSS WILD-TYPE"   "18P LOSS MUTATED" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE"   "18P LOSS MUTATED" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"18P LOSS WILD-TYPE"   "18P LOSS MUTATED" "18P LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE"   "18P LOSS MUTATED" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"18P LOSS WILD-TYPE"   "18P LOSS MUTATED"   "18P LOSS MUTATED" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"18P LOSS WILD-TYPE"   "18P LOSS MUTATED" "18P LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
  "18P LOSS MUTATED"   "18P LOSS MUTATED"   "18P LOSS MUTATED" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" "18P LOSS WILD-TYPE" 
        TCGA-GN-A26D 
"18P LOSS WILD-TYPE" 
[1] "hr=" "1.4"
D66V2, continuous
D66V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18P LOSS MUTATED      8   18
  18P LOSS WILD-TYPE   27   94
                                                                                          clus
vv                                                                                         18P LOSS MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                8
  REGIONAL LYMPH NODE                                                                                    18
                                                                                          clus
vv                                                                                         18P LOSS WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                 27
  REGIONAL LYMPH NODE                                                                                      94
D66V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18P LOSS MUTATED     11   15
  18P LOSS WILD-TYPE   41   80
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  FEMALE               11                 41
  MALE                 15                 80
                    vv
clus                  M0  M1 M1A M1B M1C
  18P LOSS MUTATED    25   0   0   0   0
  18P LOSS WILD-TYPE 103   1   2   2   1
D66V5, multiclass
                    vv
clus                 N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  18P LOSS MUTATED   12  0   2   2  0   1   3   1  2  2
  18P LOSS WILD-TYPE 65  2   4  10  1   3   8   3 14  0
D66V6, multiclass
D66V7, continuous
                    vv
clus                 I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  18P LOSS MUTATED             0       1        2        2        7         0
  18P LOSS WILD-TYPE           1      15        6       11       10         7
                    vv
clus                 STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  18P LOSS MUTATED           0         0         2          1          4
  18P LOSS WILD-TYPE         8         4         6          4         12
                    vv
clus                 STAGE IIIC STAGE IV
  18P LOSS MUTATED            4        0
  18P LOSS WILD-TYPE         17        4
D66V8, multiclass

Clustering(67) Variable = 18q loss mutation analysis
D67V1, survival
                    sevent
clus2                 0  1
  18Q LOSS MUTATED   13 11
  18Q LOSS WILD-TYPE 63 58
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
                24                121 
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
                11                 58 
$`18Q LOSS MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q6 TCGA-D3-A1Q9 TCGA-D3-A3C6 TCGA-D3-A3CE TCGA-D9-A148 
       16.57        71.80        31.59        58.03        60.23       148.31 
TCGA-DA-A1HV TCGA-DA-A1I2 TCGA-DA-A1I7 TCGA-DA-A3F5 TCGA-EE-A20B TCGA-EE-A29D 
       48.89       176.55        61.18       215.44       109.64        13.97 
TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2GI TCGA-EE-A2GP TCGA-EE-A2GR TCGA-EE-A2MK 
      345.96        17.92        22.55        13.87        14.30       144.76 
TCGA-EE-A2MQ TCGA-EE-A3AE TCGA-EE-A3AH TCGA-FS-A1ZM TCGA-FS-A1ZS TCGA-FS-A1ZW 
       43.23        26.73       138.77       101.26       148.77        49.48 

$`18Q LOSS WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A2J9 
      112.54       121.22        28.08        43.40        65.49        23.77 
TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3CC TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV 
       11.87        12.10        71.24        24.53         9.30        21.47 
TCGA-D9-A149 TCGA-D9-A1JW TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HW 
       49.74         2.70         6.38        11.34         3.22        36.03 
TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I4 TCGA-DA-A1I8 TCGA-DA-A1IB 
      117.17        20.38       194.83        35.93        53.92        23.44 
TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z 
       68.09        28.60        10.49        15.68        29.82         8.65 
TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29E 
       33.73        26.86         4.93        78.87        47.84        39.62 
TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29R 
       32.19         2.56        18.58        56.42        37.35        14.47 
TCGA-EE-A29S TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 
       55.89        46.82        78.94        24.43        39.25        58.75 
TCGA-EE-A2GB TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GH TCGA-EE-A2GJ 
       47.54        43.23       314.53       135.91       182.01        89.33 
TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GM TCGA-EE-A2GN TCGA-EE-A2GO TCGA-EE-A2GS 
       54.71        55.00        75.48        90.94       101.95        55.59 
TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 TCGA-EE-A2M6 TCGA-EE-A2M7 TCGA-EE-A2M8 
       19.56        67.13        21.67       129.24        28.80        19.76 
TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MI 
       61.51        47.28       103.27       103.17        16.96       204.62 
TCGA-EE-A2MJ TCGA-EE-A2ML TCGA-EE-A2MM TCGA-EE-A2MN TCGA-EE-A2MP TCGA-EE-A2MR 
       96.23       203.01       167.87        47.54       248.61       103.56 
TCGA-EE-A2MS TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AC 
      136.44        41.59        53.26         4.24       122.73        25.84 
TCGA-EE-A3AD TCGA-EE-A3AF TCGA-EE-A3AG TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J 
        3.68        13.81        23.47        12.59        26.37         6.41 
TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-ER-A3PL 
      131.08        61.05        44.05        79.99        80.32        33.21 
TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1Z4 TCGA-FS-A1Z7 
       80.48       160.60       216.92        48.59        28.08         7.76 
TCGA-FS-A1ZD TCGA-FS-A1ZG TCGA-FS-A1ZH TCGA-FS-A1ZJ TCGA-FS-A1ZP TCGA-FS-A1ZR 
       53.52         9.70        32.71        47.38        74.73        11.41 
TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 
       77.79        12.43        49.45        22.98        76.41       120.46 
TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A 
      117.93        84.72        10.09        64.41        62.76        32.48 
TCGA-GN-A26D 
       39.58 

  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
             13.87               2.56 
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
            345.96             314.53 
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
             59.13              47.28 
[1] "13.9 - 346.0 (59.1)" "2.6 - 314.5 (47.3)" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED"   "18Q LOSS MUTATED" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED"   "18Q LOSS MUTATED" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-GN-A26D 
"18Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED"   "18Q LOSS MUTATED" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED"   "18Q LOSS MUTATED" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-GN-A26D 
"18Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED"   "18Q LOSS MUTATED" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
  "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED" "18Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"18Q LOSS WILD-TYPE"   "18Q LOSS MUTATED"   "18Q LOSS MUTATED" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" "18Q LOSS WILD-TYPE" 
        TCGA-GN-A26D 
"18Q LOSS WILD-TYPE" 
[1] "hr=" "1.4"
D67V2, continuous
D67V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18Q LOSS MUTATED      6   18
  18Q LOSS WILD-TYPE   29   94
                                                                                          clus
vv                                                                                         18Q LOSS MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                6
  REGIONAL LYMPH NODE                                                                                    18
                                                                                          clus
vv                                                                                         18Q LOSS WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                 29
  REGIONAL LYMPH NODE                                                                                      94
D67V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18Q LOSS MUTATED     10   14
  18Q LOSS WILD-TYPE   42   81
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  FEMALE               10                 42
  MALE                 14                 81
                    vv
clus                  M0  M1 M1A M1B M1C
  18Q LOSS MUTATED    23   0   0   1   0
  18Q LOSS WILD-TYPE 105   1   2   1   1
D67V5, multiclass
                    vv
clus                 N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  18Q LOSS MUTATED    9  0   2   3  0   2   3   1  3  1
  18Q LOSS WILD-TYPE 68  2   4   9  1   2   8   3 13  1
D67V6, multiclass
D67V7, continuous
                    vv
clus                 I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  18Q LOSS MUTATED             0       0        2        2        5         0
  18Q LOSS WILD-TYPE           1      16        6       11       12         7
                    vv
clus                 STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  18Q LOSS MUTATED           0         0         3          1          5
  18Q LOSS WILD-TYPE         8         4         5          4         11
                    vv
clus                 STAGE IIIC STAGE IV
  18Q LOSS MUTATED            4        0
  18Q LOSS WILD-TYPE         17        4
D67V8, multiclass

Clustering(68) Variable = 19p loss mutation analysis
D68V1, survival
                    sevent
clus2                 0  1
  19P LOSS MUTATED    6  7
  19P LOSS WILD-TYPE 70 62
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
                13                132 
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
                 7                 62 
$`19P LOSS MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q9 TCGA-D9-A148 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW 
       16.57        31.59       148.31         3.22        48.89        36.03 
TCGA-DA-A1I8 TCGA-EE-A29H TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2GM TCGA-FS-A1ZH 
       53.92        32.19        17.92        46.82        75.48        32.71 
TCGA-FS-A1ZW 
       49.48 

$`19P LOSS WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J6 TCGA-D3-A2J8 
      112.54        71.80       121.22        28.08        43.40        65.49 
TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CE 
       23.77        11.87        12.10        58.03        71.24        60.23 
TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A149 TCGA-D9-A1JW TCGA-D9-A1JX 
       24.53         9.30        21.47        49.74         2.70         6.38 
TCGA-D9-A3Z1 TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 
       11.34       117.17        20.38       194.83       176.55        35.93 
TCGA-DA-A1I7 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 
       61.18        23.44        68.09        28.60        10.49       215.44 
TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 
       15.68        29.82         8.65        33.73        26.86         4.93 
TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29L 
      109.64        78.87        47.84        13.97        39.62         2.56 
TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T 
       18.58        56.42        37.35        14.47        55.89       345.96 
TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-EE-A2GB TCGA-EE-A2GC 
       78.94        24.43        39.25        58.75        47.54        43.23 
TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GH TCGA-EE-A2GI TCGA-EE-A2GJ TCGA-EE-A2GK 
      314.53       135.91       182.01        22.55        89.33        54.71 
TCGA-EE-A2GL TCGA-EE-A2GN TCGA-EE-A2GO TCGA-EE-A2GP TCGA-EE-A2GR TCGA-EE-A2GS 
       55.00        90.94       101.95        13.87        14.30        55.59 
TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 TCGA-EE-A2M6 TCGA-EE-A2M7 TCGA-EE-A2M8 
       19.56        67.13        21.67       129.24        28.80        19.76 
TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MI 
       61.51        47.28       103.27       103.17        16.96       204.62 
TCGA-EE-A2MJ TCGA-EE-A2MK TCGA-EE-A2ML TCGA-EE-A2MM TCGA-EE-A2MN TCGA-EE-A2MP 
       96.23       144.76       203.01       167.87        47.54       248.61 
TCGA-EE-A2MQ TCGA-EE-A2MR TCGA-EE-A2MS TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA 
       43.23       103.56       136.44        41.59        53.26         4.24 
TCGA-EE-A3AB TCGA-EE-A3AC TCGA-EE-A3AD TCGA-EE-A3AE TCGA-EE-A3AF TCGA-EE-A3AG 
      122.73        25.84         3.68        26.73        13.81        23.47 
TCGA-EE-A3AH TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M 
      138.77        12.59        26.37         6.41       131.08        61.05 
TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A 
       44.05        79.99        80.32        33.21        80.48       160.60 
TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1Z4 TCGA-FS-A1Z7 TCGA-FS-A1ZD TCGA-FS-A1ZG 
      216.92        48.59        28.08         7.76        53.52         9.70 
TCGA-FS-A1ZJ TCGA-FS-A1ZM TCGA-FS-A1ZP TCGA-FS-A1ZR TCGA-FS-A1ZS TCGA-FS-A4F0 
       47.38       101.26        74.73        11.41       148.77        77.79 
TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 
       12.43        49.45        22.98        76.41       120.46       117.93 
TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       84.72        10.09        64.41        62.76        32.48        39.58 

  19P LOSS MUTATED 19P LOSS WILD-TYPE 
              3.22               2.56 
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
            148.31             345.96 
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
            36.030             48.215 
[1] "3.2 - 148.3 (36.0)" "2.6 - 346.0 (48.2)"
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "19P LOSS MUTATED" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE"   "19P LOSS MUTATED" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE"   "19P LOSS MUTATED" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"19P LOSS WILD-TYPE"   "19P LOSS MUTATED"   "19P LOSS MUTATED" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
  "19P LOSS MUTATED" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"19P LOSS WILD-TYPE"   "19P LOSS MUTATED" "19P LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
  "19P LOSS MUTATED" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE"   "19P LOSS MUTATED" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
  "19P LOSS MUTATED" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE"   "19P LOSS MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE"   "19P LOSS MUTATED" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE"   "19P LOSS MUTATED" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-GN-A26D 
"19P LOSS WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "19P LOSS MUTATED" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE"   "19P LOSS MUTATED" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE"   "19P LOSS MUTATED" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"19P LOSS WILD-TYPE"   "19P LOSS MUTATED"   "19P LOSS MUTATED" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
  "19P LOSS MUTATED" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"19P LOSS WILD-TYPE"   "19P LOSS MUTATED" "19P LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
  "19P LOSS MUTATED" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE"   "19P LOSS MUTATED" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
  "19P LOSS MUTATED" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE"   "19P LOSS MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE"   "19P LOSS MUTATED" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE"   "19P LOSS MUTATED" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-GN-A26D 
"19P LOSS WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
  "19P LOSS MUTATED" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE"   "19P LOSS MUTATED" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE"   "19P LOSS MUTATED" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"19P LOSS WILD-TYPE"   "19P LOSS MUTATED"   "19P LOSS MUTATED" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
  "19P LOSS MUTATED" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"19P LOSS WILD-TYPE"   "19P LOSS MUTATED" "19P LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
  "19P LOSS MUTATED" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE"   "19P LOSS MUTATED" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
  "19P LOSS MUTATED" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE"   "19P LOSS MUTATED" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE"   "19P LOSS MUTATED" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE"   "19P LOSS MUTATED" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-GN-A26D 
"19P LOSS WILD-TYPE" 
[1] "hr=" "1.5"
D68V2, continuous
D68V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  19P LOSS MUTATED      2   12
  19P LOSS WILD-TYPE   33  100
                                                                                          clus
vv                                                                                         19P LOSS MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                2
  REGIONAL LYMPH NODE                                                                                    12
                                                                                          clus
vv                                                                                         19P LOSS WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                 33
  REGIONAL LYMPH NODE                                                                                     100
D68V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  19P LOSS MUTATED     10    4
  19P LOSS WILD-TYPE   42   91
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  FEMALE               10                 42
  MALE                  4                 91
                    vv
clus                  M0  M1 M1A M1B M1C
  19P LOSS MUTATED    12   0   0   1   1
  19P LOSS WILD-TYPE 116   1   2   1   0
D68V5, multiclass
                    vv
clus                 N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  19P LOSS MUTATED    4  0   1   2  0   1   2   1  3  0
  19P LOSS WILD-TYPE 73  2   5  10  1   3   9   3 13  2
D68V6, multiclass
D68V7, continuous
                    vv
clus                 I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  19P LOSS MUTATED             0       0        1        1        0         1
  19P LOSS WILD-TYPE           1      16        7       12       17         6
                    vv
clus                 STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  19P LOSS MUTATED           0         1         1          0          5
  19P LOSS WILD-TYPE         8         3         7          5         11
                    vv
clus                 STAGE IIIC STAGE IV
  19P LOSS MUTATED            2        1
  19P LOSS WILD-TYPE         19        3
D68V8, multiclass

Clustering(69) Variable = 19q loss mutation analysis
D69V1, survival
                    sevent
clus2                 0  1
  19Q LOSS MUTATED    9  5
  19Q LOSS WILD-TYPE 67 64
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
                14                131 
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
                 5                 64 
$`19Q LOSS MUTATED`
TCGA-D3-A1Q9 TCGA-D9-A148 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1I8 TCGA-EE-A29H 
       31.59       148.31         3.22        48.89        53.92        32.19 
TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A3AD TCGA-EE-A3AG TCGA-FS-A1ZH TCGA-FS-A1ZW 
       55.89        17.92         3.68        23.47        32.71        49.48 
TCGA-GN-A26A TCGA-GN-A26D 
       32.48        39.58 

$`19Q LOSS WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J6 
       16.57       112.54        71.80       121.22        28.08        43.40 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC 
       65.49        23.77        11.87        12.10        58.03        71.24 
TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A149 TCGA-D9-A1JW 
       60.23        24.53         9.30        21.47        49.74         2.70 
TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 
        6.38        11.34        36.03       117.17        20.38       194.83 
TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 
      176.55        35.93        61.18        23.44        68.09        28.60 
TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 
       10.49       215.44        15.68        29.82         8.65        33.73 
TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D 
       26.86         4.93       109.64        78.87        47.84        13.97 
TCGA-EE-A29E TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29R 
       39.62         2.56        18.58        56.42        37.35        14.47 
TCGA-EE-A29T TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 
      345.96        46.82        78.94        24.43        39.25        58.75 
TCGA-EE-A2GB TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GH TCGA-EE-A2GI 
       47.54        43.23       314.53       135.91       182.01        22.55 
TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GM TCGA-EE-A2GN TCGA-EE-A2GO 
       89.33        54.71        55.00        75.48        90.94       101.95 
TCGA-EE-A2GP TCGA-EE-A2GR TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 
       13.87        14.30        55.59        19.56        67.13        21.67 
TCGA-EE-A2M6 TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME 
      129.24        28.80        19.76        61.51        47.28       103.27 
TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2MK TCGA-EE-A2ML 
      103.17        16.96       204.62        96.23       144.76       203.01 
TCGA-EE-A2MM TCGA-EE-A2MN TCGA-EE-A2MP TCGA-EE-A2MQ TCGA-EE-A2MR TCGA-EE-A2MS 
      167.87        47.54       248.61        43.23       103.56       136.44 
TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AC TCGA-EE-A3AE 
       41.59        53.26         4.24       122.73        25.84        26.73 
TCGA-EE-A3AF TCGA-EE-A3AH TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L 
       13.81       138.77        12.59        26.37         6.41       131.08 
TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN 
       61.05        44.05        79.99        80.32        33.21        80.48 
TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1Z4 TCGA-FS-A1Z7 TCGA-FS-A1ZD 
      160.60       216.92        48.59        28.08         7.76        53.52 
TCGA-FS-A1ZG TCGA-FS-A1ZJ TCGA-FS-A1ZM TCGA-FS-A1ZP TCGA-FS-A1ZR TCGA-FS-A1ZS 
        9.70        47.38       101.26        74.73        11.41       148.77 
TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 
       77.79        12.43        49.45        22.98        76.41       120.46 
TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A268 
      117.93        84.72        10.09        64.41        62.76 

  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
              3.22               2.56 
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
            148.31             345.96 
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
            32.595             48.590 
[1] "3.2 - 148.3 (32.6)" "2.6 - 346.0 (48.6)"
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE"   "19Q LOSS MUTATED" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE"   "19Q LOSS MUTATED" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"19Q LOSS WILD-TYPE"   "19Q LOSS MUTATED"   "19Q LOSS MUTATED" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"19Q LOSS WILD-TYPE"   "19Q LOSS MUTATED" "19Q LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
  "19Q LOSS MUTATED" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
  "19Q LOSS MUTATED" "19Q LOSS WILD-TYPE"   "19Q LOSS MUTATED" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"19Q LOSS WILD-TYPE"   "19Q LOSS MUTATED" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"19Q LOSS WILD-TYPE"   "19Q LOSS MUTATED" "19Q LOSS WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE"   "19Q LOSS MUTATED" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE"   "19Q LOSS MUTATED" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE"   "19Q LOSS MUTATED" 
        TCGA-GN-A26D 
  "19Q LOSS MUTATED" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE"   "19Q LOSS MUTATED" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE"   "19Q LOSS MUTATED" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"19Q LOSS WILD-TYPE"   "19Q LOSS MUTATED"   "19Q LOSS MUTATED" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"19Q LOSS WILD-TYPE"   "19Q LOSS MUTATED" "19Q LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
  "19Q LOSS MUTATED" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
  "19Q LOSS MUTATED" "19Q LOSS WILD-TYPE"   "19Q LOSS MUTATED" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"19Q LOSS WILD-TYPE"   "19Q LOSS MUTATED" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"19Q LOSS WILD-TYPE"   "19Q LOSS MUTATED" "19Q LOSS WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE"   "19Q LOSS MUTATED" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE"   "19Q LOSS MUTATED" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE"   "19Q LOSS MUTATED" 
        TCGA-GN-A26D 
  "19Q LOSS MUTATED" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE"   "19Q LOSS MUTATED" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE"   "19Q LOSS MUTATED" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"19Q LOSS WILD-TYPE"   "19Q LOSS MUTATED"   "19Q LOSS MUTATED" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"19Q LOSS WILD-TYPE"   "19Q LOSS MUTATED" "19Q LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
  "19Q LOSS MUTATED" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
  "19Q LOSS MUTATED" "19Q LOSS WILD-TYPE"   "19Q LOSS MUTATED" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"19Q LOSS WILD-TYPE"   "19Q LOSS MUTATED" "19Q LOSS WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"19Q LOSS WILD-TYPE"   "19Q LOSS MUTATED" "19Q LOSS WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE"   "19Q LOSS MUTATED" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE"   "19Q LOSS MUTATED" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE"   "19Q LOSS MUTATED" 
        TCGA-GN-A26D 
  "19Q LOSS MUTATED" 
[1] "hr=" "1.1"
D69V2, continuous
D69V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  19Q LOSS MUTATED      3   12
  19Q LOSS WILD-TYPE   32  100
                                                                                          clus
vv                                                                                         19Q LOSS MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                3
  REGIONAL LYMPH NODE                                                                                    12
                                                                                          clus
vv                                                                                         19Q LOSS WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                 32
  REGIONAL LYMPH NODE                                                                                     100
D69V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  19Q LOSS MUTATED      8    7
  19Q LOSS WILD-TYPE   44   88
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  FEMALE                8                 44
  MALE                  7                 88
                    vv
clus                  M0  M1 M1A M1B M1C
  19Q LOSS MUTATED    10   0   0   1   1
  19Q LOSS WILD-TYPE 118   1   2   1   0
D69V5, multiclass
                    vv
clus                 N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  19Q LOSS MUTATED    4  0   2   1  0   1   2   1  2  0
  19Q LOSS WILD-TYPE 73  2   4  11  1   3   9   3 14  2
D69V6, multiclass
D69V7, continuous
                    vv
clus                 I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  19Q LOSS MUTATED             0       0        1        1        0         1
  19Q LOSS WILD-TYPE           1      16        7       12       17         6
                    vv
clus                 STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  19Q LOSS MUTATED           0         1         1          1          4
  19Q LOSS WILD-TYPE         8         3         7          4         12
                    vv
clus                 STAGE IIIC STAGE IV
  19Q LOSS MUTATED            1        1
  19Q LOSS WILD-TYPE         20        3
D69V8, multiclass

Clustering(70) Variable = 20p loss mutation analysis
D70V1, survival
                    sevent
clus2                 0  1
  20P LOSS MUTATED    4  2
  20P LOSS WILD-TYPE 72 67
  20P LOSS MUTATED 20P LOSS WILD-TYPE 
                 6                139 
  20P LOSS MUTATED 20P LOSS WILD-TYPE 
                 2                 67 
$`20P LOSS MUTATED`
TCGA-D3-A3CF TCGA-DA-A1HV TCGA-DA-A1I1 TCGA-EE-A29E TCGA-ER-A3PL TCGA-FS-A1ZR 
       24.53        48.89       194.83        39.62        33.21        11.41 

$`20P LOSS WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 
       16.57       112.54        71.80       121.22        28.08        31.59 
TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 
       43.40        65.49        23.77        11.87        12.10        58.03 
TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A148 TCGA-D9-A149 
       71.24        60.23         9.30        21.47       148.31        49.74 
TCGA-D9-A1JW TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HW TCGA-DA-A1HY 
        2.70         6.38        11.34         3.22        36.03       117.17 
TCGA-DA-A1I0 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IB 
       20.38       176.55        35.93        61.18        53.92        23.44 
TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X 
       68.09        28.60        10.49       215.44        15.68        29.82 
TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F 
        8.65        33.73        26.86         4.93       109.64        78.87 
TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P 
       47.84        13.97        32.19         2.56        18.58        56.42 
TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 
       37.35        14.47        55.89       345.96        17.92        46.82 
TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-EE-A2GB TCGA-EE-A2GC 
       78.94        24.43        39.25        58.75        47.54        43.23 
TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GH TCGA-EE-A2GI TCGA-EE-A2GJ TCGA-EE-A2GK 
      314.53       135.91       182.01        22.55        89.33        54.71 
TCGA-EE-A2GL TCGA-EE-A2GM TCGA-EE-A2GN TCGA-EE-A2GO TCGA-EE-A2GP TCGA-EE-A2GR 
       55.00        75.48        90.94       101.95        13.87        14.30 
TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 TCGA-EE-A2M6 TCGA-EE-A2M7 
       55.59        19.56        67.13        21.67       129.24        28.80 
TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MH 
       19.76        61.51        47.28       103.27       103.17        16.96 
TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2MK TCGA-EE-A2ML TCGA-EE-A2MM TCGA-EE-A2MN 
      204.62        96.23       144.76       203.01       167.87        47.54 
TCGA-EE-A2MP TCGA-EE-A2MQ TCGA-EE-A2MR TCGA-EE-A2MS TCGA-EE-A2MT TCGA-EE-A2MU 
      248.61        43.23       103.56       136.44        41.59        53.26 
TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AC TCGA-EE-A3AD TCGA-EE-A3AE TCGA-EE-A3AF 
        4.24       122.73        25.84         3.68        26.73        13.81 
TCGA-EE-A3AG TCGA-EE-A3AH TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L 
       23.47       138.77        12.59        26.37         6.41       131.08 
TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-FR-A3YN TCGA-FR-A44A 
       61.05        44.05        79.99        80.32        80.48       160.60 
TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1Z4 TCGA-FS-A1Z7 TCGA-FS-A1ZD TCGA-FS-A1ZG 
      216.92        48.59        28.08         7.76        53.52         9.70 
TCGA-FS-A1ZH TCGA-FS-A1ZJ TCGA-FS-A1ZM TCGA-FS-A1ZP TCGA-FS-A1ZS TCGA-FS-A1ZW 
       32.71        47.38       101.26        74.73       148.77        49.48 
TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 
       77.79        12.43        49.45        22.98        76.41       120.46 
TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A 
      117.93        84.72        10.09        64.41        62.76        32.48 
TCGA-GN-A26D 
       39.58 

  20P LOSS MUTATED 20P LOSS WILD-TYPE 
             11.41               2.56 
  20P LOSS MUTATED 20P LOSS WILD-TYPE 
            194.83             345.96 
  20P LOSS MUTATED 20P LOSS WILD-TYPE 
            36.415             47.840 
[1] "11.4 - 194.8 (36.4)" "2.6 - 346.0 (47.8)" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE"   "20P LOSS MUTATED" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE"   "20P LOSS MUTATED" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
  "20P LOSS MUTATED" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE"   "20P LOSS MUTATED" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE"   "20P LOSS MUTATED" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
  "20P LOSS MUTATED" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-GN-A26D 
"20P LOSS WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE"   "20P LOSS MUTATED" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE"   "20P LOSS MUTATED" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
  "20P LOSS MUTATED" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE"   "20P LOSS MUTATED" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE"   "20P LOSS MUTATED" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
  "20P LOSS MUTATED" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-GN-A26D 
"20P LOSS WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE"   "20P LOSS MUTATED" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE"   "20P LOSS MUTATED" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
  "20P LOSS MUTATED" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE"   "20P LOSS MUTATED" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE"   "20P LOSS MUTATED" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
  "20P LOSS MUTATED" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-GN-A26D 
"20P LOSS WILD-TYPE" 
[1] "hr=" "1.3"
D70V2, continuous
D70V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  20P LOSS MUTATED      3    3
  20P LOSS WILD-TYPE   32  109
                                                                                          clus
vv                                                                                         20P LOSS MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                3
  REGIONAL LYMPH NODE                                                                                     3
                                                                                          clus
vv                                                                                         20P LOSS WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                 32
  REGIONAL LYMPH NODE                                                                                     109
D70V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  20P LOSS MUTATED      2    4
  20P LOSS WILD-TYPE   50   91
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  FEMALE                2                 50
  MALE                  4                 91
                    vv
clus                  M0  M1 M1A M1B M1C
  20P LOSS MUTATED     5   0   1   0   0
  20P LOSS WILD-TYPE 123   1   1   2   1
D70V5, multiclass
                    vv
clus                 N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  20P LOSS MUTATED    2  0   0   1  0   0   1   0  2  0
  20P LOSS WILD-TYPE 75  2   6  11  1   4  10   4 14  2
D70V6, multiclass
D70V7, continuous
                    vv
clus                 I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  20P LOSS MUTATED             0       0        0        0        1         0
  20P LOSS WILD-TYPE           1      16        8       13       16         7
                    vv
clus                 STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  20P LOSS MUTATED           0         0         0          0          2
  20P LOSS WILD-TYPE         8         4         8          5         14
                    vv
clus                 STAGE IIIC STAGE IV
  20P LOSS MUTATED            2        1
  20P LOSS WILD-TYPE         19        3
D70V8, multiclass

Clustering(71) Variable = 21q loss mutation analysis
D71V1, survival
                    sevent
clus2                 0  1
  21Q LOSS MUTATED   10  8
  21Q LOSS WILD-TYPE 66 61
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
                18                127 
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
                 8                 61 
$`21Q LOSS MUTATED`
TCGA-D3-A1Q5 TCGA-EE-A181 TCGA-EE-A20B TCGA-EE-A29H TCGA-EE-A2A2 TCGA-EE-A2A6 
      112.54        33.73       109.64        32.19        24.43        58.75 
TCGA-EE-A2GB TCGA-EE-A2GC TCGA-EE-A2GI TCGA-EE-A2GO TCGA-EE-A2M5 TCGA-EE-A2MK 
       47.54        43.23        22.55       101.95        21.67       144.76 
TCGA-EE-A2MN TCGA-EE-A2MS TCGA-EE-A3AH TCGA-FS-A1ZG TCGA-GN-A266 TCGA-GN-A268 
       47.54       136.44       138.77         9.70        10.09        62.76 

$`21Q LOSS WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.57        71.80       121.22        28.08        31.59        43.40 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC 
       65.49        23.77        11.87        12.10        58.03        71.24 
TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A148 TCGA-D9-A149 
       60.23        24.53         9.30        21.47       148.31        49.74 
TCGA-D9-A1JW TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW 
        2.70         6.38        11.34         3.22        48.89        36.03 
TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 
      117.17        20.38       194.83       176.55        35.93        61.18 
TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 
       53.92        23.44        68.09        28.60        10.49       215.44 
TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F 
       15.68        29.82         8.65        26.86         4.93        78.87 
TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P 
       47.84        13.97        39.62         2.56        18.58        56.42 
TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 
       37.35        14.47        55.89       345.96        17.92        46.82 
TCGA-EE-A2A1 TCGA-EE-A2A5 TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GH TCGA-EE-A2GJ 
       78.94        39.25       314.53       135.91       182.01        89.33 
TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GM TCGA-EE-A2GN TCGA-EE-A2GP TCGA-EE-A2GR 
       54.71        55.00        75.48        90.94        13.87        14.30 
TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M6 TCGA-EE-A2M7 TCGA-EE-A2M8 
       55.59        19.56        67.13       129.24        28.80        19.76 
TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MI 
       61.51        47.28       103.27       103.17        16.96       204.62 
TCGA-EE-A2MJ TCGA-EE-A2ML TCGA-EE-A2MM TCGA-EE-A2MP TCGA-EE-A2MQ TCGA-EE-A2MR 
       96.23       203.01       167.87       248.61        43.23       103.56 
TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AC TCGA-EE-A3AD 
       41.59        53.26         4.24       122.73        25.84         3.68 
TCGA-EE-A3AE TCGA-EE-A3AF TCGA-EE-A3AG TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J 
       26.73        13.81        23.47        12.59        26.37         6.41 
TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-ER-A3PL 
      131.08        61.05        44.05        79.99        80.32        33.21 
TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1Z4 TCGA-FS-A1Z7 
       80.48       160.60       216.92        48.59        28.08         7.76 
TCGA-FS-A1ZD TCGA-FS-A1ZH TCGA-FS-A1ZJ TCGA-FS-A1ZM TCGA-FS-A1ZP TCGA-FS-A1ZR 
       53.52        32.71        47.38       101.26        74.73        11.41 
TCGA-FS-A1ZS TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 
      148.77        49.48        77.79        12.43        49.45        22.98 
TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A26A 
       76.41       120.46       117.93        84.72        64.41        32.48 
TCGA-GN-A26D 
       39.58 

  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
              9.70               2.56 
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
            144.76             345.96 
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
             47.54              47.84 
[1] "9.7 - 144.8 (47.5)" "2.6 - 346.0 (47.8)"
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
  "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED"   "21Q LOSS MUTATED" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
  "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
  "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
  "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" 
        TCGA-GN-A26D 
"21Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
  "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED"   "21Q LOSS MUTATED" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
  "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
  "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
  "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" 
        TCGA-GN-A26D 
"21Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
  "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED"   "21Q LOSS MUTATED" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
  "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
  "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
  "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"21Q LOSS WILD-TYPE" "21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"21Q LOSS WILD-TYPE"   "21Q LOSS MUTATED" "21Q LOSS WILD-TYPE" 
        TCGA-GN-A26D 
"21Q LOSS WILD-TYPE" 
[1] "hr=" "1.1"
D71V2, continuous
D71V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  21Q LOSS MUTATED      3   15
  21Q LOSS WILD-TYPE   32   97
                                                                                          clus
vv                                                                                         21Q LOSS MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                3
  REGIONAL LYMPH NODE                                                                                    15
                                                                                          clus
vv                                                                                         21Q LOSS WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                 32
  REGIONAL LYMPH NODE                                                                                      97
D71V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  21Q LOSS MUTATED      7   11
  21Q LOSS WILD-TYPE   45   84
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  FEMALE                7                 45
  MALE                 11                 84
                    vv
clus                  M0  M1 M1A M1B M1C
  21Q LOSS MUTATED    17   0   0   0   0
  21Q LOSS WILD-TYPE 111   1   2   2   1
D71V5, multiclass
                    vv
clus                 N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  21Q LOSS MUTATED   14  0   1   1  0   0   1   0  0  0
  21Q LOSS WILD-TYPE 63  2   5  11  1   4  10   4 16  2
D71V6, multiclass
D71V7, continuous
                    vv
clus                 I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  21Q LOSS MUTATED             1       2        3        0        6         0
  21Q LOSS WILD-TYPE           0      14        5       13       11         7
                    vv
clus                 STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  21Q LOSS MUTATED           2         0         0          1          1
  21Q LOSS WILD-TYPE         6         4         8          4         15
                    vv
clus                 STAGE IIIC STAGE IV
  21Q LOSS MUTATED            1        0
  21Q LOSS WILD-TYPE         20        4
D71V8, multiclass

Clustering(72) Variable = 22q loss mutation analysis
D72V1, survival
                    sevent
clus2                 0  1
  22Q LOSS MUTATED    4  8
  22Q LOSS WILD-TYPE 72 61
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
                12                133 
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
                 8                 61 
$`22Q LOSS MUTATED`
TCGA-D3-A1Q8 TCGA-D9-A149 TCGA-DA-A1I2 TCGA-EE-A29C TCGA-EE-A2A6 TCGA-EE-A2GP 
       28.08        49.74       176.55        47.84        58.75        13.87 
TCGA-EE-A2MM TCGA-ER-A19D TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1ZJ TCGA-FS-A4F0 
      167.87        12.59       216.92        48.59        47.38        77.79 

$`22Q LOSS WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.57       112.54        71.80       121.22        31.59        43.40 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC 
       65.49        23.77        11.87        12.10        58.03        71.24 
TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A148 TCGA-D9-A1JW 
       60.23        24.53         9.30        21.47       148.31         2.70 
TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
        6.38        11.34         3.22        48.89        36.03       117.17 
TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IB 
       20.38       194.83        35.93        61.18        53.92        23.44 
TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X 
       68.09        28.60        10.49       215.44        15.68        29.82 
TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F 
        8.65        33.73        26.86         4.93       109.64        78.87 
TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P 
       13.97        39.62        32.19         2.56        18.58        56.42 
TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 
       37.35        14.47        55.89       345.96        17.92        46.82 
TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2GB TCGA-EE-A2GC TCGA-EE-A2GD 
       78.94        24.43        39.25        47.54        43.23       314.53 
TCGA-EE-A2GE TCGA-EE-A2GH TCGA-EE-A2GI TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL 
      135.91       182.01        22.55        89.33        54.71        55.00 
TCGA-EE-A2GM TCGA-EE-A2GN TCGA-EE-A2GO TCGA-EE-A2GR TCGA-EE-A2GS TCGA-EE-A2GT 
       75.48        90.94       101.95        14.30        55.59        19.56 
TCGA-EE-A2GU TCGA-EE-A2M5 TCGA-EE-A2M6 TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC 
       67.13        21.67       129.24        28.80        19.76        61.51 
TCGA-EE-A2MD TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MJ 
       47.28       103.27       103.17        16.96       204.62        96.23 
TCGA-EE-A2MK TCGA-EE-A2ML TCGA-EE-A2MN TCGA-EE-A2MP TCGA-EE-A2MQ TCGA-EE-A2MR 
      144.76       203.01        47.54       248.61        43.23       103.56 
TCGA-EE-A2MS TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AC 
      136.44        41.59        53.26         4.24       122.73        25.84 
TCGA-EE-A3AD TCGA-EE-A3AE TCGA-EE-A3AF TCGA-EE-A3AG TCGA-EE-A3AH TCGA-ER-A19F 
        3.68        26.73        13.81        23.47       138.77        26.37 
TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET 
        6.41       131.08        61.05        44.05        79.99        80.32 
TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1Z4 TCGA-FS-A1Z7 TCGA-FS-A1ZD 
       33.21        80.48       160.60        28.08         7.76        53.52 
TCGA-FS-A1ZG TCGA-FS-A1ZH TCGA-FS-A1ZM TCGA-FS-A1ZP TCGA-FS-A1ZR TCGA-FS-A1ZS 
        9.70        32.71       101.26        74.73        11.41       148.77 
TCGA-FS-A1ZW TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 
       49.48        12.43        49.45        22.98        76.41       120.46 
TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A 
      117.93        84.72        10.09        64.41        62.76        32.48 
TCGA-GN-A26D 
       39.58 

  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
             12.59               2.56 
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
            216.92             345.96 
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
            49.165             47.280 
[1] "12.6 - 216.9 (49.2)" "2.6 - 346.0 (47.3)" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-GN-A26D 
"22Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-GN-A26D 
"22Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2J9 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-D3-A2JD         TCGA-D3-A2JK         TCGA-D3-A3C6 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-D3-A3CC         TCGA-D3-A3CE         TCGA-D3-A3CF 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-D3-A3MO         TCGA-D3-A3MV         TCGA-D9-A148 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-D9-A149         TCGA-D9-A1JW         TCGA-D9-A1JX 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-D9-A3Z1         TCGA-D9-A3Z3         TCGA-DA-A1HV 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-DA-A1HW         TCGA-DA-A1HY         TCGA-DA-A1I0 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-DA-A1I1         TCGA-DA-A1I2         TCGA-DA-A1I4 
"22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" 
        TCGA-DA-A1I7         TCGA-DA-A1I8         TCGA-DA-A1IB 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-DA-A1IC         TCGA-DA-A3F2         TCGA-DA-A3F3 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20B         TCGA-EE-A20F 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A29C         TCGA-EE-A29D         TCGA-EE-A29E 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A29H         TCGA-EE-A29L         TCGA-EE-A29N 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A29P         TCGA-EE-A29Q         TCGA-EE-A29R 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A29S         TCGA-EE-A29T         TCGA-EE-A29X 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A2A5         TCGA-EE-A2A6         TCGA-EE-A2GB 
"22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GD         TCGA-EE-A2GE 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A2GH         TCGA-EE-A2GI         TCGA-EE-A2GJ 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GM 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A2GN         TCGA-EE-A2GO         TCGA-EE-A2GP 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A2M7         TCGA-EE-A2M8         TCGA-EE-A2MC 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A2MD         TCGA-EE-A2ME         TCGA-EE-A2MG 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A2MH         TCGA-EE-A2MI         TCGA-EE-A2MJ 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A2MK         TCGA-EE-A2ML         TCGA-EE-A2MM 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-EE-A2MN         TCGA-EE-A2MP         TCGA-EE-A2MQ 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A2MR         TCGA-EE-A2MS         TCGA-EE-A2MT 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A2MU         TCGA-EE-A3AA         TCGA-EE-A3AB 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A3AC         TCGA-EE-A3AD         TCGA-EE-A3AE 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-EE-A3AF         TCGA-EE-A3AG         TCGA-EE-A3AH 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-ER-A3ET         TCGA-ER-A3PL 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-FR-A3YN         TCGA-FR-A44A         TCGA-FS-A1YW 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE"   "22Q LOSS MUTATED" 
        TCGA-FS-A1YX         TCGA-FS-A1Z4         TCGA-FS-A1Z7 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-FS-A1ZR         TCGA-FS-A1ZS         TCGA-FS-A1ZW 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-FS-A4F0         TCGA-FS-A4F9         TCGA-FS-A4FC 
  "22Q LOSS MUTATED" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-FW-A3R5         TCGA-GN-A261         TCGA-GN-A262 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-GN-A264         TCGA-GN-A265         TCGA-GN-A266 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-GN-A267         TCGA-GN-A268         TCGA-GN-A26A 
"22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" "22Q LOSS WILD-TYPE" 
        TCGA-GN-A26D 
"22Q LOSS WILD-TYPE" 
[1] "hr=" "1.1"
D72V2, continuous
D72V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  22Q LOSS MUTATED      5    7
  22Q LOSS WILD-TYPE   30  105
                                                                                          clus
vv                                                                                         22Q LOSS MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                5
  REGIONAL LYMPH NODE                                                                                     7
                                                                                          clus
vv                                                                                         22Q LOSS WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                 30
  REGIONAL LYMPH NODE                                                                                     105
D72V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  22Q LOSS MUTATED      6    6
  22Q LOSS WILD-TYPE   46   89
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  FEMALE                6                 46
  MALE                  6                 89
                    vv
clus                  M0  M1 M1A M1B M1C
  22Q LOSS MUTATED    11   0   0   1   0
  22Q LOSS WILD-TYPE 117   1   2   1   1
D72V5, multiclass
                    vv
clus                 N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  22Q LOSS MUTATED    8  0   1   1  0   0   1   0  1  0
  22Q LOSS WILD-TYPE 69  2   5  11  1   4  10   4 15  2
D72V6, multiclass
D72V7, continuous
                    vv
clus                 I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  22Q LOSS MUTATED             0       3        1        3        0         0
  22Q LOSS WILD-TYPE           1      13        7       10       17         7
                    vv
clus                 STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  22Q LOSS MUTATED           1         0         0          0          1
  22Q LOSS WILD-TYPE         7         4         8          5         15
                    vv
clus                 STAGE IIIC STAGE IV
  22Q LOSS MUTATED            1        1
  22Q LOSS WILD-TYPE         20        3
D72V8, multiclass

Clustering(73) Variable = Xq loss mutation analysis
D73V1, survival
                   sevent
clus2                0  1
  XQ LOSS MUTATED    2  2
  XQ LOSS WILD-TYPE 74 67
  XQ LOSS MUTATED XQ LOSS WILD-TYPE 
                4               141 
  XQ LOSS MUTATED XQ LOSS WILD-TYPE 
                2                67 
$`XQ LOSS MUTATED`
TCGA-D3-A3C6 TCGA-EE-A29H TCGA-FS-A1ZJ TCGA-GN-A262 
       58.03        32.19        47.38       120.46 

$`XQ LOSS WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 
       16.57       112.54        71.80       121.22        28.08        31.59 
TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3CC 
       43.40        65.49        23.77        11.87        12.10        71.24 
TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A148 TCGA-D9-A149 
       60.23        24.53         9.30        21.47       148.31        49.74 
TCGA-D9-A1JW TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW 
        2.70         6.38        11.34         3.22        48.89        36.03 
TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 
      117.17        20.38       194.83       176.55        35.93        61.18 
TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 
       53.92        23.44        68.09        28.60        10.49       215.44 
TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 
       15.68        29.82         8.65        33.73        26.86         4.93 
TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29L 
      109.64        78.87        47.84        13.97        39.62         2.56 
TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T 
       18.58        56.42        37.35        14.47        55.89       345.96 
TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 
       17.92        46.82        78.94        24.43        39.25        58.75 
TCGA-EE-A2GB TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GH TCGA-EE-A2GI 
       47.54        43.23       314.53       135.91       182.01        22.55 
TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GM TCGA-EE-A2GN TCGA-EE-A2GO 
       89.33        54.71        55.00        75.48        90.94       101.95 
TCGA-EE-A2GP TCGA-EE-A2GR TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 
       13.87        14.30        55.59        19.56        67.13        21.67 
TCGA-EE-A2M6 TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME 
      129.24        28.80        19.76        61.51        47.28       103.27 
TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2MK TCGA-EE-A2ML 
      103.17        16.96       204.62        96.23       144.76       203.01 
TCGA-EE-A2MM TCGA-EE-A2MN TCGA-EE-A2MP TCGA-EE-A2MQ TCGA-EE-A2MR TCGA-EE-A2MS 
      167.87        47.54       248.61        43.23       103.56       136.44 
TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AC TCGA-EE-A3AD 
       41.59        53.26         4.24       122.73        25.84         3.68 
TCGA-EE-A3AE TCGA-EE-A3AF TCGA-EE-A3AG TCGA-EE-A3AH TCGA-ER-A19D TCGA-ER-A19F 
       26.73        13.81        23.47       138.77        12.59        26.37 
TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET 
        6.41       131.08        61.05        44.05        79.99        80.32 
TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1Z4 
       33.21        80.48       160.60       216.92        48.59        28.08 
TCGA-FS-A1Z7 TCGA-FS-A1ZD TCGA-FS-A1ZG TCGA-FS-A1ZH TCGA-FS-A1ZM TCGA-FS-A1ZP 
        7.76        53.52         9.70        32.71       101.26        74.73 
TCGA-FS-A1ZR TCGA-FS-A1ZS TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC 
       11.41       148.77        49.48        77.79        12.43        49.45 
TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A267 
       22.98        76.41       117.93        84.72        10.09        64.41 
TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       62.76        32.48        39.58 

  XQ LOSS MUTATED XQ LOSS WILD-TYPE 
            32.19              2.56 
  XQ LOSS MUTATED XQ LOSS WILD-TYPE 
           120.46            345.96 
  XQ LOSS MUTATED XQ LOSS WILD-TYPE 
           52.705            47.540 
[1] "32.2 - 120.5 (52.7)" "2.6 - 346.0 (47.5)" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE"   "XQ LOSS MUTATED" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
  "XQ LOSS MUTATED" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE"   "XQ LOSS MUTATED" "XQ LOSS WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"XQ LOSS WILD-TYPE"   "XQ LOSS MUTATED" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-GN-A26D 
"XQ LOSS WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE"   "XQ LOSS MUTATED" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
  "XQ LOSS MUTATED" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE"   "XQ LOSS MUTATED" "XQ LOSS WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"XQ LOSS WILD-TYPE"   "XQ LOSS MUTATED" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-GN-A26D 
"XQ LOSS WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-D3-A2J9        TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE"   "XQ LOSS MUTATED" 
       TCGA-D3-A3CC        TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-D3-A3MV        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-DA-A1IB        TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
  "XQ LOSS MUTATED" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A29Q        TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A29X        TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A2A5        TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A2GD        TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A2GJ        TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A2GN        TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A2MD        TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A2MR        TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A3AA        TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-EE-A3AE        TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-ER-A19D        TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-ER-A19M        TCGA-ER-A19N        TCGA-ER-A1A1        TCGA-ER-A3ET 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FR-A44A        TCGA-FS-A1YW 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-FS-A1YX        TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE"   "XQ LOSS MUTATED" "XQ LOSS WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS        TCGA-FS-A1ZW 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC        TCGA-FW-A3R5 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"XQ LOSS WILD-TYPE"   "XQ LOSS MUTATED" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" "XQ LOSS WILD-TYPE" 
       TCGA-GN-A26D 
"XQ LOSS WILD-TYPE" 
[1] "hr=" "1"  
D73V2, continuous
D73V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  XQ LOSS MUTATED      1    3
  XQ LOSS WILD-TYPE   34  109
                                                                                          clus
vv                                                                                         XQ LOSS MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)               1
  REGIONAL LYMPH NODE                                                                                    3
                                                                                          clus
vv                                                                                         XQ LOSS WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                34
  REGIONAL LYMPH NODE                                                                                    109
D73V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  XQ LOSS MUTATED      4    0
  XQ LOSS WILD-TYPE   48   95
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  FEMALE               4                48
  MALE                 0                95
                   vv
clus                 M0  M1 M1A M1B M1C
  XQ LOSS MUTATED     3   0   0   0   0
  XQ LOSS WILD-TYPE 125   1   2   2   1
D73V5, multiclass
                   vv
clus                N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  XQ LOSS MUTATED    3  0   0   0  0   0   0   0  0  0
  XQ LOSS WILD-TYPE 74  2   6  12  1   4  11   4 16  2
D73V6, multiclass
D73V7, continuous
                   vv
clus                I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  XQ LOSS MUTATED             0       1        1        1        0         0
  XQ LOSS WILD-TYPE           1      15        7       12       17         7
                   vv
clus                STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  XQ LOSS MUTATED           0         0         0          0          0
  XQ LOSS WILD-TYPE         8         4         8          5         16
                   vv
clus                STAGE IIIC STAGE IV
  XQ LOSS MUTATED            0        0
  XQ LOSS WILD-TYPE         21        4
D73V8, multiclass
                     V1.D                        V2                        V3 
          "Time to Death"                     "AGE" "PRIMARY.SITE.OF.DISEASE" 
                       V4                        V5                        V6 
                 "GENDER"      "DISTANT.METASTASIS"   "LYMPH.NODE.METASTASIS" 
                       V7                        V8 
        "TUMOR.STAGECODE"   "NEOPLASM.DISEASESTAGE" 
> q(save="no")
