
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_mutation_onlysig.3.4048/Clusters2ClinicalAnalysis_nozzle_onlysig.R")
> result <- main("/xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Correlate_Cluster_mutation_onlysig.3.4048/", "-nF=/xchip/tcga/Tools/Nozzle/v1.current", "-iD=/xchip/cga/gdac-prod/tcga-gdac-genepattern/jobResults/335353/KIRC-TP.mutsig.cluster.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_MergedClusteringPipeline/KIRC-TP/2666908/1.GDAC_mergedClustering.Finished/KIRC-TP.transferedmergedcluster.txt", "-fF=ALL", "-fC=3", "-fH=5", "-fW=9", "-fP=OUT", "-cP=0.05", "-cQ=0.25", "-MF=ONLYSIG", "-oT=KIRC-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=KIRC-TP"
[1] "opt"        "-OP=MUTSIG"
[1] "tl"   "-iT="
[1] "dx"   "-iX="
[1] "opt"    "MUTSIG"
[1] "dx" ""  

nPatients in clinical file=502, in cluster file=293, common to both=293
[1] "Reduce the number of clustering variables from 29 to 28."
[1]  28 293
[1] "VHL MUTATION ANALYSIS"
[1] 3
  VHL MUTATED VHL WILD-TYPE 
          138           155 
  VHL MUTATED VHL WILD-TYPE 
          138           155 
[1] "SV2C MUTATION ANALYSIS"
[1] 3
  SV2C MUTATED SV2C WILD-TYPE 
             3            290 
  SV2C MUTATED SV2C WILD-TYPE 
             3            290 
[1] "PBRM1 MUTATION ANALYSIS"
[1] 3
  PBRM1 MUTATED PBRM1 WILD-TYPE 
            107             186 
  PBRM1 MUTATED PBRM1 WILD-TYPE 
            107             186 
[1] "BAP1 MUTATION ANALYSIS"
[1] 3
  BAP1 MUTATED BAP1 WILD-TYPE 
            27            266 
  BAP1 MUTATED BAP1 WILD-TYPE 
            27            266 
[1] "SETD2 MUTATION ANALYSIS"
[1] 3
  SETD2 MUTATED SETD2 WILD-TYPE 
             34             259 
  SETD2 MUTATED SETD2 WILD-TYPE 
             34             259 
[1] "KDM5C MUTATION ANALYSIS"
[1] 3
  KDM5C MUTATED KDM5C WILD-TYPE 
             18             275 
  KDM5C MUTATED KDM5C WILD-TYPE 
             18             275 
[1] "MTOR MUTATION ANALYSIS"
[1] 3
  MTOR MUTATED MTOR WILD-TYPE 
            24            269 
  MTOR MUTATED MTOR WILD-TYPE 
            24            269 
[1] "TP53 MUTATION ANALYSIS"
[1] 3
  TP53 MUTATED TP53 WILD-TYPE 
             6            287 
  TP53 MUTATED TP53 WILD-TYPE 
             6            287 
[1] "PTEN MUTATION ANALYSIS"
[1] 3
  PTEN MUTATED PTEN WILD-TYPE 
             9            284 
  PTEN MUTATED PTEN WILD-TYPE 
             9            284 
[1] "EBPL MUTATION ANALYSIS"
[1] 3
  EBPL MUTATED EBPL WILD-TYPE 
             6            287 
  EBPL MUTATED EBPL WILD-TYPE 
             6            287 
[1] "PIK3CA MUTATION ANALYSIS"
[1] 3
  PIK3CA MUTATED PIK3CA WILD-TYPE 
              10              283 
  PIK3CA MUTATED PIK3CA WILD-TYPE 
              10              283 
[1] "TSPAN19 MUTATION ANALYSIS"
[1] 3
  TSPAN19 MUTATED TSPAN19 WILD-TYPE 
                4               289 
  TSPAN19 MUTATED TSPAN19 WILD-TYPE 
                4               289 
[1] "NBPF10 MUTATION ANALYSIS"
[1] 3
  NBPF10 MUTATED NBPF10 WILD-TYPE 
              19              274 
  NBPF10 MUTATED NBPF10 WILD-TYPE 
              19              274 
[1] "TOR1A MUTATION ANALYSIS"
[1] 3
  TOR1A MUTATED TOR1A WILD-TYPE 
              3             290 
  TOR1A MUTATED TOR1A WILD-TYPE 
              3             290 
[1] "MUC4 MUTATION ANALYSIS"
[1] 3
  MUC4 MUTATED MUC4 WILD-TYPE 
            41            252 
  MUC4 MUTATED MUC4 WILD-TYPE 
            41            252 
[1] "UQCRFS1 MUTATION ANALYSIS"
[1] 3
  UQCRFS1 MUTATED UQCRFS1 WILD-TYPE 
                3               290 
  UQCRFS1 MUTATED UQCRFS1 WILD-TYPE 
                3               290 
[1] "WDR52 MUTATION ANALYSIS"
[1] 3
  WDR52 MUTATED WDR52 WILD-TYPE 
              9             284 
  WDR52 MUTATED WDR52 WILD-TYPE 
              9             284 
[1] "BAGE2 MUTATION ANALYSIS"
[1] 3
  BAGE2 MUTATED BAGE2 WILD-TYPE 
              4             289 
  BAGE2 MUTATED BAGE2 WILD-TYPE 
              4             289 
[1] "CNTNAP4 MUTATION ANALYSIS"
[1] 3
  CNTNAP4 MUTATED CNTNAP4 WILD-TYPE 
                9               284 
  CNTNAP4 MUTATED CNTNAP4 WILD-TYPE 
                9               284 
[1] "CR1 MUTATION ANALYSIS"
[1] 3
  CR1 MUTATED CR1 WILD-TYPE 
           10           283 
  CR1 MUTATED CR1 WILD-TYPE 
           10           283 
[1] "STAG2 MUTATION ANALYSIS"
[1] 3
  STAG2 MUTATED STAG2 WILD-TYPE 
              9             284 
  STAG2 MUTATED STAG2 WILD-TYPE 
              9             284 
[1] "MSN MUTATION ANALYSIS"
[1] 3
  MSN MUTATED MSN WILD-TYPE 
            4           289 
  MSN MUTATED MSN WILD-TYPE 
            4           289 
[1] "ABCB1 MUTATION ANALYSIS"
[1] 3
  ABCB1 MUTATED ABCB1 WILD-TYPE 
              8             285 
  ABCB1 MUTATED ABCB1 WILD-TYPE 
              8             285 
[1] "ADCY8 MUTATION ANALYSIS"
[1] 3
  ADCY8 MUTATED ADCY8 WILD-TYPE 
              5             288 
  ADCY8 MUTATED ADCY8 WILD-TYPE 
              5             288 
[1] "NPNT MUTATION ANALYSIS"
[1] 3
  NPNT MUTATED NPNT WILD-TYPE 
             6            287 
  NPNT MUTATED NPNT WILD-TYPE 
             6            287 
[1] "OR5H1 MUTATION ANALYSIS"
[1] 3
  OR5H1 MUTATED OR5H1 WILD-TYPE 
              3             290 
  OR5H1 MUTATED OR5H1 WILD-TYPE 
              3             290 
[1] "SPAM1 MUTATION ANALYSIS"
[1] 3
  SPAM1 MUTATED SPAM1 WILD-TYPE 
              5             288 
  SPAM1 MUTATED SPAM1 WILD-TYPE 
              5             288 
[1] "TPTE2 MUTATION ANALYSIS"
[1] 3
  TPTE2 MUTATED TPTE2 WILD-TYPE 
              7             286 
  TPTE2 MUTATED TPTE2 WILD-TYPE 
              7             286 
[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 293 columns.

Variable 1:'MRNA_CNMF':	nDistinctValues=3,	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=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'MRNASEQ_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'MRNASEQ_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 9:'MIRSEQ_CNMF':	nDistinctValues=4,	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 293 columns, 0 survival variables, and 10 non-survival variables.
MRNA_CNMF, nv=3, 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=3, binary=FALSE, numeric=FALSE
MRNASEQ_CNMF, nv=3, binary=FALSE, numeric=FALSE
MRNASEQ_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_CNMF, nv=4, binary=FALSE, numeric=FALSE
MIRSEQ_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE

Clustering(1) Variable = VHL MUTATION ANALYSIS
D1V1, multiclass
        clus
vv       VHL MUTATED VHL WILD-TYPE
  CLUS_1          14            11
  CLUS_2           5            16
  CLUS_3           0             3
D1V2, multiclass
        clus
vv       VHL MUTATED VHL WILD-TYPE
  CLUS_1           0             4
  CLUS_2           5            14
  CLUS_3          14            12
D1V3, multiclass
        clus
vv       VHL MUTATED VHL WILD-TYPE
  CLUS_1          38            35
  CLUS_2          61            69
  CLUS_3          39            50
D1V4, multiclass
        clus
vv       VHL MUTATED VHL WILD-TYPE
  CLUS_1          35            36
  CLUS_2          43            41
  CLUS_3          17            27
D1V5, multiclass
        clus
vv       VHL MUTATED VHL WILD-TYPE
  CLUS_1          44            51
  CLUS_2          51            51
  CLUS_3          36            41
D1V6, multiclass
        clus
vv       VHL MUTATED VHL WILD-TYPE
  CLUS_1          38            54
  CLUS_2          67            65
  CLUS_3          26            24
D1V7, multiclass
        clus
vv       VHL MUTATED VHL WILD-TYPE
  CLUS_1          71            53
  CLUS_2          47            63
  CLUS_3          15            31
D1V8, multiclass
        clus
vv       VHL MUTATED VHL WILD-TYPE
  CLUS_1          11            20
  CLUS_2          72            60
  CLUS_3          50            67
D1V9, multiclass
        clus
vv       VHL MUTATED VHL WILD-TYPE
  CLUS_1          23            36
  CLUS_2          67            58
  CLUS_3          32            45
  CLUS_4          12            15
D1V10, multiclass
        clus
vv       VHL MUTATED VHL WILD-TYPE
  CLUS_1          38            52
  CLUS_2          90            87
  CLUS_3           6            15

Clustering(2) Variable = SV2C MUTATION ANALYSIS
D2V1, multiclass
D2V2, multiclass
D2V3, multiclass
        clus
vv       SV2C MUTATED SV2C WILD-TYPE
  CLUS_1            1             72
  CLUS_2            0            130
  CLUS_3            2             87
D2V4, multiclass
        clus
vv       SV2C MUTATED SV2C WILD-TYPE
  CLUS_1            0             71
  CLUS_2            0             84
  CLUS_3            3             41
D2V5, multiclass
        clus
vv       SV2C MUTATED SV2C WILD-TYPE
  CLUS_1            2             93
  CLUS_2            0            102
  CLUS_3            1             76
D2V6, multiclass
        clus
vv       SV2C MUTATED SV2C WILD-TYPE
  CLUS_1            0             92
  CLUS_2            2            130
  CLUS_3            1             49
D2V7, multiclass
[1] "Remove cluster labels:" "SV2C MUTATED"          
clus
  SV2C MUTATED SV2C WILD-TYPE 
             2            278 
    TCGA-A3-3308     TCGA-A3-3311     TCGA-A3-3316     TCGA-A3-3317 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-A3-3319     TCGA-A3-3320     TCGA-A3-3322     TCGA-A3-3323 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-A3-3324     TCGA-A3-3326     TCGA-A3-3347     TCGA-A3-3349 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-A3-3351     TCGA-A3-3357     TCGA-A3-3358     TCGA-A3-3362 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-A3-3363     TCGA-A3-3365     TCGA-A3-3367     TCGA-A3-3370 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-A3-3372     TCGA-A3-3373     TCGA-A3-3376     TCGA-A3-3378 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-A3-3380     TCGA-A3-3382     TCGA-A3-3385     TCGA-A3-3387 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-AK-3429     TCGA-AK-3436     TCGA-AK-3444     TCGA-AK-3451 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-AK-3455     TCGA-AK-3456     TCGA-AK-3458     TCGA-B0-4700 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-B0-4706     TCGA-B0-4712     TCGA-B0-4810     TCGA-B0-4811 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-B0-4815     TCGA-B0-4816     TCGA-B0-4818     TCGA-B0-4823 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-B0-4827     TCGA-B0-4852     TCGA-B0-4945     TCGA-B0-5075 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-B0-5077     TCGA-B0-5080     TCGA-B0-5081     TCGA-B0-5085 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-B0-5088     TCGA-B0-5092     TCGA-B0-5094     TCGA-B0-5095 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-B0-5096     TCGA-B0-5097     TCGA-B0-5099     TCGA-B0-5100 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-B0-5102     TCGA-B0-5104     TCGA-B0-5106     TCGA-B0-5107 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-B0-5108     TCGA-B0-5109     TCGA-B0-5110     TCGA-B0-5113 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-B0-5115     TCGA-B0-5116     TCGA-B0-5119     TCGA-B0-5120 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-B0-5121     TCGA-B0-5399     TCGA-B0-5400     TCGA-B0-5402 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-B0-5691     TCGA-B0-5692     TCGA-B0-5693     TCGA-B0-5694 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-B0-5695     TCGA-B0-5696     TCGA-B0-5697     TCGA-B0-5698 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-B0-5699     TCGA-B0-5701     TCGA-B0-5703     TCGA-B0-5705 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-B0-5706     TCGA-B0-5709     TCGA-B0-5710     TCGA-B0-5711 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-B0-5713     TCGA-B0-5812     TCGA-B2-3924     TCGA-B2-4098 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-B2-4099     TCGA-B2-4101     TCGA-B2-4102     TCGA-B2-5633 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-B2-5635     TCGA-B4-5377     TCGA-B8-4143     TCGA-B8-4146 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-B8-4148     TCGA-B8-4151     TCGA-B8-4153     TCGA-B8-4154 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-B8-4620     TCGA-B8-4621     TCGA-B8-4622     TCGA-B8-5158 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-B8-5159     TCGA-B8-5163     TCGA-B8-5164     TCGA-B8-5165 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-B8-5545     TCGA-B8-5546     TCGA-B8-5549     TCGA-B8-5551 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-B8-5552     TCGA-BP-4161     TCGA-BP-4162     TCGA-BP-4163 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-BP-4164     TCGA-BP-4167     TCGA-BP-4770     TCGA-BP-4782 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-BP-4801     TCGA-BP-4960     TCGA-BP-4961     TCGA-BP-4962 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-BP-4963     TCGA-BP-4964     TCGA-BP-4967     TCGA-BP-4968 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-BP-4970     TCGA-BP-4971     TCGA-BP-4972     TCGA-BP-4973 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-BP-4974     TCGA-BP-4975     TCGA-BP-4976     TCGA-BP-4977 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-BP-4981     TCGA-BP-4982     TCGA-BP-4983     TCGA-BP-4985 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-BP-4986     TCGA-BP-4987     TCGA-BP-4988     TCGA-BP-4989 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-BP-4991     TCGA-BP-4992     TCGA-BP-4993     TCGA-BP-4995 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-BP-4998     TCGA-BP-4999     TCGA-BP-5000     TCGA-BP-5001 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-BP-5004     TCGA-BP-5006     TCGA-BP-5007     TCGA-BP-5008 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-BP-5009     TCGA-BP-5010     TCGA-BP-5168     TCGA-BP-5169 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-BP-5170     TCGA-BP-5173     TCGA-BP-5174     TCGA-BP-5175 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-BP-5176     TCGA-BP-5177     TCGA-BP-5178     TCGA-BP-5180 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-BP-5182     TCGA-BP-5183     TCGA-BP-5184     TCGA-BP-5186 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-BP-5187     TCGA-BP-5189     TCGA-BP-5190     TCGA-BP-5191 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-BP-5192     TCGA-BP-5194     TCGA-BP-5195     TCGA-BP-5196 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-BP-5198     TCGA-BP-5199     TCGA-BP-5200     TCGA-BP-5201 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-BP-5202     TCGA-CJ-4634     TCGA-CJ-4636     TCGA-CJ-4637 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-CJ-4638     TCGA-CJ-4639     TCGA-CJ-4640     TCGA-CJ-4641 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-CJ-4643     TCGA-CJ-4644     TCGA-CJ-4882     TCGA-CJ-4897 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-CJ-4899     TCGA-CJ-4901     TCGA-CJ-4902     TCGA-CJ-4903 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-CJ-4904     TCGA-CJ-4905     TCGA-CJ-4907     TCGA-CJ-4908 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-CJ-4912     TCGA-CJ-4916     TCGA-CJ-4918     TCGA-CJ-4920 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-CJ-4923     TCGA-CJ-5671     TCGA-CJ-5672     TCGA-CJ-5675 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-CJ-5676     TCGA-CJ-5677     TCGA-CJ-5678     TCGA-CJ-5679 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-CJ-5680     TCGA-CJ-5681     TCGA-CJ-5682     TCGA-CJ-5683 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-CJ-5684     TCGA-CJ-5686     TCGA-CJ-6027     TCGA-CJ-6028 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-CJ-6030     TCGA-CJ-6031     TCGA-CJ-6032     TCGA-CJ-6033 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-CW-5580     TCGA-CW-5581     TCGA-CW-5583     TCGA-CW-5584 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-CW-5585     TCGA-CW-5588     TCGA-CW-5589     TCGA-CW-5591 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-CW-6087     TCGA-CW-6090     TCGA-CW-6093     TCGA-CZ-4853 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-CZ-4856     TCGA-CZ-4859     TCGA-CZ-4863     TCGA-CZ-4866 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-CZ-5452     TCGA-CZ-5453     TCGA-CZ-5454     TCGA-CZ-5456 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-CZ-5457     TCGA-CZ-5458     TCGA-CZ-5460     TCGA-CZ-5461 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-CZ-5462     TCGA-CZ-5463     TCGA-CZ-5464     TCGA-CZ-5465 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-CZ-5467     TCGA-CZ-5468     TCGA-CZ-5469     TCGA-CZ-5470 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-CZ-5982     TCGA-CZ-5984     TCGA-CZ-5985     TCGA-CZ-5986 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-CZ-5987     TCGA-CZ-5988     TCGA-CZ-5989     TCGA-EU-5904 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-EU-5905     TCGA-EU-5906 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" 
D2V8, multiclass
[1] "Remove cluster labels:" "SV2C MUTATED"          
clus
  SV2C MUTATED SV2C WILD-TYPE 
             2            278 
    TCGA-A3-3308     TCGA-A3-3311     TCGA-A3-3316     TCGA-A3-3317 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-A3-3319     TCGA-A3-3320     TCGA-A3-3322     TCGA-A3-3323 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-A3-3324     TCGA-A3-3326     TCGA-A3-3347     TCGA-A3-3349 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-A3-3351     TCGA-A3-3357     TCGA-A3-3358     TCGA-A3-3362 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-A3-3363     TCGA-A3-3365     TCGA-A3-3367     TCGA-A3-3370 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-A3-3372     TCGA-A3-3373     TCGA-A3-3376     TCGA-A3-3378 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-A3-3380     TCGA-A3-3382     TCGA-A3-3385     TCGA-A3-3387 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-AK-3429     TCGA-AK-3436     TCGA-AK-3444     TCGA-AK-3451 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-AK-3455     TCGA-AK-3456     TCGA-AK-3458     TCGA-B0-4700 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-B0-4706     TCGA-B0-4712     TCGA-B0-4810     TCGA-B0-4811 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-B0-4815     TCGA-B0-4816     TCGA-B0-4818     TCGA-B0-4823 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-B0-4827     TCGA-B0-4852     TCGA-B0-4945     TCGA-B0-5075 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-B0-5077     TCGA-B0-5080     TCGA-B0-5081     TCGA-B0-5085 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-B0-5088     TCGA-B0-5092     TCGA-B0-5094     TCGA-B0-5095 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-B0-5096     TCGA-B0-5097     TCGA-B0-5099     TCGA-B0-5100 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-B0-5102     TCGA-B0-5104     TCGA-B0-5106     TCGA-B0-5107 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-B0-5108     TCGA-B0-5109     TCGA-B0-5110     TCGA-B0-5113 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-B0-5115     TCGA-B0-5116     TCGA-B0-5119     TCGA-B0-5120 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-B0-5121     TCGA-B0-5399     TCGA-B0-5400     TCGA-B0-5402 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-B0-5691     TCGA-B0-5692     TCGA-B0-5693     TCGA-B0-5694 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-B0-5695     TCGA-B0-5696     TCGA-B0-5697     TCGA-B0-5698 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-B0-5699     TCGA-B0-5701     TCGA-B0-5703     TCGA-B0-5705 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-B0-5706     TCGA-B0-5709     TCGA-B0-5710     TCGA-B0-5711 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-B0-5713     TCGA-B0-5812     TCGA-B2-3924     TCGA-B2-4098 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-B2-4099     TCGA-B2-4101     TCGA-B2-4102     TCGA-B2-5633 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-B2-5635     TCGA-B4-5377     TCGA-B8-4143     TCGA-B8-4146 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-B8-4148     TCGA-B8-4151     TCGA-B8-4153     TCGA-B8-4154 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-B8-4620     TCGA-B8-4621     TCGA-B8-4622     TCGA-B8-5158 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-B8-5159     TCGA-B8-5163     TCGA-B8-5164     TCGA-B8-5165 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-B8-5545     TCGA-B8-5546     TCGA-B8-5549     TCGA-B8-5551 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-B8-5552     TCGA-BP-4161     TCGA-BP-4162     TCGA-BP-4163 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-BP-4164     TCGA-BP-4167     TCGA-BP-4770     TCGA-BP-4782 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-BP-4801     TCGA-BP-4960     TCGA-BP-4961     TCGA-BP-4962 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-BP-4963     TCGA-BP-4964     TCGA-BP-4967     TCGA-BP-4968 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-BP-4970     TCGA-BP-4971     TCGA-BP-4972     TCGA-BP-4973 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-BP-4974     TCGA-BP-4975     TCGA-BP-4976     TCGA-BP-4977 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-BP-4981     TCGA-BP-4982     TCGA-BP-4983     TCGA-BP-4985 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-BP-4986     TCGA-BP-4987     TCGA-BP-4988     TCGA-BP-4989 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-BP-4991     TCGA-BP-4992     TCGA-BP-4993     TCGA-BP-4995 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-BP-4998     TCGA-BP-4999     TCGA-BP-5000     TCGA-BP-5001 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-BP-5004     TCGA-BP-5006     TCGA-BP-5007     TCGA-BP-5008 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-BP-5009     TCGA-BP-5010     TCGA-BP-5168     TCGA-BP-5169 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-BP-5170     TCGA-BP-5173     TCGA-BP-5174     TCGA-BP-5175 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-BP-5176     TCGA-BP-5177     TCGA-BP-5178     TCGA-BP-5180 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-BP-5182     TCGA-BP-5183     TCGA-BP-5184     TCGA-BP-5186 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-BP-5187     TCGA-BP-5189     TCGA-BP-5190     TCGA-BP-5191 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-BP-5192     TCGA-BP-5194     TCGA-BP-5195     TCGA-BP-5196 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-BP-5198     TCGA-BP-5199     TCGA-BP-5200     TCGA-BP-5201 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-BP-5202     TCGA-CJ-4634     TCGA-CJ-4636     TCGA-CJ-4637 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-CJ-4638     TCGA-CJ-4639     TCGA-CJ-4640     TCGA-CJ-4641 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-CJ-4643     TCGA-CJ-4644     TCGA-CJ-4882     TCGA-CJ-4897 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-CJ-4899     TCGA-CJ-4901     TCGA-CJ-4902     TCGA-CJ-4903 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-CJ-4904     TCGA-CJ-4905     TCGA-CJ-4907     TCGA-CJ-4908 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-CJ-4912     TCGA-CJ-4916     TCGA-CJ-4918     TCGA-CJ-4920 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-CJ-4923     TCGA-CJ-5671     TCGA-CJ-5672     TCGA-CJ-5675 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-CJ-5676     TCGA-CJ-5677     TCGA-CJ-5678     TCGA-CJ-5679 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-CJ-5680     TCGA-CJ-5681     TCGA-CJ-5682     TCGA-CJ-5683 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-CJ-5684     TCGA-CJ-5686     TCGA-CJ-6027     TCGA-CJ-6028 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-CJ-6030     TCGA-CJ-6031     TCGA-CJ-6032     TCGA-CJ-6033 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-CW-5580     TCGA-CW-5581     TCGA-CW-5583     TCGA-CW-5584 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-CW-5585     TCGA-CW-5588     TCGA-CW-5589     TCGA-CW-5591 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-CW-6087     TCGA-CW-6090     TCGA-CW-6093     TCGA-CZ-4853 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-CZ-4856     TCGA-CZ-4859     TCGA-CZ-4863     TCGA-CZ-4866 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-CZ-5452     TCGA-CZ-5453     TCGA-CZ-5454     TCGA-CZ-5456 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-CZ-5457     TCGA-CZ-5458     TCGA-CZ-5460     TCGA-CZ-5461 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-CZ-5462     TCGA-CZ-5463     TCGA-CZ-5464     TCGA-CZ-5465 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-CZ-5467     TCGA-CZ-5468     TCGA-CZ-5469     TCGA-CZ-5470 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-CZ-5982     TCGA-CZ-5984     TCGA-CZ-5985     TCGA-CZ-5986 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-CZ-5987     TCGA-CZ-5988     TCGA-CZ-5989     TCGA-EU-5904 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" "SV2C WILD-TYPE" 
    TCGA-EU-5905     TCGA-EU-5906 
"SV2C WILD-TYPE" "SV2C WILD-TYPE" 
D2V9, multiclass
        clus
vv       SV2C MUTATED SV2C WILD-TYPE
  CLUS_1            1             58
  CLUS_2            0            125
  CLUS_3            2             75
  CLUS_4            0             27
D2V10, multiclass
        clus
vv       SV2C MUTATED SV2C WILD-TYPE
  CLUS_1            1             89
  CLUS_2            1            176
  CLUS_3            1             20

Clustering(3) Variable = PBRM1 MUTATION ANALYSIS
D3V1, multiclass
        clus
vv       PBRM1 MUTATED PBRM1 WILD-TYPE
  CLUS_1            14              11
  CLUS_2             4              17
  CLUS_3             1               2
D3V2, multiclass
        clus
vv       PBRM1 MUTATED PBRM1 WILD-TYPE
  CLUS_1             1               3
  CLUS_2             4              15
  CLUS_3            14              12
D3V3, multiclass
        clus
vv       PBRM1 MUTATED PBRM1 WILD-TYPE
  CLUS_1            36              37
  CLUS_2            53              77
  CLUS_3            18              71
D3V4, multiclass
        clus
vv       PBRM1 MUTATED PBRM1 WILD-TYPE
  CLUS_1            36              35
  CLUS_2            31              53
  CLUS_3             7              37
D3V5, multiclass
        clus
vv       PBRM1 MUTATED PBRM1 WILD-TYPE
  CLUS_1            36              59
  CLUS_2            43              59
  CLUS_3            22              55
D3V6, multiclass
        clus
vv       PBRM1 MUTATED PBRM1 WILD-TYPE
  CLUS_1            37              55
  CLUS_2            44              88
  CLUS_3            20              30
D3V7, multiclass
        clus
vv       PBRM1 MUTATED PBRM1 WILD-TYPE
  CLUS_1            58              66
  CLUS_2            34              76
  CLUS_3             8              38
D3V8, multiclass
        clus
vv       PBRM1 MUTATED PBRM1 WILD-TYPE
  CLUS_1             8              23
  CLUS_2            56              76
  CLUS_3            36              81
D3V9, multiclass
        clus
vv       PBRM1 MUTATED PBRM1 WILD-TYPE
  CLUS_1            14              45
  CLUS_2            56              69
  CLUS_3            25              52
  CLUS_4             9              18
D3V10, multiclass
        clus
vv       PBRM1 MUTATED PBRM1 WILD-TYPE
  CLUS_1            25              65
  CLUS_2            75             102
  CLUS_3             4              17

Clustering(4) Variable = BAP1 MUTATION ANALYSIS
D4V1, multiclass
        clus
vv       BAP1 MUTATED BAP1 WILD-TYPE
  CLUS_1            1             24
  CLUS_2            7             14
  CLUS_3            0              3
D4V2, multiclass
        clus
vv       BAP1 MUTATED BAP1 WILD-TYPE
  CLUS_1            0              4
  CLUS_2            7             12
  CLUS_3            1             25
D4V3, multiclass
        clus
vv       BAP1 MUTATED BAP1 WILD-TYPE
  CLUS_1            8             65
  CLUS_2            7            123
  CLUS_3           12             77
D4V4, multiclass
        clus
vv       BAP1 MUTATED BAP1 WILD-TYPE
  CLUS_1            9             62
  CLUS_2            1             83
  CLUS_3            6             38
D4V5, multiclass
        clus
vv       BAP1 MUTATED BAP1 WILD-TYPE
  CLUS_1           11             84
  CLUS_2            3             99
  CLUS_3            8             69
D4V6, multiclass
        clus
vv       BAP1 MUTATED BAP1 WILD-TYPE
  CLUS_1            7             85
  CLUS_2           11            121
  CLUS_3            4             46
D4V7, multiclass
        clus
vv       BAP1 MUTATED BAP1 WILD-TYPE
  CLUS_1            4            120
  CLUS_2           18             92
  CLUS_3            5             41
D4V8, multiclass
        clus
vv       BAP1 MUTATED BAP1 WILD-TYPE
  CLUS_1            1             30
  CLUS_2            1            131
  CLUS_3           25             92
D4V9, multiclass
        clus
vv       BAP1 MUTATED BAP1 WILD-TYPE
  CLUS_1            7             52
  CLUS_2            3            122
  CLUS_3           15             62
  CLUS_4            2             25
D4V10, multiclass
        clus
vv       BAP1 MUTATED BAP1 WILD-TYPE
  CLUS_1           11             79
  CLUS_2            6            171
  CLUS_3           10             11

Clustering(5) Variable = SETD2 MUTATION ANALYSIS
D5V1, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             2              23
  CLUS_2             3              18
  CLUS_3             0               3
D5V2, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             0               4
  CLUS_2             2              17
  CLUS_3             3              23
D5V3, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1            13              60
  CLUS_2            15             115
  CLUS_3             6              83
D5V4, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1            18              53
  CLUS_2             8              76
  CLUS_3             0              44
D5V5, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1            16              79
  CLUS_2            11              91
  CLUS_3             5              72
D5V6, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1            16              76
  CLUS_2            12             120
  CLUS_3             4              46
D5V7, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1            12             112
  CLUS_2            16              94
  CLUS_3             3              43
D5V8, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             2              29
  CLUS_2            14             118
  CLUS_3            15             102
D5V9, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             3              56
  CLUS_2            14             111
  CLUS_3            10              67
  CLUS_4             6              21
D5V10, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1            10              80
  CLUS_2            23             154
  CLUS_3             0              21

Clustering(6) Variable = KDM5C MUTATION ANALYSIS
D6V1, multiclass
[1] "Remove cluster labels:" "KDM5C MUTATED"         
clus
  KDM5C MUTATED KDM5C WILD-TYPE 
              2              47 
     TCGA-A3-3308      TCGA-A3-3311      TCGA-A3-3316      TCGA-A3-3317 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-A3-3320      TCGA-A3-3322      TCGA-A3-3324      TCGA-A3-3326 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-A3-3346      TCGA-A3-3347      TCGA-A3-3349      TCGA-A3-3351 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-A3-3362      TCGA-A3-3363      TCGA-A3-3365      TCGA-A3-3372 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-A3-3378      TCGA-A3-3380      TCGA-A3-3382      TCGA-A3-3383 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-AK-3444      TCGA-AK-3455      TCGA-AK-3456      TCGA-AS-3778 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-B2-3924      TCGA-B2-4098      TCGA-B2-4099      TCGA-B2-4102 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-B8-4143      TCGA-B8-4148      TCGA-B8-4151      TCGA-B8-4154 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-B8-4620      TCGA-BP-4161      TCGA-BP-4162      TCGA-BP-4163 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-BP-4164      TCGA-BP-4167      TCGA-CJ-4634      TCGA-CJ-4636 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-CJ-4637      TCGA-CJ-4638      TCGA-CJ-4639      TCGA-CJ-4640 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-CJ-4641      TCGA-CJ-4643      TCGA-CJ-4644 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
D6V2, multiclass
[1] "Remove cluster labels:" "KDM5C MUTATED"         
clus
  KDM5C MUTATED KDM5C WILD-TYPE 
              2              47 
     TCGA-A3-3308      TCGA-A3-3311      TCGA-A3-3316      TCGA-A3-3317 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-A3-3320      TCGA-A3-3322      TCGA-A3-3324      TCGA-A3-3326 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-A3-3346      TCGA-A3-3347      TCGA-A3-3349      TCGA-A3-3351 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-A3-3362      TCGA-A3-3363      TCGA-A3-3365      TCGA-A3-3372 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-A3-3378      TCGA-A3-3380      TCGA-A3-3382      TCGA-A3-3383 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-AK-3444      TCGA-AK-3455      TCGA-AK-3456      TCGA-AS-3778 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-B2-3924      TCGA-B2-4098      TCGA-B2-4099      TCGA-B2-4102 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-B8-4143      TCGA-B8-4148      TCGA-B8-4151      TCGA-B8-4154 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-B8-4620      TCGA-BP-4161      TCGA-BP-4162      TCGA-BP-4163 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-BP-4164      TCGA-BP-4167      TCGA-CJ-4634      TCGA-CJ-4636 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-CJ-4637      TCGA-CJ-4638      TCGA-CJ-4639      TCGA-CJ-4640 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-CJ-4641      TCGA-CJ-4643      TCGA-CJ-4644 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
D6V3, multiclass
        clus
vv       KDM5C MUTATED KDM5C WILD-TYPE
  CLUS_1             7              66
  CLUS_2             6             124
  CLUS_3             5              84
D6V4, multiclass
        clus
vv       KDM5C MUTATED KDM5C WILD-TYPE
  CLUS_1             7              64
  CLUS_2             3              81
  CLUS_3             3              41
D6V5, multiclass
        clus
vv       KDM5C MUTATED KDM5C WILD-TYPE
  CLUS_1             8              87
  CLUS_2             6              96
  CLUS_3             2              75
D6V6, multiclass
        clus
vv       KDM5C MUTATED KDM5C WILD-TYPE
  CLUS_1            10              82
  CLUS_2             4             128
  CLUS_3             2              48
D6V7, multiclass
        clus
vv       KDM5C MUTATED KDM5C WILD-TYPE
  CLUS_1             5             119
  CLUS_2            11              99
  CLUS_3             1              45
D6V8, multiclass
        clus
vv       KDM5C MUTATED KDM5C WILD-TYPE
  CLUS_1             1              30
  CLUS_2             7             125
  CLUS_3             9             108
D6V9, multiclass
        clus
vv       KDM5C MUTATED KDM5C WILD-TYPE
  CLUS_1             2              57
  CLUS_2             7             118
  CLUS_3             6              71
  CLUS_4             3              24
D6V10, multiclass
        clus
vv       KDM5C MUTATED KDM5C WILD-TYPE
  CLUS_1             5              85
  CLUS_2            11             166
  CLUS_3             2              19

Clustering(7) Variable = MTOR MUTATION ANALYSIS
D7V1, multiclass
[1] "Remove cluster labels:" "MTOR MUTATED"          
clus
  MTOR MUTATED MTOR WILD-TYPE 
             2             47 
    TCGA-A3-3308     TCGA-A3-3311     TCGA-A3-3316     TCGA-A3-3317 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-A3-3319     TCGA-A3-3320     TCGA-A3-3322     TCGA-A3-3323 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-A3-3324     TCGA-A3-3326     TCGA-A3-3346     TCGA-A3-3349 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-A3-3351     TCGA-A3-3362     TCGA-A3-3363     TCGA-A3-3365 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-A3-3372     TCGA-A3-3378     TCGA-A3-3380     TCGA-A3-3382 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-A3-3383     TCGA-AK-3444     TCGA-AK-3455     TCGA-AK-3456 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-AS-3778     TCGA-B2-3924     TCGA-B2-4098     TCGA-B2-4099 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-B2-4102     TCGA-B8-4143     TCGA-B8-4148     TCGA-B8-4151 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-B8-4154     TCGA-B8-4620     TCGA-BP-4161     TCGA-BP-4162 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-BP-4163     TCGA-BP-4164     TCGA-BP-4167     TCGA-CJ-4634 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-CJ-4636     TCGA-CJ-4637     TCGA-CJ-4638     TCGA-CJ-4639 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-CJ-4640     TCGA-CJ-4641     TCGA-CJ-4643 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
D7V2, multiclass
[1] "Remove cluster labels:" "MTOR MUTATED"          
clus
  MTOR MUTATED MTOR WILD-TYPE 
             2             47 
    TCGA-A3-3308     TCGA-A3-3311     TCGA-A3-3316     TCGA-A3-3317 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-A3-3319     TCGA-A3-3320     TCGA-A3-3322     TCGA-A3-3323 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-A3-3324     TCGA-A3-3326     TCGA-A3-3346     TCGA-A3-3349 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-A3-3351     TCGA-A3-3362     TCGA-A3-3363     TCGA-A3-3365 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-A3-3372     TCGA-A3-3378     TCGA-A3-3380     TCGA-A3-3382 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-A3-3383     TCGA-AK-3444     TCGA-AK-3455     TCGA-AK-3456 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-AS-3778     TCGA-B2-3924     TCGA-B2-4098     TCGA-B2-4099 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-B2-4102     TCGA-B8-4143     TCGA-B8-4148     TCGA-B8-4151 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-B8-4154     TCGA-B8-4620     TCGA-BP-4161     TCGA-BP-4162 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-BP-4163     TCGA-BP-4164     TCGA-BP-4167     TCGA-CJ-4634 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-CJ-4636     TCGA-CJ-4637     TCGA-CJ-4638     TCGA-CJ-4639 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-CJ-4640     TCGA-CJ-4641     TCGA-CJ-4643 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
D7V3, multiclass
        clus
vv       MTOR MUTATED MTOR WILD-TYPE
  CLUS_1            8             65
  CLUS_2           10            120
  CLUS_3            6             83
D7V4, multiclass
        clus
vv       MTOR MUTATED MTOR WILD-TYPE
  CLUS_1           12             59
  CLUS_2            4             80
  CLUS_3            3             41
D7V5, multiclass
        clus
vv       MTOR MUTATED MTOR WILD-TYPE
  CLUS_1           14             81
  CLUS_2            6             96
  CLUS_3            2             75
D7V6, multiclass
        clus
vv       MTOR MUTATED MTOR WILD-TYPE
  CLUS_1           10             82
  CLUS_2            3            129
  CLUS_3            9             41
D7V7, multiclass
        clus
vv       MTOR MUTATED MTOR WILD-TYPE
  CLUS_1            9            115
  CLUS_2            9            101
  CLUS_3            5             41
D7V8, multiclass
        clus
vv       MTOR MUTATED MTOR WILD-TYPE
  CLUS_1            4             27
  CLUS_2            8            124
  CLUS_3           11            106
D7V9, multiclass
        clus
vv       MTOR MUTATED MTOR WILD-TYPE
  CLUS_1            7             52
  CLUS_2            7            118
  CLUS_3            7             70
  CLUS_4            2             25
D7V10, multiclass
        clus
vv       MTOR MUTATED MTOR WILD-TYPE
  CLUS_1            9             81
  CLUS_2           13            164
  CLUS_3            1             20

Clustering(8) Variable = TP53 MUTATION ANALYSIS
D8V1, multiclass
[1] "Remove cluster labels:" "TP53 MUTATED"          
clus
  TP53 MUTATED TP53 WILD-TYPE 
             1             48 
    TCGA-A3-3311     TCGA-A3-3316     TCGA-A3-3317     TCGA-A3-3319 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-A3-3320     TCGA-A3-3322     TCGA-A3-3323     TCGA-A3-3324 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-A3-3326     TCGA-A3-3346     TCGA-A3-3347     TCGA-A3-3349 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-A3-3351     TCGA-A3-3362     TCGA-A3-3363     TCGA-A3-3365 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-A3-3372     TCGA-A3-3378     TCGA-A3-3380     TCGA-A3-3382 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-A3-3383     TCGA-AK-3444     TCGA-AK-3455     TCGA-AK-3456 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-AS-3778     TCGA-B2-3924     TCGA-B2-4098     TCGA-B2-4099 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-B2-4102     TCGA-B8-4143     TCGA-B8-4148     TCGA-B8-4151 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-B8-4154     TCGA-B8-4620     TCGA-BP-4161     TCGA-BP-4162 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-BP-4163     TCGA-BP-4164     TCGA-BP-4167     TCGA-CJ-4634 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-CJ-4636     TCGA-CJ-4637     TCGA-CJ-4638     TCGA-CJ-4639 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-CJ-4640     TCGA-CJ-4641     TCGA-CJ-4643     TCGA-CJ-4644 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
D8V2, multiclass
[1] "Remove cluster labels:" "TP53 MUTATED"          
clus
  TP53 MUTATED TP53 WILD-TYPE 
             1             48 
    TCGA-A3-3311     TCGA-A3-3316     TCGA-A3-3317     TCGA-A3-3319 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-A3-3320     TCGA-A3-3322     TCGA-A3-3323     TCGA-A3-3324 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-A3-3326     TCGA-A3-3346     TCGA-A3-3347     TCGA-A3-3349 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-A3-3351     TCGA-A3-3362     TCGA-A3-3363     TCGA-A3-3365 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-A3-3372     TCGA-A3-3378     TCGA-A3-3380     TCGA-A3-3382 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-A3-3383     TCGA-AK-3444     TCGA-AK-3455     TCGA-AK-3456 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-AS-3778     TCGA-B2-3924     TCGA-B2-4098     TCGA-B2-4099 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-B2-4102     TCGA-B8-4143     TCGA-B8-4148     TCGA-B8-4151 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-B8-4154     TCGA-B8-4620     TCGA-BP-4161     TCGA-BP-4162 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-BP-4163     TCGA-BP-4164     TCGA-BP-4167     TCGA-CJ-4634 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-CJ-4636     TCGA-CJ-4637     TCGA-CJ-4638     TCGA-CJ-4639 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-CJ-4640     TCGA-CJ-4641     TCGA-CJ-4643     TCGA-CJ-4644 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
D8V3, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            2             71
  CLUS_2            2            128
  CLUS_3            2             87
D8V4, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            3             68
  CLUS_2            1             83
  CLUS_3            1             43
D8V5, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            4             91
  CLUS_2            1            101
  CLUS_3            1             76
D8V6, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            1             91
  CLUS_2            3            129
  CLUS_3            2             48
D8V7, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            1            123
  CLUS_2            3            107
  CLUS_3            1             45
D8V8, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            0             31
  CLUS_2            1            131
  CLUS_3            4            113
D8V9, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            2             57
  CLUS_2            2            123
  CLUS_3            1             76
  CLUS_4            1             26
D8V10, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            4             86
  CLUS_2            2            175
  CLUS_3            0             21

Clustering(9) Variable = PTEN MUTATION ANALYSIS
D9V1, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            0             25
  CLUS_2            3             18
  CLUS_3            0              3
D9V2, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            0              4
  CLUS_2            2             17
  CLUS_3            1             25
D9V3, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            2             71
  CLUS_2            4            126
  CLUS_3            3             86
D9V4, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            4             67
  CLUS_2            1             83
  CLUS_3            1             43
D9V5, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            7             88
  CLUS_2            1            101
  CLUS_3            1             76
D9V6, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            2             90
  CLUS_2            5            127
  CLUS_3            2             48
D9V7, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            0            124
  CLUS_2            7            103
  CLUS_3            1             45
D9V8, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            0             31
  CLUS_2            1            131
  CLUS_3            7            110
D9V9, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            4             55
  CLUS_2            2            123
  CLUS_3            2             75
  CLUS_4            1             26
D9V10, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            6             84
  CLUS_2            3            174
  CLUS_3            0             21

Clustering(10) Variable = EBPL MUTATION ANALYSIS
D10V1, multiclass
[1] "Remove cluster labels:" "EBPL MUTATED"          
clus
  EBPL MUTATED EBPL WILD-TYPE 
             2             47 
    TCGA-A3-3308     TCGA-A3-3311     TCGA-A3-3316     TCGA-A3-3317 
"EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" 
    TCGA-A3-3319     TCGA-A3-3320     TCGA-A3-3322     TCGA-A3-3323 
"EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" 
    TCGA-A3-3324     TCGA-A3-3326     TCGA-A3-3346     TCGA-A3-3347 
"EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" 
    TCGA-A3-3349     TCGA-A3-3351     TCGA-A3-3362     TCGA-A3-3363 
"EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" 
    TCGA-A3-3365     TCGA-A3-3372     TCGA-A3-3378     TCGA-A3-3380 
"EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" 
    TCGA-A3-3382     TCGA-A3-3383     TCGA-AK-3444     TCGA-AK-3455 
"EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" 
    TCGA-AK-3456     TCGA-AS-3778     TCGA-B2-3924     TCGA-B2-4098 
"EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" 
    TCGA-B2-4099     TCGA-B2-4102     TCGA-B8-4143     TCGA-B8-4148 
"EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" 
    TCGA-B8-4151     TCGA-B8-4154     TCGA-B8-4620     TCGA-BP-4161 
"EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" 
    TCGA-BP-4162     TCGA-BP-4163     TCGA-BP-4164     TCGA-BP-4167 
"EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" 
    TCGA-CJ-4634     TCGA-CJ-4636     TCGA-CJ-4637     TCGA-CJ-4638 
"EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" 
    TCGA-CJ-4640     TCGA-CJ-4641     TCGA-CJ-4644 
"EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" 
D10V2, multiclass
[1] "Remove cluster labels:" "EBPL MUTATED"          
clus
  EBPL MUTATED EBPL WILD-TYPE 
             2             47 
    TCGA-A3-3308     TCGA-A3-3311     TCGA-A3-3316     TCGA-A3-3317 
"EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" 
    TCGA-A3-3319     TCGA-A3-3320     TCGA-A3-3322     TCGA-A3-3323 
"EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" 
    TCGA-A3-3324     TCGA-A3-3326     TCGA-A3-3346     TCGA-A3-3347 
"EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" 
    TCGA-A3-3349     TCGA-A3-3351     TCGA-A3-3362     TCGA-A3-3363 
"EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" 
    TCGA-A3-3365     TCGA-A3-3372     TCGA-A3-3378     TCGA-A3-3380 
"EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" 
    TCGA-A3-3382     TCGA-A3-3383     TCGA-AK-3444     TCGA-AK-3455 
"EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" 
    TCGA-AK-3456     TCGA-AS-3778     TCGA-B2-3924     TCGA-B2-4098 
"EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" 
    TCGA-B2-4099     TCGA-B2-4102     TCGA-B8-4143     TCGA-B8-4148 
"EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" 
    TCGA-B8-4151     TCGA-B8-4154     TCGA-B8-4620     TCGA-BP-4161 
"EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" 
    TCGA-BP-4162     TCGA-BP-4163     TCGA-BP-4164     TCGA-BP-4167 
"EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" 
    TCGA-CJ-4634     TCGA-CJ-4636     TCGA-CJ-4637     TCGA-CJ-4638 
"EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" 
    TCGA-CJ-4640     TCGA-CJ-4641     TCGA-CJ-4644 
"EBPL WILD-TYPE" "EBPL WILD-TYPE" "EBPL WILD-TYPE" 
D10V3, multiclass
        clus
vv       EBPL MUTATED EBPL WILD-TYPE
  CLUS_1            2             71
  CLUS_2            3            127
  CLUS_3            1             88
D10V4, multiclass
        clus
vv       EBPL MUTATED EBPL WILD-TYPE
  CLUS_1            1             70
  CLUS_2            2             82
  CLUS_3            0             44
D10V5, multiclass
        clus
vv       EBPL MUTATED EBPL WILD-TYPE
  CLUS_1            2             93
  CLUS_2            1            101
  CLUS_3            1             76
D10V6, multiclass
        clus
vv       EBPL MUTATED EBPL WILD-TYPE
  CLUS_1            2             90
  CLUS_2            1            131
  CLUS_3            1             49
D10V7, multiclass
        clus
vv       EBPL MUTATED EBPL WILD-TYPE
  CLUS_1            2            122
  CLUS_2            1            109
  CLUS_3            2             44
D10V8, multiclass
        clus
vv       EBPL MUTATED EBPL WILD-TYPE
  CLUS_1            2             29
  CLUS_2            2            130
  CLUS_3            1            116
D10V9, multiclass
        clus
vv       EBPL MUTATED EBPL WILD-TYPE
  CLUS_1            0             59
  CLUS_2            4            121
  CLUS_3            1             76
  CLUS_4            1             26
D10V10, multiclass
        clus
vv       EBPL MUTATED EBPL WILD-TYPE
  CLUS_1            0             90
  CLUS_2            6            171
  CLUS_3            0             21

Clustering(11) Variable = PIK3CA MUTATION ANALYSIS
D11V1, multiclass
D11V2, multiclass
D11V3, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              1               72
  CLUS_2              7              123
  CLUS_3              2               87
D11V4, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              5               66
  CLUS_2              4               80
  CLUS_3              0               44
D11V5, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              0               95
  CLUS_2              5               97
  CLUS_3              5               72
D11V6, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              4               88
  CLUS_2              4              128
  CLUS_3              2               48
D11V7, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              4              120
  CLUS_2              4              106
  CLUS_3              2               44
D11V8, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              2               29
  CLUS_2              4              128
  CLUS_3              4              113
D11V9, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              1               58
  CLUS_2              4              121
  CLUS_3              3               74
  CLUS_4              2               25
D11V10, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              5               85
  CLUS_2              5              172
  CLUS_3              0               21

Clustering(12) Variable = TSPAN19 MUTATION ANALYSIS
D12V1, multiclass
[1] "Remove cluster labels:" "TSPAN19 MUTATED"       
clus
  TSPAN19 MUTATED TSPAN19 WILD-TYPE 
                1                48 
       TCGA-A3-3308        TCGA-A3-3311        TCGA-A3-3316        TCGA-A3-3317 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-A3-3319        TCGA-A3-3320        TCGA-A3-3322        TCGA-A3-3323 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-A3-3324        TCGA-A3-3326        TCGA-A3-3346        TCGA-A3-3347 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-A3-3349        TCGA-A3-3351        TCGA-A3-3362        TCGA-A3-3363 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-A3-3365        TCGA-A3-3372        TCGA-A3-3378        TCGA-A3-3380 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-A3-3382        TCGA-A3-3383        TCGA-AK-3444        TCGA-AK-3455 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-AK-3456        TCGA-AS-3778        TCGA-B2-3924        TCGA-B2-4099 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-B2-4102        TCGA-B8-4143        TCGA-B8-4148        TCGA-B8-4151 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-B8-4154        TCGA-B8-4620        TCGA-BP-4161        TCGA-BP-4162 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-BP-4163        TCGA-BP-4164        TCGA-BP-4167        TCGA-CJ-4634 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-CJ-4636        TCGA-CJ-4637        TCGA-CJ-4638        TCGA-CJ-4639 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-CJ-4640        TCGA-CJ-4641        TCGA-CJ-4643        TCGA-CJ-4644 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
D12V2, multiclass
[1] "Remove cluster labels:" "TSPAN19 MUTATED"       
clus
  TSPAN19 MUTATED TSPAN19 WILD-TYPE 
                1                48 
       TCGA-A3-3308        TCGA-A3-3311        TCGA-A3-3316        TCGA-A3-3317 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-A3-3319        TCGA-A3-3320        TCGA-A3-3322        TCGA-A3-3323 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-A3-3324        TCGA-A3-3326        TCGA-A3-3346        TCGA-A3-3347 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-A3-3349        TCGA-A3-3351        TCGA-A3-3362        TCGA-A3-3363 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-A3-3365        TCGA-A3-3372        TCGA-A3-3378        TCGA-A3-3380 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-A3-3382        TCGA-A3-3383        TCGA-AK-3444        TCGA-AK-3455 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-AK-3456        TCGA-AS-3778        TCGA-B2-3924        TCGA-B2-4099 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-B2-4102        TCGA-B8-4143        TCGA-B8-4148        TCGA-B8-4151 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-B8-4154        TCGA-B8-4620        TCGA-BP-4161        TCGA-BP-4162 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-BP-4163        TCGA-BP-4164        TCGA-BP-4167        TCGA-CJ-4634 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-CJ-4636        TCGA-CJ-4637        TCGA-CJ-4638        TCGA-CJ-4639 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-CJ-4640        TCGA-CJ-4641        TCGA-CJ-4643        TCGA-CJ-4644 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
D12V3, multiclass
        clus
vv       TSPAN19 MUTATED TSPAN19 WILD-TYPE
  CLUS_1               2                71
  CLUS_2               1               129
  CLUS_3               1                88
D12V4, multiclass
[1] "Remove cluster labels:" "TSPAN19 MUTATED"       
clus
  TSPAN19 MUTATED TSPAN19 WILD-TYPE 
                2               197 
       TCGA-A3-3357        TCGA-A3-3358        TCGA-A3-3367        TCGA-A3-3370 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-A3-3373        TCGA-A3-3376        TCGA-A3-3385        TCGA-A3-3387 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-AK-3458        TCGA-B0-4700        TCGA-B0-4706        TCGA-B0-4710 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-B0-4712        TCGA-B0-4810        TCGA-B0-4811        TCGA-B0-4815 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-B0-4816        TCGA-B0-4818        TCGA-B0-4823        TCGA-B0-4827 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-B0-4842        TCGA-B0-4852        TCGA-B0-4945        TCGA-B0-5080 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-B0-5092        TCGA-B0-5094        TCGA-B0-5095        TCGA-B0-5096 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-B0-5097        TCGA-B0-5099        TCGA-B0-5100        TCGA-B0-5102 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-B0-5104        TCGA-B0-5106        TCGA-B0-5107        TCGA-B0-5108 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-B0-5109        TCGA-B0-5110        TCGA-B0-5113        TCGA-B0-5116 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-B0-5119        TCGA-B0-5120        TCGA-B0-5121        TCGA-B0-5399 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-B0-5400        TCGA-B0-5402        TCGA-B0-5691        TCGA-B0-5692 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-B0-5693        TCGA-B0-5694        TCGA-B0-5695        TCGA-B0-5696 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-B0-5697        TCGA-B0-5698        TCGA-B0-5699        TCGA-B0-5701 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-B0-5702        TCGA-B0-5703        TCGA-B0-5705        TCGA-B0-5706 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-B0-5707        TCGA-B0-5709        TCGA-B0-5710        TCGA-B0-5711 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-B0-5713        TCGA-B0-5812        TCGA-B2-4101        TCGA-B2-5633 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-B2-5635        TCGA-B2-5641        TCGA-B4-5377        TCGA-B8-4146 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-B8-4153        TCGA-B8-4621        TCGA-B8-4622        TCGA-B8-5158 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-B8-5159        TCGA-B8-5163        TCGA-B8-5164        TCGA-B8-5165 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-B8-5545        TCGA-B8-5546        TCGA-B8-5549        TCGA-B8-5551 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-B8-5552        TCGA-BP-4770        TCGA-BP-4782        TCGA-BP-4801 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-BP-4993        TCGA-BP-5010        TCGA-BP-5168        TCGA-BP-5169 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-BP-5170        TCGA-BP-5173        TCGA-BP-5174        TCGA-BP-5175 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-BP-5176        TCGA-BP-5177        TCGA-BP-5178        TCGA-BP-5180 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-BP-5182        TCGA-BP-5183        TCGA-BP-5184        TCGA-BP-5185 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-BP-5186        TCGA-BP-5187        TCGA-BP-5189        TCGA-BP-5190 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-BP-5191        TCGA-BP-5192        TCGA-BP-5194        TCGA-BP-5195 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-BP-5196        TCGA-BP-5198        TCGA-BP-5199        TCGA-BP-5200 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-BP-5201        TCGA-BP-5202        TCGA-CJ-4882        TCGA-CJ-4897 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-CJ-4902        TCGA-CJ-4903        TCGA-CJ-4904        TCGA-CJ-4905 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-CJ-4907        TCGA-CJ-4908        TCGA-CJ-4912        TCGA-CJ-4913 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-CJ-4916        TCGA-CJ-4918        TCGA-CJ-4920        TCGA-CJ-4923 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-CJ-5671        TCGA-CJ-5672        TCGA-CJ-5675        TCGA-CJ-5676 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-CJ-5677        TCGA-CJ-5678        TCGA-CJ-5679        TCGA-CJ-5680 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-CJ-5681        TCGA-CJ-5682        TCGA-CJ-5683        TCGA-CJ-5684 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-CJ-5686        TCGA-CJ-6027        TCGA-CJ-6028        TCGA-CJ-6030 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-CJ-6031        TCGA-CJ-6032        TCGA-CJ-6033        TCGA-CW-5580 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-CW-5581        TCGA-CW-5583        TCGA-CW-5584        TCGA-CW-5585 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-CW-5588        TCGA-CW-5589        TCGA-CW-5591        TCGA-CW-6087 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-CW-6090        TCGA-CW-6093        TCGA-CZ-4853        TCGA-CZ-4856 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-CZ-4859        TCGA-CZ-4863        TCGA-CZ-4866        TCGA-CZ-5451 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-CZ-5452        TCGA-CZ-5453        TCGA-CZ-5454        TCGA-CZ-5456 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-CZ-5457        TCGA-CZ-5458        TCGA-CZ-5459        TCGA-CZ-5460 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-CZ-5461        TCGA-CZ-5462        TCGA-CZ-5463        TCGA-CZ-5464 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-CZ-5465        TCGA-CZ-5466        TCGA-CZ-5467        TCGA-CZ-5468 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-CZ-5469        TCGA-CZ-5470        TCGA-CZ-5982        TCGA-CZ-5984 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-CZ-5985        TCGA-CZ-5986        TCGA-CZ-5987        TCGA-CZ-5988 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-CZ-5989        TCGA-EU-5904        TCGA-EU-5905        TCGA-EU-5906 
"TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" "TSPAN19 WILD-TYPE" 
       TCGA-EU-5907 
"TSPAN19 WILD-TYPE" 
D12V5, multiclass
        clus
vv       TSPAN19 MUTATED TSPAN19 WILD-TYPE
  CLUS_1               0                95
  CLUS_2               1               101
  CLUS_3               3                74
D12V6, multiclass
        clus
vv       TSPAN19 MUTATED TSPAN19 WILD-TYPE
  CLUS_1               0                92
  CLUS_2               3               129
  CLUS_3               1                49
D12V7, multiclass
        clus
vv       TSPAN19 MUTATED TSPAN19 WILD-TYPE
  CLUS_1               1               123
  CLUS_2               3               107
  CLUS_3               0                46
D12V8, multiclass
        clus
vv       TSPAN19 MUTATED TSPAN19 WILD-TYPE
  CLUS_1               1                30
  CLUS_2               2               130
  CLUS_3               1               116
D12V9, multiclass
        clus
vv       TSPAN19 MUTATED TSPAN19 WILD-TYPE
  CLUS_1               1                58
  CLUS_2               0               125
  CLUS_3               2                75
  CLUS_4               1                26
D12V10, multiclass
        clus
vv       TSPAN19 MUTATED TSPAN19 WILD-TYPE
  CLUS_1               2                88
  CLUS_2               1               176
  CLUS_3               1                20

Clustering(13) Variable = NBPF10 MUTATION ANALYSIS
D13V1, multiclass
        clus
vv       NBPF10 MUTATED NBPF10 WILD-TYPE
  CLUS_1              4               21
  CLUS_2              1               20
  CLUS_3              0                3
D13V2, multiclass
        clus
vv       NBPF10 MUTATED NBPF10 WILD-TYPE
  CLUS_1              0                4
  CLUS_2              1               18
  CLUS_3              4               22
D13V3, multiclass
        clus
vv       NBPF10 MUTATED NBPF10 WILD-TYPE
  CLUS_1              6               67
  CLUS_2              9              121
  CLUS_3              4               85
D13V4, multiclass
        clus
vv       NBPF10 MUTATED NBPF10 WILD-TYPE
  CLUS_1              5               66
  CLUS_2              6               78
  CLUS_3              2               42
D13V5, multiclass
        clus
vv       NBPF10 MUTATED NBPF10 WILD-TYPE
  CLUS_1              8               87
  CLUS_2              4               98
  CLUS_3              6               71
D13V6, multiclass
        clus
vv       NBPF10 MUTATED NBPF10 WILD-TYPE
  CLUS_1              4               88
  CLUS_2             10              122
  CLUS_3              4               46
D13V7, multiclass
        clus
vv       NBPF10 MUTATED NBPF10 WILD-TYPE
  CLUS_1              6              118
  CLUS_2              8              102
  CLUS_3              5               41
D13V8, multiclass
        clus
vv       NBPF10 MUTATED NBPF10 WILD-TYPE
  CLUS_1              5               26
  CLUS_2              5              127
  CLUS_3              9              108
D13V9, multiclass
        clus
vv       NBPF10 MUTATED NBPF10 WILD-TYPE
  CLUS_1              4               55
  CLUS_2              5              120
  CLUS_3              6               71
  CLUS_4              4               23
D13V10, multiclass
        clus
vv       NBPF10 MUTATED NBPF10 WILD-TYPE
  CLUS_1              6               84
  CLUS_2             12              165
  CLUS_3              1               20

Clustering(14) Variable = TOR1A MUTATION ANALYSIS
D14V1, multiclass
[1] "Remove cluster labels:" "TOR1A MUTATED"         
clus
  TOR1A MUTATED TOR1A WILD-TYPE 
              1              48 
     TCGA-A3-3308      TCGA-A3-3311      TCGA-A3-3316      TCGA-A3-3317 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-A3-3319      TCGA-A3-3320      TCGA-A3-3322      TCGA-A3-3323 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-A3-3324      TCGA-A3-3326      TCGA-A3-3346      TCGA-A3-3347 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-A3-3349      TCGA-A3-3351      TCGA-A3-3362      TCGA-A3-3363 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-A3-3372      TCGA-A3-3378      TCGA-A3-3380      TCGA-A3-3382 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-A3-3383      TCGA-AK-3444      TCGA-AK-3455      TCGA-AK-3456 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-AS-3778      TCGA-B2-3924      TCGA-B2-4098      TCGA-B2-4099 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-B2-4102      TCGA-B8-4143      TCGA-B8-4148      TCGA-B8-4151 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-B8-4154      TCGA-B8-4620      TCGA-BP-4161      TCGA-BP-4162 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-BP-4163      TCGA-BP-4164      TCGA-BP-4167      TCGA-CJ-4634 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-CJ-4636      TCGA-CJ-4637      TCGA-CJ-4638      TCGA-CJ-4639 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-CJ-4640      TCGA-CJ-4641      TCGA-CJ-4643      TCGA-CJ-4644 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
D14V2, multiclass
[1] "Remove cluster labels:" "TOR1A MUTATED"         
clus
  TOR1A MUTATED TOR1A WILD-TYPE 
              1              48 
     TCGA-A3-3308      TCGA-A3-3311      TCGA-A3-3316      TCGA-A3-3317 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-A3-3319      TCGA-A3-3320      TCGA-A3-3322      TCGA-A3-3323 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-A3-3324      TCGA-A3-3326      TCGA-A3-3346      TCGA-A3-3347 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-A3-3349      TCGA-A3-3351      TCGA-A3-3362      TCGA-A3-3363 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-A3-3372      TCGA-A3-3378      TCGA-A3-3380      TCGA-A3-3382 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-A3-3383      TCGA-AK-3444      TCGA-AK-3455      TCGA-AK-3456 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-AS-3778      TCGA-B2-3924      TCGA-B2-4098      TCGA-B2-4099 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-B2-4102      TCGA-B8-4143      TCGA-B8-4148      TCGA-B8-4151 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-B8-4154      TCGA-B8-4620      TCGA-BP-4161      TCGA-BP-4162 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-BP-4163      TCGA-BP-4164      TCGA-BP-4167      TCGA-CJ-4634 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-CJ-4636      TCGA-CJ-4637      TCGA-CJ-4638      TCGA-CJ-4639 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-CJ-4640      TCGA-CJ-4641      TCGA-CJ-4643      TCGA-CJ-4644 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
D14V3, multiclass
        clus
vv       TOR1A MUTATED TOR1A WILD-TYPE
  CLUS_1             0              73
  CLUS_2             1             129
  CLUS_3             2              87
D14V4, multiclass
[1] "Remove cluster labels:" "TOR1A MUTATED"         
clus
  TOR1A MUTATED TOR1A WILD-TYPE 
              2             197 
     TCGA-A3-3357      TCGA-A3-3358      TCGA-A3-3367      TCGA-A3-3370 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-A3-3373      TCGA-A3-3376      TCGA-A3-3385      TCGA-A3-3387 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-AK-3458      TCGA-B0-4700      TCGA-B0-4706      TCGA-B0-4710 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-B0-4712      TCGA-B0-4810      TCGA-B0-4811      TCGA-B0-4815 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-B0-4816      TCGA-B0-4818      TCGA-B0-4823      TCGA-B0-4827 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-B0-4842      TCGA-B0-4852      TCGA-B0-4945      TCGA-B0-5080 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-B0-5092      TCGA-B0-5094      TCGA-B0-5095      TCGA-B0-5097 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-B0-5099      TCGA-B0-5100      TCGA-B0-5102      TCGA-B0-5104 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-B0-5106      TCGA-B0-5107      TCGA-B0-5108      TCGA-B0-5109 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-B0-5110      TCGA-B0-5113      TCGA-B0-5115      TCGA-B0-5116 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-B0-5119      TCGA-B0-5120      TCGA-B0-5121      TCGA-B0-5399 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-B0-5400      TCGA-B0-5402      TCGA-B0-5691      TCGA-B0-5692 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-B0-5693      TCGA-B0-5694      TCGA-B0-5695      TCGA-B0-5696 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-B0-5697      TCGA-B0-5698      TCGA-B0-5699      TCGA-B0-5701 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-B0-5702      TCGA-B0-5703      TCGA-B0-5705      TCGA-B0-5706 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-B0-5707      TCGA-B0-5709      TCGA-B0-5710      TCGA-B0-5711 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-B0-5713      TCGA-B0-5812      TCGA-B2-4101      TCGA-B2-5633 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-B2-5635      TCGA-B2-5641      TCGA-B4-5377      TCGA-B8-4146 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-B8-4153      TCGA-B8-4621      TCGA-B8-4622      TCGA-B8-5158 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-B8-5159      TCGA-B8-5163      TCGA-B8-5164      TCGA-B8-5165 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-B8-5545      TCGA-B8-5546      TCGA-B8-5549      TCGA-B8-5551 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-B8-5552      TCGA-BP-4770      TCGA-BP-4782      TCGA-BP-4801 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-BP-4993      TCGA-BP-5010      TCGA-BP-5169      TCGA-BP-5170 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-BP-5173      TCGA-BP-5174      TCGA-BP-5175      TCGA-BP-5176 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-BP-5177      TCGA-BP-5178      TCGA-BP-5180      TCGA-BP-5182 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-BP-5183      TCGA-BP-5184      TCGA-BP-5185      TCGA-BP-5186 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-BP-5187      TCGA-BP-5189      TCGA-BP-5190      TCGA-BP-5191 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-BP-5192      TCGA-BP-5194      TCGA-BP-5195      TCGA-BP-5196 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-BP-5198      TCGA-BP-5199      TCGA-BP-5200      TCGA-BP-5201 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-BP-5202      TCGA-CJ-4882      TCGA-CJ-4897      TCGA-CJ-4901 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-CJ-4902      TCGA-CJ-4903      TCGA-CJ-4904      TCGA-CJ-4905 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-CJ-4907      TCGA-CJ-4908      TCGA-CJ-4912      TCGA-CJ-4913 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-CJ-4916      TCGA-CJ-4918      TCGA-CJ-4920      TCGA-CJ-4923 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-CJ-5671      TCGA-CJ-5672      TCGA-CJ-5675      TCGA-CJ-5676 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-CJ-5677      TCGA-CJ-5678      TCGA-CJ-5679      TCGA-CJ-5680 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-CJ-5681      TCGA-CJ-5682      TCGA-CJ-5683      TCGA-CJ-5684 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-CJ-5686      TCGA-CJ-6027      TCGA-CJ-6028      TCGA-CJ-6030 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-CJ-6031      TCGA-CJ-6032      TCGA-CJ-6033      TCGA-CW-5580 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-CW-5581      TCGA-CW-5583      TCGA-CW-5584      TCGA-CW-5585 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-CW-5588      TCGA-CW-5589      TCGA-CW-5591      TCGA-CW-6087 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-CW-6090      TCGA-CW-6093      TCGA-CZ-4853      TCGA-CZ-4856 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-CZ-4859      TCGA-CZ-4863      TCGA-CZ-4866      TCGA-CZ-5451 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-CZ-5452      TCGA-CZ-5453      TCGA-CZ-5454      TCGA-CZ-5456 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-CZ-5457      TCGA-CZ-5458      TCGA-CZ-5459      TCGA-CZ-5460 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-CZ-5461      TCGA-CZ-5462      TCGA-CZ-5463      TCGA-CZ-5464 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-CZ-5465      TCGA-CZ-5466      TCGA-CZ-5467      TCGA-CZ-5468 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-CZ-5469      TCGA-CZ-5470      TCGA-CZ-5982      TCGA-CZ-5984 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-CZ-5985      TCGA-CZ-5986      TCGA-CZ-5987      TCGA-CZ-5988 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-CZ-5989      TCGA-EU-5904      TCGA-EU-5905      TCGA-EU-5906 
"TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" "TOR1A WILD-TYPE" 
     TCGA-EU-5907 
"TOR1A WILD-TYPE" 
D14V5, multiclass
        clus
vv       TOR1A MUTATED TOR1A WILD-TYPE
  CLUS_1             0              95
  CLUS_2             2             100
  CLUS_3             1              76
D14V6, multiclass
        clus
vv       TOR1A MUTATED TOR1A WILD-TYPE
  CLUS_1             0              92
  CLUS_2             3             129
  CLUS_3             0              50
D14V7, multiclass
        clus
vv       TOR1A MUTATED TOR1A WILD-TYPE
  CLUS_1             1             123
  CLUS_2             1             109
  CLUS_3             1              45
D14V8, multiclass
        clus
vv       TOR1A MUTATED TOR1A WILD-TYPE
  CLUS_1             0              31
  CLUS_2             2             130
  CLUS_3             1             116
D14V9, multiclass
        clus
vv       TOR1A MUTATED TOR1A WILD-TYPE
  CLUS_1             1              58
  CLUS_2             1             124
  CLUS_3             1              76
  CLUS_4             0              27
D14V10, multiclass
        clus
vv       TOR1A MUTATED TOR1A WILD-TYPE
  CLUS_1             2              88
  CLUS_2             1             176
  CLUS_3             0              21

Clustering(15) Variable = MUC4 MUTATION ANALYSIS
D15V1, multiclass
        clus
vv       MUC4 MUTATED MUC4 WILD-TYPE
  CLUS_1            6             19
  CLUS_2            7             14
  CLUS_3            1              2
D15V2, multiclass
        clus
vv       MUC4 MUTATED MUC4 WILD-TYPE
  CLUS_1            1              3
  CLUS_2            6             13
  CLUS_3            7             19
D15V3, multiclass
        clus
vv       MUC4 MUTATED MUC4 WILD-TYPE
  CLUS_1           14             59
  CLUS_2           12            118
  CLUS_3           15             74
D15V4, multiclass
        clus
vv       MUC4 MUTATED MUC4 WILD-TYPE
  CLUS_1           12             59
  CLUS_2            5             79
  CLUS_3            8             36
D15V5, multiclass
        clus
vv       MUC4 MUTATED MUC4 WILD-TYPE
  CLUS_1           15             80
  CLUS_2            8             94
  CLUS_3           12             65
D15V6, multiclass
        clus
vv       MUC4 MUTATED MUC4 WILD-TYPE
  CLUS_1           11             81
  CLUS_2           17            115
  CLUS_3            7             43
D15V7, multiclass
        clus
vv       MUC4 MUTATED MUC4 WILD-TYPE
  CLUS_1           11            113
  CLUS_2           22             88
  CLUS_3            7             39
D15V8, multiclass
        clus
vv       MUC4 MUTATED MUC4 WILD-TYPE
  CLUS_1            5             26
  CLUS_2           13            119
  CLUS_3           22             95
D15V9, multiclass
        clus
vv       MUC4 MUTATED MUC4 WILD-TYPE
  CLUS_1            5             54
  CLUS_2           14            111
  CLUS_3           17             60
  CLUS_4            5             22
D15V10, multiclass
        clus
vv       MUC4 MUTATED MUC4 WILD-TYPE
  CLUS_1           12             78
  CLUS_2           21            156
  CLUS_3            8             13

Clustering(16) Variable = UQCRFS1 MUTATION ANALYSIS
D16V1, multiclass
[1] "Remove cluster labels:" "UQCRFS1 MUTATED"       
clus
  UQCRFS1 MUTATED UQCRFS1 WILD-TYPE 
                1                48 
       TCGA-A3-3308        TCGA-A3-3311        TCGA-A3-3316        TCGA-A3-3317 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-A3-3319        TCGA-A3-3320        TCGA-A3-3322        TCGA-A3-3323 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-A3-3324        TCGA-A3-3326        TCGA-A3-3346        TCGA-A3-3347 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-A3-3349        TCGA-A3-3351        TCGA-A3-3362        TCGA-A3-3363 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-A3-3365        TCGA-A3-3372        TCGA-A3-3378        TCGA-A3-3380 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-A3-3382        TCGA-A3-3383        TCGA-AK-3444        TCGA-AK-3455 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-AK-3456        TCGA-AS-3778        TCGA-B2-3924        TCGA-B2-4098 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B2-4099        TCGA-B2-4102        TCGA-B8-4143        TCGA-B8-4148 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B8-4151        TCGA-B8-4154        TCGA-B8-4620        TCGA-BP-4161 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-4162        TCGA-BP-4163        TCGA-BP-4164        TCGA-BP-4167 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CJ-4634        TCGA-CJ-4636        TCGA-CJ-4637        TCGA-CJ-4638 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CJ-4639        TCGA-CJ-4640        TCGA-CJ-4641        TCGA-CJ-4644 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
D16V2, multiclass
[1] "Remove cluster labels:" "UQCRFS1 MUTATED"       
clus
  UQCRFS1 MUTATED UQCRFS1 WILD-TYPE 
                1                48 
       TCGA-A3-3308        TCGA-A3-3311        TCGA-A3-3316        TCGA-A3-3317 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-A3-3319        TCGA-A3-3320        TCGA-A3-3322        TCGA-A3-3323 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-A3-3324        TCGA-A3-3326        TCGA-A3-3346        TCGA-A3-3347 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-A3-3349        TCGA-A3-3351        TCGA-A3-3362        TCGA-A3-3363 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-A3-3365        TCGA-A3-3372        TCGA-A3-3378        TCGA-A3-3380 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-A3-3382        TCGA-A3-3383        TCGA-AK-3444        TCGA-AK-3455 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-AK-3456        TCGA-AS-3778        TCGA-B2-3924        TCGA-B2-4098 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B2-4099        TCGA-B2-4102        TCGA-B8-4143        TCGA-B8-4148 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B8-4151        TCGA-B8-4154        TCGA-B8-4620        TCGA-BP-4161 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-4162        TCGA-BP-4163        TCGA-BP-4164        TCGA-BP-4167 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CJ-4634        TCGA-CJ-4636        TCGA-CJ-4637        TCGA-CJ-4638 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CJ-4639        TCGA-CJ-4640        TCGA-CJ-4641        TCGA-CJ-4644 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
D16V3, multiclass
        clus
vv       UQCRFS1 MUTATED UQCRFS1 WILD-TYPE
  CLUS_1               2                71
  CLUS_2               1               129
  CLUS_3               0                89
D16V4, multiclass
[1] "Remove cluster labels:" "UQCRFS1 MUTATED"       
clus
  UQCRFS1 MUTATED UQCRFS1 WILD-TYPE 
                1               198 
       TCGA-A3-3357        TCGA-A3-3358        TCGA-A3-3367        TCGA-A3-3370 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-A3-3373        TCGA-A3-3376        TCGA-A3-3385        TCGA-A3-3387 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-AK-3458        TCGA-B0-4700        TCGA-B0-4706        TCGA-B0-4710 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B0-4712        TCGA-B0-4810        TCGA-B0-4811        TCGA-B0-4815 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B0-4816        TCGA-B0-4818        TCGA-B0-4823        TCGA-B0-4827 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B0-4842        TCGA-B0-4852        TCGA-B0-4945        TCGA-B0-5080 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B0-5092        TCGA-B0-5094        TCGA-B0-5095        TCGA-B0-5096 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B0-5097        TCGA-B0-5099        TCGA-B0-5100        TCGA-B0-5102 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B0-5104        TCGA-B0-5106        TCGA-B0-5107        TCGA-B0-5108 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B0-5109        TCGA-B0-5110        TCGA-B0-5113        TCGA-B0-5115 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B0-5116        TCGA-B0-5119        TCGA-B0-5120        TCGA-B0-5121 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B0-5399        TCGA-B0-5400        TCGA-B0-5402        TCGA-B0-5691 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B0-5692        TCGA-B0-5693        TCGA-B0-5694        TCGA-B0-5695 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B0-5696        TCGA-B0-5697        TCGA-B0-5698        TCGA-B0-5699 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B0-5701        TCGA-B0-5702        TCGA-B0-5705        TCGA-B0-5706 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B0-5707        TCGA-B0-5709        TCGA-B0-5710        TCGA-B0-5711 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B0-5713        TCGA-B0-5812        TCGA-B2-4101        TCGA-B2-5633 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B2-5635        TCGA-B2-5641        TCGA-B4-5377        TCGA-B8-4146 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B8-4153        TCGA-B8-4621        TCGA-B8-4622        TCGA-B8-5158 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B8-5159        TCGA-B8-5163        TCGA-B8-5164        TCGA-B8-5165 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B8-5545        TCGA-B8-5546        TCGA-B8-5549        TCGA-B8-5551 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B8-5552        TCGA-BP-4770        TCGA-BP-4782        TCGA-BP-4801 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-4993        TCGA-BP-5010        TCGA-BP-5168        TCGA-BP-5169 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-5170        TCGA-BP-5173        TCGA-BP-5174        TCGA-BP-5175 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-5176        TCGA-BP-5177        TCGA-BP-5178        TCGA-BP-5180 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-5182        TCGA-BP-5183        TCGA-BP-5184        TCGA-BP-5185 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-5186        TCGA-BP-5187        TCGA-BP-5189        TCGA-BP-5190 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-5191        TCGA-BP-5192        TCGA-BP-5194        TCGA-BP-5195 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-5196        TCGA-BP-5198        TCGA-BP-5199        TCGA-BP-5200 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-5201        TCGA-BP-5202        TCGA-CJ-4882        TCGA-CJ-4897 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CJ-4901        TCGA-CJ-4902        TCGA-CJ-4903        TCGA-CJ-4904 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CJ-4905        TCGA-CJ-4907        TCGA-CJ-4908        TCGA-CJ-4912 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CJ-4913        TCGA-CJ-4916        TCGA-CJ-4918        TCGA-CJ-4920 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CJ-4923        TCGA-CJ-5671        TCGA-CJ-5672        TCGA-CJ-5675 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CJ-5676        TCGA-CJ-5677        TCGA-CJ-5678        TCGA-CJ-5679 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CJ-5680        TCGA-CJ-5681        TCGA-CJ-5682        TCGA-CJ-5683 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CJ-5684        TCGA-CJ-5686        TCGA-CJ-6027        TCGA-CJ-6028 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CJ-6030        TCGA-CJ-6031        TCGA-CJ-6032        TCGA-CJ-6033 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CW-5580        TCGA-CW-5581        TCGA-CW-5583        TCGA-CW-5584 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CW-5585        TCGA-CW-5588        TCGA-CW-5589        TCGA-CW-5591 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CW-6087        TCGA-CW-6090        TCGA-CW-6093        TCGA-CZ-4853 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CZ-4856        TCGA-CZ-4859        TCGA-CZ-4863        TCGA-CZ-4866 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CZ-5451        TCGA-CZ-5452        TCGA-CZ-5453        TCGA-CZ-5454 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CZ-5456        TCGA-CZ-5457        TCGA-CZ-5458        TCGA-CZ-5459 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CZ-5460        TCGA-CZ-5461        TCGA-CZ-5462        TCGA-CZ-5463 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CZ-5464        TCGA-CZ-5465        TCGA-CZ-5466        TCGA-CZ-5467 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CZ-5468        TCGA-CZ-5469        TCGA-CZ-5470        TCGA-CZ-5982 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CZ-5984        TCGA-CZ-5985        TCGA-CZ-5986        TCGA-CZ-5987 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CZ-5988        TCGA-CZ-5989        TCGA-EU-5904        TCGA-EU-5905 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-EU-5906        TCGA-EU-5907 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
D16V5, multiclass
[1] "Remove cluster labels:" "UQCRFS1 MUTATED"       
clus
  UQCRFS1 MUTATED UQCRFS1 WILD-TYPE 
                1               273 
       TCGA-A3-3308        TCGA-A3-3311        TCGA-A3-3316        TCGA-A3-3317 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-A3-3319        TCGA-A3-3320        TCGA-A3-3322        TCGA-A3-3323 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-A3-3324        TCGA-A3-3326        TCGA-A3-3346        TCGA-A3-3347 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-A3-3349        TCGA-A3-3351        TCGA-A3-3357        TCGA-A3-3362 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-A3-3363        TCGA-A3-3365        TCGA-A3-3367        TCGA-A3-3370 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-A3-3372        TCGA-A3-3373        TCGA-A3-3376        TCGA-A3-3378 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-A3-3380        TCGA-A3-3382        TCGA-A3-3383        TCGA-A3-3385 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-A3-3387        TCGA-AK-3436        TCGA-AK-3444        TCGA-AK-3451 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-AK-3456        TCGA-B0-4700        TCGA-B0-4706        TCGA-B0-4710 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B0-4712        TCGA-B0-4810        TCGA-B0-4811        TCGA-B0-4815 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B0-4816        TCGA-B0-4818        TCGA-B0-4823        TCGA-B0-4827 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B0-4842        TCGA-B0-4852        TCGA-B0-4945        TCGA-B0-5075 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B0-5077        TCGA-B0-5080        TCGA-B0-5081        TCGA-B0-5085 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B0-5088        TCGA-B0-5092        TCGA-B0-5094        TCGA-B0-5095 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B0-5096        TCGA-B0-5097        TCGA-B0-5099        TCGA-B0-5100 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B0-5102        TCGA-B0-5104        TCGA-B0-5106        TCGA-B0-5107 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B0-5108        TCGA-B0-5109        TCGA-B0-5110        TCGA-B0-5113 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B0-5115        TCGA-B0-5116        TCGA-B0-5119        TCGA-B0-5120 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B0-5121        TCGA-B0-5399        TCGA-B0-5400        TCGA-B0-5402 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B0-5691        TCGA-B0-5692        TCGA-B0-5693        TCGA-B0-5694 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B0-5695        TCGA-B0-5696        TCGA-B0-5697        TCGA-B0-5698 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B0-5699        TCGA-B0-5701        TCGA-B0-5702        TCGA-B0-5705 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B0-5706        TCGA-B0-5707        TCGA-B0-5709        TCGA-B0-5710 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B0-5711        TCGA-B0-5713        TCGA-B0-5812        TCGA-B2-3924 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B2-4098        TCGA-B2-4099        TCGA-B2-4101        TCGA-B2-4102 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B2-5633        TCGA-B2-5635        TCGA-B2-5641        TCGA-B4-5377 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B8-4143        TCGA-B8-4146        TCGA-B8-4153        TCGA-B8-4620 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B8-4621        TCGA-B8-4622        TCGA-B8-5158        TCGA-B8-5159 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B8-5163        TCGA-B8-5164        TCGA-B8-5165        TCGA-B8-5545 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B8-5546        TCGA-B8-5549        TCGA-B8-5551        TCGA-B8-5552 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-4161        TCGA-BP-4164        TCGA-BP-4770        TCGA-BP-4801 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-4960        TCGA-BP-4961        TCGA-BP-4962        TCGA-BP-4963 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-4964        TCGA-BP-4967        TCGA-BP-4968        TCGA-BP-4970 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-4971        TCGA-BP-4972        TCGA-BP-4973        TCGA-BP-4974 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-4975        TCGA-BP-4976        TCGA-BP-4977        TCGA-BP-4981 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-4982        TCGA-BP-4983        TCGA-BP-4985        TCGA-BP-4986 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-4987        TCGA-BP-4988        TCGA-BP-4989        TCGA-BP-4991 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-4992        TCGA-BP-4993        TCGA-BP-4995        TCGA-BP-4998 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-4999        TCGA-BP-5000        TCGA-BP-5001        TCGA-BP-5004 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-5006        TCGA-BP-5007        TCGA-BP-5008        TCGA-BP-5009 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-5010        TCGA-BP-5168        TCGA-BP-5169        TCGA-BP-5170 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-5173        TCGA-BP-5174        TCGA-BP-5175        TCGA-BP-5176 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-5177        TCGA-BP-5178        TCGA-BP-5180        TCGA-BP-5182 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-5183        TCGA-BP-5184        TCGA-BP-5185        TCGA-BP-5186 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-5187        TCGA-BP-5189        TCGA-BP-5190        TCGA-BP-5191 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-5192        TCGA-BP-5194        TCGA-BP-5195        TCGA-BP-5196 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-5198        TCGA-BP-5199        TCGA-BP-5200        TCGA-BP-5201 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-5202        TCGA-CJ-4634        TCGA-CJ-4638        TCGA-CJ-4640 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CJ-4882        TCGA-CJ-4897        TCGA-CJ-4899        TCGA-CJ-4901 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CJ-4902        TCGA-CJ-4903        TCGA-CJ-4904        TCGA-CJ-4905 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CJ-4907        TCGA-CJ-4908        TCGA-CJ-4912        TCGA-CJ-4913 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CJ-4916        TCGA-CJ-4918        TCGA-CJ-4920        TCGA-CJ-4923 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CJ-5671        TCGA-CJ-5672        TCGA-CJ-5675        TCGA-CJ-5676 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CJ-5677        TCGA-CJ-5678        TCGA-CJ-5679        TCGA-CJ-5680 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CJ-5681        TCGA-CJ-5682        TCGA-CJ-5683        TCGA-CJ-5684 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CJ-5686        TCGA-CJ-6027        TCGA-CJ-6028        TCGA-CJ-6030 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CJ-6031        TCGA-CJ-6032        TCGA-CJ-6033        TCGA-CW-5580 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CW-5581        TCGA-CW-5583        TCGA-CW-5584        TCGA-CW-5585 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CW-5588        TCGA-CW-5589        TCGA-CW-5591        TCGA-CW-6087 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CW-6090        TCGA-CW-6093        TCGA-CZ-4853        TCGA-CZ-4856 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CZ-4859        TCGA-CZ-4863        TCGA-CZ-4866        TCGA-CZ-5451 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CZ-5452        TCGA-CZ-5453        TCGA-CZ-5454        TCGA-CZ-5456 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CZ-5457        TCGA-CZ-5458        TCGA-CZ-5459        TCGA-CZ-5460 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CZ-5461        TCGA-CZ-5462        TCGA-CZ-5463        TCGA-CZ-5464 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CZ-5465        TCGA-CZ-5466        TCGA-CZ-5467        TCGA-CZ-5468 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CZ-5469        TCGA-CZ-5470        TCGA-CZ-5982        TCGA-CZ-5984 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CZ-5985        TCGA-CZ-5986        TCGA-CZ-5987        TCGA-CZ-5988 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CZ-5989        TCGA-EU-5904        TCGA-EU-5905        TCGA-EU-5906 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-EU-5907 
"UQCRFS1 WILD-TYPE" 
D16V6, multiclass
[1] "Remove cluster labels:" "UQCRFS1 MUTATED"       
clus
  UQCRFS1 MUTATED UQCRFS1 WILD-TYPE 
                1               273 
       TCGA-A3-3308        TCGA-A3-3311        TCGA-A3-3316        TCGA-A3-3317 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-A3-3319        TCGA-A3-3320        TCGA-A3-3322        TCGA-A3-3323 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-A3-3324        TCGA-A3-3326        TCGA-A3-3346        TCGA-A3-3347 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-A3-3349        TCGA-A3-3351        TCGA-A3-3357        TCGA-A3-3362 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-A3-3363        TCGA-A3-3365        TCGA-A3-3367        TCGA-A3-3370 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-A3-3372        TCGA-A3-3373        TCGA-A3-3376        TCGA-A3-3378 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-A3-3380        TCGA-A3-3382        TCGA-A3-3383        TCGA-A3-3385 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-A3-3387        TCGA-AK-3436        TCGA-AK-3444        TCGA-AK-3451 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-AK-3456        TCGA-B0-4700        TCGA-B0-4706        TCGA-B0-4710 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B0-4712        TCGA-B0-4810        TCGA-B0-4811        TCGA-B0-4815 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B0-4816        TCGA-B0-4818        TCGA-B0-4823        TCGA-B0-4827 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B0-4842        TCGA-B0-4852        TCGA-B0-4945        TCGA-B0-5075 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B0-5077        TCGA-B0-5080        TCGA-B0-5081        TCGA-B0-5085 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B0-5088        TCGA-B0-5092        TCGA-B0-5094        TCGA-B0-5095 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B0-5096        TCGA-B0-5097        TCGA-B0-5099        TCGA-B0-5100 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B0-5102        TCGA-B0-5104        TCGA-B0-5106        TCGA-B0-5107 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B0-5108        TCGA-B0-5109        TCGA-B0-5110        TCGA-B0-5113 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B0-5115        TCGA-B0-5116        TCGA-B0-5119        TCGA-B0-5120 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B0-5121        TCGA-B0-5399        TCGA-B0-5400        TCGA-B0-5402 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B0-5691        TCGA-B0-5692        TCGA-B0-5693        TCGA-B0-5694 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B0-5695        TCGA-B0-5696        TCGA-B0-5697        TCGA-B0-5698 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B0-5699        TCGA-B0-5701        TCGA-B0-5702        TCGA-B0-5705 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B0-5706        TCGA-B0-5707        TCGA-B0-5709        TCGA-B0-5710 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B0-5711        TCGA-B0-5713        TCGA-B0-5812        TCGA-B2-3924 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B2-4098        TCGA-B2-4099        TCGA-B2-4101        TCGA-B2-4102 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B2-5633        TCGA-B2-5635        TCGA-B2-5641        TCGA-B4-5377 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B8-4143        TCGA-B8-4146        TCGA-B8-4153        TCGA-B8-4620 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B8-4621        TCGA-B8-4622        TCGA-B8-5158        TCGA-B8-5159 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B8-5163        TCGA-B8-5164        TCGA-B8-5165        TCGA-B8-5545 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-B8-5546        TCGA-B8-5549        TCGA-B8-5551        TCGA-B8-5552 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-4161        TCGA-BP-4164        TCGA-BP-4770        TCGA-BP-4801 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-4960        TCGA-BP-4961        TCGA-BP-4962        TCGA-BP-4963 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-4964        TCGA-BP-4967        TCGA-BP-4968        TCGA-BP-4970 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-4971        TCGA-BP-4972        TCGA-BP-4973        TCGA-BP-4974 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-4975        TCGA-BP-4976        TCGA-BP-4977        TCGA-BP-4981 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-4982        TCGA-BP-4983        TCGA-BP-4985        TCGA-BP-4986 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-4987        TCGA-BP-4988        TCGA-BP-4989        TCGA-BP-4991 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-4992        TCGA-BP-4993        TCGA-BP-4995        TCGA-BP-4998 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-4999        TCGA-BP-5000        TCGA-BP-5001        TCGA-BP-5004 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-5006        TCGA-BP-5007        TCGA-BP-5008        TCGA-BP-5009 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-5010        TCGA-BP-5168        TCGA-BP-5169        TCGA-BP-5170 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-5173        TCGA-BP-5174        TCGA-BP-5175        TCGA-BP-5176 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-5177        TCGA-BP-5178        TCGA-BP-5180        TCGA-BP-5182 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-5183        TCGA-BP-5184        TCGA-BP-5185        TCGA-BP-5186 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-5187        TCGA-BP-5189        TCGA-BP-5190        TCGA-BP-5191 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-5192        TCGA-BP-5194        TCGA-BP-5195        TCGA-BP-5196 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-5198        TCGA-BP-5199        TCGA-BP-5200        TCGA-BP-5201 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-BP-5202        TCGA-CJ-4634        TCGA-CJ-4638        TCGA-CJ-4640 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CJ-4882        TCGA-CJ-4897        TCGA-CJ-4899        TCGA-CJ-4901 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CJ-4902        TCGA-CJ-4903        TCGA-CJ-4904        TCGA-CJ-4905 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CJ-4907        TCGA-CJ-4908        TCGA-CJ-4912        TCGA-CJ-4913 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CJ-4916        TCGA-CJ-4918        TCGA-CJ-4920        TCGA-CJ-4923 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CJ-5671        TCGA-CJ-5672        TCGA-CJ-5675        TCGA-CJ-5676 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CJ-5677        TCGA-CJ-5678        TCGA-CJ-5679        TCGA-CJ-5680 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CJ-5681        TCGA-CJ-5682        TCGA-CJ-5683        TCGA-CJ-5684 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CJ-5686        TCGA-CJ-6027        TCGA-CJ-6028        TCGA-CJ-6030 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CJ-6031        TCGA-CJ-6032        TCGA-CJ-6033        TCGA-CW-5580 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CW-5581        TCGA-CW-5583        TCGA-CW-5584        TCGA-CW-5585 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CW-5588        TCGA-CW-5589        TCGA-CW-5591        TCGA-CW-6087 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CW-6090        TCGA-CW-6093        TCGA-CZ-4853        TCGA-CZ-4856 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CZ-4859        TCGA-CZ-4863        TCGA-CZ-4866        TCGA-CZ-5451 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CZ-5452        TCGA-CZ-5453        TCGA-CZ-5454        TCGA-CZ-5456 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CZ-5457        TCGA-CZ-5458        TCGA-CZ-5459        TCGA-CZ-5460 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CZ-5461        TCGA-CZ-5462        TCGA-CZ-5463        TCGA-CZ-5464 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CZ-5465        TCGA-CZ-5466        TCGA-CZ-5467        TCGA-CZ-5468 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CZ-5469        TCGA-CZ-5470        TCGA-CZ-5982        TCGA-CZ-5984 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CZ-5985        TCGA-CZ-5986        TCGA-CZ-5987        TCGA-CZ-5988 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-CZ-5989        TCGA-EU-5904        TCGA-EU-5905        TCGA-EU-5906 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-EU-5907 
"UQCRFS1 WILD-TYPE" 
D16V7, multiclass
        clus
vv       UQCRFS1 MUTATED UQCRFS1 WILD-TYPE
  CLUS_1               3               121
  CLUS_2               0               110
  CLUS_3               0                46
D16V8, multiclass
        clus
vv       UQCRFS1 MUTATED UQCRFS1 WILD-TYPE
  CLUS_1               0                31
  CLUS_2               3               129
  CLUS_3               0               117
D16V9, multiclass
        clus
vv       UQCRFS1 MUTATED UQCRFS1 WILD-TYPE
  CLUS_1               0                59
  CLUS_2               3               122
  CLUS_3               0                77
  CLUS_4               0                27
D16V10, multiclass
        clus
vv       UQCRFS1 MUTATED UQCRFS1 WILD-TYPE
  CLUS_1               0                90
  CLUS_2               3               174
  CLUS_3               0                21

Clustering(17) Variable = WDR52 MUTATION ANALYSIS
D17V1, multiclass
[1] "Remove cluster labels:" "WDR52 MUTATED"         
clus
  WDR52 MUTATED WDR52 WILD-TYPE 
              2              47 
     TCGA-A3-3308      TCGA-A3-3311      TCGA-A3-3316      TCGA-A3-3317 
"WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" 
     TCGA-A3-3319      TCGA-A3-3320      TCGA-A3-3322      TCGA-A3-3323 
"WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" 
     TCGA-A3-3324      TCGA-A3-3326      TCGA-A3-3346      TCGA-A3-3347 
"WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" 
     TCGA-A3-3349      TCGA-A3-3351      TCGA-A3-3362      TCGA-A3-3363 
"WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" 
     TCGA-A3-3365      TCGA-A3-3372      TCGA-A3-3378      TCGA-A3-3380 
"WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" 
     TCGA-A3-3382      TCGA-A3-3383      TCGA-AK-3444      TCGA-AK-3455 
"WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" 
     TCGA-AK-3456      TCGA-AS-3778      TCGA-B2-3924      TCGA-B2-4098 
"WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" 
     TCGA-B2-4099      TCGA-B8-4143      TCGA-B8-4148      TCGA-B8-4151 
"WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" 
     TCGA-B8-4154      TCGA-B8-4620      TCGA-BP-4161      TCGA-BP-4162 
"WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" 
     TCGA-BP-4163      TCGA-BP-4164      TCGA-BP-4167      TCGA-CJ-4634 
"WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" 
     TCGA-CJ-4636      TCGA-CJ-4638      TCGA-CJ-4639      TCGA-CJ-4640 
"WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" 
     TCGA-CJ-4641      TCGA-CJ-4643      TCGA-CJ-4644 
"WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" 
D17V2, multiclass
[1] "Remove cluster labels:" "WDR52 MUTATED"         
clus
  WDR52 MUTATED WDR52 WILD-TYPE 
              2              47 
     TCGA-A3-3308      TCGA-A3-3311      TCGA-A3-3316      TCGA-A3-3317 
"WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" 
     TCGA-A3-3319      TCGA-A3-3320      TCGA-A3-3322      TCGA-A3-3323 
"WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" 
     TCGA-A3-3324      TCGA-A3-3326      TCGA-A3-3346      TCGA-A3-3347 
"WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" 
     TCGA-A3-3349      TCGA-A3-3351      TCGA-A3-3362      TCGA-A3-3363 
"WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" 
     TCGA-A3-3365      TCGA-A3-3372      TCGA-A3-3378      TCGA-A3-3380 
"WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" 
     TCGA-A3-3382      TCGA-A3-3383      TCGA-AK-3444      TCGA-AK-3455 
"WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" 
     TCGA-AK-3456      TCGA-AS-3778      TCGA-B2-3924      TCGA-B2-4098 
"WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" 
     TCGA-B2-4099      TCGA-B8-4143      TCGA-B8-4148      TCGA-B8-4151 
"WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" 
     TCGA-B8-4154      TCGA-B8-4620      TCGA-BP-4161      TCGA-BP-4162 
"WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" 
     TCGA-BP-4163      TCGA-BP-4164      TCGA-BP-4167      TCGA-CJ-4634 
"WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" 
     TCGA-CJ-4636      TCGA-CJ-4638      TCGA-CJ-4639      TCGA-CJ-4640 
"WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" 
     TCGA-CJ-4641      TCGA-CJ-4643      TCGA-CJ-4644 
"WDR52 WILD-TYPE" "WDR52 WILD-TYPE" "WDR52 WILD-TYPE" 
D17V3, multiclass
        clus
vv       WDR52 MUTATED WDR52 WILD-TYPE
  CLUS_1             1              72
  CLUS_2             3             127
  CLUS_3             5              84
D17V4, multiclass
        clus
vv       WDR52 MUTATED WDR52 WILD-TYPE
  CLUS_1             2              69
  CLUS_2             2              82
  CLUS_3             3              41
D17V5, multiclass
        clus
vv       WDR52 MUTATED WDR52 WILD-TYPE
  CLUS_1             3              92
  CLUS_2             2             100
  CLUS_3             3              74
D17V6, multiclass
        clus
vv       WDR52 MUTATED WDR52 WILD-TYPE
  CLUS_1             2              90
  CLUS_2             5             127
  CLUS_3             1              49
D17V7, multiclass
        clus
vv       WDR52 MUTATED WDR52 WILD-TYPE
  CLUS_1             2             122
  CLUS_2             4             106
  CLUS_3             2              44
D17V8, multiclass
        clus
vv       WDR52 MUTATED WDR52 WILD-TYPE
  CLUS_1             0              31
  CLUS_2             3             129
  CLUS_3             5             112
D17V9, multiclass
        clus
vv       WDR52 MUTATED WDR52 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             3             122
  CLUS_3             2              75
  CLUS_4             1              26
D17V10, multiclass
        clus
vv       WDR52 MUTATED WDR52 WILD-TYPE
  CLUS_1             5              85
  CLUS_2             4             173
  CLUS_3             0              21

Clustering(18) Variable = BAGE2 MUTATION ANALYSIS
D18V1, multiclass
D18V2, multiclass
D18V3, multiclass
        clus
vv       BAGE2 MUTATED BAGE2 WILD-TYPE
  CLUS_1             1              72
  CLUS_2             1             129
  CLUS_3             2              87
D18V4, multiclass
        clus
vv       BAGE2 MUTATED BAGE2 WILD-TYPE
  CLUS_1             2              69
  CLUS_2             0              84
  CLUS_3             2              42
D18V5, multiclass
        clus
vv       BAGE2 MUTATED BAGE2 WILD-TYPE
  CLUS_1             3              92
  CLUS_2             0             102
  CLUS_3             1              76
D18V6, multiclass
        clus
vv       BAGE2 MUTATED BAGE2 WILD-TYPE
  CLUS_1             1              91
  CLUS_2             1             131
  CLUS_3             2              48
D18V7, multiclass
        clus
vv       BAGE2 MUTATED BAGE2 WILD-TYPE
  CLUS_1             0             124
  CLUS_2             3             107
  CLUS_3             1              45
D18V8, multiclass
        clus
vv       BAGE2 MUTATED BAGE2 WILD-TYPE
  CLUS_1             0              31
  CLUS_2             0             132
  CLUS_3             4             113
D18V9, multiclass
        clus
vv       BAGE2 MUTATED BAGE2 WILD-TYPE
  CLUS_1             3              56
  CLUS_2             1             124
  CLUS_3             0              77
  CLUS_4             0              27
D18V10, multiclass
        clus
vv       BAGE2 MUTATED BAGE2 WILD-TYPE
  CLUS_1             3              87
  CLUS_2             0             177
  CLUS_3             1              20

Clustering(19) Variable = CNTNAP4 MUTATION ANALYSIS
D19V1, multiclass
[1] "Remove cluster labels:" "CNTNAP4 MUTATED"       
clus
  CNTNAP4 MUTATED CNTNAP4 WILD-TYPE 
                2                47 
       TCGA-A3-3308        TCGA-A3-3311        TCGA-A3-3316        TCGA-A3-3319 
"CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" 
       TCGA-A3-3320        TCGA-A3-3322        TCGA-A3-3323        TCGA-A3-3324 
"CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" 
       TCGA-A3-3326        TCGA-A3-3346        TCGA-A3-3347        TCGA-A3-3349 
"CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" 
       TCGA-A3-3351        TCGA-A3-3362        TCGA-A3-3363        TCGA-A3-3365 
"CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" 
       TCGA-A3-3372        TCGA-A3-3378        TCGA-A3-3380        TCGA-A3-3382 
"CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" 
       TCGA-A3-3383        TCGA-AK-3444        TCGA-AK-3455        TCGA-AK-3456 
"CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" 
       TCGA-AS-3778        TCGA-B2-4098        TCGA-B2-4099        TCGA-B2-4102 
"CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" 
       TCGA-B8-4143        TCGA-B8-4148        TCGA-B8-4151        TCGA-B8-4154 
"CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" 
       TCGA-B8-4620        TCGA-BP-4161        TCGA-BP-4162        TCGA-BP-4163 
"CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" 
       TCGA-BP-4164        TCGA-BP-4167        TCGA-CJ-4634        TCGA-CJ-4636 
"CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" 
       TCGA-CJ-4637        TCGA-CJ-4638        TCGA-CJ-4639        TCGA-CJ-4640 
"CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" 
       TCGA-CJ-4641        TCGA-CJ-4643        TCGA-CJ-4644 
"CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" 
D19V2, multiclass
[1] "Remove cluster labels:" "CNTNAP4 MUTATED"       
clus
  CNTNAP4 MUTATED CNTNAP4 WILD-TYPE 
                2                47 
       TCGA-A3-3308        TCGA-A3-3311        TCGA-A3-3316        TCGA-A3-3319 
"CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" 
       TCGA-A3-3320        TCGA-A3-3322        TCGA-A3-3323        TCGA-A3-3324 
"CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" 
       TCGA-A3-3326        TCGA-A3-3346        TCGA-A3-3347        TCGA-A3-3349 
"CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" 
       TCGA-A3-3351        TCGA-A3-3362        TCGA-A3-3363        TCGA-A3-3365 
"CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" 
       TCGA-A3-3372        TCGA-A3-3378        TCGA-A3-3380        TCGA-A3-3382 
"CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" 
       TCGA-A3-3383        TCGA-AK-3444        TCGA-AK-3455        TCGA-AK-3456 
"CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" 
       TCGA-AS-3778        TCGA-B2-4098        TCGA-B2-4099        TCGA-B2-4102 
"CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" 
       TCGA-B8-4143        TCGA-B8-4148        TCGA-B8-4151        TCGA-B8-4154 
"CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" 
       TCGA-B8-4620        TCGA-BP-4161        TCGA-BP-4162        TCGA-BP-4163 
"CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" 
       TCGA-BP-4164        TCGA-BP-4167        TCGA-CJ-4634        TCGA-CJ-4636 
"CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" 
       TCGA-CJ-4637        TCGA-CJ-4638        TCGA-CJ-4639        TCGA-CJ-4640 
"CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" 
       TCGA-CJ-4641        TCGA-CJ-4643        TCGA-CJ-4644 
"CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" "CNTNAP4 WILD-TYPE" 
D19V3, multiclass
        clus
vv       CNTNAP4 MUTATED CNTNAP4 WILD-TYPE
  CLUS_1               3                70
  CLUS_2               3               127
  CLUS_3               3                86
D19V4, multiclass
        clus
vv       CNTNAP4 MUTATED CNTNAP4 WILD-TYPE
  CLUS_1               2                69
  CLUS_2               1                83
  CLUS_3               2                42
D19V5, multiclass
        clus
vv       CNTNAP4 MUTATED CNTNAP4 WILD-TYPE
  CLUS_1               3                92
  CLUS_2               2               100
  CLUS_3               3                74
D19V6, multiclass
        clus
vv       CNTNAP4 MUTATED CNTNAP4 WILD-TYPE
  CLUS_1               4                88
  CLUS_2               4               128
  CLUS_3               0                50
D19V7, multiclass
        clus
vv       CNTNAP4 MUTATED CNTNAP4 WILD-TYPE
  CLUS_1               4               120
  CLUS_2               3               107
  CLUS_3               2                44
D19V8, multiclass
        clus
vv       CNTNAP4 MUTATED CNTNAP4 WILD-TYPE
  CLUS_1               1                30
  CLUS_2               3               129
  CLUS_3               5               112
D19V9, multiclass
        clus
vv       CNTNAP4 MUTATED CNTNAP4 WILD-TYPE
  CLUS_1               2                57
  CLUS_2               4               121
  CLUS_3               2                75
  CLUS_4               0                27
D19V10, multiclass
        clus
vv       CNTNAP4 MUTATED CNTNAP4 WILD-TYPE
  CLUS_1               1                89
  CLUS_2               6               171
  CLUS_3               1                20

Clustering(20) Variable = CR1 MUTATION ANALYSIS
D20V1, multiclass
[1] "Remove cluster labels:" "CR1 MUTATED"           
clus
  CR1 MUTATED CR1 WILD-TYPE 
            1            48 
   TCGA-A3-3308    TCGA-A3-3311    TCGA-A3-3316    TCGA-A3-3317    TCGA-A3-3319 
"CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" 
   TCGA-A3-3320    TCGA-A3-3322    TCGA-A3-3323    TCGA-A3-3324    TCGA-A3-3326 
"CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" 
   TCGA-A3-3346    TCGA-A3-3347    TCGA-A3-3349    TCGA-A3-3351    TCGA-A3-3362 
"CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" 
   TCGA-A3-3363    TCGA-A3-3365    TCGA-A3-3372    TCGA-A3-3378    TCGA-A3-3380 
"CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" 
   TCGA-A3-3382    TCGA-A3-3383    TCGA-AK-3444    TCGA-AK-3455    TCGA-AK-3456 
"CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" 
   TCGA-AS-3778    TCGA-B2-3924    TCGA-B2-4098    TCGA-B2-4099    TCGA-B2-4102 
"CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" 
   TCGA-B8-4143    TCGA-B8-4148    TCGA-B8-4151    TCGA-B8-4154    TCGA-B8-4620 
"CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" 
   TCGA-BP-4161    TCGA-BP-4162    TCGA-BP-4163    TCGA-BP-4164    TCGA-BP-4167 
"CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" 
   TCGA-CJ-4634    TCGA-CJ-4636    TCGA-CJ-4637    TCGA-CJ-4638    TCGA-CJ-4639 
"CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" 
   TCGA-CJ-4640    TCGA-CJ-4643    TCGA-CJ-4644 
"CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" 
D20V2, multiclass
[1] "Remove cluster labels:" "CR1 MUTATED"           
clus
  CR1 MUTATED CR1 WILD-TYPE 
            1            48 
   TCGA-A3-3308    TCGA-A3-3311    TCGA-A3-3316    TCGA-A3-3317    TCGA-A3-3319 
"CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" 
   TCGA-A3-3320    TCGA-A3-3322    TCGA-A3-3323    TCGA-A3-3324    TCGA-A3-3326 
"CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" 
   TCGA-A3-3346    TCGA-A3-3347    TCGA-A3-3349    TCGA-A3-3351    TCGA-A3-3362 
"CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" 
   TCGA-A3-3363    TCGA-A3-3365    TCGA-A3-3372    TCGA-A3-3378    TCGA-A3-3380 
"CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" 
   TCGA-A3-3382    TCGA-A3-3383    TCGA-AK-3444    TCGA-AK-3455    TCGA-AK-3456 
"CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" 
   TCGA-AS-3778    TCGA-B2-3924    TCGA-B2-4098    TCGA-B2-4099    TCGA-B2-4102 
"CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" 
   TCGA-B8-4143    TCGA-B8-4148    TCGA-B8-4151    TCGA-B8-4154    TCGA-B8-4620 
"CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" 
   TCGA-BP-4161    TCGA-BP-4162    TCGA-BP-4163    TCGA-BP-4164    TCGA-BP-4167 
"CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" 
   TCGA-CJ-4634    TCGA-CJ-4636    TCGA-CJ-4637    TCGA-CJ-4638    TCGA-CJ-4639 
"CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" 
   TCGA-CJ-4640    TCGA-CJ-4643    TCGA-CJ-4644 
"CR1 WILD-TYPE" "CR1 WILD-TYPE" "CR1 WILD-TYPE" 
D20V3, multiclass
        clus
vv       CR1 MUTATED CR1 WILD-TYPE
  CLUS_1           2            71
  CLUS_2           4           126
  CLUS_3           3            86
D20V4, multiclass
        clus
vv       CR1 MUTATED CR1 WILD-TYPE
  CLUS_1           1            70
  CLUS_2           5            79
  CLUS_3           3            41
D20V5, multiclass
        clus
vv       CR1 MUTATED CR1 WILD-TYPE
  CLUS_1           5            90
  CLUS_2           4            98
  CLUS_3           0            77
D20V6, multiclass
        clus
vv       CR1 MUTATED CR1 WILD-TYPE
  CLUS_1           3            89
  CLUS_2           4           128
  CLUS_3           2            48
D20V7, multiclass
        clus
vv       CR1 MUTATED CR1 WILD-TYPE
  CLUS_1           3           121
  CLUS_2           2           108
  CLUS_3           4            42
D20V8, multiclass
        clus
vv       CR1 MUTATED CR1 WILD-TYPE
  CLUS_1           2            29
  CLUS_2           4           128
  CLUS_3           3           114
D20V9, multiclass
        clus
vv       CR1 MUTATED CR1 WILD-TYPE
  CLUS_1           1            58
  CLUS_2           4           121
  CLUS_3           3            74
  CLUS_4           2            25
D20V10, multiclass
        clus
vv       CR1 MUTATED CR1 WILD-TYPE
  CLUS_1           1            89
  CLUS_2           7           170
  CLUS_3           2            19

Clustering(21) Variable = STAG2 MUTATION ANALYSIS
D21V1, multiclass
[1] "Remove cluster labels:" "STAG2 MUTATED"         
clus
  STAG2 MUTATED STAG2 WILD-TYPE 
              1              48 
     TCGA-A3-3308      TCGA-A3-3311      TCGA-A3-3316      TCGA-A3-3319 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-A3-3320      TCGA-A3-3322      TCGA-A3-3323      TCGA-A3-3324 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-A3-3326      TCGA-A3-3346      TCGA-A3-3347      TCGA-A3-3349 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-A3-3351      TCGA-A3-3362      TCGA-A3-3363      TCGA-A3-3365 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-A3-3372      TCGA-A3-3378      TCGA-A3-3380      TCGA-A3-3382 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-A3-3383      TCGA-AK-3444      TCGA-AK-3455      TCGA-AK-3456 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-AS-3778      TCGA-B2-3924      TCGA-B2-4098      TCGA-B2-4099 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-B2-4102      TCGA-B8-4143      TCGA-B8-4148      TCGA-B8-4151 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-B8-4154      TCGA-B8-4620      TCGA-BP-4161      TCGA-BP-4162 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-BP-4163      TCGA-BP-4164      TCGA-BP-4167      TCGA-CJ-4634 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-CJ-4636      TCGA-CJ-4637      TCGA-CJ-4638      TCGA-CJ-4639 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-CJ-4640      TCGA-CJ-4641      TCGA-CJ-4643      TCGA-CJ-4644 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
D21V2, multiclass
[1] "Remove cluster labels:" "STAG2 MUTATED"         
clus
  STAG2 MUTATED STAG2 WILD-TYPE 
              1              48 
     TCGA-A3-3308      TCGA-A3-3311      TCGA-A3-3316      TCGA-A3-3319 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-A3-3320      TCGA-A3-3322      TCGA-A3-3323      TCGA-A3-3324 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-A3-3326      TCGA-A3-3346      TCGA-A3-3347      TCGA-A3-3349 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-A3-3351      TCGA-A3-3362      TCGA-A3-3363      TCGA-A3-3365 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-A3-3372      TCGA-A3-3378      TCGA-A3-3380      TCGA-A3-3382 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-A3-3383      TCGA-AK-3444      TCGA-AK-3455      TCGA-AK-3456 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-AS-3778      TCGA-B2-3924      TCGA-B2-4098      TCGA-B2-4099 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-B2-4102      TCGA-B8-4143      TCGA-B8-4148      TCGA-B8-4151 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-B8-4154      TCGA-B8-4620      TCGA-BP-4161      TCGA-BP-4162 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-BP-4163      TCGA-BP-4164      TCGA-BP-4167      TCGA-CJ-4634 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-CJ-4636      TCGA-CJ-4637      TCGA-CJ-4638      TCGA-CJ-4639 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
     TCGA-CJ-4640      TCGA-CJ-4641      TCGA-CJ-4643      TCGA-CJ-4644 
"STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" "STAG2 WILD-TYPE" 
D21V3, multiclass
        clus
vv       STAG2 MUTATED STAG2 WILD-TYPE
  CLUS_1             4              69
  CLUS_2             1             129
  CLUS_3             4              85
D21V4, multiclass
        clus
vv       STAG2 MUTATED STAG2 WILD-TYPE
  CLUS_1             1              70
  CLUS_2             1              83
  CLUS_3             5              39
D21V5, multiclass
        clus
vv       STAG2 MUTATED STAG2 WILD-TYPE
  CLUS_1             7              88
  CLUS_2             1             101
  CLUS_3             1              76
D21V6, multiclass
        clus
vv       STAG2 MUTATED STAG2 WILD-TYPE
  CLUS_1             3              89
  CLUS_2             4             128
  CLUS_3             2              48
D21V7, multiclass
        clus
vv       STAG2 MUTATED STAG2 WILD-TYPE
  CLUS_1             2             122
  CLUS_2             5             105
  CLUS_3             2              44
D21V8, multiclass
        clus
vv       STAG2 MUTATED STAG2 WILD-TYPE
  CLUS_1             0              31
  CLUS_2             2             130
  CLUS_3             7             110
D21V9, multiclass
        clus
vv       STAG2 MUTATED STAG2 WILD-TYPE
  CLUS_1             4              55
  CLUS_2             2             123
  CLUS_3             2              75
  CLUS_4             1              26
D21V10, multiclass
        clus
vv       STAG2 MUTATED STAG2 WILD-TYPE
  CLUS_1             4              86
  CLUS_2             4             173
  CLUS_3             1              20

Clustering(22) Variable = MSN MUTATION ANALYSIS
D22V1, multiclass
D22V2, multiclass
D22V3, multiclass
        clus
vv       MSN MUTATED MSN WILD-TYPE
  CLUS_1           0            73
  CLUS_2           3           127
  CLUS_3           1            88
D22V4, multiclass
        clus
vv       MSN MUTATED MSN WILD-TYPE
  CLUS_1           0            71
  CLUS_2           2            82
  CLUS_3           1            43
D22V5, multiclass
        clus
vv       MSN MUTATED MSN WILD-TYPE
  CLUS_1           0            95
  CLUS_2           3            99
  CLUS_3           1            76
D22V6, multiclass
        clus
vv       MSN MUTATED MSN WILD-TYPE
  CLUS_1           1            91
  CLUS_2           3           129
  CLUS_3           0            50
D22V7, multiclass
        clus
vv       MSN MUTATED MSN WILD-TYPE
  CLUS_1           3           121
  CLUS_2           0           110
  CLUS_3           1            45
D22V8, multiclass
        clus
vv       MSN MUTATED MSN WILD-TYPE
  CLUS_1           1            30
  CLUS_2           3           129
  CLUS_3           0           117
D22V9, multiclass
        clus
vv       MSN MUTATED MSN WILD-TYPE
  CLUS_1           0            59
  CLUS_2           3           122
  CLUS_3           0            77
  CLUS_4           1            26
D22V10, multiclass
        clus
vv       MSN MUTATED MSN WILD-TYPE
  CLUS_1           1            89
  CLUS_2           3           174
  CLUS_3           0            21

Clustering(23) Variable = ABCB1 MUTATION ANALYSIS
D23V1, multiclass
[1] "Remove cluster labels:" "ABCB1 MUTATED"         
clus
  ABCB1 MUTATED ABCB1 WILD-TYPE 
              1              48 
     TCGA-A3-3308      TCGA-A3-3311      TCGA-A3-3316      TCGA-A3-3317 
"ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" 
     TCGA-A3-3319      TCGA-A3-3320      TCGA-A3-3322      TCGA-A3-3323 
"ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" 
     TCGA-A3-3324      TCGA-A3-3326      TCGA-A3-3346      TCGA-A3-3347 
"ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" 
     TCGA-A3-3349      TCGA-A3-3351      TCGA-A3-3362      TCGA-A3-3363 
"ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" 
     TCGA-A3-3365      TCGA-A3-3372      TCGA-A3-3378      TCGA-A3-3380 
"ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" 
     TCGA-A3-3382      TCGA-A3-3383      TCGA-AK-3444      TCGA-AK-3455 
"ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" 
     TCGA-AK-3456      TCGA-AS-3778      TCGA-B2-3924      TCGA-B2-4098 
"ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" 
     TCGA-B2-4099      TCGA-B8-4143      TCGA-B8-4148      TCGA-B8-4151 
"ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" 
     TCGA-B8-4154      TCGA-B8-4620      TCGA-BP-4161      TCGA-BP-4162 
"ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" 
     TCGA-BP-4163      TCGA-BP-4164      TCGA-BP-4167      TCGA-CJ-4634 
"ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" 
     TCGA-CJ-4636      TCGA-CJ-4637      TCGA-CJ-4638      TCGA-CJ-4639 
"ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" 
     TCGA-CJ-4640      TCGA-CJ-4641      TCGA-CJ-4643      TCGA-CJ-4644 
"ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" 
D23V2, multiclass
[1] "Remove cluster labels:" "ABCB1 MUTATED"         
clus
  ABCB1 MUTATED ABCB1 WILD-TYPE 
              1              48 
     TCGA-A3-3308      TCGA-A3-3311      TCGA-A3-3316      TCGA-A3-3317 
"ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" 
     TCGA-A3-3319      TCGA-A3-3320      TCGA-A3-3322      TCGA-A3-3323 
"ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" 
     TCGA-A3-3324      TCGA-A3-3326      TCGA-A3-3346      TCGA-A3-3347 
"ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" 
     TCGA-A3-3349      TCGA-A3-3351      TCGA-A3-3362      TCGA-A3-3363 
"ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" 
     TCGA-A3-3365      TCGA-A3-3372      TCGA-A3-3378      TCGA-A3-3380 
"ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" 
     TCGA-A3-3382      TCGA-A3-3383      TCGA-AK-3444      TCGA-AK-3455 
"ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" 
     TCGA-AK-3456      TCGA-AS-3778      TCGA-B2-3924      TCGA-B2-4098 
"ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" 
     TCGA-B2-4099      TCGA-B8-4143      TCGA-B8-4148      TCGA-B8-4151 
"ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" 
     TCGA-B8-4154      TCGA-B8-4620      TCGA-BP-4161      TCGA-BP-4162 
"ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" 
     TCGA-BP-4163      TCGA-BP-4164      TCGA-BP-4167      TCGA-CJ-4634 
"ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" 
     TCGA-CJ-4636      TCGA-CJ-4637      TCGA-CJ-4638      TCGA-CJ-4639 
"ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" 
     TCGA-CJ-4640      TCGA-CJ-4641      TCGA-CJ-4643      TCGA-CJ-4644 
"ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" "ABCB1 WILD-TYPE" 
D23V3, multiclass
        clus
vv       ABCB1 MUTATED ABCB1 WILD-TYPE
  CLUS_1             1              72
  CLUS_2             6             124
  CLUS_3             1              88
D23V4, multiclass
        clus
vv       ABCB1 MUTATED ABCB1 WILD-TYPE
  CLUS_1             4              67
  CLUS_2             2              82
  CLUS_3             1              43
D23V5, multiclass
        clus
vv       ABCB1 MUTATED ABCB1 WILD-TYPE
  CLUS_1             5              90
  CLUS_2             3              99
  CLUS_3             0              77
D23V6, multiclass
        clus
vv       ABCB1 MUTATED ABCB1 WILD-TYPE
  CLUS_1             6              86
  CLUS_2             1             131
  CLUS_3             1              49
D23V7, multiclass
        clus
vv       ABCB1 MUTATED ABCB1 WILD-TYPE
  CLUS_1             6             118
  CLUS_2             2             108
  CLUS_3             0              46
D23V8, multiclass
        clus
vv       ABCB1 MUTATED ABCB1 WILD-TYPE
  CLUS_1             1              30
  CLUS_2             6             126
  CLUS_3             1             116
D23V9, multiclass
        clus
vv       ABCB1 MUTATED ABCB1 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             6             119
  CLUS_3             1              76
  CLUS_4             0              27
D23V10, multiclass
        clus
vv       ABCB1 MUTATED ABCB1 WILD-TYPE
  CLUS_1             0              90
  CLUS_2             7             170
  CLUS_3             1              20

Clustering(24) Variable = ADCY8 MUTATION ANALYSIS
D24V1, multiclass
[1] "Remove cluster labels:" "ADCY8 MUTATED"         
clus
  ADCY8 MUTATED ADCY8 WILD-TYPE 
              1              48 
     TCGA-A3-3308      TCGA-A3-3311      TCGA-A3-3316      TCGA-A3-3317 
"ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" 
     TCGA-A3-3319      TCGA-A3-3320      TCGA-A3-3323      TCGA-A3-3324 
"ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" 
     TCGA-A3-3326      TCGA-A3-3346      TCGA-A3-3347      TCGA-A3-3349 
"ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" 
     TCGA-A3-3351      TCGA-A3-3362      TCGA-A3-3363      TCGA-A3-3365 
"ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" 
     TCGA-A3-3372      TCGA-A3-3378      TCGA-A3-3380      TCGA-A3-3382 
"ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" 
     TCGA-A3-3383      TCGA-AK-3444      TCGA-AK-3455      TCGA-AK-3456 
"ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" 
     TCGA-AS-3778      TCGA-B2-3924      TCGA-B2-4098      TCGA-B2-4099 
"ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" 
     TCGA-B2-4102      TCGA-B8-4143      TCGA-B8-4148      TCGA-B8-4151 
"ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" 
     TCGA-B8-4154      TCGA-B8-4620      TCGA-BP-4161      TCGA-BP-4162 
"ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" 
     TCGA-BP-4163      TCGA-BP-4164      TCGA-BP-4167      TCGA-CJ-4634 
"ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" 
     TCGA-CJ-4636      TCGA-CJ-4637      TCGA-CJ-4638      TCGA-CJ-4639 
"ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" 
     TCGA-CJ-4640      TCGA-CJ-4641      TCGA-CJ-4643      TCGA-CJ-4644 
"ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" 
D24V2, multiclass
[1] "Remove cluster labels:" "ADCY8 MUTATED"         
clus
  ADCY8 MUTATED ADCY8 WILD-TYPE 
              1              48 
     TCGA-A3-3308      TCGA-A3-3311      TCGA-A3-3316      TCGA-A3-3317 
"ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" 
     TCGA-A3-3319      TCGA-A3-3320      TCGA-A3-3323      TCGA-A3-3324 
"ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" 
     TCGA-A3-3326      TCGA-A3-3346      TCGA-A3-3347      TCGA-A3-3349 
"ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" 
     TCGA-A3-3351      TCGA-A3-3362      TCGA-A3-3363      TCGA-A3-3365 
"ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" 
     TCGA-A3-3372      TCGA-A3-3378      TCGA-A3-3380      TCGA-A3-3382 
"ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" 
     TCGA-A3-3383      TCGA-AK-3444      TCGA-AK-3455      TCGA-AK-3456 
"ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" 
     TCGA-AS-3778      TCGA-B2-3924      TCGA-B2-4098      TCGA-B2-4099 
"ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" 
     TCGA-B2-4102      TCGA-B8-4143      TCGA-B8-4148      TCGA-B8-4151 
"ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" 
     TCGA-B8-4154      TCGA-B8-4620      TCGA-BP-4161      TCGA-BP-4162 
"ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" 
     TCGA-BP-4163      TCGA-BP-4164      TCGA-BP-4167      TCGA-CJ-4634 
"ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" 
     TCGA-CJ-4636      TCGA-CJ-4637      TCGA-CJ-4638      TCGA-CJ-4639 
"ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" 
     TCGA-CJ-4640      TCGA-CJ-4641      TCGA-CJ-4643      TCGA-CJ-4644 
"ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" "ADCY8 WILD-TYPE" 
D24V3, multiclass
        clus
vv       ADCY8 MUTATED ADCY8 WILD-TYPE
  CLUS_1             2              71
  CLUS_2             1             129
  CLUS_3             2              87
D24V4, multiclass
        clus
vv       ADCY8 MUTATED ADCY8 WILD-TYPE
  CLUS_1             1              70
  CLUS_2             0              84
  CLUS_3             2              42
D24V5, multiclass
        clus
vv       ADCY8 MUTATED ADCY8 WILD-TYPE
  CLUS_1             2              93
  CLUS_2             1             101
  CLUS_3             2              75
D24V6, multiclass
        clus
vv       ADCY8 MUTATED ADCY8 WILD-TYPE
  CLUS_1             2              90
  CLUS_2             2             130
  CLUS_3             1              49
D24V7, multiclass
        clus
vv       ADCY8 MUTATED ADCY8 WILD-TYPE
  CLUS_1             3             121
  CLUS_2             2             108
  CLUS_3             0              46
D24V8, multiclass
        clus
vv       ADCY8 MUTATED ADCY8 WILD-TYPE
  CLUS_1             0              31
  CLUS_2             3             129
  CLUS_3             2             115
D24V9, multiclass
        clus
vv       ADCY8 MUTATED ADCY8 WILD-TYPE
  CLUS_1             0              59
  CLUS_2             3             122
  CLUS_3             2              75
  CLUS_4             0              27
D24V10, multiclass
        clus
vv       ADCY8 MUTATED ADCY8 WILD-TYPE
  CLUS_1             1              89
  CLUS_2             3             174
  CLUS_3             1              20

Clustering(25) Variable = NPNT MUTATION ANALYSIS
D25V1, multiclass
D25V2, multiclass
D25V3, multiclass
        clus
vv       NPNT MUTATED NPNT WILD-TYPE
  CLUS_1            1             72
  CLUS_2            4            126
  CLUS_3            1             88
D25V4, multiclass
        clus
vv       NPNT MUTATED NPNT WILD-TYPE
  CLUS_1            3             68
  CLUS_2            3             81
  CLUS_3            0             44
D25V5, multiclass
        clus
vv       NPNT MUTATED NPNT WILD-TYPE
  CLUS_1            2             93
  CLUS_2            4             98
  CLUS_3            0             77
D25V6, multiclass
        clus
vv       NPNT MUTATED NPNT WILD-TYPE
  CLUS_1            2             90
  CLUS_2            3            129
  CLUS_3            1             49
D25V7, multiclass
        clus
vv       NPNT MUTATED NPNT WILD-TYPE
  CLUS_1            3            121
  CLUS_2            1            109
  CLUS_3            2             44
D25V8, multiclass
        clus
vv       NPNT MUTATED NPNT WILD-TYPE
  CLUS_1            1             30
  CLUS_2            4            128
  CLUS_3            1            116
D25V9, multiclass
        clus
vv       NPNT MUTATED NPNT WILD-TYPE
  CLUS_1            1             58
  CLUS_2            4            121
  CLUS_3            1             76
  CLUS_4            0             27
D25V10, multiclass
        clus
vv       NPNT MUTATED NPNT WILD-TYPE
  CLUS_1            1             89
  CLUS_2            5            172
  CLUS_3            0             21

Clustering(26) Variable = OR5H1 MUTATION ANALYSIS
D26V1, multiclass
[1] "Remove cluster labels:" "OR5H1 MUTATED"         
clus
  OR5H1 MUTATED OR5H1 WILD-TYPE 
              1              48 
     TCGA-A3-3308      TCGA-A3-3311      TCGA-A3-3316      TCGA-A3-3317 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-A3-3319      TCGA-A3-3320      TCGA-A3-3322      TCGA-A3-3323 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-A3-3324      TCGA-A3-3326      TCGA-A3-3346      TCGA-A3-3347 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-A3-3349      TCGA-A3-3351      TCGA-A3-3362      TCGA-A3-3363 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-A3-3365      TCGA-A3-3372      TCGA-A3-3378      TCGA-A3-3380 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-A3-3382      TCGA-A3-3383      TCGA-AK-3444      TCGA-AK-3455 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-AK-3456      TCGA-AS-3778      TCGA-B2-3924      TCGA-B2-4098 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-B2-4099      TCGA-B2-4102      TCGA-B8-4143      TCGA-B8-4148 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-B8-4151      TCGA-B8-4154      TCGA-BP-4161      TCGA-BP-4162 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-BP-4163      TCGA-BP-4164      TCGA-BP-4167      TCGA-CJ-4634 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-CJ-4636      TCGA-CJ-4637      TCGA-CJ-4638      TCGA-CJ-4639 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-CJ-4640      TCGA-CJ-4641      TCGA-CJ-4643      TCGA-CJ-4644 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
D26V2, multiclass
[1] "Remove cluster labels:" "OR5H1 MUTATED"         
clus
  OR5H1 MUTATED OR5H1 WILD-TYPE 
              1              48 
     TCGA-A3-3308      TCGA-A3-3311      TCGA-A3-3316      TCGA-A3-3317 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-A3-3319      TCGA-A3-3320      TCGA-A3-3322      TCGA-A3-3323 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-A3-3324      TCGA-A3-3326      TCGA-A3-3346      TCGA-A3-3347 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-A3-3349      TCGA-A3-3351      TCGA-A3-3362      TCGA-A3-3363 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-A3-3365      TCGA-A3-3372      TCGA-A3-3378      TCGA-A3-3380 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-A3-3382      TCGA-A3-3383      TCGA-AK-3444      TCGA-AK-3455 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-AK-3456      TCGA-AS-3778      TCGA-B2-3924      TCGA-B2-4098 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-B2-4099      TCGA-B2-4102      TCGA-B8-4143      TCGA-B8-4148 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-B8-4151      TCGA-B8-4154      TCGA-BP-4161      TCGA-BP-4162 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-BP-4163      TCGA-BP-4164      TCGA-BP-4167      TCGA-CJ-4634 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-CJ-4636      TCGA-CJ-4637      TCGA-CJ-4638      TCGA-CJ-4639 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-CJ-4640      TCGA-CJ-4641      TCGA-CJ-4643      TCGA-CJ-4644 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
D26V3, multiclass
        clus
vv       OR5H1 MUTATED OR5H1 WILD-TYPE
  CLUS_1             1              72
  CLUS_2             1             129
  CLUS_3             1              88
D26V4, multiclass
[1] "Remove cluster labels:" "OR5H1 MUTATED"         
clus
  OR5H1 MUTATED OR5H1 WILD-TYPE 
              1             198 
     TCGA-A3-3357      TCGA-A3-3358      TCGA-A3-3367      TCGA-A3-3370 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-A3-3373      TCGA-A3-3376      TCGA-A3-3385      TCGA-A3-3387 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-AK-3458      TCGA-B0-4700      TCGA-B0-4706      TCGA-B0-4710 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-B0-4712      TCGA-B0-4810      TCGA-B0-4811      TCGA-B0-4815 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-B0-4816      TCGA-B0-4818      TCGA-B0-4823      TCGA-B0-4827 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-B0-4842      TCGA-B0-4852      TCGA-B0-4945      TCGA-B0-5080 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-B0-5092      TCGA-B0-5094      TCGA-B0-5095      TCGA-B0-5096 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-B0-5097      TCGA-B0-5099      TCGA-B0-5100      TCGA-B0-5102 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-B0-5104      TCGA-B0-5106      TCGA-B0-5107      TCGA-B0-5108 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-B0-5109      TCGA-B0-5110      TCGA-B0-5113      TCGA-B0-5115 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-B0-5116      TCGA-B0-5119      TCGA-B0-5120      TCGA-B0-5121 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-B0-5399      TCGA-B0-5400      TCGA-B0-5402      TCGA-B0-5691 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-B0-5692      TCGA-B0-5693      TCGA-B0-5694      TCGA-B0-5695 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-B0-5696      TCGA-B0-5697      TCGA-B0-5698      TCGA-B0-5699 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-B0-5701      TCGA-B0-5702      TCGA-B0-5703      TCGA-B0-5705 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-B0-5706      TCGA-B0-5707      TCGA-B0-5709      TCGA-B0-5710 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-B0-5711      TCGA-B0-5713      TCGA-B0-5812      TCGA-B2-4101 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-B2-5633      TCGA-B2-5635      TCGA-B2-5641      TCGA-B4-5377 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-B8-4146      TCGA-B8-4153      TCGA-B8-4621      TCGA-B8-4622 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-B8-5158      TCGA-B8-5159      TCGA-B8-5163      TCGA-B8-5164 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-B8-5165      TCGA-B8-5545      TCGA-B8-5546      TCGA-B8-5549 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-B8-5551      TCGA-B8-5552      TCGA-BP-4770      TCGA-BP-4782 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-BP-4801      TCGA-BP-4993      TCGA-BP-5010      TCGA-BP-5168 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-BP-5169      TCGA-BP-5170      TCGA-BP-5173      TCGA-BP-5174 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-BP-5175      TCGA-BP-5176      TCGA-BP-5177      TCGA-BP-5178 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-BP-5180      TCGA-BP-5182      TCGA-BP-5183      TCGA-BP-5184 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-BP-5185      TCGA-BP-5186      TCGA-BP-5187      TCGA-BP-5189 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-BP-5190      TCGA-BP-5191      TCGA-BP-5192      TCGA-BP-5194 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-BP-5195      TCGA-BP-5196      TCGA-BP-5198      TCGA-BP-5199 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-BP-5200      TCGA-BP-5201      TCGA-BP-5202      TCGA-CJ-4882 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-CJ-4897      TCGA-CJ-4901      TCGA-CJ-4902      TCGA-CJ-4903 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-CJ-4904      TCGA-CJ-4905      TCGA-CJ-4907      TCGA-CJ-4908 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-CJ-4912      TCGA-CJ-4913      TCGA-CJ-4916      TCGA-CJ-4918 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-CJ-4920      TCGA-CJ-4923      TCGA-CJ-5671      TCGA-CJ-5672 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-CJ-5675      TCGA-CJ-5676      TCGA-CJ-5677      TCGA-CJ-5678 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-CJ-5679      TCGA-CJ-5680      TCGA-CJ-5681      TCGA-CJ-5682 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-CJ-5683      TCGA-CJ-5684      TCGA-CJ-5686      TCGA-CJ-6027 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-CJ-6028      TCGA-CJ-6030      TCGA-CJ-6031      TCGA-CJ-6032 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-CJ-6033      TCGA-CW-5580      TCGA-CW-5581      TCGA-CW-5583 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-CW-5584      TCGA-CW-5585      TCGA-CW-5588      TCGA-CW-5589 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-CW-5591      TCGA-CW-6087      TCGA-CW-6090      TCGA-CW-6093 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-CZ-4853      TCGA-CZ-4856      TCGA-CZ-4859      TCGA-CZ-4863 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-CZ-4866      TCGA-CZ-5451      TCGA-CZ-5452      TCGA-CZ-5453 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-CZ-5454      TCGA-CZ-5456      TCGA-CZ-5457      TCGA-CZ-5458 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-CZ-5459      TCGA-CZ-5460      TCGA-CZ-5461      TCGA-CZ-5462 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-CZ-5463      TCGA-CZ-5464      TCGA-CZ-5465      TCGA-CZ-5466 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-CZ-5467      TCGA-CZ-5468      TCGA-CZ-5470      TCGA-CZ-5982 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-CZ-5984      TCGA-CZ-5985      TCGA-CZ-5986      TCGA-CZ-5987 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-CZ-5988      TCGA-CZ-5989      TCGA-EU-5904      TCGA-EU-5905 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
     TCGA-EU-5906      TCGA-EU-5907 
"OR5H1 WILD-TYPE" "OR5H1 WILD-TYPE" 
D26V5, multiclass
        clus
vv       OR5H1 MUTATED OR5H1 WILD-TYPE
  CLUS_1             2              93
  CLUS_2             0             102
  CLUS_3             1              76
D26V6, multiclass
        clus
vv       OR5H1 MUTATED OR5H1 WILD-TYPE
  CLUS_1             1              91
  CLUS_2             0             132
  CLUS_3             2              48
D26V7, multiclass
        clus
vv       OR5H1 MUTATED OR5H1 WILD-TYPE
  CLUS_1             1             123
  CLUS_2             2             108
  CLUS_3             0              46
D26V8, multiclass
        clus
vv       OR5H1 MUTATED OR5H1 WILD-TYPE
  CLUS_1             0              31
  CLUS_2             1             131
  CLUS_3             2             115
D26V9, multiclass
        clus
vv       OR5H1 MUTATED OR5H1 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             0             125
  CLUS_3             2              75
  CLUS_4             0              27
D26V10, multiclass
        clus
vv       OR5H1 MUTATED OR5H1 WILD-TYPE
  CLUS_1             2              88
  CLUS_2             0             177
  CLUS_3             1              20

Clustering(27) Variable = SPAM1 MUTATION ANALYSIS
D27V1, multiclass
[1] "Remove cluster labels:" "SPAM1 MUTATED"         
clus
  SPAM1 MUTATED SPAM1 WILD-TYPE 
              1              48 
     TCGA-A3-3308      TCGA-A3-3311      TCGA-A3-3316      TCGA-A3-3317 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-A3-3319      TCGA-A3-3320      TCGA-A3-3322      TCGA-A3-3323 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-A3-3324      TCGA-A3-3326      TCGA-A3-3346      TCGA-A3-3347 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-A3-3349      TCGA-A3-3351      TCGA-A3-3362      TCGA-A3-3363 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-A3-3365      TCGA-A3-3372      TCGA-A3-3378      TCGA-A3-3380 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-A3-3382      TCGA-A3-3383      TCGA-AK-3444      TCGA-AK-3455 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-AK-3456      TCGA-AS-3778      TCGA-B2-4098      TCGA-B2-4099 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-B2-4102      TCGA-B8-4143      TCGA-B8-4148      TCGA-B8-4151 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-B8-4154      TCGA-B8-4620      TCGA-BP-4161      TCGA-BP-4162 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-BP-4163      TCGA-BP-4164      TCGA-BP-4167      TCGA-CJ-4634 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-CJ-4636      TCGA-CJ-4637      TCGA-CJ-4638      TCGA-CJ-4639 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-CJ-4640      TCGA-CJ-4641      TCGA-CJ-4643      TCGA-CJ-4644 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
D27V2, multiclass
[1] "Remove cluster labels:" "SPAM1 MUTATED"         
clus
  SPAM1 MUTATED SPAM1 WILD-TYPE 
              1              48 
     TCGA-A3-3308      TCGA-A3-3311      TCGA-A3-3316      TCGA-A3-3317 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-A3-3319      TCGA-A3-3320      TCGA-A3-3322      TCGA-A3-3323 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-A3-3324      TCGA-A3-3326      TCGA-A3-3346      TCGA-A3-3347 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-A3-3349      TCGA-A3-3351      TCGA-A3-3362      TCGA-A3-3363 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-A3-3365      TCGA-A3-3372      TCGA-A3-3378      TCGA-A3-3380 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-A3-3382      TCGA-A3-3383      TCGA-AK-3444      TCGA-AK-3455 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-AK-3456      TCGA-AS-3778      TCGA-B2-4098      TCGA-B2-4099 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-B2-4102      TCGA-B8-4143      TCGA-B8-4148      TCGA-B8-4151 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-B8-4154      TCGA-B8-4620      TCGA-BP-4161      TCGA-BP-4162 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-BP-4163      TCGA-BP-4164      TCGA-BP-4167      TCGA-CJ-4634 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-CJ-4636      TCGA-CJ-4637      TCGA-CJ-4638      TCGA-CJ-4639 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-CJ-4640      TCGA-CJ-4641      TCGA-CJ-4643      TCGA-CJ-4644 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
D27V3, multiclass
        clus
vv       SPAM1 MUTATED SPAM1 WILD-TYPE
  CLUS_1             0              73
  CLUS_2             4             126
  CLUS_3             1              88
D27V4, multiclass
[1] "Remove cluster labels:" "SPAM1 MUTATED"         
clus
  SPAM1 MUTATED SPAM1 WILD-TYPE 
              2             197 
     TCGA-A3-3357      TCGA-A3-3358      TCGA-A3-3370      TCGA-A3-3373 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-A3-3376      TCGA-A3-3385      TCGA-A3-3387      TCGA-AK-3458 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-B0-4700      TCGA-B0-4706      TCGA-B0-4710      TCGA-B0-4712 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-B0-4810      TCGA-B0-4811      TCGA-B0-4815      TCGA-B0-4816 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-B0-4818      TCGA-B0-4823      TCGA-B0-4827      TCGA-B0-4842 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-B0-4852      TCGA-B0-4945      TCGA-B0-5080      TCGA-B0-5092 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-B0-5094      TCGA-B0-5095      TCGA-B0-5096      TCGA-B0-5097 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-B0-5099      TCGA-B0-5100      TCGA-B0-5102      TCGA-B0-5104 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-B0-5106      TCGA-B0-5107      TCGA-B0-5108      TCGA-B0-5109 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-B0-5110      TCGA-B0-5113      TCGA-B0-5115      TCGA-B0-5116 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-B0-5119      TCGA-B0-5120      TCGA-B0-5121      TCGA-B0-5399 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-B0-5400      TCGA-B0-5402      TCGA-B0-5691      TCGA-B0-5692 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-B0-5693      TCGA-B0-5694      TCGA-B0-5695      TCGA-B0-5696 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-B0-5697      TCGA-B0-5698      TCGA-B0-5699      TCGA-B0-5701 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-B0-5702      TCGA-B0-5703      TCGA-B0-5705      TCGA-B0-5706 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-B0-5707      TCGA-B0-5709      TCGA-B0-5710      TCGA-B0-5711 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-B0-5713      TCGA-B0-5812      TCGA-B2-4101      TCGA-B2-5633 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-B2-5635      TCGA-B2-5641      TCGA-B4-5377      TCGA-B8-4146 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-B8-4153      TCGA-B8-4621      TCGA-B8-4622      TCGA-B8-5158 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-B8-5159      TCGA-B8-5163      TCGA-B8-5164      TCGA-B8-5165 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-B8-5545      TCGA-B8-5546      TCGA-B8-5549      TCGA-B8-5551 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-B8-5552      TCGA-BP-4770      TCGA-BP-4782      TCGA-BP-4801 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-BP-4993      TCGA-BP-5010      TCGA-BP-5168      TCGA-BP-5169 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-BP-5170      TCGA-BP-5173      TCGA-BP-5174      TCGA-BP-5175 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-BP-5176      TCGA-BP-5177      TCGA-BP-5178      TCGA-BP-5180 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-BP-5182      TCGA-BP-5183      TCGA-BP-5184      TCGA-BP-5185 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-BP-5186      TCGA-BP-5187      TCGA-BP-5189      TCGA-BP-5190 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-BP-5191      TCGA-BP-5192      TCGA-BP-5194      TCGA-BP-5195 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-BP-5196      TCGA-BP-5198      TCGA-BP-5199      TCGA-BP-5200 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-BP-5201      TCGA-BP-5202      TCGA-CJ-4882      TCGA-CJ-4897 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-CJ-4901      TCGA-CJ-4902      TCGA-CJ-4903      TCGA-CJ-4904 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-CJ-4907      TCGA-CJ-4908      TCGA-CJ-4912      TCGA-CJ-4913 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-CJ-4916      TCGA-CJ-4918      TCGA-CJ-4920      TCGA-CJ-4923 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-CJ-5671      TCGA-CJ-5672      TCGA-CJ-5675      TCGA-CJ-5676 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-CJ-5677      TCGA-CJ-5678      TCGA-CJ-5679      TCGA-CJ-5680 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-CJ-5681      TCGA-CJ-5682      TCGA-CJ-5683      TCGA-CJ-5684 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-CJ-5686      TCGA-CJ-6027      TCGA-CJ-6028      TCGA-CJ-6030 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-CJ-6031      TCGA-CJ-6032      TCGA-CJ-6033      TCGA-CW-5580 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-CW-5581      TCGA-CW-5583      TCGA-CW-5584      TCGA-CW-5585 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-CW-5588      TCGA-CW-5589      TCGA-CW-5591      TCGA-CW-6087 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-CW-6090      TCGA-CW-6093      TCGA-CZ-4853      TCGA-CZ-4856 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-CZ-4859      TCGA-CZ-4863      TCGA-CZ-4866      TCGA-CZ-5451 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-CZ-5452      TCGA-CZ-5453      TCGA-CZ-5454      TCGA-CZ-5456 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-CZ-5457      TCGA-CZ-5458      TCGA-CZ-5459      TCGA-CZ-5460 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-CZ-5461      TCGA-CZ-5462      TCGA-CZ-5463      TCGA-CZ-5464 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-CZ-5465      TCGA-CZ-5466      TCGA-CZ-5467      TCGA-CZ-5468 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-CZ-5469      TCGA-CZ-5470      TCGA-CZ-5982      TCGA-CZ-5984 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-CZ-5985      TCGA-CZ-5986      TCGA-CZ-5987      TCGA-CZ-5988 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-CZ-5989      TCGA-EU-5904      TCGA-EU-5905      TCGA-EU-5906 
"SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" "SPAM1 WILD-TYPE" 
     TCGA-EU-5907 
"SPAM1 WILD-TYPE" 
D27V5, multiclass
        clus
vv       SPAM1 MUTATED SPAM1 WILD-TYPE
  CLUS_1             0              95
  CLUS_2             3              99
  CLUS_3             2              75
D27V6, multiclass
        clus
vv       SPAM1 MUTATED SPAM1 WILD-TYPE
  CLUS_1             1              91
  CLUS_2             4             128
  CLUS_3             0              50
D27V7, multiclass
        clus
vv       SPAM1 MUTATED SPAM1 WILD-TYPE
  CLUS_1             3             121
  CLUS_2             0             110
  CLUS_3             2              44
D27V8, multiclass
        clus
vv       SPAM1 MUTATED SPAM1 WILD-TYPE
  CLUS_1             1              30
  CLUS_2             4             128
  CLUS_3             0             117
D27V9, multiclass
        clus
vv       SPAM1 MUTATED SPAM1 WILD-TYPE
  CLUS_1             1              58
  CLUS_2             4             121
  CLUS_3             0              77
  CLUS_4             0              27
D27V10, multiclass
        clus
vv       SPAM1 MUTATED SPAM1 WILD-TYPE
  CLUS_1             1              89
  CLUS_2             4             173
  CLUS_3             0              21

Clustering(28) Variable = TPTE2 MUTATION ANALYSIS
D28V1, multiclass
[1] "Remove cluster labels:" "TPTE2 MUTATED"         
clus
  TPTE2 MUTATED TPTE2 WILD-TYPE 
              2              47 
     TCGA-A3-3308      TCGA-A3-3316      TCGA-A3-3317      TCGA-A3-3319 
"TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" 
     TCGA-A3-3322      TCGA-A3-3323      TCGA-A3-3324      TCGA-A3-3326 
"TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" 
     TCGA-A3-3346      TCGA-A3-3347      TCGA-A3-3349      TCGA-A3-3351 
"TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" 
     TCGA-A3-3362      TCGA-A3-3363      TCGA-A3-3365      TCGA-A3-3372 
"TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" 
     TCGA-A3-3378      TCGA-A3-3380      TCGA-A3-3382      TCGA-A3-3383 
"TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" 
     TCGA-AK-3444      TCGA-AK-3455      TCGA-AK-3456      TCGA-AS-3778 
"TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" 
     TCGA-B2-3924      TCGA-B2-4098      TCGA-B2-4099      TCGA-B2-4102 
"TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" 
     TCGA-B8-4143      TCGA-B8-4148      TCGA-B8-4151      TCGA-B8-4154 
"TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" 
     TCGA-B8-4620      TCGA-BP-4161      TCGA-BP-4162      TCGA-BP-4163 
"TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" 
     TCGA-BP-4164      TCGA-BP-4167      TCGA-CJ-4634      TCGA-CJ-4636 
"TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" 
     TCGA-CJ-4637      TCGA-CJ-4638      TCGA-CJ-4639      TCGA-CJ-4640 
"TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" 
     TCGA-CJ-4641      TCGA-CJ-4643      TCGA-CJ-4644 
"TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" 
D28V2, multiclass
[1] "Remove cluster labels:" "TPTE2 MUTATED"         
clus
  TPTE2 MUTATED TPTE2 WILD-TYPE 
              2              47 
     TCGA-A3-3308      TCGA-A3-3316      TCGA-A3-3317      TCGA-A3-3319 
"TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" 
     TCGA-A3-3322      TCGA-A3-3323      TCGA-A3-3324      TCGA-A3-3326 
"TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" 
     TCGA-A3-3346      TCGA-A3-3347      TCGA-A3-3349      TCGA-A3-3351 
"TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" 
     TCGA-A3-3362      TCGA-A3-3363      TCGA-A3-3365      TCGA-A3-3372 
"TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" 
     TCGA-A3-3378      TCGA-A3-3380      TCGA-A3-3382      TCGA-A3-3383 
"TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" 
     TCGA-AK-3444      TCGA-AK-3455      TCGA-AK-3456      TCGA-AS-3778 
"TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" 
     TCGA-B2-3924      TCGA-B2-4098      TCGA-B2-4099      TCGA-B2-4102 
"TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" 
     TCGA-B8-4143      TCGA-B8-4148      TCGA-B8-4151      TCGA-B8-4154 
"TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" 
     TCGA-B8-4620      TCGA-BP-4161      TCGA-BP-4162      TCGA-BP-4163 
"TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" 
     TCGA-BP-4164      TCGA-BP-4167      TCGA-CJ-4634      TCGA-CJ-4636 
"TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" 
     TCGA-CJ-4637      TCGA-CJ-4638      TCGA-CJ-4639      TCGA-CJ-4640 
"TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" 
     TCGA-CJ-4641      TCGA-CJ-4643      TCGA-CJ-4644 
"TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" "TPTE2 WILD-TYPE" 
D28V3, multiclass
        clus
vv       TPTE2 MUTATED TPTE2 WILD-TYPE
  CLUS_1             3              70
  CLUS_2             2             128
  CLUS_3             2              87
D28V4, multiclass
        clus
vv       TPTE2 MUTATED TPTE2 WILD-TYPE
  CLUS_1             1              70
  CLUS_2             2              82
  CLUS_3             2              42
D28V5, multiclass
        clus
vv       TPTE2 MUTATED TPTE2 WILD-TYPE
  CLUS_1             3              92
  CLUS_2             3              99
  CLUS_3             1              76
D28V6, multiclass
        clus
vv       TPTE2 MUTATED TPTE2 WILD-TYPE
  CLUS_1             3              89
  CLUS_2             3             129
  CLUS_3             1              49
D28V7, multiclass
        clus
vv       TPTE2 MUTATED TPTE2 WILD-TYPE
  CLUS_1             4             120
  CLUS_2             2             108
  CLUS_3             1              45
D28V8, multiclass
        clus
vv       TPTE2 MUTATED TPTE2 WILD-TYPE
  CLUS_1             1              30
  CLUS_2             3             129
  CLUS_3             3             114
D28V9, multiclass
        clus
vv       TPTE2 MUTATED TPTE2 WILD-TYPE
  CLUS_1             2              57
  CLUS_2             5             120
  CLUS_3             0              77
  CLUS_4             0              27
D28V10, multiclass
        clus
vv       TPTE2 MUTATED TPTE2 WILD-TYPE
  CLUS_1             3              87
  CLUS_2             4             173
  CLUS_3             0              21
                     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")
