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

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> source("/xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Correlate_Cluster_cnvarms_onlysig.2.4053/CNV2ClinicalAnalysis_nozzle_onlysig.R")
> result <- main("/xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Correlate_Cluster_cnvarms_onlysig.2.4053/", "-nF=/xchip/tcga/Tools/Nozzle/v1.current", "-iD=/xchip/cga/gdac-prod/tcga-gdac-genepattern/jobResults/376249/broad_values_by_arm.mutsig.cluster.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_MergedClusteringPipeline/LUSC-TP/2909314/1.GDAC_mergedClustering.Finished/LUSC-TP.transferedmergedcluster.txt", "-fF=ALL", "-fC=3", "-fH=5", "-fW=9", "-fP=OUT", "-cP=1", "-cQ=0.25", "-MF=ONLYSIG", "-oT=LUSC-TP", "-nV=Nozzle.R1", "-OP=MUTSIG", "-iT=", "-iX=")
[1] "nver"          "-nV=Nozzle.R1"
[1] "nfn"                                 "/xchip/tcga/Tools/Nozzle/v1.current"
[1] "Nozzle.R1"
[1] "successfully load Nozzle.R1"
[1] "ofn"         "-oT=LUSC-TP"
[1] "opt"        "-OP=MUTSIG"
[1] "tl"   "-iT="
[1] "dx"   "-iX="
[1] "opt"    "MUTSIG"
[1] "dx" ""  

nPatients in clinical file=399, in cluster file=397, common to both=397
[1]  80 397
[1] "1p gain mutation analysis"
[1] 3
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
               24               373 
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
               24               373 
[1] "1q gain mutation analysis"
[1] 3
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
               83               314 
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
               83               314 
[1] "2p gain mutation analysis"
[1] 3
  2P GAIN MUTATED 2P GAIN WILD-TYPE 
               97               300 
  2P GAIN MUTATED 2P GAIN WILD-TYPE 
               97               300 
[1] "2q gain mutation analysis"
[1] 3
  2Q GAIN MUTATED 2Q GAIN WILD-TYPE 
               43               354 
  2Q GAIN MUTATED 2Q GAIN WILD-TYPE 
               43               354 
[1] "3p gain mutation analysis"
[1] 3
  3P GAIN MUTATED 3P GAIN WILD-TYPE 
               47               350 
  3P GAIN MUTATED 3P GAIN WILD-TYPE 
               47               350 
[1] "3q gain mutation analysis"
[1] 3
  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
              180               217 
  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
              180               217 
[1] "4p gain mutation analysis"
[1] 3
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
               14               383 
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
               14               383 
[1] "4q gain mutation analysis"
[1] 3
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
                7               390 
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
                7               390 
[1] "5p gain mutation analysis"
[1] 3
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
              185               212 
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
              185               212 
[1] "5q gain mutation analysis"
[1] 3
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
               43               354 
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
               43               354 
[1] "6p gain mutation analysis"
[1] 3
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
               36               361 
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
               36               361 
[1] "6q gain mutation analysis"
[1] 3
  6Q GAIN MUTATED 6Q GAIN WILD-TYPE 
               24               373 
  6Q GAIN MUTATED 6Q GAIN WILD-TYPE 
               24               373 
[1] "7p gain mutation analysis"
[1] 3
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
              109               288 
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
              109               288 
[1] "7q gain mutation analysis"
[1] 3
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
              101               296 
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
              101               296 
[1] "8p gain mutation analysis"
[1] 3
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
               48               349 
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
               48               349 
[1] "8q gain mutation analysis"
[1] 3
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
              114               283 
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
              114               283 
[1] "9p gain mutation analysis"
[1] 3
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
               19               378 
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
               19               378 
[1] "9q gain mutation analysis"
[1] 3
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
               32               365 
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
               32               365 
[1] "10p gain mutation analysis"
[1] 3
  10P GAIN MUTATED 10P GAIN WILD-TYPE 
                22                375 
  10P GAIN MUTATED 10P GAIN WILD-TYPE 
                22                375 
[1] "10q gain mutation analysis"
[1] 3
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
                 8                389 
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
                 8                389 
[1] "11p gain mutation analysis"
[1] 3
  11P GAIN MUTATED 11P GAIN WILD-TYPE 
                23                374 
  11P GAIN MUTATED 11P GAIN WILD-TYPE 
                23                374 
[1] "11q gain mutation analysis"
[1] 3
  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
                26                371 
  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
                26                371 
[1] "12p gain mutation analysis"
[1] 3
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
               111                286 
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
               111                286 
[1] "12q gain mutation analysis"
[1] 3
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
                49                348 
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
                49                348 
[1] "13q gain mutation analysis"
[1] 3
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
                10                387 
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
                10                387 
[1] "14q gain mutation analysis"
[1] 3
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
                41                356 
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
                41                356 
[1] "15q gain mutation analysis"
[1] 3
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                39                358 
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                39                358 
[1] "16p gain mutation analysis"
[1] 3
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
                17                380 
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
                17                380 
[1] "16q gain mutation analysis"
[1] 3
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
                23                374 
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
                23                374 
[1] "17p gain mutation analysis"
[1] 3
  17P GAIN MUTATED 17P GAIN WILD-TYPE 
                11                386 
  17P GAIN MUTATED 17P GAIN WILD-TYPE 
                11                386 
[1] "17q gain mutation analysis"
[1] 3
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
                44                353 
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
                44                353 
[1] "18p gain mutation analysis"
[1] 3
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
                67                330 
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
                67                330 
[1] "18q gain mutation analysis"
[1] 3
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
                44                353 
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
                44                353 
[1] "19p gain mutation analysis"
[1] 3
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
                40                357 
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
                40                357 
[1] "19q gain mutation analysis"
[1] 3
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
                58                339 
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
                58                339 
[1] "20p gain mutation analysis"
[1] 3
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
               109                288 
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
               109                288 
[1] "20q gain mutation analysis"
[1] 3
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
                95                302 
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
                95                302 
[1] "21q gain mutation analysis"
[1] 3
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
                19                378 
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
                19                378 
[1] "22q gain mutation analysis"
[1] 3
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
                97                300 
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
                97                300 
[1] "Xq gain mutation analysis"
[1] 3
  XQ GAIN MUTATED XQ GAIN WILD-TYPE 
               11               386 
  XQ GAIN MUTATED XQ GAIN WILD-TYPE 
               11               386 
[1] "1p loss mutation analysis"
[1] 3
  1P LOSS MUTATED 1P LOSS WILD-TYPE 
               59               338 
  1P LOSS MUTATED 1P LOSS WILD-TYPE 
               59               338 
[1] "1q loss mutation analysis"
[1] 3
  1Q LOSS MUTATED 1Q LOSS WILD-TYPE 
                9               388 
  1Q LOSS MUTATED 1Q LOSS WILD-TYPE 
                9               388 
[1] "2p loss mutation analysis"
[1] 3
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
                4               393 
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
                4               393 
[1] "2q loss mutation analysis"
[1] 3
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
               11               386 
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
               11               386 
[1] "3p loss mutation analysis"
[1] 3
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
              161               236 
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
              161               236 
[1] "3q loss mutation analysis"
[1] 3
  3Q LOSS MUTATED 3Q LOSS WILD-TYPE 
               26               371 
  3Q LOSS MUTATED 3Q LOSS WILD-TYPE 
               26               371 
[1] "4p loss mutation analysis"
[1] 3
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
              164               233 
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
              164               233 
[1] "4q loss mutation analysis"
[1] 3
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
              143               254 
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
              143               254 
[1] "5p loss mutation analysis"
[1] 3
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
               24               373 
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
               24               373 
[1] "5q loss mutation analysis"
[1] 3
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
              146               251 
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
              146               251 
[1] "6p loss mutation analysis"
[1] 3
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
               35               362 
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
               35               362 
[1] "6q loss mutation analysis"
[1] 3
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
               40               357 
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
               40               357 
[1] "7p loss mutation analysis"
[1] 3
  7P LOSS MUTATED 7P LOSS WILD-TYPE 
               23               374 
  7P LOSS MUTATED 7P LOSS WILD-TYPE 
               23               374 
[1] "7q loss mutation analysis"
[1] 3
  7Q LOSS MUTATED 7Q LOSS WILD-TYPE 
               13               384 
  7Q LOSS MUTATED 7Q LOSS WILD-TYPE 
               13               384 
[1] "8p loss mutation analysis"
[1] 3
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
              117               280 
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
              117               280 
[1] "8q loss mutation analysis"
[1] 3
  8Q LOSS MUTATED 8Q LOSS WILD-TYPE 
               12               385 
  8Q LOSS MUTATED 8Q LOSS WILD-TYPE 
               12               385 
[1] "9p loss mutation analysis"
[1] 3
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
              164               233 
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
              164               233 
[1] "9q loss mutation analysis"
[1] 3
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
              103               294 
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
              103               294 
[1] "10p loss mutation analysis"
[1] 3
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
                87                310 
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
                87                310 
[1] "10q loss mutation analysis"
[1] 3
  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
                91                306 
  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
                91                306 
[1] "11p loss mutation analysis"
[1] 3
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
                59                338 
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
                59                338 
[1] "11q loss mutation analysis"
[1] 3
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
                42                355 
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
                42                355 
[1] "12p loss mutation analysis"
[1] 3
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
                 7                390 
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
                 7                390 
[1] "12q loss mutation analysis"
[1] 3
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
                 9                388 
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
                 9                388 
[1] "13q loss mutation analysis"
[1] 3
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
               146                251 
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
               146                251 
[1] "14q loss mutation analysis"
[1] 3
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
                70                327 
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
                70                327 
[1] "15q loss mutation analysis"
[1] 3
  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
                44                353 
  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
                44                353 
[1] "16p loss mutation analysis"
[1] 3
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
                60                337 
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
                60                337 
[1] "16q loss mutation analysis"
[1] 3
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
                80                317 
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
                80                317 
[1] "17p loss mutation analysis"
[1] 3
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
               145                252 
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
               145                252 
[1] "17q loss mutation analysis"
[1] 3
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
                25                372 
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
                25                372 
[1] "18p loss mutation analysis"
[1] 3
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
                43                354 
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
                43                354 
[1] "18q loss mutation analysis"
[1] 3
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
                76                321 
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
                76                321 
[1] "19p loss mutation analysis"
[1] 3
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
                65                332 
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
                65                332 
[1] "19q loss mutation analysis"
[1] 3
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
                43                354 
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
                43                354 
[1] "20p loss mutation analysis"
[1] 3
  20P LOSS MUTATED 20P LOSS WILD-TYPE 
                17                380 
  20P LOSS MUTATED 20P LOSS WILD-TYPE 
                17                380 
[1] "20q loss mutation analysis"
[1] 3
  20Q LOSS MUTATED 20Q LOSS WILD-TYPE 
                22                375 
  20Q LOSS MUTATED 20Q LOSS WILD-TYPE 
                22                375 
[1] "21q loss mutation analysis"
[1] 3
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
               122                275 
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
               122                275 
[1] "22q loss mutation analysis"
[1] 3
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
                38                359 
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
                38                359 
[1] "Xq loss mutation analysis"
[1] 3
  XQ LOSS MUTATED XQ LOSS WILD-TYPE 
               15               382 
  XQ LOSS MUTATED XQ LOSS WILD-TYPE 
               15               382 
[1] "data2feature, selection=ALL"
 [1] "MRNA_CNMF"             "MRNA_CHIERARCHICAL"    "CN_CNMF"              
 [4] "METHLYATION_CNMF"      "RPPA_CNMF"             "RPPA_CHIERARCHICAL"   
 [7] "MRNASEQ_CNMF"          "MRNASEQ_CHIERARCHICAL" "MIRSEQ_CNMF"          
[10] "MIRSEQ_CHIERARCHICAL" 

Input Data has 10 rows and 397 columns.

Variable 1:'MRNA_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 2:'MRNA_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 3:'CN_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 4:'METHLYATION_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 5:'RPPA_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 6:'RPPA_CHIERARCHICAL':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'MRNASEQ_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'MRNASEQ_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 9:'MIRSEQ_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 10:'MIRSEQ_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
[1] "rownames(nsurv.mat)"
 [1] "MRNA_CNMF"             "MRNA_CHIERARCHICAL"    "CN_CNMF"              
 [4] "METHLYATION_CNMF"      "RPPA_CNMF"             "RPPA_CHIERARCHICAL"   
 [7] "MRNASEQ_CNMF"          "MRNASEQ_CHIERARCHICAL" "MIRSEQ_CNMF"          
[10] "MIRSEQ_CHIERARCHICAL" 
[1] "TUMOR.?STAGE"
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T"
[1] "PATHOLOGY.N"
Output Data has 397 columns, 0 survival variables, and 10 non-survival variables.
MRNA_CNMF, nv=4, binary=FALSE, numeric=FALSE
MRNA_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE
CN_CNMF, nv=3, binary=FALSE, numeric=FALSE
METHLYATION_CNMF, nv=3, binary=FALSE, numeric=FALSE
RPPA_CNMF, nv=3, binary=FALSE, numeric=FALSE
RPPA_CHIERARCHICAL, nv=4, binary=FALSE, numeric=FALSE
MRNASEQ_CNMF, nv=4, binary=FALSE, numeric=FALSE
MRNASEQ_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_CNMF, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE

Clustering(1) Variable = 1p gain mutation analysis
D1V1, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               5                38
  CLUS_2               3                47
  CLUS_3               2                28
  CLUS_4               3                28
D1V2, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               3                25
  CLUS_2               3                51
  CLUS_3               7                65
D1V3, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               6               137
  CLUS_2              10               119
  CLUS_3               8               117
D1V4, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               3                95
  CLUS_2               5                78
  CLUS_3               4                65
D1V5, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               2                58
  CLUS_2               2                71
  CLUS_3               1                60
D1V6, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               3                55
  CLUS_2               0                47
  CLUS_3               2                47
  CLUS_4               0                40
D1V7, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               5                55
  CLUS_2               5                75
  CLUS_3               8                71
  CLUS_4               1                37
D1V8, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               7               109
  CLUS_2               5                81
  CLUS_3               7                48
D1V9, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1              10               133
  CLUS_2               7               158
  CLUS_3               4                35
D1V10, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               3                50
  CLUS_2              11               165
  CLUS_3               7               111

Clustering(2) Variable = 1q gain mutation analysis
D2V1, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               8                35
  CLUS_2              16                34
  CLUS_3               3                27
  CLUS_4               7                24
D2V2, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               6                22
  CLUS_2              17                37
  CLUS_3              11                61
D2V3, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              18               125
  CLUS_2              44                85
  CLUS_3              21               104
D2V4, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              11                87
  CLUS_2              20                63
  CLUS_3              19                50
D2V5, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              13                47
  CLUS_2              11                62
  CLUS_3              10                51
D2V6, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              14                44
  CLUS_2               7                40
  CLUS_3               8                41
  CLUS_4               5                35
D2V7, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               7                53
  CLUS_2              28                52
  CLUS_3              21                58
  CLUS_4               4                34
D2V8, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              15               101
  CLUS_2              28                58
  CLUS_3              17                38
D2V9, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              32               111
  CLUS_2              26               139
  CLUS_3              13                26
D2V10, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              17                36
  CLUS_2              30               146
  CLUS_3              24                94

Clustering(3) Variable = 2p gain mutation analysis
D3V1, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               7                36
  CLUS_2              19                31
  CLUS_3               2                28
  CLUS_4               7                24
D3V2, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               4                24
  CLUS_2              20                34
  CLUS_3              11                61
D3V3, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1              12               131
  CLUS_2              58                71
  CLUS_3              27                98
D3V4, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1              14                84
  CLUS_2              35                48
  CLUS_3              14                55
D3V5, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1              19                41
  CLUS_2              11                62
  CLUS_3              16                45
D3V6, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1              19                39
  CLUS_2              11                36
  CLUS_3              10                39
  CLUS_4               6                34
D3V7, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1              10                50
  CLUS_2              30                50
  CLUS_3              19                60
  CLUS_4               4                34
D3V8, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1              15               101
  CLUS_2              33                53
  CLUS_3              15                40
D3V9, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1              35               108
  CLUS_2              40               125
  CLUS_3               9                30
D3V10, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1              16                37
  CLUS_2              35               141
  CLUS_3              33                85

Clustering(4) Variable = 2q gain mutation analysis
D4V1, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1               3                40
  CLUS_2              11                39
  CLUS_3               2                28
  CLUS_4               3                28
D4V2, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1               3                25
  CLUS_2              12                42
  CLUS_3               4                68
D4V3, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1               4               139
  CLUS_2              27               102
  CLUS_3              12               113
D4V4, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1               4                94
  CLUS_2              16                67
  CLUS_3               6                63
D4V5, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1              10                50
  CLUS_2               5                68
  CLUS_3               8                53
D4V6, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1              11                47
  CLUS_2               4                43
  CLUS_3               4                45
  CLUS_4               4                36
D4V7, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1               3                57
  CLUS_2              19                61
  CLUS_3               7                72
  CLUS_4               0                38
D4V8, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1               5               111
  CLUS_2              19                67
  CLUS_3               5                50
D4V9, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1              16               127
  CLUS_2              17               148
  CLUS_3               5                34
D4V10, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1               7                46
  CLUS_2              16               160
  CLUS_3              15               103

Clustering(5) Variable = 3p gain mutation analysis
D5V1, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               4                39
  CLUS_2               8                42
  CLUS_3               2                28
  CLUS_4               5                26
D5V2, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               3                25
  CLUS_2              10                44
  CLUS_3               6                66
D5V3, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               9               134
  CLUS_2              23               106
  CLUS_3              15               110
D5V4, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               4                94
  CLUS_2              19                64
  CLUS_3               6                63
D5V5, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               6                54
  CLUS_2              10                63
  CLUS_3               9                52
D5V6, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               5                53
  CLUS_2               8                39
  CLUS_3               8                41
  CLUS_4               4                36
D5V7, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               5                55
  CLUS_2              15                65
  CLUS_3               7                72
  CLUS_4               5                33
D5V8, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1              10               106
  CLUS_2              16                70
  CLUS_3               6                49
D5V9, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1              17               126
  CLUS_2              15               150
  CLUS_3               5                34
D5V10, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               5                48
  CLUS_2              15               161
  CLUS_3              17               101

Clustering(6) Variable = 3q gain mutation analysis
D6V1, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1              22                21
  CLUS_2              25                25
  CLUS_3               8                22
  CLUS_4              18                13
D6V2, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1              11                17
  CLUS_2              27                27
  CLUS_3              35                37
D6V3, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1              51                92
  CLUS_2              63                66
  CLUS_3              66                59
D6V4, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1              35                63
  CLUS_2              42                41
  CLUS_3              37                32
D6V5, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1              32                28
  CLUS_2              29                44
  CLUS_3              28                33
D6V6, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1              27                31
  CLUS_2              25                22
  CLUS_3              23                26
  CLUS_4              14                26
D6V7, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1              28                32
  CLUS_2              39                41
  CLUS_3              38                41
  CLUS_4              14                24
D6V8, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1              50                66
  CLUS_2              42                44
  CLUS_3              27                28
D6V9, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1              65                78
  CLUS_2              74                91
  CLUS_3              20                19
D6V10, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1              24                29
  CLUS_2              75               101
  CLUS_3              60                58

Clustering(7) Variable = 4p gain mutation analysis
D7V1, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               1                42
  CLUS_2               1                49
  CLUS_3               2                28
  CLUS_4               4                27
D7V2, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               3                25
  CLUS_2               1                53
  CLUS_3               4                68
D7V3, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               3               140
  CLUS_2               1               128
  CLUS_3              10               115
D7V4, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               3                95
  CLUS_2               0                83
  CLUS_3               3                66
D7V5, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               2                58
  CLUS_2               0                73
  CLUS_3               3                58
D7V6, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               3                55
  CLUS_2               1                46
  CLUS_3               0                49
  CLUS_4               1                39
D7V7, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               0                60
  CLUS_2               1                79
  CLUS_3               7                72
  CLUS_4               3                35
D7V8, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               6               110
  CLUS_2               1                85
  CLUS_3               4                51
D7V9, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               5               138
  CLUS_2               6               159
  CLUS_3               1                38
D7V10, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               1                52
  CLUS_2               7               169
  CLUS_3               4               114

Clustering(8) Variable = 4q gain mutation analysis
D8V1, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               1                42
  CLUS_2               2                48
  CLUS_3               1                29
  CLUS_4               1                30
D8V2, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               0                28
  CLUS_2               2                52
  CLUS_3               3                69
D8V3, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               0               143
  CLUS_2               3               126
  CLUS_3               4               121
D8V4, multiclass
[1] "Remove cluster labels:" "4Q GAIN MUTATED"       
clus
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
                2               248 
       TCGA-18-3417        TCGA-18-4721        TCGA-18-5592        TCGA-18-5595 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-21-5782        TCGA-21-5783        TCGA-21-5784        TCGA-21-5786 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-21-5787        TCGA-22-4593        TCGA-22-4599        TCGA-22-4601 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-22-4605        TCGA-22-4609        TCGA-22-4613        TCGA-22-5471 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-22-5472        TCGA-22-5473        TCGA-22-5474        TCGA-22-5477 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-22-5478        TCGA-22-5479        TCGA-22-5480        TCGA-22-5481 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-22-5482        TCGA-22-5483        TCGA-22-5485        TCGA-22-5489 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-22-5491        TCGA-22-5492        TCGA-33-4566        TCGA-33-4582 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-33-4583        TCGA-33-4586        TCGA-33-4587        TCGA-33-4589 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-33-6737        TCGA-33-6738        TCGA-34-5231        TCGA-34-5232 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-34-5234        TCGA-34-5236        TCGA-34-5239        TCGA-34-5240 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-34-5241        TCGA-34-5927        TCGA-34-5928        TCGA-34-5929 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-34-7107        TCGA-34-8454        TCGA-34-8455        TCGA-37-5819 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-39-5011        TCGA-39-5016        TCGA-39-5019        TCGA-39-5021 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-39-5022        TCGA-39-5024        TCGA-39-5027        TCGA-39-5028 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-39-5029        TCGA-39-5030        TCGA-39-5031        TCGA-39-5034 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-39-5035        TCGA-39-5036        TCGA-39-5037        TCGA-39-5039 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-39-5040        TCGA-43-5668        TCGA-43-5670        TCGA-43-6143 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-43-6647        TCGA-43-6770        TCGA-43-6771        TCGA-43-6773 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-43-7656        TCGA-43-7657        TCGA-43-7658        TCGA-43-8115 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-43-8116        TCGA-43-8118        TCGA-46-6025        TCGA-46-6026 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-52-7622        TCGA-52-7809        TCGA-52-7810        TCGA-52-7811 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-52-7812        TCGA-56-5897        TCGA-56-5898        TCGA-56-6545 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-56-6546        TCGA-56-7221        TCGA-56-7222        TCGA-56-7223 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-56-7580        TCGA-56-7582        TCGA-56-7730        TCGA-56-7731 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-56-7822        TCGA-56-7823        TCGA-56-8082        TCGA-56-8083 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-56-8201        TCGA-56-8304        TCGA-56-8305        TCGA-56-8307 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-56-8308        TCGA-56-8309        TCGA-56-8503        TCGA-56-8504 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-56-8622        TCGA-56-8623        TCGA-56-8624        TCGA-56-8625 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-56-8626        TCGA-56-8628        TCGA-56-8629        TCGA-58-8386 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-58-8387        TCGA-58-8388        TCGA-58-8390        TCGA-58-8391 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-58-8392        TCGA-58-8393        TCGA-60-2697        TCGA-60-2703 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-60-2704        TCGA-60-2709        TCGA-63-5128        TCGA-63-5131 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-63-6202        TCGA-63-7020        TCGA-63-7021        TCGA-63-7022 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-63-7023        TCGA-68-7755        TCGA-68-7756        TCGA-68-7757 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-68-8250        TCGA-68-8251        TCGA-70-6722        TCGA-70-6723 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-77-6842        TCGA-77-6843        TCGA-77-6844        TCGA-77-6845 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-77-7138        TCGA-77-7139        TCGA-77-7140        TCGA-77-7141 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-77-7142        TCGA-77-7335        TCGA-77-7337        TCGA-77-7338 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-77-7463        TCGA-77-7465        TCGA-77-8007        TCGA-77-8008 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-77-8009        TCGA-77-8128        TCGA-77-8130        TCGA-77-8131 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-77-8133        TCGA-77-8136        TCGA-77-8138        TCGA-77-8139 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-77-8140        TCGA-77-8143        TCGA-77-8144        TCGA-77-8145 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-77-8148        TCGA-77-8150        TCGA-77-8153        TCGA-77-8154 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-77-8156        TCGA-79-5596        TCGA-85-6175        TCGA-85-6560 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-85-6561        TCGA-85-6798        TCGA-85-7696        TCGA-85-7697 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-85-7698        TCGA-85-7699        TCGA-85-7710        TCGA-85-7843 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-85-7844        TCGA-85-7950        TCGA-85-8048        TCGA-85-8049 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-85-8052        TCGA-85-8070        TCGA-85-8071        TCGA-85-8072 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-85-8276        TCGA-85-8277        TCGA-85-8287        TCGA-85-8288 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-85-8350        TCGA-85-8351        TCGA-85-8352        TCGA-85-8353 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-85-8354        TCGA-85-8355        TCGA-85-8479        TCGA-85-8481 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-85-8580        TCGA-85-8582        TCGA-85-8584        TCGA-85-8664 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-85-8666        TCGA-85-A4JC        TCGA-85-A4PA        TCGA-85-A4QR 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-90-6837        TCGA-90-7766        TCGA-90-7767        TCGA-90-7769 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-90-7964        TCGA-90-A4ED        TCGA-90-A4EE        TCGA-92-7340 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-92-7341        TCGA-92-8063        TCGA-92-8064        TCGA-92-8065 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-94-7033        TCGA-94-7557        TCGA-94-7943        TCGA-94-8035 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-94-8490        TCGA-94-8491        TCGA-94-A4VJ        TCGA-96-7544 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-96-7545        TCGA-96-8169        TCGA-96-8170        TCGA-96-A4JK 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-96-A4JL        TCGA-98-7454        TCGA-98-8020        TCGA-98-8021 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-98-8022        TCGA-98-8023        TCGA-L3-A4E7        TCGA-LA-A446 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
D8V5, multiclass
[1] "Remove cluster labels:" "4Q GAIN MUTATED"       
clus
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
                1               193 
       TCGA-18-4721        TCGA-18-5592        TCGA-18-5595        TCGA-21-1070 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-21-1071        TCGA-21-1072        TCGA-21-1075        TCGA-21-1076 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-21-1078        TCGA-21-1079        TCGA-21-1080        TCGA-21-1081 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-21-1082        TCGA-21-1083        TCGA-21-5782        TCGA-21-5784 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-21-5786        TCGA-21-5787        TCGA-22-0940        TCGA-22-1000 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-22-1011        TCGA-22-4591        TCGA-22-4596        TCGA-22-4605 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-22-4607        TCGA-22-4609        TCGA-22-5471        TCGA-22-5472 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-22-5473        TCGA-22-5474        TCGA-22-5477        TCGA-22-5478 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-22-5479        TCGA-22-5480        TCGA-22-5482        TCGA-22-5483 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-22-5485        TCGA-22-5489        TCGA-22-5491        TCGA-22-5492 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-33-4532        TCGA-33-4547        TCGA-33-4566        TCGA-33-4582 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-33-4586        TCGA-33-4589        TCGA-33-6737        TCGA-33-6738 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-34-2604        TCGA-34-2605        TCGA-34-2608        TCGA-34-2609 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-34-5231        TCGA-34-5232        TCGA-34-5234        TCGA-34-5236 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-34-5239        TCGA-34-5241        TCGA-34-5927        TCGA-34-5928 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-34-5929        TCGA-34-7107        TCGA-37-3789        TCGA-37-3792 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-37-4129        TCGA-37-4133        TCGA-37-4135        TCGA-37-4141 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-37-5819        TCGA-39-5011        TCGA-39-5016        TCGA-39-5019 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-39-5021        TCGA-39-5022        TCGA-39-5024        TCGA-39-5027 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-39-5028        TCGA-39-5029        TCGA-39-5030        TCGA-39-5031 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-39-5034        TCGA-39-5035        TCGA-39-5037        TCGA-39-5040 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-43-2578        TCGA-43-2581        TCGA-43-3394        TCGA-43-5668 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-43-5670        TCGA-43-6143        TCGA-43-6770        TCGA-43-6771 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-43-7656        TCGA-43-7658        TCGA-46-6025        TCGA-46-6026 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-52-7810        TCGA-52-7811        TCGA-52-7812        TCGA-56-5897 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-56-5898        TCGA-56-6545        TCGA-56-6546        TCGA-56-7221 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-56-7222        TCGA-56-7730        TCGA-60-2695        TCGA-60-2696 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-60-2697        TCGA-60-2698        TCGA-60-2703        TCGA-60-2704 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-60-2706        TCGA-60-2708        TCGA-60-2709        TCGA-60-2710 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-60-2711        TCGA-60-2712        TCGA-60-2713        TCGA-60-2714 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-60-2716        TCGA-60-2719        TCGA-60-2720        TCGA-60-2721 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-60-2724        TCGA-60-2725        TCGA-60-2726        TCGA-63-5128 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-63-5131        TCGA-63-6202        TCGA-63-7020        TCGA-63-7021 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-63-7022        TCGA-63-7023        TCGA-66-2727        TCGA-66-2737 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-66-2758        TCGA-66-2766        TCGA-66-2767        TCGA-66-2768 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-66-2769        TCGA-66-2770        TCGA-66-2773        TCGA-66-2777 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-66-2778        TCGA-66-2781        TCGA-66-2782        TCGA-66-2783 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-66-2785        TCGA-66-2788        TCGA-66-2790        TCGA-66-2791 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-66-2794        TCGA-66-2795        TCGA-66-2800        TCGA-68-7756 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-70-6722        TCGA-70-6723        TCGA-77-6842        TCGA-77-6843 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-77-6844        TCGA-77-6845        TCGA-77-7139        TCGA-77-7141 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-77-7142        TCGA-77-7335        TCGA-77-7337        TCGA-77-7338 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-77-7463        TCGA-77-7465        TCGA-79-5596        TCGA-85-6175 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-85-6560        TCGA-85-6561        TCGA-85-6798        TCGA-85-7696 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-85-7697        TCGA-85-7698        TCGA-85-7699        TCGA-85-7710 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-85-7843        TCGA-85-7844        TCGA-85-7950        TCGA-90-6837 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-90-7766        TCGA-90-7767        TCGA-90-7769        TCGA-92-7340 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-94-7033        TCGA-94-7557        TCGA-94-7943        TCGA-96-7544 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-98-7454 
"4Q GAIN WILD-TYPE" 
D8V6, multiclass
[1] "Remove cluster labels:" "4Q GAIN MUTATED"       
clus
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
                1               193 
       TCGA-18-4721        TCGA-18-5592        TCGA-18-5595        TCGA-21-1070 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-21-1071        TCGA-21-1072        TCGA-21-1075        TCGA-21-1076 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-21-1078        TCGA-21-1079        TCGA-21-1080        TCGA-21-1081 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-21-1082        TCGA-21-1083        TCGA-21-5782        TCGA-21-5784 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-21-5786        TCGA-21-5787        TCGA-22-0940        TCGA-22-1000 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-22-1011        TCGA-22-4591        TCGA-22-4596        TCGA-22-4605 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-22-4607        TCGA-22-4609        TCGA-22-5471        TCGA-22-5472 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-22-5473        TCGA-22-5474        TCGA-22-5477        TCGA-22-5478 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-22-5479        TCGA-22-5480        TCGA-22-5482        TCGA-22-5483 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-22-5485        TCGA-22-5489        TCGA-22-5491        TCGA-22-5492 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-33-4532        TCGA-33-4547        TCGA-33-4566        TCGA-33-4582 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-33-4586        TCGA-33-4589        TCGA-33-6737        TCGA-33-6738 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-34-2604        TCGA-34-2605        TCGA-34-2608        TCGA-34-2609 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-34-5231        TCGA-34-5232        TCGA-34-5234        TCGA-34-5236 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-34-5239        TCGA-34-5241        TCGA-34-5927        TCGA-34-5928 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-34-5929        TCGA-34-7107        TCGA-37-3789        TCGA-37-3792 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-37-4129        TCGA-37-4133        TCGA-37-4135        TCGA-37-4141 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-37-5819        TCGA-39-5011        TCGA-39-5016        TCGA-39-5019 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-39-5021        TCGA-39-5022        TCGA-39-5024        TCGA-39-5027 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-39-5028        TCGA-39-5029        TCGA-39-5030        TCGA-39-5031 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-39-5034        TCGA-39-5035        TCGA-39-5037        TCGA-39-5040 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-43-2578        TCGA-43-2581        TCGA-43-3394        TCGA-43-5668 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-43-5670        TCGA-43-6143        TCGA-43-6770        TCGA-43-6771 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-43-7656        TCGA-43-7658        TCGA-46-6025        TCGA-46-6026 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-52-7810        TCGA-52-7811        TCGA-52-7812        TCGA-56-5897 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-56-5898        TCGA-56-6545        TCGA-56-6546        TCGA-56-7221 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-56-7222        TCGA-56-7730        TCGA-60-2695        TCGA-60-2696 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-60-2697        TCGA-60-2698        TCGA-60-2703        TCGA-60-2704 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-60-2706        TCGA-60-2708        TCGA-60-2709        TCGA-60-2710 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-60-2711        TCGA-60-2712        TCGA-60-2713        TCGA-60-2714 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-60-2716        TCGA-60-2719        TCGA-60-2720        TCGA-60-2721 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-60-2724        TCGA-60-2725        TCGA-60-2726        TCGA-63-5128 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-63-5131        TCGA-63-6202        TCGA-63-7020        TCGA-63-7021 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-63-7022        TCGA-63-7023        TCGA-66-2727        TCGA-66-2737 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-66-2758        TCGA-66-2766        TCGA-66-2767        TCGA-66-2768 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-66-2769        TCGA-66-2770        TCGA-66-2773        TCGA-66-2777 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-66-2778        TCGA-66-2781        TCGA-66-2782        TCGA-66-2783 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-66-2785        TCGA-66-2788        TCGA-66-2790        TCGA-66-2791 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-66-2794        TCGA-66-2795        TCGA-66-2800        TCGA-68-7756 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-70-6722        TCGA-70-6723        TCGA-77-6842        TCGA-77-6843 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-77-6844        TCGA-77-6845        TCGA-77-7139        TCGA-77-7141 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-77-7142        TCGA-77-7335        TCGA-77-7337        TCGA-77-7338 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-77-7463        TCGA-77-7465        TCGA-79-5596        TCGA-85-6175 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-85-6560        TCGA-85-6561        TCGA-85-6798        TCGA-85-7696 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-85-7697        TCGA-85-7698        TCGA-85-7699        TCGA-85-7710 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-85-7843        TCGA-85-7844        TCGA-85-7950        TCGA-90-6837 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-90-7766        TCGA-90-7767        TCGA-90-7769        TCGA-92-7340 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-94-7033        TCGA-94-7557        TCGA-94-7943        TCGA-96-7544 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-98-7454 
"4Q GAIN WILD-TYPE" 
D8V7, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               1                59
  CLUS_2               2                78
  CLUS_3               3                76
  CLUS_4               0                38
D8V8, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               0               116
  CLUS_2               3                83
  CLUS_3               3                52
D8V9, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               3               140
  CLUS_2               2               163
  CLUS_3               1                38
D8V10, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               1                52
  CLUS_2               3               173
  CLUS_3               2               116

Clustering(9) Variable = 5p gain mutation analysis
D9V1, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1              22                21
  CLUS_2              22                28
  CLUS_3              13                17
  CLUS_4              13                18
D9V2, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1              12                16
  CLUS_2              25                29
  CLUS_3              33                39
D9V3, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1              47                96
  CLUS_2              58                71
  CLUS_3              80                45
D9V4, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1              44                54
  CLUS_2              32                51
  CLUS_3              43                26
D9V5, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1              29                31
  CLUS_2              41                32
  CLUS_3              25                36
D9V6, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1              31                27
  CLUS_2              18                29
  CLUS_3              28                21
  CLUS_4              18                22
D9V7, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1              27                33
  CLUS_2              35                45
  CLUS_3              46                33
  CLUS_4              15                23
D9V8, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1              56                60
  CLUS_2              38                48
  CLUS_3              29                26
D9V9, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1              66                77
  CLUS_2              81                84
  CLUS_3              16                23
D9V10, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1              24                29
  CLUS_2              77                99
  CLUS_3              62                56

Clustering(10) Variable = 5q gain mutation analysis
D10V1, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               7                36
  CLUS_2               4                46
  CLUS_3               4                26
  CLUS_4               0                31
D10V2, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               1                27
  CLUS_2               4                50
  CLUS_3              10                62
D10V3, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1              10               133
  CLUS_2              14               115
  CLUS_3              19               106
D10V4, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1              10                88
  CLUS_2               5                78
  CLUS_3              11                58
D10V5, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               5                55
  CLUS_2              10                63
  CLUS_3               7                54
D10V6, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               7                51
  CLUS_2               3                44
  CLUS_3               7                42
  CLUS_4               5                35
D10V7, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1              10                50
  CLUS_2               6                74
  CLUS_3              11                68
  CLUS_4               2                36
D10V8, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1              16               100
  CLUS_2               7                79
  CLUS_3               6                49
D10V9, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1              16               127
  CLUS_2              19               146
  CLUS_3               2                37
D10V10, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               2                51
  CLUS_2              17               159
  CLUS_3              18               100

Clustering(11) Variable = 6p gain mutation analysis
D11V1, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               3                40
  CLUS_2               4                46
  CLUS_3               0                30
  CLUS_4               9                22
D11V2, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               7                21
  CLUS_2               6                48
  CLUS_3               3                69
D11V3, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               6               137
  CLUS_2               8               121
  CLUS_3              22               103
D11V4, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               9                89
  CLUS_2               4                79
  CLUS_3               6                63
D11V5, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               7                53
  CLUS_2               7                66
  CLUS_3               4                57
D11V6, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               5                53
  CLUS_2               5                42
  CLUS_3               7                42
  CLUS_4               1                39
D11V7, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               3                57
  CLUS_2               7                73
  CLUS_3              14                65
  CLUS_4               3                35
D11V8, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               6               110
  CLUS_2               8                78
  CLUS_3              13                42
D11V9, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1              15               128
  CLUS_2              14               151
  CLUS_3               3                36
D11V10, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               4                49
  CLUS_2              17               159
  CLUS_3              11               107

Clustering(12) Variable = 6q gain mutation analysis
D12V1, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               4                39
  CLUS_2               0                50
  CLUS_3               0                30
  CLUS_4               5                26
D12V2, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               4                24
  CLUS_2               1                53
  CLUS_3               4                68
D12V3, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               3               140
  CLUS_2               4               125
  CLUS_3              17               108
D12V4, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               1                97
  CLUS_2               2                81
  CLUS_3               9                60
D12V5, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               4                56
  CLUS_2               4                69
  CLUS_3               2                59
D12V6, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               2                56
  CLUS_2               3                44
  CLUS_3               4                45
  CLUS_4               1                39
D12V7, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               3                57
  CLUS_2               2                78
  CLUS_3               8                71
  CLUS_4               2                36
D12V8, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               3               113
  CLUS_2               3                83
  CLUS_3               9                46
D12V9, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               8               135
  CLUS_2               8               157
  CLUS_3               3                36
D12V10, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               3                50
  CLUS_2               8               168
  CLUS_3               8               110

Clustering(13) Variable = 7p gain mutation analysis
D13V1, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              10                33
  CLUS_2              19                31
  CLUS_3               5                25
  CLUS_4              10                21
D13V2, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1               9                19
  CLUS_2              19                35
  CLUS_3              16                56
D13V3, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              22               121
  CLUS_2              55                74
  CLUS_3              32                93
D13V4, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              17                81
  CLUS_2              34                49
  CLUS_3              15                54
D13V5, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              18                42
  CLUS_2              22                51
  CLUS_3              15                46
D13V6, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              16                42
  CLUS_2              13                34
  CLUS_3              15                34
  CLUS_4              11                29
D13V7, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              18                42
  CLUS_2              31                49
  CLUS_3              19                60
  CLUS_4               9                29
D13V8, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              29                87
  CLUS_2              34                52
  CLUS_3              14                41
D13V9, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              38               105
  CLUS_2              43               122
  CLUS_3              13                26
D13V10, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              19                34
  CLUS_2              36               140
  CLUS_3              39                79

Clustering(14) Variable = 7q gain mutation analysis
D14V1, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              10                33
  CLUS_2              20                30
  CLUS_3               4                26
  CLUS_4               9                22
D14V2, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1               6                22
  CLUS_2              21                33
  CLUS_3              16                56
D14V3, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              13               130
  CLUS_2              63                66
  CLUS_3              25               100
D14V4, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1               9                89
  CLUS_2              35                48
  CLUS_3              12                57
D14V5, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              18                42
  CLUS_2              20                53
  CLUS_3              15                46
D14V6, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              14                44
  CLUS_2              14                33
  CLUS_3              15                34
  CLUS_4              10                30
D14V7, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              15                45
  CLUS_2              33                47
  CLUS_3              18                61
  CLUS_4               6                32
D14V8, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              25                91
  CLUS_2              34                52
  CLUS_3              13                42
D14V9, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              36               107
  CLUS_2              36               129
  CLUS_3              14                25
D14V10, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              17                36
  CLUS_2              31               145
  CLUS_3              38                80

Clustering(15) Variable = 8p gain mutation analysis
D15V1, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               8                35
  CLUS_2               3                47
  CLUS_3               2                28
  CLUS_4               6                25
D15V2, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               5                23
  CLUS_2               3                51
  CLUS_3              11                61
D15V3, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1              15               128
  CLUS_2              10               119
  CLUS_3              23               102
D15V4, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1              11                87
  CLUS_2               6                77
  CLUS_3              13                56
D15V5, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1              11                49
  CLUS_2              10                63
  CLUS_3              10                51
D15V6, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1              13                45
  CLUS_2               5                42
  CLUS_3               7                42
  CLUS_4               6                34
D15V7, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               8                52
  CLUS_2               7                73
  CLUS_3              18                61
  CLUS_4               8                30
D15V8, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1              15               101
  CLUS_2               9                77
  CLUS_3              17                38
D15V9, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1              18               125
  CLUS_2              23               142
  CLUS_3               2                37
D15V10, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               3                50
  CLUS_2              22               154
  CLUS_3              18               100

Clustering(16) Variable = 8q gain mutation analysis
D16V1, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              18                25
  CLUS_2              10                40
  CLUS_3               7                23
  CLUS_4              14                17
D16V2, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              11                17
  CLUS_2              10                44
  CLUS_3              28                44
D16V3, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              40               103
  CLUS_2              27               102
  CLUS_3              47                78
D16V4, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              28                70
  CLUS_2              13                70
  CLUS_3              27                42
D16V5, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              18                42
  CLUS_2              24                49
  CLUS_3              16                45
D16V6, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              21                37
  CLUS_2              14                33
  CLUS_3              13                36
  CLUS_4              10                30
D16V7, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              20                40
  CLUS_2              15                65
  CLUS_3              33                46
  CLUS_4              13                25
D16V8, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              36                80
  CLUS_2              18                68
  CLUS_3              27                28
D16V9, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              47                96
  CLUS_2              44               121
  CLUS_3               5                34
D16V10, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              10                43
  CLUS_2              53               123
  CLUS_3              33                85

Clustering(17) Variable = 9p gain mutation analysis
D17V1, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               1                42
  CLUS_2               4                46
  CLUS_3               1                29
  CLUS_4               4                27
D17V2, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               3                25
  CLUS_2               5                49
  CLUS_3               2                70
D17V3, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               6               137
  CLUS_2              10               119
  CLUS_3               3               122
D17V4, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               4                94
  CLUS_2               5                78
  CLUS_3               3                66
D17V5, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               6                54
  CLUS_2               2                71
  CLUS_3               2                59
D17V6, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               9                49
  CLUS_2               0                47
  CLUS_3               0                49
  CLUS_4               1                39
D17V7, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               0                60
  CLUS_2               7                73
  CLUS_3               8                71
  CLUS_4               0                38
D17V8, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               2               114
  CLUS_2               7                79
  CLUS_3               6                49
D17V9, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1              11               132
  CLUS_2               6               159
  CLUS_3               2                37
D17V10, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               5                48
  CLUS_2              12               164
  CLUS_3               2               116

Clustering(18) Variable = 9q gain mutation analysis
D18V1, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               2                41
  CLUS_2               9                41
  CLUS_3               2                28
  CLUS_4               4                27
D18V2, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               3                25
  CLUS_2              10                44
  CLUS_3               4                68
D18V3, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               8               135
  CLUS_2              19               110
  CLUS_3               5               120
D18V4, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               3                95
  CLUS_2              10                73
  CLUS_3               3                66
D18V5, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               7                53
  CLUS_2               2                71
  CLUS_3               7                54
D18V6, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1              11                47
  CLUS_2               3                44
  CLUS_3               0                49
  CLUS_4               2                38
D18V7, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               1                59
  CLUS_2              13                67
  CLUS_3              10                69
  CLUS_4               0                38
D18V8, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               4               112
  CLUS_2              14                72
  CLUS_3               6                49
D18V9, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1              14               129
  CLUS_2              10               155
  CLUS_3               6                33
D18V10, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               9                44
  CLUS_2              13               163
  CLUS_3               8               110

Clustering(19) Variable = 10p gain mutation analysis
D19V1, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                1                 42
  CLUS_2                1                 49
  CLUS_3                0                 30
  CLUS_4                3                 28
D19V2, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                1                 27
  CLUS_2                2                 52
  CLUS_3                2                 70
D19V3, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                5                138
  CLUS_2                9                120
  CLUS_3                8                117
D19V4, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                8                 90
  CLUS_2                3                 80
  CLUS_3                6                 63
D19V5, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                2                 58
  CLUS_2                6                 67
  CLUS_3                4                 57
D19V6, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                3                 55
  CLUS_2                1                 46
  CLUS_3                5                 44
  CLUS_4                3                 37
D19V7, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                1                 59
  CLUS_2                5                 75
  CLUS_3                4                 75
  CLUS_4                4                 34
D19V8, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                6                110
  CLUS_2                5                 81
  CLUS_3                3                 52
D19V9, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                6                137
  CLUS_2               11                154
  CLUS_3                1                 38
D19V10, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                3                 50
  CLUS_2                8                168
  CLUS_3                7                111

Clustering(20) Variable = 10q gain mutation analysis
D20V1, multiclass
[1] "Remove cluster labels:" "10Q GAIN MUTATED"      
clus
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
                 2                152 
        TCGA-18-3406         TCGA-18-3407         TCGA-18-3408 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-18-3409         TCGA-18-3410         TCGA-18-3411 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-18-3412         TCGA-18-3414         TCGA-18-3415 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-18-3417         TCGA-18-3419         TCGA-18-3421 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-18-4083         TCGA-18-4086         TCGA-21-1070 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-21-1071         TCGA-21-1072         TCGA-21-1075 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-21-1076         TCGA-21-1077         TCGA-21-1078 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-21-1079         TCGA-21-1080         TCGA-21-1081 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-21-1082         TCGA-21-1083         TCGA-22-0940 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-22-0944         TCGA-22-1000         TCGA-22-1002 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-22-1005         TCGA-22-1011         TCGA-22-1012 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-22-1016         TCGA-22-1017         TCGA-22-4591 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-22-4594         TCGA-22-4595         TCGA-22-4596 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-22-4599         TCGA-22-4601         TCGA-22-4604 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-22-4607         TCGA-22-4613         TCGA-33-4532 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-33-4533         TCGA-33-4538         TCGA-33-4547 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-33-4582         TCGA-33-4589         TCGA-34-2596 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-34-2600         TCGA-34-2604         TCGA-34-2605 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-34-2608         TCGA-34-2609         TCGA-34-5240 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-34-5241         TCGA-37-3783         TCGA-37-3789 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-37-3792         TCGA-37-4129         TCGA-37-4130 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-37-4132         TCGA-37-4133         TCGA-37-4135 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-37-4141         TCGA-39-5011         TCGA-39-5016 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-39-5021         TCGA-39-5029         TCGA-39-5030 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-39-5034         TCGA-39-5035         TCGA-39-5036 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-39-5037         TCGA-43-2576         TCGA-43-2578 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-43-2581         TCGA-43-3394         TCGA-43-3920 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-46-3765         TCGA-46-3766         TCGA-46-3767 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-46-3768         TCGA-46-3769         TCGA-51-4079 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-51-4080         TCGA-51-4081         TCGA-56-1622 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-60-2695         TCGA-60-2696         TCGA-60-2698 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-60-2706         TCGA-60-2707         TCGA-60-2708 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-60-2710         TCGA-60-2711         TCGA-60-2712 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-60-2713         TCGA-60-2714         TCGA-60-2715 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-60-2716         TCGA-60-2719         TCGA-60-2720 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-60-2721         TCGA-60-2722         TCGA-60-2723 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-60-2724         TCGA-60-2725         TCGA-60-2726 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-63-5128         TCGA-63-5131         TCGA-66-2727 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-66-2734         TCGA-66-2737         TCGA-66-2742 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-66-2744         TCGA-66-2753         TCGA-66-2754 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-66-2755         TCGA-66-2756         TCGA-66-2757 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-66-2758         TCGA-66-2759         TCGA-66-2763 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-66-2765         TCGA-66-2766         TCGA-66-2767 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-66-2768         TCGA-66-2769         TCGA-66-2770 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-66-2771         TCGA-66-2773         TCGA-66-2777 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-66-2778         TCGA-66-2780         TCGA-66-2781 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-66-2782         TCGA-66-2783         TCGA-66-2785 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-66-2786         TCGA-66-2787         TCGA-66-2788 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-66-2789         TCGA-66-2790         TCGA-66-2791 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-66-2792         TCGA-66-2793         TCGA-66-2794 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-66-2795         TCGA-66-2800 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
D20V2, multiclass
[1] "Remove cluster labels:" "10Q GAIN MUTATED"      
clus
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
                 2                152 
        TCGA-18-3406         TCGA-18-3407         TCGA-18-3408 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-18-3409         TCGA-18-3410         TCGA-18-3411 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-18-3412         TCGA-18-3414         TCGA-18-3415 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-18-3417         TCGA-18-3419         TCGA-18-3421 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-18-4083         TCGA-18-4086         TCGA-21-1070 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-21-1071         TCGA-21-1072         TCGA-21-1075 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-21-1076         TCGA-21-1077         TCGA-21-1078 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-21-1079         TCGA-21-1080         TCGA-21-1081 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-21-1082         TCGA-21-1083         TCGA-22-0940 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-22-0944         TCGA-22-1000         TCGA-22-1002 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-22-1005         TCGA-22-1011         TCGA-22-1012 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-22-1016         TCGA-22-1017         TCGA-22-4591 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-22-4594         TCGA-22-4595         TCGA-22-4596 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-22-4599         TCGA-22-4601         TCGA-22-4604 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-22-4607         TCGA-22-4613         TCGA-33-4532 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-33-4533         TCGA-33-4538         TCGA-33-4547 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-33-4582         TCGA-33-4589         TCGA-34-2596 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-34-2600         TCGA-34-2604         TCGA-34-2605 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-34-2608         TCGA-34-2609         TCGA-34-5240 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-34-5241         TCGA-37-3783         TCGA-37-3789 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-37-3792         TCGA-37-4129         TCGA-37-4130 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-37-4132         TCGA-37-4133         TCGA-37-4135 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-37-4141         TCGA-39-5011         TCGA-39-5016 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-39-5021         TCGA-39-5029         TCGA-39-5030 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-39-5034         TCGA-39-5035         TCGA-39-5036 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-39-5037         TCGA-43-2576         TCGA-43-2578 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-43-2581         TCGA-43-3394         TCGA-43-3920 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-46-3765         TCGA-46-3766         TCGA-46-3767 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-46-3768         TCGA-46-3769         TCGA-51-4079 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-51-4080         TCGA-51-4081         TCGA-56-1622 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-60-2695         TCGA-60-2696         TCGA-60-2698 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-60-2706         TCGA-60-2707         TCGA-60-2708 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-60-2710         TCGA-60-2711         TCGA-60-2712 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-60-2713         TCGA-60-2714         TCGA-60-2715 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-60-2716         TCGA-60-2719         TCGA-60-2720 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-60-2721         TCGA-60-2722         TCGA-60-2723 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-60-2724         TCGA-60-2725         TCGA-60-2726 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-63-5128         TCGA-63-5131         TCGA-66-2727 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-66-2734         TCGA-66-2737         TCGA-66-2742 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-66-2744         TCGA-66-2753         TCGA-66-2754 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-66-2755         TCGA-66-2756         TCGA-66-2757 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-66-2758         TCGA-66-2759         TCGA-66-2763 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-66-2765         TCGA-66-2766         TCGA-66-2767 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-66-2768         TCGA-66-2769         TCGA-66-2770 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-66-2771         TCGA-66-2773         TCGA-66-2777 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-66-2778         TCGA-66-2780         TCGA-66-2781 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-66-2782         TCGA-66-2783         TCGA-66-2785 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-66-2786         TCGA-66-2787         TCGA-66-2788 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-66-2789         TCGA-66-2790         TCGA-66-2791 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-66-2792         TCGA-66-2793         TCGA-66-2794 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-66-2795         TCGA-66-2800 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
D20V3, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                1                142
  CLUS_2                3                126
  CLUS_3                4                121
D20V4, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                3                 95
  CLUS_2                2                 81
  CLUS_3                2                 67
D20V5, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                1                 59
  CLUS_2                4                 69
  CLUS_3                0                 61
D20V6, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                2                 56
  CLUS_2                0                 47
  CLUS_3                2                 47
  CLUS_4                1                 39
D20V7, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                0                 60
  CLUS_2                3                 77
  CLUS_3                2                 77
  CLUS_4                1                 37
D20V8, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                2                114
  CLUS_2                3                 83
  CLUS_3                1                 54
D20V9, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                4                139
  CLUS_2                3                162
  CLUS_3                0                 39
D20V10, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                1                 52
  CLUS_2                3                173
  CLUS_3                3                115

Clustering(21) Variable = 11p gain mutation analysis
D21V1, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                4                 39
  CLUS_2                4                 46
  CLUS_3                2                 28
  CLUS_4                3                 28
D21V2, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                2                 26
  CLUS_2                4                 50
  CLUS_3                7                 65
D21V3, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                5                138
  CLUS_2               12                117
  CLUS_3                6                119
D21V4, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                2                 96
  CLUS_2                7                 76
  CLUS_3                2                 67
D21V5, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                6                 54
  CLUS_2                3                 70
  CLUS_3                4                 57
D21V6, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                4                 54
  CLUS_2                6                 41
  CLUS_3                2                 47
  CLUS_4                1                 39
D21V7, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                3                 57
  CLUS_2                6                 74
  CLUS_3                7                 72
  CLUS_4                1                 37
D21V8, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                7                109
  CLUS_2                5                 81
  CLUS_3                5                 50
D21V9, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1               12                131
  CLUS_2                8                157
  CLUS_3                2                 37
D21V10, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                4                 49
  CLUS_2               10                166
  CLUS_3                8                110

Clustering(22) Variable = 11q gain mutation analysis
D22V1, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                5                 38
  CLUS_2                2                 48
  CLUS_3                0                 30
  CLUS_4                4                 27
D22V2, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                2                 26
  CLUS_2                2                 52
  CLUS_3                7                 65
D22V3, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                3                140
  CLUS_2               12                117
  CLUS_3               11                114
D22V4, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                2                 96
  CLUS_2                6                 77
  CLUS_3                8                 61
D22V5, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                6                 54
  CLUS_2                5                 68
  CLUS_3                6                 55
D22V6, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                5                 53
  CLUS_2                5                 42
  CLUS_3                6                 43
  CLUS_4                1                 39
D22V7, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                4                 56
  CLUS_2                4                 76
  CLUS_3                8                 71
  CLUS_4                2                 36
D22V8, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                6                110
  CLUS_2                4                 82
  CLUS_3                8                 47
D22V9, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1               12                131
  CLUS_2               10                155
  CLUS_3                2                 37
D22V10, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                3                 50
  CLUS_2               13                163
  CLUS_3                8                110

Clustering(23) Variable = 12p gain mutation analysis
D23V1, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                6                 37
  CLUS_2               20                 30
  CLUS_3                6                 24
  CLUS_4               12                 19
D23V2, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                9                 19
  CLUS_2               20                 34
  CLUS_3               15                 57
D23V3, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               19                124
  CLUS_2               52                 77
  CLUS_3               40                 85
D23V4, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               21                 77
  CLUS_2               30                 53
  CLUS_3               22                 47
D23V5, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               24                 36
  CLUS_2               23                 50
  CLUS_3               15                 46
D23V6, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               18                 40
  CLUS_2               15                 32
  CLUS_3               19                 30
  CLUS_4               10                 30
D23V7, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               11                 49
  CLUS_2               28                 52
  CLUS_3               24                 55
  CLUS_4                9                 29
D23V8, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               24                 92
  CLUS_2               29                 57
  CLUS_3               19                 36
D23V9, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               42                101
  CLUS_2               44                121
  CLUS_3                9                 30
D23V10, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               16                 37
  CLUS_2               44                132
  CLUS_3               35                 83

Clustering(24) Variable = 12q gain mutation analysis
D24V1, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                2                 41
  CLUS_2                9                 41
  CLUS_3                3                 27
  CLUS_4                8                 23
D24V2, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                6                 22
  CLUS_2                9                 45
  CLUS_3                7                 65
D24V3, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                5                138
  CLUS_2               31                 98
  CLUS_3               13                112
D24V4, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                5                 93
  CLUS_2               12                 71
  CLUS_3               11                 58
D24V5, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1               12                 48
  CLUS_2                7                 66
  CLUS_3                8                 53
D24V6, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                9                 49
  CLUS_2                8                 39
  CLUS_3                5                 44
  CLUS_4                5                 35
D24V7, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                5                 55
  CLUS_2               12                 68
  CLUS_3               12                 67
  CLUS_4                6                 32
D24V8, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                9                107
  CLUS_2               13                 73
  CLUS_3               13                 42
D24V9, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1               22                121
  CLUS_2               19                146
  CLUS_3                3                 36
D24V10, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                9                 44
  CLUS_2               22                154
  CLUS_3               13                105

Clustering(25) Variable = 13q gain mutation analysis
D25V1, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                2                 41
  CLUS_2                1                 49
  CLUS_3                0                 30
  CLUS_4                1                 30
D25V2, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                1                 27
  CLUS_2                1                 53
  CLUS_3                2                 70
D25V3, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                2                141
  CLUS_2                8                121
  CLUS_3                0                125
D25V4, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                1                 97
  CLUS_2                3                 80
  CLUS_3                2                 67
D25V5, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                0                 60
  CLUS_2                3                 70
  CLUS_3                3                 58
D25V6, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                1                 57
  CLUS_2                3                 44
  CLUS_3                2                 47
  CLUS_4                0                 40
D25V7, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                3                 57
  CLUS_2                0                 80
  CLUS_3                2                 77
  CLUS_4                2                 36
D25V8, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                2                114
  CLUS_2                1                 85
  CLUS_3                4                 51
D25V9, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                4                139
  CLUS_2                3                162
  CLUS_3                0                 39
D25V10, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                0                 53
  CLUS_2                4                172
  CLUS_3                3                115

Clustering(26) Variable = 14q gain mutation analysis
D26V1, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1               10                 33
  CLUS_2                6                 44
  CLUS_3                1                 29
  CLUS_4                4                 27
D26V2, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                4                 24
  CLUS_2                6                 48
  CLUS_3               11                 61
D26V3, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1               12                131
  CLUS_2               16                113
  CLUS_3               13                112
D26V4, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                5                 93
  CLUS_2                7                 76
  CLUS_3                8                 61
D26V5, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                5                 55
  CLUS_2                7                 66
  CLUS_3                5                 56
D26V6, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                5                 53
  CLUS_2                6                 41
  CLUS_3                4                 45
  CLUS_4                2                 38
D26V7, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                8                 52
  CLUS_2                8                 72
  CLUS_3                5                 74
  CLUS_4                6                 32
D26V8, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1               15                101
  CLUS_2                8                 78
  CLUS_3                4                 51
D26V9, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1               21                122
  CLUS_2               13                152
  CLUS_3                1                 38
D26V10, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                3                 50
  CLUS_2               15                161
  CLUS_3               17                101

Clustering(27) Variable = 15q gain mutation analysis
D27V1, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                3                 40
  CLUS_2               10                 40
  CLUS_3                2                 28
  CLUS_4                4                 27
D27V2, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                4                 24
  CLUS_2               11                 43
  CLUS_3                4                 68
D27V3, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                6                137
  CLUS_2               22                107
  CLUS_3               11                114
D27V4, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                3                 95
  CLUS_2               12                 71
  CLUS_3                6                 63
D27V5, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                6                 54
  CLUS_2                4                 69
  CLUS_3                9                 52
D27V6, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                6                 52
  CLUS_2                7                 40
  CLUS_3                1                 48
  CLUS_4                5                 35
D27V7, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                1                 59
  CLUS_2               14                 66
  CLUS_3                6                 73
  CLUS_4                5                 33
D27V8, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                6                110
  CLUS_2               13                 73
  CLUS_3                7                 48
D27V9, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1               14                129
  CLUS_2               12                153
  CLUS_3                8                 31
D27V10, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1               11                 42
  CLUS_2               10                166
  CLUS_3               13                105

Clustering(28) Variable = 16p gain mutation analysis
D28V1, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                3                 40
  CLUS_2                3                 47
  CLUS_3                0                 30
  CLUS_4                1                 30
D28V2, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                1                 27
  CLUS_2                3                 51
  CLUS_3                3                 69
D28V3, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                0                143
  CLUS_2                8                121
  CLUS_3                9                116
D28V4, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                2                 96
  CLUS_2                5                 78
  CLUS_3                3                 66
D28V5, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                4                 56
  CLUS_2                4                 69
  CLUS_3                2                 59
D28V6, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                3                 55
  CLUS_2                1                 46
  CLUS_3                5                 44
  CLUS_4                1                 39
D28V7, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                2                 58
  CLUS_2                4                 76
  CLUS_3                7                 72
  CLUS_4                1                 37
D28V8, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                4                112
  CLUS_2                5                 81
  CLUS_3                5                 50
D28V9, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                6                137
  CLUS_2                8                157
  CLUS_3                1                 38
D28V10, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                2                 51
  CLUS_2                9                167
  CLUS_3                4                114

Clustering(29) Variable = 16q gain mutation analysis
D29V1, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                5                 38
  CLUS_2                3                 47
  CLUS_3                0                 30
  CLUS_4                3                 28
D29V2, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                1                 27
  CLUS_2                4                 50
  CLUS_3                6                 66
D29V3, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                0                143
  CLUS_2               10                119
  CLUS_3               13                112
D29V4, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                3                 95
  CLUS_2                6                 77
  CLUS_3                3                 66
D29V5, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                5                 55
  CLUS_2                6                 67
  CLUS_3                2                 59
D29V6, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                3                 55
  CLUS_2                2                 45
  CLUS_3                7                 42
  CLUS_4                1                 39
D29V7, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                3                 57
  CLUS_2                5                 75
  CLUS_3                9                 70
  CLUS_4                1                 37
D29V8, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                7                109
  CLUS_2                6                 80
  CLUS_3                5                 50
D29V9, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1               11                132
  CLUS_2                9                156
  CLUS_3                0                 39
D29V10, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                2                 51
  CLUS_2               13                163
  CLUS_3                5                113

Clustering(30) Variable = 17p gain mutation analysis
D30V1, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                0                 43
  CLUS_2                3                 47
  CLUS_3                0                 30
  CLUS_4                1                 30
D30V2, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                1                 27
  CLUS_2                3                 51
  CLUS_3                0                 72
D30V3, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                0                143
  CLUS_2                9                120
  CLUS_3                2                123
D30V4, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                0                 98
  CLUS_2                3                 80
  CLUS_3                2                 67
D30V5, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                3                 57
  CLUS_2                0                 73
  CLUS_3                4                 57
D30V6, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                2                 56
  CLUS_2                3                 44
  CLUS_3                0                 49
  CLUS_4                2                 38
D30V7, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                0                 60
  CLUS_2                4                 76
  CLUS_3                2                 77
  CLUS_4                1                 37
D30V8, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                0                116
  CLUS_2                4                 82
  CLUS_3                3                 52
D30V9, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                2                141
  CLUS_2                4                161
  CLUS_3                2                 37
D30V10, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                4                 49
  CLUS_2                3                173
  CLUS_3                1                117

Clustering(31) Variable = 17q gain mutation analysis
D31V1, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                3                 40
  CLUS_2               13                 37
  CLUS_3                1                 29
  CLUS_4                6                 25
D31V2, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                2                 26
  CLUS_2               14                 40
  CLUS_3                7                 65
D31V3, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                3                140
  CLUS_2               29                100
  CLUS_3               12                113
D31V4, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                3                 95
  CLUS_2               15                 68
  CLUS_3                5                 64
D31V5, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                8                 52
  CLUS_2                9                 64
  CLUS_3                4                 57
D31V6, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                6                 52
  CLUS_2                5                 42
  CLUS_3                8                 41
  CLUS_4                2                 38
D31V7, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                3                 57
  CLUS_2               18                 62
  CLUS_3               10                 69
  CLUS_4                1                 37
D31V8, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                7                109
  CLUS_2               18                 68
  CLUS_3                7                 48
D31V9, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1               17                126
  CLUS_2               13                152
  CLUS_3                4                 35
D31V10, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                8                 45
  CLUS_2               13                163
  CLUS_3               13                105

Clustering(32) Variable = 18p gain mutation analysis
D32V1, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                4                 39
  CLUS_2               18                 32
  CLUS_3                3                 27
  CLUS_4                3                 28
D32V2, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                2                 26
  CLUS_2               21                 33
  CLUS_3                5                 67
D32V3, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1               14                129
  CLUS_2               42                 87
  CLUS_3               11                114
D32V4, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                9                 89
  CLUS_2               20                 63
  CLUS_3               10                 59
D32V5, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1               15                 45
  CLUS_2                9                 64
  CLUS_3               10                 51
D32V6, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1               11                 47
  CLUS_2               13                 34
  CLUS_3                7                 42
  CLUS_4                3                 37
D32V7, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1               10                 50
  CLUS_2               21                 59
  CLUS_3                9                 70
  CLUS_4                3                 35
D32V8, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1               13                103
  CLUS_2               24                 62
  CLUS_3                6                 49
D32V9, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1               27                116
  CLUS_2               25                140
  CLUS_3                8                 31
D32V10, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1               13                 40
  CLUS_2               24                152
  CLUS_3               23                 95

Clustering(33) Variable = 18q gain mutation analysis
D33V1, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                3                 40
  CLUS_2               14                 36
  CLUS_3                1                 29
  CLUS_4                4                 27
D33V2, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                2                 26
  CLUS_2               16                 38
  CLUS_3                4                 68
D33V3, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                8                135
  CLUS_2               24                105
  CLUS_3               12                113
D33V4, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                5                 93
  CLUS_2               11                 72
  CLUS_3                5                 64
D33V5, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                9                 51
  CLUS_2                4                 69
  CLUS_3                8                 53
D33V6, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                7                 51
  CLUS_2               10                 37
  CLUS_3                3                 46
  CLUS_4                1                 39
D33V7, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                6                 54
  CLUS_2               16                 64
  CLUS_3               10                 69
  CLUS_4                0                 38
D33V8, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                7                109
  CLUS_2               17                 69
  CLUS_3                8                 47
D33V9, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1               22                121
  CLUS_2               12                153
  CLUS_3                5                 34
D33V10, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                8                 45
  CLUS_2               12                164
  CLUS_3               19                 99

Clustering(34) Variable = 19p gain mutation analysis
D34V1, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                3                 40
  CLUS_2                8                 42
  CLUS_3                0                 30
  CLUS_4                5                 26
D34V2, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                4                 24
  CLUS_2                8                 46
  CLUS_3                4                 68
D34V3, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                6                137
  CLUS_2               28                101
  CLUS_3                6                119
D34V4, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                3                 95
  CLUS_2               14                 69
  CLUS_3                9                 60
D34V5, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1               15                 45
  CLUS_2                2                 71
  CLUS_3                7                 54
D34V6, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1               15                 43
  CLUS_2                4                 43
  CLUS_3                1                 48
  CLUS_4                4                 36
D34V7, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                3                 57
  CLUS_2               14                 66
  CLUS_3               11                 68
  CLUS_4                2                 36
D34V8, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                6                110
  CLUS_2               14                 72
  CLUS_3               10                 45
D34V9, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1               14                129
  CLUS_2               12                153
  CLUS_3                8                 31
D34V10, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                8                 45
  CLUS_2               15                161
  CLUS_3               11                107

Clustering(35) Variable = 19q gain mutation analysis
D35V1, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                6                 37
  CLUS_2                8                 42
  CLUS_3                0                 30
  CLUS_4                6                 25
D35V2, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                4                 24
  CLUS_2                8                 46
  CLUS_3                8                 64
D35V3, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1               10                133
  CLUS_2               31                 98
  CLUS_3               17                108
D35V4, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1               12                 86
  CLUS_2               16                 67
  CLUS_3               12                 57
D35V5, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1               15                 45
  CLUS_2                7                 66
  CLUS_3               10                 51
D35V6, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1               17                 41
  CLUS_2                5                 42
  CLUS_3                4                 45
  CLUS_4                6                 34
D35V7, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                5                 55
  CLUS_2               13                 67
  CLUS_3               16                 63
  CLUS_4                5                 33
D35V8, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1               12                104
  CLUS_2               14                 72
  CLUS_3               13                 42
D35V9, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1               19                124
  CLUS_2               22                143
  CLUS_3                7                 32
D35V10, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                6                 47
  CLUS_2               25                151
  CLUS_3               17                101

Clustering(36) Variable = 20p gain mutation analysis
D36V1, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               13                 30
  CLUS_2               20                 30
  CLUS_3                5                 25
  CLUS_4                7                 24
D36V2, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                3                 25
  CLUS_2               20                 34
  CLUS_3               22                 50
D36V3, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               16                127
  CLUS_2               51                 78
  CLUS_3               42                 83
D36V4, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               17                 81
  CLUS_2               30                 53
  CLUS_3               18                 51
D36V5, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               17                 43
  CLUS_2               16                 57
  CLUS_3               16                 45
D36V6, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               12                 46
  CLUS_2               17                 30
  CLUS_3               13                 36
  CLUS_4                7                 33
D36V7, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               14                 46
  CLUS_2               28                 52
  CLUS_3               27                 52
  CLUS_4                9                 29
D36V8, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               30                 86
  CLUS_2               28                 58
  CLUS_3               20                 35
D36V9, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               33                110
  CLUS_2               43                122
  CLUS_3               14                 25
D36V10, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               18                 35
  CLUS_2               34                142
  CLUS_3               38                 80

Clustering(37) Variable = 20q gain mutation analysis
D37V1, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               11                 32
  CLUS_2               12                 38
  CLUS_3                7                 23
  CLUS_4               11                 20
D37V2, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                9                 19
  CLUS_2               12                 42
  CLUS_3               20                 52
D37V3, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               12                131
  CLUS_2               36                 93
  CLUS_3               47                 78
D37V4, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               18                 80
  CLUS_2               18                 65
  CLUS_3               21                 48
D37V5, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               14                 46
  CLUS_2               17                 56
  CLUS_3               12                 49
D37V6, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               13                 45
  CLUS_2               11                 36
  CLUS_3               14                 35
  CLUS_4                5                 35
D37V7, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               14                 46
  CLUS_2               17                 63
  CLUS_3               28                 51
  CLUS_4                9                 29
D37V8, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               29                 87
  CLUS_2               16                 70
  CLUS_3               23                 32
D37V9, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               33                110
  CLUS_2               39                126
  CLUS_3                8                 31
D37V10, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                9                 44
  CLUS_2               36                140
  CLUS_3               35                 83

Clustering(38) Variable = 21q gain mutation analysis
D38V1, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                2                 41
  CLUS_2                4                 46
  CLUS_3                2                 28
  CLUS_4                2                 29
D38V2, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                3                 25
  CLUS_2                4                 50
  CLUS_3                3                 69
D38V3, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                8                135
  CLUS_2                6                123
  CLUS_3                5                120
D38V4, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                0                 98
  CLUS_2                3                 80
  CLUS_3                7                 62
D38V5, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                4                 56
  CLUS_2                2                 71
  CLUS_3                3                 58
D38V6, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                2                 56
  CLUS_2                3                 44
  CLUS_3                2                 47
  CLUS_4                2                 38
D38V7, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                4                 56
  CLUS_2                3                 77
  CLUS_3                4                 75
  CLUS_4                3                 35
D38V8, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                6                110
  CLUS_2                3                 83
  CLUS_3                5                 50
D38V9, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                8                135
  CLUS_2                6                159
  CLUS_3                2                 37
D38V10, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                5                 48
  CLUS_2                6                170
  CLUS_3                5                113

Clustering(39) Variable = 22q gain mutation analysis
D39V1, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1               10                 33
  CLUS_2               21                 29
  CLUS_3                4                 26
  CLUS_4                3                 28
D39V2, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                3                 25
  CLUS_2               21                 33
  CLUS_3               14                 58
D39V3, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1               12                131
  CLUS_2               49                 80
  CLUS_3               36                 89
D39V4, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1               12                 86
  CLUS_2               28                 55
  CLUS_3               17                 52
D39V5, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1               17                 43
  CLUS_2               12                 61
  CLUS_3               15                 46
D39V6, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1               10                 48
  CLUS_2               19                 28
  CLUS_3                9                 40
  CLUS_4                6                 34
D39V7, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1               14                 46
  CLUS_2               27                 53
  CLUS_3               13                 66
  CLUS_4                7                 31
D39V8, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1               24                 92
  CLUS_2               28                 58
  CLUS_3                9                 46
D39V9, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1               36                107
  CLUS_2               41                124
  CLUS_3                9                 30
D39V10, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1               17                 36
  CLUS_2               32                144
  CLUS_3               37                 81

Clustering(40) Variable = Xq gain mutation analysis
D40V1, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               2                41
  CLUS_2               1                49
  CLUS_3               0                30
  CLUS_4               1                30
D40V2, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               1                27
  CLUS_2               1                53
  CLUS_3               2                70
D40V3, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               1               142
  CLUS_2               3               126
  CLUS_3               7               118
D40V4, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               0                98
  CLUS_2               2                81
  CLUS_3               3                66
D40V5, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               3                57
  CLUS_2               1                72
  CLUS_3               1                60
D40V6, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               3                55
  CLUS_2               1                46
  CLUS_3               1                48
  CLUS_4               0                40
D40V7, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               1                59
  CLUS_2               2                78
  CLUS_3               4                75
  CLUS_4               1                37
D40V8, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               2               114
  CLUS_2               2                84
  CLUS_3               4                51
D40V9, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               3               140
  CLUS_2               5               160
  CLUS_3               0                39
D40V10, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               0                53
  CLUS_2               3               173
  CLUS_3               5               113

Clustering(41) Variable = 1p loss mutation analysis
D41V1, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               4                39
  CLUS_2              15                35
  CLUS_3               2                28
  CLUS_4               1                30
D41V2, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               2                26
  CLUS_2              16                38
  CLUS_3               4                68
D41V3, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               5               138
  CLUS_2              43                86
  CLUS_3              11               114
D41V4, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               3                95
  CLUS_2              24                59
  CLUS_3               9                60
D41V5, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1              11                49
  CLUS_2               9                64
  CLUS_3              14                47
D41V6, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1              11                47
  CLUS_2              13                34
  CLUS_3               3                46
  CLUS_4               7                33
D41V7, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               5                55
  CLUS_2              24                56
  CLUS_3               8                71
  CLUS_4               3                35
D41V8, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1              11               105
  CLUS_2              22                64
  CLUS_3               7                48
D41V9, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1              22               121
  CLUS_2              18               147
  CLUS_3               8                31
D41V10, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1              12                41
  CLUS_2              16               160
  CLUS_3              20                98

Clustering(42) Variable = 1q loss mutation analysis
D42V1, multiclass
[1] "Remove cluster labels:" "1Q LOSS MUTATED"       
clus
  1Q LOSS MUTATED 1Q LOSS WILD-TYPE 
                2               152 
       TCGA-18-3406        TCGA-18-3407        TCGA-18-3408        TCGA-18-3409 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-18-3410        TCGA-18-3411        TCGA-18-3412        TCGA-18-3414 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-18-3415        TCGA-18-3416        TCGA-18-3417        TCGA-18-3419 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-18-3421        TCGA-18-4083        TCGA-18-4086        TCGA-21-1070 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-21-1071        TCGA-21-1072        TCGA-21-1075        TCGA-21-1076 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-21-1077        TCGA-21-1078        TCGA-21-1079        TCGA-21-1080 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-21-1081        TCGA-21-1082        TCGA-21-1083        TCGA-22-0940 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-22-0944        TCGA-22-1000        TCGA-22-1002        TCGA-22-1005 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-22-1011        TCGA-22-1012        TCGA-22-1016        TCGA-22-1017 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-22-4591        TCGA-22-4594        TCGA-22-4595        TCGA-22-4596 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-22-4599        TCGA-22-4601        TCGA-22-4604        TCGA-22-4607 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-22-4613        TCGA-33-4532        TCGA-33-4533        TCGA-33-4538 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-33-4547        TCGA-33-4566        TCGA-33-4582        TCGA-33-4589 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-34-2596        TCGA-34-2600        TCGA-34-2604        TCGA-34-2605 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-34-2608        TCGA-34-2609        TCGA-34-5240        TCGA-34-5241 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-37-3783        TCGA-37-3789        TCGA-37-3792        TCGA-37-4129 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-37-4130        TCGA-37-4132        TCGA-37-4133        TCGA-37-4135 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-37-4141        TCGA-39-5011        TCGA-39-5016        TCGA-39-5021 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-39-5030        TCGA-39-5035        TCGA-39-5036        TCGA-39-5037 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-43-2576        TCGA-43-2578        TCGA-43-2581        TCGA-43-3394 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-43-3920        TCGA-46-3765        TCGA-46-3766        TCGA-46-3767 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-46-3768        TCGA-46-3769        TCGA-51-4079        TCGA-51-4080 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-51-4081        TCGA-56-1622        TCGA-60-2695        TCGA-60-2696 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-60-2698        TCGA-60-2706        TCGA-60-2707        TCGA-60-2708 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-60-2710        TCGA-60-2711        TCGA-60-2712        TCGA-60-2713 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-60-2714        TCGA-60-2715        TCGA-60-2716        TCGA-60-2719 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-60-2720        TCGA-60-2721        TCGA-60-2722        TCGA-60-2723 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-60-2724        TCGA-60-2725        TCGA-60-2726        TCGA-63-5128 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-63-5131        TCGA-66-2727        TCGA-66-2734        TCGA-66-2737 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-66-2742        TCGA-66-2744        TCGA-66-2753        TCGA-66-2754 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-66-2755        TCGA-66-2756        TCGA-66-2757        TCGA-66-2758 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-66-2759        TCGA-66-2763        TCGA-66-2765        TCGA-66-2766 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-66-2767        TCGA-66-2768        TCGA-66-2769        TCGA-66-2770 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-66-2771        TCGA-66-2773        TCGA-66-2777        TCGA-66-2778 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-66-2780        TCGA-66-2781        TCGA-66-2782        TCGA-66-2783 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-66-2785        TCGA-66-2786        TCGA-66-2787        TCGA-66-2788 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-66-2789        TCGA-66-2790        TCGA-66-2791        TCGA-66-2792 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-66-2793        TCGA-66-2794        TCGA-66-2795        TCGA-66-2800 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
D42V2, multiclass
[1] "Remove cluster labels:" "1Q LOSS MUTATED"       
clus
  1Q LOSS MUTATED 1Q LOSS WILD-TYPE 
                2               152 
       TCGA-18-3406        TCGA-18-3407        TCGA-18-3408        TCGA-18-3409 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-18-3410        TCGA-18-3411        TCGA-18-3412        TCGA-18-3414 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-18-3415        TCGA-18-3416        TCGA-18-3417        TCGA-18-3419 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-18-3421        TCGA-18-4083        TCGA-18-4086        TCGA-21-1070 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-21-1071        TCGA-21-1072        TCGA-21-1075        TCGA-21-1076 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-21-1077        TCGA-21-1078        TCGA-21-1079        TCGA-21-1080 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-21-1081        TCGA-21-1082        TCGA-21-1083        TCGA-22-0940 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-22-0944        TCGA-22-1000        TCGA-22-1002        TCGA-22-1005 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-22-1011        TCGA-22-1012        TCGA-22-1016        TCGA-22-1017 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-22-4591        TCGA-22-4594        TCGA-22-4595        TCGA-22-4596 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-22-4599        TCGA-22-4601        TCGA-22-4604        TCGA-22-4607 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-22-4613        TCGA-33-4532        TCGA-33-4533        TCGA-33-4538 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-33-4547        TCGA-33-4566        TCGA-33-4582        TCGA-33-4589 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-34-2596        TCGA-34-2600        TCGA-34-2604        TCGA-34-2605 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-34-2608        TCGA-34-2609        TCGA-34-5240        TCGA-34-5241 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-37-3783        TCGA-37-3789        TCGA-37-3792        TCGA-37-4129 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-37-4130        TCGA-37-4132        TCGA-37-4133        TCGA-37-4135 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-37-4141        TCGA-39-5011        TCGA-39-5016        TCGA-39-5021 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-39-5030        TCGA-39-5035        TCGA-39-5036        TCGA-39-5037 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-43-2576        TCGA-43-2578        TCGA-43-2581        TCGA-43-3394 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-43-3920        TCGA-46-3765        TCGA-46-3766        TCGA-46-3767 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-46-3768        TCGA-46-3769        TCGA-51-4079        TCGA-51-4080 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-51-4081        TCGA-56-1622        TCGA-60-2695        TCGA-60-2696 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-60-2698        TCGA-60-2706        TCGA-60-2707        TCGA-60-2708 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-60-2710        TCGA-60-2711        TCGA-60-2712        TCGA-60-2713 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-60-2714        TCGA-60-2715        TCGA-60-2716        TCGA-60-2719 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-60-2720        TCGA-60-2721        TCGA-60-2722        TCGA-60-2723 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-60-2724        TCGA-60-2725        TCGA-60-2726        TCGA-63-5128 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-63-5131        TCGA-66-2727        TCGA-66-2734        TCGA-66-2737 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-66-2742        TCGA-66-2744        TCGA-66-2753        TCGA-66-2754 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-66-2755        TCGA-66-2756        TCGA-66-2757        TCGA-66-2758 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-66-2759        TCGA-66-2763        TCGA-66-2765        TCGA-66-2766 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-66-2767        TCGA-66-2768        TCGA-66-2769        TCGA-66-2770 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-66-2771        TCGA-66-2773        TCGA-66-2777        TCGA-66-2778 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-66-2780        TCGA-66-2781        TCGA-66-2782        TCGA-66-2783 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-66-2785        TCGA-66-2786        TCGA-66-2787        TCGA-66-2788 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-66-2789        TCGA-66-2790        TCGA-66-2791        TCGA-66-2792 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-66-2793        TCGA-66-2794        TCGA-66-2795        TCGA-66-2800 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
D42V3, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               1               142
  CLUS_2               3               126
  CLUS_3               5               120
D42V4, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               1                97
  CLUS_2               4                79
  CLUS_3               3                66
D42V5, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               3                57
  CLUS_2               2                71
  CLUS_3               2                59
D42V6, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               3                55
  CLUS_2               3                44
  CLUS_3               0                49
  CLUS_4               1                39
D42V7, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               3                57
  CLUS_2               1                79
  CLUS_3               2                77
  CLUS_4               0                38
D42V8, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               3               113
  CLUS_2               1                85
  CLUS_3               2                53
D42V9, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               3               140
  CLUS_2               4               161
  CLUS_3               1                38
D42V10, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               1                52
  CLUS_2               3               173
  CLUS_3               4               114

Clustering(43) Variable = 2p loss mutation analysis
D43V1, multiclass
[1] "Remove cluster labels:" "2P LOSS MUTATED"       
clus
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
                2               152 
       TCGA-18-3406        TCGA-18-3407        TCGA-18-3408        TCGA-18-3409 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-18-3410        TCGA-18-3411        TCGA-18-3412        TCGA-18-3414 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-18-3415        TCGA-18-3416        TCGA-18-3417        TCGA-18-3419 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-18-3421        TCGA-18-4083        TCGA-18-4086        TCGA-21-1070 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-21-1071        TCGA-21-1072        TCGA-21-1075        TCGA-21-1076 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-21-1077        TCGA-21-1078        TCGA-21-1079        TCGA-21-1080 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-21-1081        TCGA-21-1083        TCGA-22-0940        TCGA-22-0944 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-22-1000        TCGA-22-1002        TCGA-22-1005        TCGA-22-1011 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-22-1012        TCGA-22-1016        TCGA-22-1017        TCGA-22-4591 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-22-4594        TCGA-22-4595        TCGA-22-4596        TCGA-22-4599 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-22-4601        TCGA-22-4604        TCGA-22-4607        TCGA-22-4613 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-33-4532        TCGA-33-4533        TCGA-33-4538        TCGA-33-4547 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-33-4566        TCGA-33-4582        TCGA-33-4589        TCGA-34-2596 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-34-2600        TCGA-34-2604        TCGA-34-2605        TCGA-34-2608 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-34-2609        TCGA-34-5240        TCGA-34-5241        TCGA-37-3783 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-37-3789        TCGA-37-3792        TCGA-37-4129        TCGA-37-4130 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-37-4132        TCGA-37-4133        TCGA-37-4135        TCGA-37-4141 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-39-5011        TCGA-39-5016        TCGA-39-5021        TCGA-39-5029 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-39-5030        TCGA-39-5034        TCGA-39-5035        TCGA-39-5036 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-39-5037        TCGA-43-2576        TCGA-43-2578        TCGA-43-2581 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-43-3394        TCGA-43-3920        TCGA-46-3765        TCGA-46-3766 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-46-3767        TCGA-46-3768        TCGA-46-3769        TCGA-51-4079 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-51-4080        TCGA-51-4081        TCGA-60-2695        TCGA-60-2696 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-60-2698        TCGA-60-2706        TCGA-60-2707        TCGA-60-2708 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-60-2710        TCGA-60-2711        TCGA-60-2712        TCGA-60-2713 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-60-2714        TCGA-60-2715        TCGA-60-2716        TCGA-60-2719 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-60-2720        TCGA-60-2721        TCGA-60-2722        TCGA-60-2723 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-60-2724        TCGA-60-2725        TCGA-60-2726        TCGA-63-5128 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-63-5131        TCGA-66-2727        TCGA-66-2734        TCGA-66-2737 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2742        TCGA-66-2744        TCGA-66-2753        TCGA-66-2754 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2755        TCGA-66-2756        TCGA-66-2757        TCGA-66-2758 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2759        TCGA-66-2763        TCGA-66-2765        TCGA-66-2766 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2767        TCGA-66-2768        TCGA-66-2769        TCGA-66-2770 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2771        TCGA-66-2773        TCGA-66-2777        TCGA-66-2778 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2780        TCGA-66-2781        TCGA-66-2782        TCGA-66-2783 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2785        TCGA-66-2786        TCGA-66-2787        TCGA-66-2788 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2789        TCGA-66-2790        TCGA-66-2791        TCGA-66-2792 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2793        TCGA-66-2794        TCGA-66-2795        TCGA-66-2800 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
D43V2, multiclass
[1] "Remove cluster labels:" "2P LOSS MUTATED"       
clus
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
                2               152 
       TCGA-18-3406        TCGA-18-3407        TCGA-18-3408        TCGA-18-3409 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-18-3410        TCGA-18-3411        TCGA-18-3412        TCGA-18-3414 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-18-3415        TCGA-18-3416        TCGA-18-3417        TCGA-18-3419 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-18-3421        TCGA-18-4083        TCGA-18-4086        TCGA-21-1070 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-21-1071        TCGA-21-1072        TCGA-21-1075        TCGA-21-1076 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-21-1077        TCGA-21-1078        TCGA-21-1079        TCGA-21-1080 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-21-1081        TCGA-21-1083        TCGA-22-0940        TCGA-22-0944 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-22-1000        TCGA-22-1002        TCGA-22-1005        TCGA-22-1011 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-22-1012        TCGA-22-1016        TCGA-22-1017        TCGA-22-4591 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-22-4594        TCGA-22-4595        TCGA-22-4596        TCGA-22-4599 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-22-4601        TCGA-22-4604        TCGA-22-4607        TCGA-22-4613 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-33-4532        TCGA-33-4533        TCGA-33-4538        TCGA-33-4547 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-33-4566        TCGA-33-4582        TCGA-33-4589        TCGA-34-2596 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-34-2600        TCGA-34-2604        TCGA-34-2605        TCGA-34-2608 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-34-2609        TCGA-34-5240        TCGA-34-5241        TCGA-37-3783 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-37-3789        TCGA-37-3792        TCGA-37-4129        TCGA-37-4130 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-37-4132        TCGA-37-4133        TCGA-37-4135        TCGA-37-4141 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-39-5011        TCGA-39-5016        TCGA-39-5021        TCGA-39-5029 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-39-5030        TCGA-39-5034        TCGA-39-5035        TCGA-39-5036 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-39-5037        TCGA-43-2576        TCGA-43-2578        TCGA-43-2581 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-43-3394        TCGA-43-3920        TCGA-46-3765        TCGA-46-3766 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-46-3767        TCGA-46-3768        TCGA-46-3769        TCGA-51-4079 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-51-4080        TCGA-51-4081        TCGA-60-2695        TCGA-60-2696 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-60-2698        TCGA-60-2706        TCGA-60-2707        TCGA-60-2708 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-60-2710        TCGA-60-2711        TCGA-60-2712        TCGA-60-2713 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-60-2714        TCGA-60-2715        TCGA-60-2716        TCGA-60-2719 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-60-2720        TCGA-60-2721        TCGA-60-2722        TCGA-60-2723 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-60-2724        TCGA-60-2725        TCGA-60-2726        TCGA-63-5128 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-63-5131        TCGA-66-2727        TCGA-66-2734        TCGA-66-2737 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2742        TCGA-66-2744        TCGA-66-2753        TCGA-66-2754 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2755        TCGA-66-2756        TCGA-66-2757        TCGA-66-2758 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2759        TCGA-66-2763        TCGA-66-2765        TCGA-66-2766 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2767        TCGA-66-2768        TCGA-66-2769        TCGA-66-2770 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2771        TCGA-66-2773        TCGA-66-2777        TCGA-66-2778 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2780        TCGA-66-2781        TCGA-66-2782        TCGA-66-2783 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2785        TCGA-66-2786        TCGA-66-2787        TCGA-66-2788 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2789        TCGA-66-2790        TCGA-66-2791        TCGA-66-2792 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2793        TCGA-66-2794        TCGA-66-2795        TCGA-66-2800 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
D43V3, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               0               143
  CLUS_2               1               128
  CLUS_3               3               122
D43V4, multiclass
[1] "Remove cluster labels:" "2P LOSS MUTATED"       
clus
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
                2               248 
       TCGA-18-3417        TCGA-18-4721        TCGA-18-5592        TCGA-18-5595 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-21-5782        TCGA-21-5783        TCGA-21-5784        TCGA-21-5786 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-21-5787        TCGA-22-4593        TCGA-22-4599        TCGA-22-4601 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-22-4605        TCGA-22-4609        TCGA-22-4613        TCGA-22-5471 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-22-5472        TCGA-22-5473        TCGA-22-5474        TCGA-22-5477 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-22-5478        TCGA-22-5479        TCGA-22-5480        TCGA-22-5481 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-22-5482        TCGA-22-5483        TCGA-22-5485        TCGA-22-5489 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-22-5491        TCGA-22-5492        TCGA-33-4566        TCGA-33-4582 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-33-4583        TCGA-33-4586        TCGA-33-4587        TCGA-33-4589 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-33-6737        TCGA-33-6738        TCGA-34-5231        TCGA-34-5232 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-34-5234        TCGA-34-5236        TCGA-34-5239        TCGA-34-5240 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-34-5241        TCGA-34-5927        TCGA-34-5928        TCGA-34-5929 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-34-7107        TCGA-34-8454        TCGA-34-8455        TCGA-34-8456 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-37-5819        TCGA-39-5011        TCGA-39-5016        TCGA-39-5019 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-39-5021        TCGA-39-5022        TCGA-39-5024        TCGA-39-5027 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-39-5028        TCGA-39-5029        TCGA-39-5030        TCGA-39-5031 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-39-5034        TCGA-39-5035        TCGA-39-5036        TCGA-39-5037 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-39-5039        TCGA-39-5040        TCGA-43-5668        TCGA-43-5670 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-43-6143        TCGA-43-6647        TCGA-43-6770        TCGA-43-6771 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-43-6773        TCGA-43-7656        TCGA-43-7657        TCGA-43-7658 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-43-8115        TCGA-43-8116        TCGA-43-8118        TCGA-46-6025 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-46-6026        TCGA-52-7622        TCGA-52-7809        TCGA-52-7810 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-52-7811        TCGA-52-7812        TCGA-56-5897        TCGA-56-5898 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-56-6545        TCGA-56-6546        TCGA-56-7221        TCGA-56-7222 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-56-7223        TCGA-56-7579        TCGA-56-7580        TCGA-56-7582 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-56-7730        TCGA-56-7731        TCGA-56-7822        TCGA-56-8082 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-56-8083        TCGA-56-8201        TCGA-56-8304        TCGA-56-8305 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-56-8307        TCGA-56-8308        TCGA-56-8309        TCGA-56-8503 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-56-8504        TCGA-56-8622        TCGA-56-8623        TCGA-56-8624 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-56-8625        TCGA-56-8626        TCGA-56-8628        TCGA-56-8629 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-58-8386        TCGA-58-8387        TCGA-58-8388        TCGA-58-8390 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-58-8391        TCGA-58-8392        TCGA-58-8393        TCGA-60-2697 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-60-2703        TCGA-60-2704        TCGA-60-2709        TCGA-63-5128 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-63-5131        TCGA-63-6202        TCGA-63-7020        TCGA-63-7021 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-63-7022        TCGA-63-7023        TCGA-68-7755        TCGA-68-7756 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-68-7757        TCGA-68-8250        TCGA-68-8251        TCGA-70-6722 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-70-6723        TCGA-77-6842        TCGA-77-6843        TCGA-77-6844 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-77-6845        TCGA-77-7138        TCGA-77-7139        TCGA-77-7140 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-77-7141        TCGA-77-7142        TCGA-77-7335        TCGA-77-7337 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-77-7338        TCGA-77-7463        TCGA-77-7465        TCGA-77-8007 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-77-8008        TCGA-77-8009        TCGA-77-8128        TCGA-77-8130 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-77-8131        TCGA-77-8133        TCGA-77-8136        TCGA-77-8138 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-77-8139        TCGA-77-8140        TCGA-77-8143        TCGA-77-8144 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-77-8145        TCGA-77-8148        TCGA-77-8150        TCGA-77-8153 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-77-8154        TCGA-77-8156        TCGA-79-5596        TCGA-85-6175 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-85-6560        TCGA-85-6561        TCGA-85-6798        TCGA-85-7696 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-85-7697        TCGA-85-7698        TCGA-85-7699        TCGA-85-7710 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-85-7843        TCGA-85-7844        TCGA-85-7950        TCGA-85-8048 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-85-8049        TCGA-85-8052        TCGA-85-8070        TCGA-85-8071 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-85-8072        TCGA-85-8276        TCGA-85-8277        TCGA-85-8287 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-85-8288        TCGA-85-8350        TCGA-85-8351        TCGA-85-8353 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-85-8354        TCGA-85-8355        TCGA-85-8479        TCGA-85-8481 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-85-8580        TCGA-85-8582        TCGA-85-8584        TCGA-85-8664 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-85-8666        TCGA-85-A4JC        TCGA-85-A4PA        TCGA-85-A4QR 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-90-6837        TCGA-90-7766        TCGA-90-7767        TCGA-90-7769 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-90-7964        TCGA-90-A4ED        TCGA-90-A4EE        TCGA-92-7340 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-92-7341        TCGA-92-8063        TCGA-92-8064        TCGA-92-8065 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-94-7033        TCGA-94-7557        TCGA-94-7943        TCGA-94-8035 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-94-8490        TCGA-94-8491        TCGA-94-A4VJ        TCGA-96-7544 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-96-7545        TCGA-96-8169        TCGA-96-8170        TCGA-96-A4JK 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-96-A4JL        TCGA-98-7454        TCGA-98-8020        TCGA-98-8021 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-98-8022        TCGA-98-8023        TCGA-L3-A4E7        TCGA-LA-A446 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
D43V5, multiclass
[1] "Remove cluster labels:" "2P LOSS MUTATED"       
clus
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
                1               193 
       TCGA-18-4721        TCGA-18-5592        TCGA-18-5595        TCGA-21-1070 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-21-1071        TCGA-21-1072        TCGA-21-1075        TCGA-21-1076 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-21-1078        TCGA-21-1079        TCGA-21-1080        TCGA-21-1081 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-21-1083        TCGA-21-5782        TCGA-21-5784        TCGA-21-5786 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-21-5787        TCGA-22-0940        TCGA-22-1000        TCGA-22-1011 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-22-4591        TCGA-22-4596        TCGA-22-4605        TCGA-22-4607 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-22-4609        TCGA-22-5471        TCGA-22-5472        TCGA-22-5473 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-22-5474        TCGA-22-5477        TCGA-22-5478        TCGA-22-5479 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-22-5480        TCGA-22-5482        TCGA-22-5483        TCGA-22-5485 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-22-5489        TCGA-22-5491        TCGA-22-5492        TCGA-33-4532 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-33-4547        TCGA-33-4566        TCGA-33-4582        TCGA-33-4586 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-33-4589        TCGA-33-6737        TCGA-33-6738        TCGA-34-2596 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-34-2604        TCGA-34-2605        TCGA-34-2608        TCGA-34-2609 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-34-5231        TCGA-34-5232        TCGA-34-5234        TCGA-34-5236 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-34-5239        TCGA-34-5241        TCGA-34-5927        TCGA-34-5928 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-34-5929        TCGA-34-7107        TCGA-37-3789        TCGA-37-3792 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-37-4129        TCGA-37-4133        TCGA-37-4135        TCGA-37-4141 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-37-5819        TCGA-39-5011        TCGA-39-5016        TCGA-39-5019 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-39-5021        TCGA-39-5022        TCGA-39-5024        TCGA-39-5027 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-39-5028        TCGA-39-5029        TCGA-39-5030        TCGA-39-5031 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-39-5034        TCGA-39-5035        TCGA-39-5037        TCGA-39-5040 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-43-2578        TCGA-43-2581        TCGA-43-3394        TCGA-43-5668 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-43-5670        TCGA-43-6143        TCGA-43-6770        TCGA-43-6771 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-43-7656        TCGA-43-7658        TCGA-46-6025        TCGA-46-6026 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-52-7810        TCGA-52-7811        TCGA-52-7812        TCGA-56-5897 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-56-5898        TCGA-56-6545        TCGA-56-6546        TCGA-56-7221 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-56-7222        TCGA-56-7730        TCGA-60-2695        TCGA-60-2696 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-60-2697        TCGA-60-2698        TCGA-60-2703        TCGA-60-2704 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-60-2706        TCGA-60-2708        TCGA-60-2709        TCGA-60-2710 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-60-2711        TCGA-60-2712        TCGA-60-2713        TCGA-60-2714 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-60-2716        TCGA-60-2719        TCGA-60-2720        TCGA-60-2721 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-60-2724        TCGA-60-2725        TCGA-60-2726        TCGA-63-5128 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-63-5131        TCGA-63-6202        TCGA-63-7020        TCGA-63-7021 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-63-7022        TCGA-63-7023        TCGA-66-2727        TCGA-66-2737 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2758        TCGA-66-2766        TCGA-66-2767        TCGA-66-2768 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2769        TCGA-66-2770        TCGA-66-2773        TCGA-66-2777 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2778        TCGA-66-2781        TCGA-66-2782        TCGA-66-2783 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2785        TCGA-66-2788        TCGA-66-2790        TCGA-66-2791 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2794        TCGA-66-2795        TCGA-66-2800        TCGA-68-7756 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-70-6722        TCGA-70-6723        TCGA-77-6842        TCGA-77-6843 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-77-6844        TCGA-77-6845        TCGA-77-7139        TCGA-77-7141 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-77-7142        TCGA-77-7335        TCGA-77-7337        TCGA-77-7338 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-77-7463        TCGA-77-7465        TCGA-79-5596        TCGA-85-6175 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-85-6560        TCGA-85-6561        TCGA-85-6798        TCGA-85-7696 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-85-7697        TCGA-85-7698        TCGA-85-7699        TCGA-85-7710 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-85-7843        TCGA-85-7844        TCGA-85-7950        TCGA-90-6837 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-90-7766        TCGA-90-7767        TCGA-90-7769        TCGA-92-7340 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-94-7033        TCGA-94-7557        TCGA-94-7943        TCGA-96-7544 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-98-7454 
"2P LOSS WILD-TYPE" 
D43V6, multiclass
[1] "Remove cluster labels:" "2P LOSS MUTATED"       
clus
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
                1               193 
       TCGA-18-4721        TCGA-18-5592        TCGA-18-5595        TCGA-21-1070 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-21-1071        TCGA-21-1072        TCGA-21-1075        TCGA-21-1076 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-21-1078        TCGA-21-1079        TCGA-21-1080        TCGA-21-1081 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-21-1083        TCGA-21-5782        TCGA-21-5784        TCGA-21-5786 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-21-5787        TCGA-22-0940        TCGA-22-1000        TCGA-22-1011 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-22-4591        TCGA-22-4596        TCGA-22-4605        TCGA-22-4607 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-22-4609        TCGA-22-5471        TCGA-22-5472        TCGA-22-5473 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-22-5474        TCGA-22-5477        TCGA-22-5478        TCGA-22-5479 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-22-5480        TCGA-22-5482        TCGA-22-5483        TCGA-22-5485 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-22-5489        TCGA-22-5491        TCGA-22-5492        TCGA-33-4532 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-33-4547        TCGA-33-4566        TCGA-33-4582        TCGA-33-4586 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-33-4589        TCGA-33-6737        TCGA-33-6738        TCGA-34-2596 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-34-2604        TCGA-34-2605        TCGA-34-2608        TCGA-34-2609 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-34-5231        TCGA-34-5232        TCGA-34-5234        TCGA-34-5236 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-34-5239        TCGA-34-5241        TCGA-34-5927        TCGA-34-5928 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-34-5929        TCGA-34-7107        TCGA-37-3789        TCGA-37-3792 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-37-4129        TCGA-37-4133        TCGA-37-4135        TCGA-37-4141 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-37-5819        TCGA-39-5011        TCGA-39-5016        TCGA-39-5019 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-39-5021        TCGA-39-5022        TCGA-39-5024        TCGA-39-5027 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-39-5028        TCGA-39-5029        TCGA-39-5030        TCGA-39-5031 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-39-5034        TCGA-39-5035        TCGA-39-5037        TCGA-39-5040 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-43-2578        TCGA-43-2581        TCGA-43-3394        TCGA-43-5668 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-43-5670        TCGA-43-6143        TCGA-43-6770        TCGA-43-6771 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-43-7656        TCGA-43-7658        TCGA-46-6025        TCGA-46-6026 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-52-7810        TCGA-52-7811        TCGA-52-7812        TCGA-56-5897 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-56-5898        TCGA-56-6545        TCGA-56-6546        TCGA-56-7221 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-56-7222        TCGA-56-7730        TCGA-60-2695        TCGA-60-2696 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-60-2697        TCGA-60-2698        TCGA-60-2703        TCGA-60-2704 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-60-2706        TCGA-60-2708        TCGA-60-2709        TCGA-60-2710 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-60-2711        TCGA-60-2712        TCGA-60-2713        TCGA-60-2714 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-60-2716        TCGA-60-2719        TCGA-60-2720        TCGA-60-2721 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-60-2724        TCGA-60-2725        TCGA-60-2726        TCGA-63-5128 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-63-5131        TCGA-63-6202        TCGA-63-7020        TCGA-63-7021 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-63-7022        TCGA-63-7023        TCGA-66-2727        TCGA-66-2737 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2758        TCGA-66-2766        TCGA-66-2767        TCGA-66-2768 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2769        TCGA-66-2770        TCGA-66-2773        TCGA-66-2777 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2778        TCGA-66-2781        TCGA-66-2782        TCGA-66-2783 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2785        TCGA-66-2788        TCGA-66-2790        TCGA-66-2791 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2794        TCGA-66-2795        TCGA-66-2800        TCGA-68-7756 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-70-6722        TCGA-70-6723        TCGA-77-6842        TCGA-77-6843 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-77-6844        TCGA-77-6845        TCGA-77-7139        TCGA-77-7141 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-77-7142        TCGA-77-7335        TCGA-77-7337        TCGA-77-7338 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-77-7463        TCGA-77-7465        TCGA-79-5596        TCGA-85-6175 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-85-6560        TCGA-85-6561        TCGA-85-6798        TCGA-85-7696 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-85-7697        TCGA-85-7698        TCGA-85-7699        TCGA-85-7710 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-85-7843        TCGA-85-7844        TCGA-85-7950        TCGA-90-6837 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-90-7766        TCGA-90-7767        TCGA-90-7769        TCGA-92-7340 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-94-7033        TCGA-94-7557        TCGA-94-7943        TCGA-96-7544 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-98-7454 
"2P LOSS WILD-TYPE" 
D43V7, multiclass
[1] "Remove cluster labels:" "2P LOSS MUTATED"       
clus
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
                2               255 
       TCGA-18-3406        TCGA-18-3407        TCGA-18-3408        TCGA-18-3409 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-18-3410        TCGA-18-3411        TCGA-18-3412        TCGA-18-3414 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-18-3415        TCGA-18-3416        TCGA-18-3417        TCGA-18-3419 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-18-3421        TCGA-18-4083        TCGA-18-4086        TCGA-18-4721 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-18-5592        TCGA-18-5595        TCGA-21-1070        TCGA-21-1071 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-21-1072        TCGA-21-1075        TCGA-21-1076        TCGA-21-1077 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-21-1078        TCGA-21-1079        TCGA-21-1080        TCGA-21-1081 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-21-1083        TCGA-21-5782        TCGA-21-5783        TCGA-21-5784 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-21-5786        TCGA-21-5787        TCGA-22-0940        TCGA-22-0944 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-22-1002        TCGA-22-1011        TCGA-22-1012        TCGA-22-1016 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-22-1017        TCGA-22-4591        TCGA-22-4593        TCGA-22-4594 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-22-4595        TCGA-22-4596        TCGA-22-4599        TCGA-22-4601 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-22-4604        TCGA-22-4605        TCGA-22-4607        TCGA-22-4613 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-22-5471        TCGA-22-5472        TCGA-22-5473        TCGA-22-5474 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-22-5477        TCGA-22-5478        TCGA-22-5479        TCGA-22-5480 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-22-5481        TCGA-22-5482        TCGA-22-5483        TCGA-22-5485 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-22-5489        TCGA-22-5491        TCGA-22-5492        TCGA-33-4532 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-33-4533        TCGA-33-4538        TCGA-33-4547        TCGA-33-4566 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-33-4582        TCGA-33-4583        TCGA-33-4586        TCGA-33-4587 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-33-6737        TCGA-33-6738        TCGA-34-2596        TCGA-34-2600 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-34-2608        TCGA-34-5231        TCGA-34-5232        TCGA-34-5234 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-34-5236        TCGA-34-5239        TCGA-34-5240        TCGA-34-5241 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-34-5927        TCGA-34-5928        TCGA-34-5929        TCGA-34-7107 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-37-3783        TCGA-37-3789        TCGA-37-3792        TCGA-37-4129 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-37-4130        TCGA-37-4132        TCGA-37-4133        TCGA-37-4135 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-37-4141        TCGA-37-5819        TCGA-39-5011        TCGA-39-5016 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-39-5019        TCGA-39-5021        TCGA-39-5024        TCGA-39-5027 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-39-5028        TCGA-39-5029        TCGA-39-5030        TCGA-39-5031 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-39-5034        TCGA-39-5035        TCGA-39-5036        TCGA-39-5037 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-39-5039        TCGA-43-2578        TCGA-43-2581        TCGA-43-3394 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-43-3920        TCGA-43-5668        TCGA-43-6143        TCGA-43-6647 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-43-6770        TCGA-43-6771        TCGA-43-7656        TCGA-46-3765 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-46-3766        TCGA-46-3767        TCGA-46-3768        TCGA-46-3769 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-46-6025        TCGA-46-6026        TCGA-51-4079        TCGA-51-4080 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-51-4081        TCGA-56-5897        TCGA-56-5898        TCGA-56-6545 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-56-6546        TCGA-56-7221        TCGA-56-7222        TCGA-56-7223 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-56-7579        TCGA-56-7580        TCGA-56-7582        TCGA-56-7822 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-60-2695        TCGA-60-2696        TCGA-60-2698        TCGA-60-2703 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-60-2704        TCGA-60-2706        TCGA-60-2707        TCGA-60-2708 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-60-2709        TCGA-60-2710        TCGA-60-2711        TCGA-60-2712 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-60-2713        TCGA-60-2714        TCGA-60-2715        TCGA-60-2716 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-60-2719        TCGA-60-2720        TCGA-60-2721        TCGA-60-2722 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-60-2723        TCGA-60-2724        TCGA-60-2725        TCGA-60-2726 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-63-5128        TCGA-63-5131        TCGA-63-6202        TCGA-63-7020 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-63-7021        TCGA-63-7022        TCGA-63-7023        TCGA-66-2727 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2734        TCGA-66-2737        TCGA-66-2742        TCGA-66-2744 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2753        TCGA-66-2754        TCGA-66-2755        TCGA-66-2756 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2757        TCGA-66-2758        TCGA-66-2759        TCGA-66-2763 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2765        TCGA-66-2766        TCGA-66-2767        TCGA-66-2768 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2769        TCGA-66-2770        TCGA-66-2771        TCGA-66-2773 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2777        TCGA-66-2778        TCGA-66-2780        TCGA-66-2781 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2782        TCGA-66-2783        TCGA-66-2785        TCGA-66-2786 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2787        TCGA-66-2788        TCGA-66-2789        TCGA-66-2790 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2791        TCGA-66-2792        TCGA-66-2793        TCGA-66-2794 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2795        TCGA-66-2800        TCGA-70-6722        TCGA-70-6723 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-77-6842        TCGA-77-6843        TCGA-77-6844        TCGA-77-6845 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-77-7138        TCGA-77-7139        TCGA-77-7140        TCGA-77-7141 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-77-7142        TCGA-77-7335        TCGA-77-7337        TCGA-77-7338 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-77-7463        TCGA-77-7465        TCGA-77-8007        TCGA-77-8008 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-77-8009        TCGA-79-5596        TCGA-85-6175        TCGA-85-6560 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-85-6561        TCGA-85-6798        TCGA-85-7710        TCGA-85-7844 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-85-7950        TCGA-90-6837        TCGA-90-7964        TCGA-92-7340 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-92-7341        TCGA-94-7033        TCGA-94-7557        TCGA-94-7943 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-96-7544        TCGA-96-7545        TCGA-98-7454 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
D43V8, multiclass
[1] "Remove cluster labels:" "2P LOSS MUTATED"       
clus
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
                2               255 
       TCGA-18-3406        TCGA-18-3407        TCGA-18-3408        TCGA-18-3409 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-18-3410        TCGA-18-3411        TCGA-18-3412        TCGA-18-3414 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-18-3415        TCGA-18-3416        TCGA-18-3417        TCGA-18-3419 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-18-3421        TCGA-18-4083        TCGA-18-4086        TCGA-18-4721 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-18-5592        TCGA-18-5595        TCGA-21-1070        TCGA-21-1071 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-21-1072        TCGA-21-1075        TCGA-21-1076        TCGA-21-1077 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-21-1078        TCGA-21-1079        TCGA-21-1080        TCGA-21-1081 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-21-1083        TCGA-21-5782        TCGA-21-5783        TCGA-21-5784 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-21-5786        TCGA-21-5787        TCGA-22-0940        TCGA-22-0944 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-22-1002        TCGA-22-1011        TCGA-22-1012        TCGA-22-1016 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-22-1017        TCGA-22-4591        TCGA-22-4593        TCGA-22-4594 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-22-4595        TCGA-22-4596        TCGA-22-4599        TCGA-22-4601 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-22-4604        TCGA-22-4605        TCGA-22-4607        TCGA-22-4613 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-22-5471        TCGA-22-5472        TCGA-22-5473        TCGA-22-5474 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-22-5477        TCGA-22-5478        TCGA-22-5479        TCGA-22-5480 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-22-5481        TCGA-22-5482        TCGA-22-5483        TCGA-22-5485 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-22-5489        TCGA-22-5491        TCGA-22-5492        TCGA-33-4532 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-33-4533        TCGA-33-4538        TCGA-33-4547        TCGA-33-4566 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-33-4582        TCGA-33-4583        TCGA-33-4586        TCGA-33-4587 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-33-6737        TCGA-33-6738        TCGA-34-2596        TCGA-34-2600 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-34-2608        TCGA-34-5231        TCGA-34-5232        TCGA-34-5234 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-34-5236        TCGA-34-5239        TCGA-34-5240        TCGA-34-5241 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-34-5927        TCGA-34-5928        TCGA-34-5929        TCGA-34-7107 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-37-3783        TCGA-37-3789        TCGA-37-3792        TCGA-37-4129 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-37-4130        TCGA-37-4132        TCGA-37-4133        TCGA-37-4135 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-37-4141        TCGA-37-5819        TCGA-39-5011        TCGA-39-5016 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-39-5019        TCGA-39-5021        TCGA-39-5024        TCGA-39-5027 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-39-5028        TCGA-39-5029        TCGA-39-5030        TCGA-39-5031 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-39-5034        TCGA-39-5035        TCGA-39-5036        TCGA-39-5037 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-39-5039        TCGA-43-2578        TCGA-43-2581        TCGA-43-3394 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-43-3920        TCGA-43-5668        TCGA-43-6143        TCGA-43-6647 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-43-6770        TCGA-43-6771        TCGA-43-7656        TCGA-46-3765 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-46-3766        TCGA-46-3767        TCGA-46-3768        TCGA-46-3769 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-46-6025        TCGA-46-6026        TCGA-51-4079        TCGA-51-4080 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-51-4081        TCGA-56-5897        TCGA-56-5898        TCGA-56-6545 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-56-6546        TCGA-56-7221        TCGA-56-7222        TCGA-56-7223 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-56-7579        TCGA-56-7580        TCGA-56-7582        TCGA-56-7822 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-60-2695        TCGA-60-2696        TCGA-60-2698        TCGA-60-2703 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-60-2704        TCGA-60-2706        TCGA-60-2707        TCGA-60-2708 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-60-2709        TCGA-60-2710        TCGA-60-2711        TCGA-60-2712 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-60-2713        TCGA-60-2714        TCGA-60-2715        TCGA-60-2716 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-60-2719        TCGA-60-2720        TCGA-60-2721        TCGA-60-2722 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-60-2723        TCGA-60-2724        TCGA-60-2725        TCGA-60-2726 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-63-5128        TCGA-63-5131        TCGA-63-6202        TCGA-63-7020 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-63-7021        TCGA-63-7022        TCGA-63-7023        TCGA-66-2727 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2734        TCGA-66-2737        TCGA-66-2742        TCGA-66-2744 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2753        TCGA-66-2754        TCGA-66-2755        TCGA-66-2756 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2757        TCGA-66-2758        TCGA-66-2759        TCGA-66-2763 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2765        TCGA-66-2766        TCGA-66-2767        TCGA-66-2768 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2769        TCGA-66-2770        TCGA-66-2771        TCGA-66-2773 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2777        TCGA-66-2778        TCGA-66-2780        TCGA-66-2781 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2782        TCGA-66-2783        TCGA-66-2785        TCGA-66-2786 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2787        TCGA-66-2788        TCGA-66-2789        TCGA-66-2790 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2791        TCGA-66-2792        TCGA-66-2793        TCGA-66-2794 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-66-2795        TCGA-66-2800        TCGA-70-6722        TCGA-70-6723 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-77-6842        TCGA-77-6843        TCGA-77-6844        TCGA-77-6845 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-77-7138        TCGA-77-7139        TCGA-77-7140        TCGA-77-7141 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-77-7142        TCGA-77-7335        TCGA-77-7337        TCGA-77-7338 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-77-7463        TCGA-77-7465        TCGA-77-8007        TCGA-77-8008 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-77-8009        TCGA-79-5596        TCGA-85-6175        TCGA-85-6560 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-85-6561        TCGA-85-6798        TCGA-85-7710        TCGA-85-7844 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-85-7950        TCGA-90-6837        TCGA-90-7964        TCGA-92-7340 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-92-7341        TCGA-94-7033        TCGA-94-7557        TCGA-94-7943 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-96-7544        TCGA-96-7545        TCGA-98-7454 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
D43V9, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               1               142
  CLUS_2               1               164
  CLUS_3               1                38
D43V10, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               1                52
  CLUS_2               1               175
  CLUS_3               1               117

Clustering(44) Variable = 2q loss mutation analysis
D44V1, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               2                41
  CLUS_2               1                49
  CLUS_3               0                30
  CLUS_4               2                29
D44V2, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               1                27
  CLUS_2               2                52
  CLUS_3               2                70
D44V3, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               0               143
  CLUS_2               5               124
  CLUS_3               6               119
D44V4, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               1                97
  CLUS_2               1                82
  CLUS_3               4                65
D44V5, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               2                58
  CLUS_2               1                72
  CLUS_3               2                59
D44V6, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               3                55
  CLUS_2               1                46
  CLUS_3               1                48
  CLUS_4               0                40
D44V7, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               2                58
  CLUS_2               1                79
  CLUS_3               3                76
  CLUS_4               0                38
D44V8, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               2               114
  CLUS_2               2                84
  CLUS_3               2                53
D44V9, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               5               138
  CLUS_2               3               162
  CLUS_3               1                38
D44V10, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               2                51
  CLUS_2               5               171
  CLUS_3               2               116

Clustering(45) Variable = 3p loss mutation analysis
D45V1, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              21                22
  CLUS_2              24                26
  CLUS_3               6                24
  CLUS_4              13                18
D45V2, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              10                18
  CLUS_2              26                28
  CLUS_3              28                44
D45V3, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              35               108
  CLUS_2              63                66
  CLUS_3              63                62
D45V4, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              23                75
  CLUS_2              41                42
  CLUS_3              36                33
D45V5, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              27                33
  CLUS_2              30                43
  CLUS_3              21                40
D45V6, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              29                29
  CLUS_2              19                28
  CLUS_3              17                32
  CLUS_4              13                27
D45V7, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              26                34
  CLUS_2              40                40
  CLUS_3              32                47
  CLUS_4              14                24
D45V8, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              39                77
  CLUS_2              43                43
  CLUS_3              30                25
D45V9, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              61                82
  CLUS_2              66                99
  CLUS_3              17                22
D45V10, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              30                23
  CLUS_2              72               104
  CLUS_3              42                76

Clustering(46) Variable = 3q loss mutation analysis
D46V1, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               1                42
  CLUS_2               6                44
  CLUS_3               4                26
  CLUS_4               3                28
D46V2, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               3                25
  CLUS_2               6                48
  CLUS_3               5                67
D46V3, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               4               139
  CLUS_2              13               116
  CLUS_3               9               116
D46V4, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               2                96
  CLUS_2               7                76
  CLUS_3               2                67
D46V5, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               3                57
  CLUS_2               6                67
  CLUS_3               3                58
D46V6, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               4                54
  CLUS_2               3                44
  CLUS_3               3                46
  CLUS_4               2                38
D46V7, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               2                58
  CLUS_2               8                72
  CLUS_3               7                72
  CLUS_4               3                35
D46V8, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               5               111
  CLUS_2              10                76
  CLUS_3               5                50
D46V9, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1              12               131
  CLUS_2               9               156
  CLUS_3               2                37
D46V10, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               4                49
  CLUS_2              12               164
  CLUS_3               7               111

Clustering(47) Variable = 4p loss mutation analysis
D47V1, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              21                22
  CLUS_2              27                23
  CLUS_3               9                21
  CLUS_4              12                19
D47V2, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              11                17
  CLUS_2              32                22
  CLUS_3              26                46
D47V3, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              35               108
  CLUS_2              81                48
  CLUS_3              48                77
D47V4, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              17                81
  CLUS_2              46                37
  CLUS_3              34                35
D47V5, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              34                26
  CLUS_2              26                47
  CLUS_3              28                33
D47V6, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              29                29
  CLUS_2              25                22
  CLUS_3              19                30
  CLUS_4              15                25
D47V7, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              23                37
  CLUS_2              41                39
  CLUS_3              31                48
  CLUS_4              15                23
D47V8, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              39                77
  CLUS_2              43                43
  CLUS_3              28                27
D47V9, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              67                76
  CLUS_2              60               105
  CLUS_3              16                23
D47V10, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              24                29
  CLUS_2              65               111
  CLUS_3              54                64

Clustering(48) Variable = 4q loss mutation analysis
D48V1, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1              13                30
  CLUS_2              27                23
  CLUS_3               6                24
  CLUS_4              15                16
D48V2, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1              12                16
  CLUS_2              31                23
  CLUS_3              18                54
D48V3, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1              28               115
  CLUS_2              76                53
  CLUS_3              39                86
D48V4, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1              15                83
  CLUS_2              40                43
  CLUS_3              29                40
D48V5, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1              32                28
  CLUS_2              20                53
  CLUS_3              22                39
D48V6, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1              28                30
  CLUS_2              20                27
  CLUS_3              14                35
  CLUS_4              12                28
D48V7, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1              15                45
  CLUS_2              42                38
  CLUS_3              28                51
  CLUS_4              13                25
D48V8, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1              31                85
  CLUS_2              41                45
  CLUS_3              26                29
D48V9, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1              61                82
  CLUS_2              50               115
  CLUS_3              13                26
D48V10, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1              24                29
  CLUS_2              48               128
  CLUS_3              52                66

Clustering(49) Variable = 5p loss mutation analysis
D49V1, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               1                42
  CLUS_2               4                46
  CLUS_3               0                30
  CLUS_4               4                27
D49V2, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               2                26
  CLUS_2               5                49
  CLUS_3               2                70
D49V3, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               3               140
  CLUS_2              10               119
  CLUS_3              11               114
D49V4, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               3                95
  CLUS_2               4                79
  CLUS_3               7                62
D49V5, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               7                53
  CLUS_2               3                70
  CLUS_3               3                58
D49V6, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               3                55
  CLUS_2               6                41
  CLUS_3               1                48
  CLUS_4               3                37
D49V7, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               3                57
  CLUS_2               5                75
  CLUS_3               4                75
  CLUS_4               4                34
D49V8, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               5               111
  CLUS_2               5                81
  CLUS_3               6                49
D49V9, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               9               134
  CLUS_2              10               155
  CLUS_3               2                37
D49V10, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               4                49
  CLUS_2              11               165
  CLUS_3               6               112

Clustering(50) Variable = 5q loss mutation analysis
D50V1, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1              16                27
  CLUS_2              20                30
  CLUS_3               6                24
  CLUS_4              13                18
D50V2, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1              10                18
  CLUS_2              24                30
  CLUS_3              21                51
D50V3, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1              24               119
  CLUS_2              62                67
  CLUS_3              60                65
D50V4, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1              15                83
  CLUS_2              35                48
  CLUS_3              41                28
D50V5, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1              26                34
  CLUS_2              18                55
  CLUS_3              24                37
D50V6, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1              19                39
  CLUS_2              21                26
  CLUS_3              11                38
  CLUS_4              17                23
D50V7, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1              21                39
  CLUS_2              35                45
  CLUS_3              23                56
  CLUS_4              12                26
D50V8, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1              35                81
  CLUS_2              33                53
  CLUS_3              23                32
D50V9, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1              50                93
  CLUS_2              61               104
  CLUS_3              18                21
D50V10, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1              24                29
  CLUS_2              56               120
  CLUS_3              49                69

Clustering(51) Variable = 6p loss mutation analysis
D51V1, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               1                42
  CLUS_2               8                42
  CLUS_3               1                29
  CLUS_4               2                29
D51V2, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               1                27
  CLUS_2               9                45
  CLUS_3               2                70
D51V3, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               5               138
  CLUS_2              23               106
  CLUS_3               7               118
D51V4, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               4                94
  CLUS_2              15                68
  CLUS_3               6                63
D51V5, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               9                51
  CLUS_2               6                67
  CLUS_3               2                59
D51V6, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1              10                48
  CLUS_2               1                46
  CLUS_3               2                47
  CLUS_4               4                36
D51V7, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               3                57
  CLUS_2              17                63
  CLUS_3               6                73
  CLUS_4               1                37
D51V8, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               6               110
  CLUS_2              16                70
  CLUS_3               5                50
D51V9, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1              11               132
  CLUS_2              12               153
  CLUS_3               5                34
D51V10, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               7                46
  CLUS_2              12               164
  CLUS_3               9               109

Clustering(52) Variable = 6q loss mutation analysis
D52V1, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               3                40
  CLUS_2               9                41
  CLUS_3               1                29
  CLUS_4               2                29
D52V2, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               2                26
  CLUS_2              10                44
  CLUS_3               3                69
D52V3, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               8               135
  CLUS_2              21               108
  CLUS_3              11               114
D52V4, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               6                92
  CLUS_2              14                69
  CLUS_3               9                60
D52V5, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1              11                49
  CLUS_2               5                68
  CLUS_3               5                56
D52V6, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1              11                47
  CLUS_2               4                43
  CLUS_3               3                46
  CLUS_4               3                37
D52V7, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               5                55
  CLUS_2              15                65
  CLUS_3               6                73
  CLUS_4               2                36
D52V8, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               9               107
  CLUS_2              14                72
  CLUS_3               5                50
D52V9, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1              14               129
  CLUS_2              15               150
  CLUS_3               4                35
D52V10, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               5                48
  CLUS_2              19               157
  CLUS_3               9               109

Clustering(53) Variable = 7p loss mutation analysis
D53V1, multiclass
        clus
vv       7P LOSS MUTATED 7P LOSS WILD-TYPE
  CLUS_1               3                40
  CLUS_2               4                46
  CLUS_3               0                30
  CLUS_4               3                28
D53V2, multiclass
        clus
vv       7P LOSS MUTATED 7P LOSS WILD-TYPE
  CLUS_1               2                26
  CLUS_2               4                50
  CLUS_3               4                68
D53V3, multiclass
        clus
vv       7P LOSS MUTATED 7P LOSS WILD-TYPE
  CLUS_1               2               141
  CLUS_2               7               122
  CLUS_3              14               111
D53V4, multiclass
        clus
vv       7P LOSS MUTATED 7P LOSS WILD-TYPE
  CLUS_1               1                97
  CLUS_2               8                75
  CLUS_3               6                63
D53V5, multiclass
        clus
vv       7P LOSS MUTATED 7P LOSS WILD-TYPE
  CLUS_1               5                55
  CLUS_2               4                69
  CLUS_3               2                59
D53V6, multiclass
        clus
vv       7P LOSS MUTATED 7P LOSS WILD-TYPE
  CLUS_1               2                56
  CLUS_2               5                42
  CLUS_3               4                45
  CLUS_4               0                40
D53V7, multiclass
        clus
vv       7P LOSS MUTATED 7P LOSS WILD-TYPE
  CLUS_1               2                58
  CLUS_2               5                75
  CLUS_3               7                72
  CLUS_4               4                34
D53V8, multiclass
        clus
vv       7P LOSS MUTATED 7P LOSS WILD-TYPE
  CLUS_1               6               110
  CLUS_2               5                81
  CLUS_3               7                48
D53V9, multiclass
        clus
vv       7P LOSS MUTATED 7P LOSS WILD-TYPE
  CLUS_1              13               130
  CLUS_2               9               156
  CLUS_3               0                39
D53V10, multiclass
        clus
vv       7P LOSS MUTATED 7P LOSS WILD-TYPE
  CLUS_1               0                53
  CLUS_2              13               163
  CLUS_3               9               109

Clustering(54) Variable = 7q loss mutation analysis
D54V1, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1               3                40
  CLUS_2               1                49
  CLUS_3               0                30
  CLUS_4               1                30
D54V2, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1               1                27
  CLUS_2               1                53
  CLUS_3               3                69
D54V3, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1               3               140
  CLUS_2               2               127
  CLUS_3               8               117
D54V4, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1               1                97
  CLUS_2               4                79
  CLUS_3               2                67
D54V5, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1               2                58
  CLUS_2               2                71
  CLUS_3               2                59
D54V6, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1               2                56
  CLUS_2               2                45
  CLUS_3               2                47
  CLUS_4               0                40
D54V7, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1               2                58
  CLUS_2               0                80
  CLUS_3               5                74
  CLUS_4               2                36
D54V8, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1               3               113
  CLUS_2               1                85
  CLUS_3               5                50
D54V9, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1               6               137
  CLUS_2               4               161
  CLUS_3               0                39
D54V10, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1               0                53
  CLUS_2               7               169
  CLUS_3               3               115

Clustering(55) Variable = 8p loss mutation analysis
D55V1, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1              13                30
  CLUS_2              13                37
  CLUS_3               4                26
  CLUS_4               9                22
D55V2, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               9                19
  CLUS_2              14                40
  CLUS_3              16                56
D55V3, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1              23               120
  CLUS_2              34                95
  CLUS_3              60                65
D55V4, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1              16                82
  CLUS_2              31                52
  CLUS_3              27                42
D55V5, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1              22                38
  CLUS_2              21                52
  CLUS_3              12                49
D55V6, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1              18                40
  CLUS_2              11                36
  CLUS_3              15                34
  CLUS_4              11                29
D55V7, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1              18                42
  CLUS_2              25                55
  CLUS_3              22                57
  CLUS_4               7                31
D55V8, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1              31                85
  CLUS_2              26                60
  CLUS_3              15                40
D55V9, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1              43               100
  CLUS_2              50               115
  CLUS_3              10                29
D55V10, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1              13                40
  CLUS_2              51               125
  CLUS_3              39                79

Clustering(56) Variable = 8q loss mutation analysis
D56V1, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               0                43
  CLUS_2               1                49
  CLUS_3               0                30
  CLUS_4               2                29
D56V2, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               2                26
  CLUS_2               1                53
  CLUS_3               0                72
D56V3, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               1               142
  CLUS_2               3               126
  CLUS_3               8               117
D56V4, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               0                98
  CLUS_2               5                78
  CLUS_3               3                66
D56V5, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               5                55
  CLUS_2               1                72
  CLUS_3               1                60
D56V6, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               4                54
  CLUS_2               2                45
  CLUS_3               0                49
  CLUS_4               1                39
D56V7, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               0                60
  CLUS_2               2                78
  CLUS_3               4                75
  CLUS_4               0                38
D56V8, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               0               116
  CLUS_2               2                84
  CLUS_3               4                51
D56V9, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               3               140
  CLUS_2               5               160
  CLUS_3               3                36
D56V10, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               2                51
  CLUS_2               6               170
  CLUS_3               3               115

Clustering(57) Variable = 9p loss mutation analysis
D57V1, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1              25                18
  CLUS_2              21                29
  CLUS_3               9                21
  CLUS_4              13                18
D57V2, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1              11                17
  CLUS_2              23                31
  CLUS_3              34                38
D57V3, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1              28               115
  CLUS_2              49                80
  CLUS_3              87                38
D57V4, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1              20                78
  CLUS_2              34                49
  CLUS_3              45                24
D57V5, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1              25                35
  CLUS_2              30                43
  CLUS_3              26                35
D57V6, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1              21                37
  CLUS_2              24                23
  CLUS_3              20                29
  CLUS_4              16                24
D57V7, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1              26                34
  CLUS_2              33                47
  CLUS_3              31                48
  CLUS_4              17                21
D57V8, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1              47                69
  CLUS_2              33                53
  CLUS_3              27                28
D57V9, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1              62                81
  CLUS_2              67                98
  CLUS_3              14                25
D57V10, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1              21                32
  CLUS_2              71               105
  CLUS_3              51                67

Clustering(58) Variable = 9q loss mutation analysis
D58V1, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1              19                24
  CLUS_2               6                44
  CLUS_3               8                22
  CLUS_4              11                20
D58V2, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1              10                18
  CLUS_2               7                47
  CLUS_3              27                45
D58V3, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1              20               123
  CLUS_2              18               111
  CLUS_3              65                60
D58V4, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1              17                81
  CLUS_2              13                70
  CLUS_3              32                37
D58V5, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1              16                44
  CLUS_2              20                53
  CLUS_3              16                45
D58V6, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1              13                45
  CLUS_2              15                32
  CLUS_3              16                33
  CLUS_4               8                32
D58V7, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1              18                42
  CLUS_2               9                71
  CLUS_3              28                51
  CLUS_4              13                25
D58V8, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1              31                85
  CLUS_2              11                75
  CLUS_3              26                29
D58V9, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1              39               104
  CLUS_2              46               119
  CLUS_3               5                34
D58V10, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               7                46
  CLUS_2              49               127
  CLUS_3              34                84

Clustering(59) Variable = 10p loss mutation analysis
D59V1, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                8                 35
  CLUS_2               15                 35
  CLUS_3                2                 28
  CLUS_4                9                 22
D59V2, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                5                 23
  CLUS_2               17                 37
  CLUS_3               12                 60
D59V3, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                8                135
  CLUS_2               44                 85
  CLUS_3               35                 90
D59V4, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                8                 90
  CLUS_2               32                 51
  CLUS_3               15                 54
D59V5, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1               12                 48
  CLUS_2               14                 59
  CLUS_3               12                 49
D59V6, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1               10                 48
  CLUS_2               15                 32
  CLUS_3                7                 42
  CLUS_4                6                 34
D59V7, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                7                 53
  CLUS_2               29                 51
  CLUS_3               15                 64
  CLUS_4                6                 32
D59V8, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1               17                 99
  CLUS_2               28                 58
  CLUS_3               12                 43
D59V9, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1               28                115
  CLUS_2               34                131
  CLUS_3               14                 25
D59V10, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1               21                 32
  CLUS_2               25                151
  CLUS_3               30                 88

Clustering(60) Variable = 10q loss mutation analysis
D60V1, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1                6                 37
  CLUS_2               18                 32
  CLUS_3                2                 28
  CLUS_4                6                 25
D60V2, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1                5                 23
  CLUS_2               21                 33
  CLUS_3                6                 66
D60V3, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1                7                136
  CLUS_2               49                 80
  CLUS_3               35                 90
D60V4, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               10                 88
  CLUS_2               31                 52
  CLUS_3               17                 52
D60V5, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               15                 45
  CLUS_2               10                 63
  CLUS_3               11                 50
D60V6, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               10                 48
  CLUS_2               15                 32
  CLUS_3                3                 46
  CLUS_4                8                 32
D60V7, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1                6                 54
  CLUS_2               30                 50
  CLUS_3               15                 64
  CLUS_4                5                 33
D60V8, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               14                102
  CLUS_2               29                 57
  CLUS_3               13                 42
D60V9, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               26                117
  CLUS_2               39                126
  CLUS_3               14                 25
D60V10, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               22                 31
  CLUS_2               27                149
  CLUS_3               30                 88

Clustering(61) Variable = 11p loss mutation analysis
D61V1, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1               11                 32
  CLUS_2                3                 47
  CLUS_3                1                 29
  CLUS_4                5                 26
D61V2, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                6                 22
  CLUS_2                4                 50
  CLUS_3               10                 62
D61V3, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                9                134
  CLUS_2               20                109
  CLUS_3               30                 95
D61V4, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                7                 91
  CLUS_2               14                 69
  CLUS_3               18                 51
D61V5, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1               12                 48
  CLUS_2               10                 63
  CLUS_3                4                 57
D61V6, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1               12                 46
  CLUS_2                3                 44
  CLUS_3                9                 40
  CLUS_4                2                 38
D61V7, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1               11                 49
  CLUS_2                7                 73
  CLUS_3               16                 63
  CLUS_4                4                 34
D61V8, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1               16                100
  CLUS_2                9                 77
  CLUS_3               13                 42
D61V9, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1               23                120
  CLUS_2               27                138
  CLUS_3                5                 34
D61V10, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                6                 47
  CLUS_2               30                146
  CLUS_3               19                 99

Clustering(62) Variable = 11q loss mutation analysis
D62V1, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                3                 40
  CLUS_2                3                 47
  CLUS_3                0                 30
  CLUS_4                3                 28
D62V2, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                3                 25
  CLUS_2                3                 51
  CLUS_3                3                 69
D62V3, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                2                141
  CLUS_2               20                109
  CLUS_3               20                105
D62V4, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                5                 93
  CLUS_2               10                 73
  CLUS_3               14                 55
D62V5, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                6                 54
  CLUS_2                3                 70
  CLUS_3                1                 60
D62V6, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                3                 55
  CLUS_2                4                 43
  CLUS_3                3                 46
  CLUS_4                0                 40
D62V7, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                0                 60
  CLUS_2                6                 74
  CLUS_3               11                 68
  CLUS_4                1                 37
D62V8, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                4                112
  CLUS_2                6                 80
  CLUS_3                8                 47
D62V9, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                9                134
  CLUS_2               22                143
  CLUS_3                4                 35
D62V10, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                5                 48
  CLUS_2               12                164
  CLUS_3               18                100

Clustering(63) Variable = 12p loss mutation analysis
D63V1, multiclass
[1] "Remove cluster labels:" "12P LOSS MUTATED"      
clus
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
                 2                152 
        TCGA-18-3406         TCGA-18-3407         TCGA-18-3408 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-18-3409         TCGA-18-3410         TCGA-18-3411 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-18-3412         TCGA-18-3414         TCGA-18-3415 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-18-3416         TCGA-18-3417         TCGA-18-3419 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-18-3421         TCGA-18-4083         TCGA-18-4086 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-21-1070         TCGA-21-1071         TCGA-21-1072 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-21-1075         TCGA-21-1076         TCGA-21-1077 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-21-1078         TCGA-21-1079         TCGA-21-1080 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-21-1081         TCGA-21-1082         TCGA-21-1083 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-22-0940         TCGA-22-0944         TCGA-22-1000 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-22-1002         TCGA-22-1005         TCGA-22-1011 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-22-1012         TCGA-22-1017         TCGA-22-4591 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-22-4594         TCGA-22-4595         TCGA-22-4596 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-22-4599         TCGA-22-4601         TCGA-22-4604 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-22-4607         TCGA-22-4613         TCGA-33-4532 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-33-4533         TCGA-33-4538         TCGA-33-4547 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-33-4566         TCGA-33-4582         TCGA-33-4589 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-34-2596         TCGA-34-2600         TCGA-34-2604 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-34-2605         TCGA-34-2608         TCGA-34-2609 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-34-5240         TCGA-34-5241         TCGA-37-3783 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-37-3789         TCGA-37-3792         TCGA-37-4129 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-37-4130         TCGA-37-4132         TCGA-37-4133 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-37-4135         TCGA-39-5011         TCGA-39-5016 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-39-5021         TCGA-39-5029         TCGA-39-5030 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-39-5034         TCGA-39-5035         TCGA-39-5036 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-39-5037         TCGA-43-2576         TCGA-43-2578 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-43-2581         TCGA-43-3394         TCGA-43-3920 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-46-3765         TCGA-46-3766         TCGA-46-3767 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-46-3768         TCGA-46-3769         TCGA-51-4079 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-51-4080         TCGA-51-4081         TCGA-56-1622 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-60-2695         TCGA-60-2696         TCGA-60-2698 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-60-2706         TCGA-60-2707         TCGA-60-2708 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-60-2710         TCGA-60-2711         TCGA-60-2712 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-60-2713         TCGA-60-2714         TCGA-60-2715 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-60-2716         TCGA-60-2719         TCGA-60-2720 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-60-2721         TCGA-60-2722         TCGA-60-2723 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-60-2724         TCGA-60-2725         TCGA-60-2726 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-63-5128         TCGA-63-5131         TCGA-66-2727 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-66-2734         TCGA-66-2737         TCGA-66-2742 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-66-2744         TCGA-66-2753         TCGA-66-2754 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-66-2755         TCGA-66-2756         TCGA-66-2757 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-66-2758         TCGA-66-2759         TCGA-66-2763 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-66-2765         TCGA-66-2766         TCGA-66-2767 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-66-2768         TCGA-66-2769         TCGA-66-2770 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-66-2771         TCGA-66-2773         TCGA-66-2777 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-66-2778         TCGA-66-2780         TCGA-66-2781 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-66-2782         TCGA-66-2783         TCGA-66-2785 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-66-2786         TCGA-66-2787         TCGA-66-2788 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-66-2789         TCGA-66-2790         TCGA-66-2791 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-66-2792         TCGA-66-2793         TCGA-66-2794 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-66-2795         TCGA-66-2800 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
D63V2, multiclass
[1] "Remove cluster labels:" "12P LOSS MUTATED"      
clus
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
                 2                152 
        TCGA-18-3406         TCGA-18-3407         TCGA-18-3408 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-18-3409         TCGA-18-3410         TCGA-18-3411 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-18-3412         TCGA-18-3414         TCGA-18-3415 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-18-3416         TCGA-18-3417         TCGA-18-3419 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-18-3421         TCGA-18-4083         TCGA-18-4086 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-21-1070         TCGA-21-1071         TCGA-21-1072 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-21-1075         TCGA-21-1076         TCGA-21-1077 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-21-1078         TCGA-21-1079         TCGA-21-1080 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-21-1081         TCGA-21-1082         TCGA-21-1083 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-22-0940         TCGA-22-0944         TCGA-22-1000 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-22-1002         TCGA-22-1005         TCGA-22-1011 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-22-1012         TCGA-22-1017         TCGA-22-4591 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-22-4594         TCGA-22-4595         TCGA-22-4596 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-22-4599         TCGA-22-4601         TCGA-22-4604 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-22-4607         TCGA-22-4613         TCGA-33-4532 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-33-4533         TCGA-33-4538         TCGA-33-4547 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-33-4566         TCGA-33-4582         TCGA-33-4589 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-34-2596         TCGA-34-2600         TCGA-34-2604 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-34-2605         TCGA-34-2608         TCGA-34-2609 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-34-5240         TCGA-34-5241         TCGA-37-3783 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-37-3789         TCGA-37-3792         TCGA-37-4129 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-37-4130         TCGA-37-4132         TCGA-37-4133 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-37-4135         TCGA-39-5011         TCGA-39-5016 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-39-5021         TCGA-39-5029         TCGA-39-5030 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-39-5034         TCGA-39-5035         TCGA-39-5036 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-39-5037         TCGA-43-2576         TCGA-43-2578 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-43-2581         TCGA-43-3394         TCGA-43-3920 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-46-3765         TCGA-46-3766         TCGA-46-3767 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-46-3768         TCGA-46-3769         TCGA-51-4079 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-51-4080         TCGA-51-4081         TCGA-56-1622 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-60-2695         TCGA-60-2696         TCGA-60-2698 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-60-2706         TCGA-60-2707         TCGA-60-2708 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-60-2710         TCGA-60-2711         TCGA-60-2712 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-60-2713         TCGA-60-2714         TCGA-60-2715 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-60-2716         TCGA-60-2719         TCGA-60-2720 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-60-2721         TCGA-60-2722         TCGA-60-2723 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-60-2724         TCGA-60-2725         TCGA-60-2726 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-63-5128         TCGA-63-5131         TCGA-66-2727 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-66-2734         TCGA-66-2737         TCGA-66-2742 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-66-2744         TCGA-66-2753         TCGA-66-2754 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-66-2755         TCGA-66-2756         TCGA-66-2757 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-66-2758         TCGA-66-2759         TCGA-66-2763 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-66-2765         TCGA-66-2766         TCGA-66-2767 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-66-2768         TCGA-66-2769         TCGA-66-2770 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-66-2771         TCGA-66-2773         TCGA-66-2777 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-66-2778         TCGA-66-2780         TCGA-66-2781 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-66-2782         TCGA-66-2783         TCGA-66-2785 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-66-2786         TCGA-66-2787         TCGA-66-2788 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-66-2789         TCGA-66-2790         TCGA-66-2791 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-66-2792         TCGA-66-2793         TCGA-66-2794 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-66-2795         TCGA-66-2800 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
D63V3, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                3                140
  CLUS_2                0                129
  CLUS_3                4                121
D63V4, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                1                 97
  CLUS_2                1                 82
  CLUS_3                2                 67
D63V5, multiclass
[1] "Remove cluster labels:" "12P LOSS MUTATED"      
clus
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
                 1                193 
        TCGA-18-4721         TCGA-18-5592         TCGA-18-5595 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-21-1070         TCGA-21-1071         TCGA-21-1072 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-21-1075         TCGA-21-1076         TCGA-21-1078 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-21-1079         TCGA-21-1080         TCGA-21-1081 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-21-1082         TCGA-21-1083         TCGA-21-5782 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-21-5784         TCGA-21-5786         TCGA-21-5787 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-22-0940         TCGA-22-1000         TCGA-22-1011 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-22-4591         TCGA-22-4596         TCGA-22-4605 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-22-4607         TCGA-22-4609         TCGA-22-5471 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-22-5472         TCGA-22-5473         TCGA-22-5474 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-22-5477         TCGA-22-5478         TCGA-22-5479 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-22-5480         TCGA-22-5482         TCGA-22-5483 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-22-5485         TCGA-22-5489         TCGA-22-5491 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-22-5492         TCGA-33-4532         TCGA-33-4547 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-33-4566         TCGA-33-4582         TCGA-33-4586 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-33-4589         TCGA-33-6737         TCGA-33-6738 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-34-2596         TCGA-34-2604         TCGA-34-2605 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-34-2608         TCGA-34-2609         TCGA-34-5231 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-34-5232         TCGA-34-5234         TCGA-34-5236 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-34-5239         TCGA-34-5241         TCGA-34-5927 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-34-5928         TCGA-34-5929         TCGA-34-7107 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-37-3789         TCGA-37-3792         TCGA-37-4129 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-37-4133         TCGA-37-4135         TCGA-37-5819 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-39-5011         TCGA-39-5016         TCGA-39-5019 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-39-5021         TCGA-39-5022         TCGA-39-5024 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-39-5027         TCGA-39-5028         TCGA-39-5029 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-39-5030         TCGA-39-5031         TCGA-39-5034 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-39-5035         TCGA-39-5037         TCGA-39-5040 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-43-2578         TCGA-43-2581         TCGA-43-3394 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-43-5668         TCGA-43-5670         TCGA-43-6143 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-43-6770         TCGA-43-6771         TCGA-43-7656 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-43-7658         TCGA-46-6025         TCGA-46-6026 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-52-7810         TCGA-52-7811         TCGA-52-7812 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-56-5897         TCGA-56-5898         TCGA-56-6545 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-56-6546         TCGA-56-7221         TCGA-56-7222 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-56-7730         TCGA-60-2695         TCGA-60-2696 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-60-2697         TCGA-60-2698         TCGA-60-2703 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-60-2704         TCGA-60-2706         TCGA-60-2708 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-60-2709         TCGA-60-2710         TCGA-60-2711 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-60-2712         TCGA-60-2713         TCGA-60-2714 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-60-2716         TCGA-60-2719         TCGA-60-2720 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-60-2721         TCGA-60-2724         TCGA-60-2725 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-60-2726         TCGA-63-5128         TCGA-63-5131 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-63-6202         TCGA-63-7020         TCGA-63-7021 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-63-7022         TCGA-63-7023         TCGA-66-2727 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-66-2737         TCGA-66-2758         TCGA-66-2766 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-66-2767         TCGA-66-2768         TCGA-66-2769 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-66-2770         TCGA-66-2773         TCGA-66-2777 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-66-2778         TCGA-66-2781         TCGA-66-2782 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-66-2783         TCGA-66-2785         TCGA-66-2788 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-66-2790         TCGA-66-2791         TCGA-66-2794 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-66-2795         TCGA-66-2800         TCGA-68-7756 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-70-6722         TCGA-70-6723         TCGA-77-6842 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-77-6843         TCGA-77-6844         TCGA-77-6845 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-77-7139         TCGA-77-7141         TCGA-77-7142 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-77-7335         TCGA-77-7337         TCGA-77-7338 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-77-7463         TCGA-77-7465         TCGA-79-5596 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-85-6175         TCGA-85-6560         TCGA-85-6561 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-85-6798         TCGA-85-7696         TCGA-85-7697 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-85-7698         TCGA-85-7699         TCGA-85-7710 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-85-7843         TCGA-85-7844         TCGA-85-7950 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-90-6837         TCGA-90-7766         TCGA-90-7767 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-90-7769         TCGA-92-7340         TCGA-94-7033 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-94-7557         TCGA-94-7943         TCGA-96-7544 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-98-7454 
"12P LOSS WILD-TYPE" 
D63V6, multiclass
[1] "Remove cluster labels:" "12P LOSS MUTATED"      
clus
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
                 1                193 
        TCGA-18-4721         TCGA-18-5592         TCGA-18-5595 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-21-1070         TCGA-21-1071         TCGA-21-1072 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-21-1075         TCGA-21-1076         TCGA-21-1078 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-21-1079         TCGA-21-1080         TCGA-21-1081 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-21-1082         TCGA-21-1083         TCGA-21-5782 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-21-5784         TCGA-21-5786         TCGA-21-5787 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-22-0940         TCGA-22-1000         TCGA-22-1011 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-22-4591         TCGA-22-4596         TCGA-22-4605 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-22-4607         TCGA-22-4609         TCGA-22-5471 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-22-5472         TCGA-22-5473         TCGA-22-5474 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-22-5477         TCGA-22-5478         TCGA-22-5479 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-22-5480         TCGA-22-5482         TCGA-22-5483 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-22-5485         TCGA-22-5489         TCGA-22-5491 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-22-5492         TCGA-33-4532         TCGA-33-4547 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-33-4566         TCGA-33-4582         TCGA-33-4586 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-33-4589         TCGA-33-6737         TCGA-33-6738 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-34-2596         TCGA-34-2604         TCGA-34-2605 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-34-2608         TCGA-34-2609         TCGA-34-5231 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-34-5232         TCGA-34-5234         TCGA-34-5236 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-34-5239         TCGA-34-5241         TCGA-34-5927 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-34-5928         TCGA-34-5929         TCGA-34-7107 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-37-3789         TCGA-37-3792         TCGA-37-4129 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-37-4133         TCGA-37-4135         TCGA-37-5819 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-39-5011         TCGA-39-5016         TCGA-39-5019 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-39-5021         TCGA-39-5022         TCGA-39-5024 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-39-5027         TCGA-39-5028         TCGA-39-5029 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-39-5030         TCGA-39-5031         TCGA-39-5034 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-39-5035         TCGA-39-5037         TCGA-39-5040 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-43-2578         TCGA-43-2581         TCGA-43-3394 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-43-5668         TCGA-43-5670         TCGA-43-6143 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-43-6770         TCGA-43-6771         TCGA-43-7656 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-43-7658         TCGA-46-6025         TCGA-46-6026 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-52-7810         TCGA-52-7811         TCGA-52-7812 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-56-5897         TCGA-56-5898         TCGA-56-6545 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-56-6546         TCGA-56-7221         TCGA-56-7222 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-56-7730         TCGA-60-2695         TCGA-60-2696 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-60-2697         TCGA-60-2698         TCGA-60-2703 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-60-2704         TCGA-60-2706         TCGA-60-2708 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-60-2709         TCGA-60-2710         TCGA-60-2711 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-60-2712         TCGA-60-2713         TCGA-60-2714 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-60-2716         TCGA-60-2719         TCGA-60-2720 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-60-2721         TCGA-60-2724         TCGA-60-2725 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-60-2726         TCGA-63-5128         TCGA-63-5131 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-63-6202         TCGA-63-7020         TCGA-63-7021 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-63-7022         TCGA-63-7023         TCGA-66-2727 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-66-2737         TCGA-66-2758         TCGA-66-2766 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-66-2767         TCGA-66-2768         TCGA-66-2769 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-66-2770         TCGA-66-2773         TCGA-66-2777 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-66-2778         TCGA-66-2781         TCGA-66-2782 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-66-2783         TCGA-66-2785         TCGA-66-2788 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-66-2790         TCGA-66-2791         TCGA-66-2794 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-66-2795         TCGA-66-2800         TCGA-68-7756 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-70-6722         TCGA-70-6723         TCGA-77-6842 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-77-6843         TCGA-77-6844         TCGA-77-6845 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-77-7139         TCGA-77-7141         TCGA-77-7142 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-77-7335         TCGA-77-7337         TCGA-77-7338 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-77-7463         TCGA-77-7465         TCGA-79-5596 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-85-6175         TCGA-85-6560         TCGA-85-6561 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-85-6798         TCGA-85-7696         TCGA-85-7697 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-85-7698         TCGA-85-7699         TCGA-85-7710 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-85-7843         TCGA-85-7844         TCGA-85-7950 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-90-6837         TCGA-90-7766         TCGA-90-7767 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-90-7769         TCGA-92-7340         TCGA-94-7033 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-94-7557         TCGA-94-7943         TCGA-96-7544 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-98-7454 
"12P LOSS WILD-TYPE" 
D63V7, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                1                 59
  CLUS_2                0                 80
  CLUS_3                3                 76
  CLUS_4                0                 38
D63V8, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                1                115
  CLUS_2                1                 85
  CLUS_3                2                 53
D63V9, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                1                142
  CLUS_2                3                162
  CLUS_3                0                 39
D63V10, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                0                 53
  CLUS_2                4                172
  CLUS_3                0                118

Clustering(64) Variable = 12q loss mutation analysis
D64V1, multiclass
[1] "Remove cluster labels:" "12Q LOSS MUTATED"      
clus
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
                 1                153 
        TCGA-18-3406         TCGA-18-3407         TCGA-18-3408 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-18-3409         TCGA-18-3410         TCGA-18-3411 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-18-3412         TCGA-18-3414         TCGA-18-3415 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-18-3416         TCGA-18-3417         TCGA-18-3419 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-18-3421         TCGA-18-4083         TCGA-18-4086 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-21-1070         TCGA-21-1071         TCGA-21-1072 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-21-1075         TCGA-21-1076         TCGA-21-1077 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-21-1078         TCGA-21-1079         TCGA-21-1080 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-21-1081         TCGA-21-1082         TCGA-21-1083 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-22-0940         TCGA-22-0944         TCGA-22-1000 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-22-1002         TCGA-22-1005         TCGA-22-1011 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-22-1012         TCGA-22-1016         TCGA-22-1017 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-22-4591         TCGA-22-4594         TCGA-22-4595 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-22-4596         TCGA-22-4599         TCGA-22-4601 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-22-4604         TCGA-22-4607         TCGA-22-4613 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-33-4532         TCGA-33-4533         TCGA-33-4538 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-33-4547         TCGA-33-4566         TCGA-33-4582 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-33-4589         TCGA-34-2596         TCGA-34-2600 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-34-2604         TCGA-34-2605         TCGA-34-2608 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-34-2609         TCGA-34-5240         TCGA-34-5241 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-37-3783         TCGA-37-3789         TCGA-37-3792 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-37-4129         TCGA-37-4130         TCGA-37-4132 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-37-4133         TCGA-37-4135         TCGA-39-5011 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-39-5016         TCGA-39-5021         TCGA-39-5029 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-39-5030         TCGA-39-5034         TCGA-39-5035 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-39-5036         TCGA-39-5037         TCGA-43-2576 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-43-2578         TCGA-43-2581         TCGA-43-3394 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-43-3920         TCGA-46-3765         TCGA-46-3766 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-46-3767         TCGA-46-3768         TCGA-46-3769 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-51-4079         TCGA-51-4080         TCGA-51-4081 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-56-1622         TCGA-60-2695         TCGA-60-2696 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-60-2698         TCGA-60-2706         TCGA-60-2707 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-60-2708         TCGA-60-2710         TCGA-60-2711 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-60-2712         TCGA-60-2713         TCGA-60-2714 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-60-2715         TCGA-60-2716         TCGA-60-2719 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-60-2720         TCGA-60-2721         TCGA-60-2722 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-60-2723         TCGA-60-2724         TCGA-60-2725 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-60-2726         TCGA-63-5128         TCGA-63-5131 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-66-2727         TCGA-66-2734         TCGA-66-2737 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-66-2742         TCGA-66-2744         TCGA-66-2753 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-66-2754         TCGA-66-2755         TCGA-66-2756 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-66-2757         TCGA-66-2758         TCGA-66-2759 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-66-2763         TCGA-66-2765         TCGA-66-2766 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-66-2767         TCGA-66-2768         TCGA-66-2769 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-66-2770         TCGA-66-2771         TCGA-66-2773 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-66-2777         TCGA-66-2778         TCGA-66-2780 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-66-2781         TCGA-66-2782         TCGA-66-2783 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-66-2785         TCGA-66-2786         TCGA-66-2787 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-66-2788         TCGA-66-2789         TCGA-66-2790 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-66-2791         TCGA-66-2792         TCGA-66-2793 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-66-2794         TCGA-66-2795         TCGA-66-2800 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
D64V2, multiclass
[1] "Remove cluster labels:" "12Q LOSS MUTATED"      
clus
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
                 1                153 
        TCGA-18-3406         TCGA-18-3407         TCGA-18-3408 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-18-3409         TCGA-18-3410         TCGA-18-3411 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-18-3412         TCGA-18-3414         TCGA-18-3415 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-18-3416         TCGA-18-3417         TCGA-18-3419 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-18-3421         TCGA-18-4083         TCGA-18-4086 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-21-1070         TCGA-21-1071         TCGA-21-1072 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-21-1075         TCGA-21-1076         TCGA-21-1077 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-21-1078         TCGA-21-1079         TCGA-21-1080 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-21-1081         TCGA-21-1082         TCGA-21-1083 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-22-0940         TCGA-22-0944         TCGA-22-1000 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-22-1002         TCGA-22-1005         TCGA-22-1011 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-22-1012         TCGA-22-1016         TCGA-22-1017 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-22-4591         TCGA-22-4594         TCGA-22-4595 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-22-4596         TCGA-22-4599         TCGA-22-4601 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-22-4604         TCGA-22-4607         TCGA-22-4613 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-33-4532         TCGA-33-4533         TCGA-33-4538 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-33-4547         TCGA-33-4566         TCGA-33-4582 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-33-4589         TCGA-34-2596         TCGA-34-2600 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-34-2604         TCGA-34-2605         TCGA-34-2608 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-34-2609         TCGA-34-5240         TCGA-34-5241 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-37-3783         TCGA-37-3789         TCGA-37-3792 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-37-4129         TCGA-37-4130         TCGA-37-4132 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-37-4133         TCGA-37-4135         TCGA-39-5011 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-39-5016         TCGA-39-5021         TCGA-39-5029 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-39-5030         TCGA-39-5034         TCGA-39-5035 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-39-5036         TCGA-39-5037         TCGA-43-2576 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-43-2578         TCGA-43-2581         TCGA-43-3394 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-43-3920         TCGA-46-3765         TCGA-46-3766 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-46-3767         TCGA-46-3768         TCGA-46-3769 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-51-4079         TCGA-51-4080         TCGA-51-4081 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-56-1622         TCGA-60-2695         TCGA-60-2696 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-60-2698         TCGA-60-2706         TCGA-60-2707 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-60-2708         TCGA-60-2710         TCGA-60-2711 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-60-2712         TCGA-60-2713         TCGA-60-2714 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-60-2715         TCGA-60-2716         TCGA-60-2719 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-60-2720         TCGA-60-2721         TCGA-60-2722 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-60-2723         TCGA-60-2724         TCGA-60-2725 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-60-2726         TCGA-63-5128         TCGA-63-5131 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-66-2727         TCGA-66-2734         TCGA-66-2737 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-66-2742         TCGA-66-2744         TCGA-66-2753 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-66-2754         TCGA-66-2755         TCGA-66-2756 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-66-2757         TCGA-66-2758         TCGA-66-2759 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-66-2763         TCGA-66-2765         TCGA-66-2766 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-66-2767         TCGA-66-2768         TCGA-66-2769 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-66-2770         TCGA-66-2771         TCGA-66-2773 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-66-2777         TCGA-66-2778         TCGA-66-2780 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-66-2781         TCGA-66-2782         TCGA-66-2783 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-66-2785         TCGA-66-2786         TCGA-66-2787 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-66-2788         TCGA-66-2789         TCGA-66-2790 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-66-2791         TCGA-66-2792         TCGA-66-2793 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-66-2794         TCGA-66-2795         TCGA-66-2800 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
D64V3, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                2                141
  CLUS_2                2                127
  CLUS_3                5                120
D64V4, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                1                 97
  CLUS_2                3                 80
  CLUS_3                3                 66
D64V5, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                1                 59
  CLUS_2                0                 73
  CLUS_3                2                 59
D64V6, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                1                 57
  CLUS_2                2                 45
  CLUS_3                0                 49
  CLUS_4                0                 40
D64V7, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                0                 60
  CLUS_2                1                 79
  CLUS_3                2                 77
  CLUS_4                0                 38
D64V8, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                0                116
  CLUS_2                1                 85
  CLUS_3                2                 53
D64V9, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                2                141
  CLUS_2                4                161
  CLUS_3                0                 39
D64V10, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                0                 53
  CLUS_2                4                172
  CLUS_3                2                116

Clustering(65) Variable = 13q loss mutation analysis
D65V1, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1               20                 23
  CLUS_2               20                 30
  CLUS_3                7                 23
  CLUS_4               13                 18
D65V2, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1               10                 18
  CLUS_2               24                 30
  CLUS_3               26                 46
D65V3, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1               31                112
  CLUS_2               45                 84
  CLUS_3               70                 55
D65V4, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1               21                 77
  CLUS_2               34                 49
  CLUS_3               35                 34
D65V5, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1               28                 32
  CLUS_2               22                 51
  CLUS_3               22                 39
D65V6, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1               25                 33
  CLUS_2               19                 28
  CLUS_3               14                 35
  CLUS_4               14                 26
D65V7, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1               18                 42
  CLUS_2               32                 48
  CLUS_3               27                 52
  CLUS_4               17                 21
D65V8, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1               39                 77
  CLUS_2               35                 51
  CLUS_3               20                 35
D65V9, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1               58                 85
  CLUS_2               60                105
  CLUS_3               15                 24
D65V10, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1               18                 35
  CLUS_2               60                116
  CLUS_3               55                 63

Clustering(66) Variable = 14q loss mutation analysis
D66V1, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                1                 42
  CLUS_2               11                 39
  CLUS_3                3                 27
  CLUS_4               11                 20
D66V2, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                6                 22
  CLUS_2               14                 40
  CLUS_3                6                 66
D66V3, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1               13                130
  CLUS_2               29                100
  CLUS_3               28                 97
D66V4, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1               11                 87
  CLUS_2               16                 67
  CLUS_3               20                 49
D66V5, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1               18                 42
  CLUS_2                9                 64
  CLUS_3               12                 49
D66V6, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1               16                 42
  CLUS_2               13                 34
  CLUS_3                5                 44
  CLUS_4                5                 35
D66V7, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                2                 58
  CLUS_2               20                 60
  CLUS_3               23                 56
  CLUS_4                4                 34
D66V8, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                5                111
  CLUS_2               22                 64
  CLUS_3               22                 33
D66V9, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1               26                117
  CLUS_2               26                139
  CLUS_3               10                 29
D66V10, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1               15                 38
  CLUS_2               26                150
  CLUS_3               21                 97

Clustering(67) Variable = 15q loss mutation analysis
D67V1, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                6                 37
  CLUS_2                8                 42
  CLUS_3                4                 26
  CLUS_4                7                 24
D67V2, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                8                 20
  CLUS_2                9                 45
  CLUS_3                8                 64
D67V3, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1               11                132
  CLUS_2               14                115
  CLUS_3               19                106
D67V4, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                5                 93
  CLUS_2                3                 80
  CLUS_3               13                 56
D67V5, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1               14                 46
  CLUS_2                5                 68
  CLUS_3                4                 57
D67V6, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1               13                 45
  CLUS_2                7                 40
  CLUS_3                3                 46
  CLUS_4                0                 40
D67V7, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                6                 54
  CLUS_2                8                 72
  CLUS_3               16                 63
  CLUS_4                3                 35
D67V8, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1               12                104
  CLUS_2                7                 79
  CLUS_3               14                 41
D67V9, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1               22                121
  CLUS_2               14                151
  CLUS_3                3                 36
D67V10, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                3                 50
  CLUS_2               20                156
  CLUS_3               16                102

Clustering(68) Variable = 16p loss mutation analysis
D68V1, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                4                 39
  CLUS_2                9                 41
  CLUS_3                2                 28
  CLUS_4                6                 25
D68V2, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                2                 26
  CLUS_2               10                 44
  CLUS_3                9                 63
D68V3, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                7                136
  CLUS_2               24                105
  CLUS_3               29                 96
D68V4, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1               10                 88
  CLUS_2               12                 71
  CLUS_3               18                 51
D68V5, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1               13                 47
  CLUS_2               10                 63
  CLUS_3                8                 53
D68V6, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1               12                 46
  CLUS_2                9                 38
  CLUS_3                7                 42
  CLUS_4                3                 37
D68V7, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                6                 54
  CLUS_2               14                 66
  CLUS_3               13                 66
  CLUS_4                3                 35
D68V8, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                9                107
  CLUS_2               15                 71
  CLUS_3               12                 43
D68V9, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1               20                123
  CLUS_2               29                136
  CLUS_3                3                 36
D68V10, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                5                 48
  CLUS_2               19                157
  CLUS_3               28                 90

Clustering(69) Variable = 16q loss mutation analysis
D69V1, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                9                 34
  CLUS_2               11                 39
  CLUS_3                1                 29
  CLUS_4                8                 23
D69V2, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                3                 25
  CLUS_2               14                 40
  CLUS_3               12                 60
D69V3, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1               15                128
  CLUS_2               30                 99
  CLUS_3               35                 90
D69V4, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1               15                 83
  CLUS_2               11                 72
  CLUS_3               23                 46
D69V5, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1               16                 44
  CLUS_2               10                 63
  CLUS_3               11                 50
D69V6, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1               13                 45
  CLUS_2               13                 34
  CLUS_3                5                 44
  CLUS_4                6                 34
D69V7, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                8                 52
  CLUS_2               17                 63
  CLUS_3               20                 59
  CLUS_4                4                 34
D69V8, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1               11                105
  CLUS_2               20                 66
  CLUS_3               18                 37
D69V9, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1               28                115
  CLUS_2               33                132
  CLUS_3                6                 33
D69V10, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                9                 44
  CLUS_2               22                154
  CLUS_3               36                 82

Clustering(70) Variable = 17p loss mutation analysis
D70V1, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               22                 21
  CLUS_2               16                 34
  CLUS_3                9                 21
  CLUS_4                8                 23
D70V2, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               10                 18
  CLUS_2               19                 35
  CLUS_3               26                 46
D70V3, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               39                104
  CLUS_2               41                 88
  CLUS_3               65                 60
D70V4, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               23                 75
  CLUS_2               26                 57
  CLUS_3               38                 31
D70V5, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               29                 31
  CLUS_2               20                 53
  CLUS_3               15                 46
D70V6, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               26                 32
  CLUS_2               16                 31
  CLUS_3               14                 35
  CLUS_4                8                 32
D70V7, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               25                 35
  CLUS_2               24                 56
  CLUS_3               27                 52
  CLUS_4               16                 22
D70V8, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               39                 77
  CLUS_2               29                 57
  CLUS_3               24                 31
D70V9, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               61                 82
  CLUS_2               58                107
  CLUS_3               11                 28
D70V10, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               14                 39
  CLUS_2               81                 95
  CLUS_3               35                 83

Clustering(71) Variable = 17q loss mutation analysis
D71V1, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                4                 39
  CLUS_2                1                 49
  CLUS_3                3                 27
  CLUS_4                1                 30
D71V2, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                2                 26
  CLUS_2                1                 53
  CLUS_3                6                 66
D71V3, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1               11                132
  CLUS_2                3                126
  CLUS_3               11                114
D71V4, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                6                 92
  CLUS_2                1                 82
  CLUS_3               10                 59
D71V5, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                4                 56
  CLUS_2                5                 68
  CLUS_3                1                 60
D71V6, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                4                 54
  CLUS_2                2                 45
  CLUS_3                2                 47
  CLUS_4                2                 38
D71V7, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                3                 57
  CLUS_2                1                 79
  CLUS_3                3                 76
  CLUS_4                7                 31
D71V8, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1               10                106
  CLUS_2                1                 85
  CLUS_3                3                 52
D71V9, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                9                134
  CLUS_2               10                155
  CLUS_3                4                 35
D71V10, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                3                 50
  CLUS_2               13                163
  CLUS_3                7                111

Clustering(72) Variable = 18p loss mutation analysis
D72V1, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                4                 39
  CLUS_2                8                 42
  CLUS_3                5                 25
  CLUS_4                2                 29
D72V2, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                4                 24
  CLUS_2                8                 46
  CLUS_3                7                 65
D72V3, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                9                134
  CLUS_2               11                118
  CLUS_3               23                102
D72V4, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                6                 92
  CLUS_2                5                 78
  CLUS_3               11                 58
D72V5, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                7                 53
  CLUS_2                3                 70
  CLUS_3                7                 54
D72V6, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                5                 53
  CLUS_2                5                 42
  CLUS_3                3                 46
  CLUS_4                4                 36
D72V7, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                2                 58
  CLUS_2                8                 72
  CLUS_3                9                 70
  CLUS_4                8                 30
D72V8, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               10                106
  CLUS_2                8                 78
  CLUS_3                9                 46
D72V9, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               18                125
  CLUS_2               17                148
  CLUS_3                3                 36
D72V10, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                5                 48
  CLUS_2               19                157
  CLUS_3               14                104

Clustering(73) Variable = 18q loss mutation analysis
D73V1, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               11                 32
  CLUS_2               11                 39
  CLUS_3                7                 23
  CLUS_4                3                 28
D73V2, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                5                 23
  CLUS_2               11                 43
  CLUS_3               16                 56
D73V3, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               15                128
  CLUS_2               26                103
  CLUS_3               35                 90
D73V4, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               13                 85
  CLUS_2               15                 68
  CLUS_3               15                 54
D73V5, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               15                 45
  CLUS_2               15                 58
  CLUS_3                8                 53
D73V6, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               10                 48
  CLUS_2                9                 38
  CLUS_3               12                 37
  CLUS_4                7                 33
D73V7, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               10                 50
  CLUS_2               15                 65
  CLUS_3               12                 67
  CLUS_4               12                 26
D73V8, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               25                 91
  CLUS_2               14                 72
  CLUS_3               10                 45
D73V9, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               32                111
  CLUS_2               32                133
  CLUS_3                4                 35
D73V10, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               10                 43
  CLUS_2               36                140
  CLUS_3               22                 96

Clustering(74) Variable = 19p loss mutation analysis
D74V1, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                5                 38
  CLUS_2                3                 47
  CLUS_3                5                 25
  CLUS_4               10                 21
D74V2, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                9                 19
  CLUS_2                4                 50
  CLUS_3               10                 62
D74V3, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1               18                125
  CLUS_2               13                116
  CLUS_3               34                 91
D74V4, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1               13                 85
  CLUS_2               13                 70
  CLUS_3               18                 51
D74V5, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1               11                 49
  CLUS_2               12                 61
  CLUS_3                8                 53
D74V6, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1               11                 47
  CLUS_2                7                 40
  CLUS_3                8                 41
  CLUS_4                5                 35
D74V7, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                7                 53
  CLUS_2                5                 75
  CLUS_3               22                 57
  CLUS_4               10                 28
D74V8, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1               16                100
  CLUS_2                7                 79
  CLUS_3               21                 34
D74V9, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1               24                119
  CLUS_2               32                133
  CLUS_3                1                 38
D74V10, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                2                 51
  CLUS_2               28                148
  CLUS_3               27                 91

Clustering(75) Variable = 19q loss mutation analysis
D75V1, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                3                 40
  CLUS_2                4                 46
  CLUS_3                4                 26
  CLUS_4                5                 26
D75V2, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                5                 23
  CLUS_2                6                 48
  CLUS_3                5                 67
D75V3, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1               11                132
  CLUS_2               16                113
  CLUS_3               16                109
D75V4, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                5                 93
  CLUS_2               10                 73
  CLUS_3               11                 58
D75V5, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1               11                 49
  CLUS_2                5                 68
  CLUS_3                3                 58
D75V6, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1               10                 48
  CLUS_2                5                 42
  CLUS_3                2                 47
  CLUS_4                2                 38
D75V7, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                5                 55
  CLUS_2                8                 72
  CLUS_3               10                 69
  CLUS_4                5                 33
D75V8, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                9                107
  CLUS_2                9                 77
  CLUS_3               10                 45
D75V9, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1               13                130
  CLUS_2               22                143
  CLUS_3                2                 37
D75V10, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                3                 50
  CLUS_2               19                157
  CLUS_3               15                103

Clustering(76) Variable = 20p loss mutation analysis
D76V1, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                1                 42
  CLUS_2                2                 48
  CLUS_3                2                 28
  CLUS_4                4                 27
D76V2, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                5                 23
  CLUS_2                2                 52
  CLUS_3                2                 70
D76V3, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                6                137
  CLUS_2                2                127
  CLUS_3                9                116
D76V4, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                2                 96
  CLUS_2                2                 81
  CLUS_3                5                 64
D76V5, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                8                 52
  CLUS_2                2                 71
  CLUS_3                2                 59
D76V6, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                5                 53
  CLUS_2                4                 43
  CLUS_3                2                 47
  CLUS_4                1                 39
D76V7, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                2                 58
  CLUS_2                3                 77
  CLUS_3                5                 74
  CLUS_4                2                 36
D76V8, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                5                111
  CLUS_2                3                 83
  CLUS_3                4                 51
D76V9, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1               10                133
  CLUS_2                5                160
  CLUS_3                2                 37
D76V10, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                3                 50
  CLUS_2               11                165
  CLUS_3                3                115

Clustering(77) Variable = 20q loss mutation analysis
D77V1, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                1                 42
  CLUS_2                7                 43
  CLUS_3                0                 30
  CLUS_4                1                 30
D77V2, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                1                 27
  CLUS_2                7                 47
  CLUS_3                1                 71
D77V3, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                5                138
  CLUS_2               13                116
  CLUS_3                4                121
D77V4, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                2                 96
  CLUS_2                8                 75
  CLUS_3                4                 65
D77V5, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                6                 54
  CLUS_2                1                 72
  CLUS_3                3                 58
D77V6, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                4                 54
  CLUS_2                4                 43
  CLUS_3                1                 48
  CLUS_4                1                 39
D77V7, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                1                 59
  CLUS_2               10                 70
  CLUS_3                3                 76
  CLUS_4                0                 38
D77V8, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                2                114
  CLUS_2               10                 76
  CLUS_3                2                 53
D77V9, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1               10                133
  CLUS_2                8                157
  CLUS_3                3                 36
D77V10, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                6                 47
  CLUS_2                8                168
  CLUS_3                7                111

Clustering(78) Variable = 21q loss mutation analysis
D78V1, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1               18                 25
  CLUS_2               24                 26
  CLUS_3                5                 25
  CLUS_4                9                 22
D78V2, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                8                 20
  CLUS_2               28                 26
  CLUS_3               20                 52
D78V3, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1               17                126
  CLUS_2               57                 72
  CLUS_3               48                 77
D78V4, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1               10                 88
  CLUS_2               32                 51
  CLUS_3               28                 41
D78V5, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1               22                 38
  CLUS_2               20                 53
  CLUS_3               15                 46
D78V6, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1               19                 39
  CLUS_2               17                 30
  CLUS_3               14                 35
  CLUS_4                7                 33
D78V7, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1               21                 39
  CLUS_2               36                 44
  CLUS_3               23                 56
  CLUS_4                6                 32
D78V8, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1               29                 87
  CLUS_2               38                 48
  CLUS_3               19                 36
D78V9, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1               58                 85
  CLUS_2               42                123
  CLUS_3                8                 31
D78V10, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1               14                 39
  CLUS_2               53                123
  CLUS_3               41                 77

Clustering(79) Variable = 22q loss mutation analysis
D79V1, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                6                 37
  CLUS_2                2                 48
  CLUS_3                2                 28
  CLUS_4                7                 24
D79V2, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                6                 22
  CLUS_2                4                 50
  CLUS_3                7                 65
D79V3, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1               16                127
  CLUS_2                9                120
  CLUS_3               13                112
D79V4, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                9                 89
  CLUS_2                5                 78
  CLUS_3                8                 61
D79V5, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                8                 52
  CLUS_2                8                 65
  CLUS_3                4                 57
D79V6, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1               10                 48
  CLUS_2                3                 44
  CLUS_3                5                 44
  CLUS_4                2                 38
D79V7, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                6                 54
  CLUS_2                6                 74
  CLUS_3               12                 67
  CLUS_4                3                 35
D79V8, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                9                107
  CLUS_2                7                 79
  CLUS_3               11                 44
D79V9, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1               14                129
  CLUS_2               17                148
  CLUS_3                0                 39
D79V10, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                2                 51
  CLUS_2               17                159
  CLUS_3               12                106

Clustering(80) Variable = Xq loss mutation analysis
D80V1, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               2                41
  CLUS_2               2                48
  CLUS_3               0                30
  CLUS_4               2                29
D80V2, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               1                27
  CLUS_2               2                52
  CLUS_3               3                69
D80V3, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               5               138
  CLUS_2               3               126
  CLUS_3               7               118
D80V4, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               3                95
  CLUS_2               3                80
  CLUS_3               3                66
D80V5, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               3                57
  CLUS_2               1                72
  CLUS_3               4                57
D80V6, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               0                58
  CLUS_2               7                40
  CLUS_3               1                48
  CLUS_4               0                40
D80V7, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               2                58
  CLUS_2               2                78
  CLUS_3               5                74
  CLUS_4               2                36
D80V8, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               5               111
  CLUS_2               3                83
  CLUS_3               3                52
D80V9, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               8               135
  CLUS_2               6               159
  CLUS_3               0                39
D80V10, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               0                53
  CLUS_2               9               167
  CLUS_3               5               113
                     V1                      V2                      V3 
            "MRNA_CNMF"    "MRNA_CHIERARCHICAL"               "CN_CNMF" 
                     V4                      V5                      V6 
     "METHLYATION_CNMF"             "RPPA_CNMF"    "RPPA_CHIERARCHICAL" 
                     V7                      V8                      V9 
         "MRNASEQ_CNMF" "MRNASEQ_CHIERARCHICAL"           "MIRSEQ_CNMF" 
                    V10 
 "MIRSEQ_CHIERARCHICAL" 
> q(save="no")
