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

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> source("/xchip/tcga/gdac_prod/applications/process_mgmt/firehose_task_registry/tcga-gdac/GDAC_Correlate_Genomic_Events/broadinstitute.org/cancer.genome.analysis/10441/13/Correlate_Genomic_Events.R")
> result <- main("/xchip/tcga/gdac_prod/applications/process_mgmt/firehose_task_registry/tcga-gdac/GDAC_Correlate_Genomic_Events/broadinstitute.org/cancer.genome.analysis/10441/13/", "-nF=/xchip/tcga/Tools/Nozzle/v1.current", "-tTRUE", "-iD=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/ACC-TP/8369289/transformed.cor.cli.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/Append_Data/ACC-TP/8142726/ACC-TP.merged_data.txt", "-fF=", "-fC=3", "-fH=5", "-fW=9", "-fP=OUT", "-cP=1", "-cQ=0.25", "-MF=ONLYSIG", "-oT=ACC-TP", "-nV=Nozzle.R1", "-OP=MUTSIG", "-iT=", "-iX=")
[1] "terrence_modification_tag"
[1] TRUE
[1] "nver"          "-nV=Nozzle.R1"
[1] "nfn"                                 "/xchip/tcga/Tools/Nozzle/v1.current"
[1] "Nozzle.R1"
[1] "successfully load Nozzle.R1"
[1] "ofn"        "-oT=ACC-TP"
[1] "opt"        "-OP=MUTSIG"
[1] "tl"   "-iT="
[1] "dx"   "-iX="
[1] "opt"    "MUTSIG"
[1] "dx" ""  
[1] "cfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/Append_Data/ACC-TP/8142726/ACC-TP.merged_data.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/ACC-TP/8369289/transformed.cor.cli.txt"

nPatients in clinical file=34, in cluster file=91, common to both=34
[1] "Reduce the number of clustering variables from 155 to 97."
[1] 97 34
[1] "NMU MUTATION ANALYSIS"
[1] 3
  NMU MUTATED NMU WILD-TYPE 
            7            27 
  NMU MUTATED NMU WILD-TYPE 
            7            27 
[1] "LPPR2 MUTATION ANALYSIS"
[1] 3
  LPPR2 MUTATED LPPR2 WILD-TYPE 
              3              31 
  LPPR2 MUTATED LPPR2 WILD-TYPE 
              3              31 
[1] "SYT8 MUTATION ANALYSIS"
[1] 3
  SYT8 MUTATED SYT8 WILD-TYPE 
             6             28 
  SYT8 MUTATED SYT8 WILD-TYPE 
             6             28 
[1] "RINL MUTATION ANALYSIS"
[1] 3
  RINL MUTATED RINL WILD-TYPE 
             8             26 
  RINL MUTATED RINL WILD-TYPE 
             8             26 
[1] "OBSCN MUTATION ANALYSIS"
[1] 3
  OBSCN MUTATED OBSCN WILD-TYPE 
             15              19 
  OBSCN MUTATED OBSCN WILD-TYPE 
             15              19 
[1] "MAP1S MUTATION ANALYSIS"
[1] 3
  MAP1S MUTATED MAP1S WILD-TYPE 
              4              30 
  MAP1S MUTATED MAP1S WILD-TYPE 
              4              30 
[1] "GPRIN2 MUTATION ANALYSIS"
[1] 3
  GPRIN2 MUTATED GPRIN2 WILD-TYPE 
               4               30 
  GPRIN2 MUTATED GPRIN2 WILD-TYPE 
               4               30 
[1] "ATP9B MUTATION ANALYSIS"
[1] 3
  ATP9B MUTATED ATP9B WILD-TYPE 
              3              31 
  ATP9B MUTATED ATP9B WILD-TYPE 
              3              31 
[1] "RREB1 MUTATION ANALYSIS"
[1] 3
  RREB1 MUTATED RREB1 WILD-TYPE 
              4              30 
  RREB1 MUTATED RREB1 WILD-TYPE 
              4              30 
[1] "IDUA MUTATION ANALYSIS"
[1] 3
  IDUA MUTATED IDUA WILD-TYPE 
             6             28 
  IDUA MUTATED IDUA WILD-TYPE 
             6             28 
[1] "RGS9BP MUTATION ANALYSIS"
[1] 3
  RGS9BP MUTATED RGS9BP WILD-TYPE 
               6               28 
  RGS9BP MUTATED RGS9BP WILD-TYPE 
               6               28 
[1] "WDR34 MUTATION ANALYSIS"
[1] 3
  WDR34 MUTATED WDR34 WILD-TYPE 
              4              30 
  WDR34 MUTATED WDR34 WILD-TYPE 
              4              30 
[1] "NOTCH2 MUTATION ANALYSIS"
[1] 3
  NOTCH2 MUTATED NOTCH2 WILD-TYPE 
               3               31 
  NOTCH2 MUTATED NOTCH2 WILD-TYPE 
               3               31 
[1] "TMEM189 MUTATION ANALYSIS"
[1] 3
  TMEM189 MUTATED TMEM189 WILD-TYPE 
                3                31 
  TMEM189 MUTATED TMEM189 WILD-TYPE 
                3                31 
[1] "TAF5 MUTATION ANALYSIS"
[1] 3
  TAF5 MUTATED TAF5 WILD-TYPE 
             5             29 
  TAF5 MUTATED TAF5 WILD-TYPE 
             5             29 
[1] "LRP11 MUTATION ANALYSIS"
[1] 3
  LRP11 MUTATED LRP11 WILD-TYPE 
              4              30 
  LRP11 MUTATED LRP11 WILD-TYPE 
              4              30 
[1] "FPGS MUTATION ANALYSIS"
[1] 3
  FPGS MUTATED FPGS WILD-TYPE 
             7             27 
  FPGS MUTATED FPGS WILD-TYPE 
             7             27 
[1] "TOR3A MUTATION ANALYSIS"
[1] 3
  TOR3A MUTATED TOR3A WILD-TYPE 
             13              21 
  TOR3A MUTATED TOR3A WILD-TYPE 
             13              21 
[1] "ZNF517 MUTATION ANALYSIS"
[1] 3
  ZNF517 MUTATED ZNF517 WILD-TYPE 
              17               17 
  ZNF517 MUTATED ZNF517 WILD-TYPE 
              17               17 
[1] "GLTPD2 MUTATION ANALYSIS"
[1] 3
  GLTPD2 MUTATED GLTPD2 WILD-TYPE 
              10               24 
  GLTPD2 MUTATED GLTPD2 WILD-TYPE 
              10               24 
[1] "SEMA5B MUTATION ANALYSIS"
[1] 3
  SEMA5B MUTATED SEMA5B WILD-TYPE 
               7               27 
  SEMA5B MUTATED SEMA5B WILD-TYPE 
               7               27 
[1] "TNIP2 MUTATION ANALYSIS"
[1] 3
  TNIP2 MUTATED TNIP2 WILD-TYPE 
              3              31 
  TNIP2 MUTATED TNIP2 WILD-TYPE 
              3              31 
[1] "HHIPL1 MUTATION ANALYSIS"
[1] 3
  HHIPL1 MUTATED HHIPL1 WILD-TYPE 
               5               29 
  HHIPL1 MUTATED HHIPL1 WILD-TYPE 
               5               29 
[1] "HECTD2 MUTATION ANALYSIS"
[1] 3
  HECTD2 MUTATED HECTD2 WILD-TYPE 
               3               31 
  HECTD2 MUTATED HECTD2 WILD-TYPE 
               3               31 
[1] "ADAD2 MUTATION ANALYSIS"
[1] 3
  ADAD2 MUTATED ADAD2 WILD-TYPE 
             10              24 
  ADAD2 MUTATED ADAD2 WILD-TYPE 
             10              24 
[1] "CTNNB1 MUTATION ANALYSIS"
[1] 3
  CTNNB1 MUTATED CTNNB1 WILD-TYPE 
               7               27 
  CTNNB1 MUTATED CTNNB1 WILD-TYPE 
               7               27 
[1] "ZFPM1 MUTATION ANALYSIS"
[1] 3
  ZFPM1 MUTATED ZFPM1 WILD-TYPE 
             19              15 
  ZFPM1 MUTATED ZFPM1 WILD-TYPE 
             19              15 
[1] "CLDN23 MUTATION ANALYSIS"
[1] 3
  CLDN23 MUTATED CLDN23 WILD-TYPE 
               4               30 
  CLDN23 MUTATED CLDN23 WILD-TYPE 
               4               30 
[1] "CCDC105 MUTATION ANALYSIS"
[1] 3
  CCDC105 MUTATED CCDC105 WILD-TYPE 
                4                30 
  CCDC105 MUTATED CCDC105 WILD-TYPE 
                4                30 
[1] "NOL9 MUTATION ANALYSIS"
[1] 3
  NOL9 MUTATED NOL9 WILD-TYPE 
             7             27 
  NOL9 MUTATED NOL9 WILD-TYPE 
             7             27 
[1] "ZNF598 MUTATION ANALYSIS"
[1] 3
  ZNF598 MUTATED ZNF598 WILD-TYPE 
               7               27 
  ZNF598 MUTATED ZNF598 WILD-TYPE 
               7               27 
[1] "THEM4 MUTATION ANALYSIS"
[1] 3
  THEM4 MUTATED THEM4 WILD-TYPE 
              6              28 
  THEM4 MUTATED THEM4 WILD-TYPE 
              6              28 
[1] "LRIG1 MUTATION ANALYSIS"
[1] 3
  LRIG1 MUTATED LRIG1 WILD-TYPE 
             16              18 
  LRIG1 MUTATED LRIG1 WILD-TYPE 
             16              18 
[1] "MUC5B MUTATION ANALYSIS"
[1] 3
  MUC5B MUTATED MUC5B WILD-TYPE 
              8              26 
  MUC5B MUTATED MUC5B WILD-TYPE 
              8              26 
[1] "AMDHD1 MUTATION ANALYSIS"
[1] 3
  AMDHD1 MUTATED AMDHD1 WILD-TYPE 
              10               24 
  AMDHD1 MUTATED AMDHD1 WILD-TYPE 
              10               24 
[1] "RNF149 MUTATION ANALYSIS"
[1] 3
  RNF149 MUTATED RNF149 WILD-TYPE 
               3               31 
  RNF149 MUTATED RNF149 WILD-TYPE 
               3               31 
[1] "MSH3 MUTATION ANALYSIS"
[1] 3
  MSH3 MUTATED MSH3 WILD-TYPE 
             3             31 
  MSH3 MUTATED MSH3 WILD-TYPE 
             3             31 
[1] "ALPPL2 MUTATION ANALYSIS"
[1] 3
  ALPPL2 MUTATED ALPPL2 WILD-TYPE 
               3               31 
  ALPPL2 MUTATED ALPPL2 WILD-TYPE 
               3               31 
[1] "SNED1 MUTATION ANALYSIS"
[1] 3
  SNED1 MUTATED SNED1 WILD-TYPE 
              4              30 
  SNED1 MUTATED SNED1 WILD-TYPE 
              4              30 
[1] "OPRD1 MUTATION ANALYSIS"
[1] 3
  OPRD1 MUTATED OPRD1 WILD-TYPE 
             11              23 
  OPRD1 MUTATED OPRD1 WILD-TYPE 
             11              23 
[1] "CCDC102A MUTATION ANALYSIS"
[1] 3
  CCDC102A MUTATED CCDC102A WILD-TYPE 
                11                 23 
  CCDC102A MUTATED CCDC102A WILD-TYPE 
                11                 23 
[1] "KCTD3 MUTATION ANALYSIS"
[1] 3
  KCTD3 MUTATED KCTD3 WILD-TYPE 
              4              30 
  KCTD3 MUTATED KCTD3 WILD-TYPE 
              4              30 
[1] "C1ORF106 MUTATION ANALYSIS"
[1] 3
  C1ORF106 MUTATED C1ORF106 WILD-TYPE 
                 6                 28 
  C1ORF106 MUTATED C1ORF106 WILD-TYPE 
                 6                 28 
[1] "KCNK17 MUTATION ANALYSIS"
[1] 3
  KCNK17 MUTATED KCNK17 WILD-TYPE 
               9               25 
  KCNK17 MUTATED KCNK17 WILD-TYPE 
               9               25 
[1] "LACTB MUTATION ANALYSIS"
[1] 3
  LACTB MUTATED LACTB WILD-TYPE 
             11              23 
  LACTB MUTATED LACTB WILD-TYPE 
             11              23 
[1] "TRIOBP MUTATION ANALYSIS"
[1] 3
  TRIOBP MUTATED TRIOBP WILD-TYPE 
               9               25 
  TRIOBP MUTATED TRIOBP WILD-TYPE 
               9               25 
[1] "SARM1 MUTATION ANALYSIS"
[1] 3
  SARM1 MUTATED SARM1 WILD-TYPE 
              5              29 
  SARM1 MUTATED SARM1 WILD-TYPE 
              5              29 
[1] "ERCC2 MUTATION ANALYSIS"
[1] 3
  ERCC2 MUTATED ERCC2 WILD-TYPE 
             11              23 
  ERCC2 MUTATED ERCC2 WILD-TYPE 
             11              23 
[1] "NEFH MUTATION ANALYSIS"
[1] 3
  NEFH MUTATED NEFH WILD-TYPE 
             4             30 
  NEFH MUTATED NEFH WILD-TYPE 
             4             30 
[1] "KBTBD13 MUTATION ANALYSIS"
[1] 3
  KBTBD13 MUTATED KBTBD13 WILD-TYPE 
                8                26 
  KBTBD13 MUTATED KBTBD13 WILD-TYPE 
                8                26 
[1] "IRX3 MUTATION ANALYSIS"
[1] 3
  IRX3 MUTATED IRX3 WILD-TYPE 
             9             25 
  IRX3 MUTATED IRX3 WILD-TYPE 
             9             25 
[1] "MUC2 MUTATION ANALYSIS"
[1] 3
  MUC2 MUTATED MUC2 WILD-TYPE 
             7             27 
  MUC2 MUTATED MUC2 WILD-TYPE 
             7             27 
[1] "GARS MUTATION ANALYSIS"
[1] 3
  GARS MUTATED GARS WILD-TYPE 
            14             20 
  GARS MUTATED GARS WILD-TYPE 
            14             20 
[1] "UQCRFS1 MUTATION ANALYSIS"
[1] 3
  UQCRFS1 MUTATED UQCRFS1 WILD-TYPE 
                7                27 
  UQCRFS1 MUTATED UQCRFS1 WILD-TYPE 
                7                27 
[1] "ZNF628 MUTATION ANALYSIS"
[1] 3
  ZNF628 MUTATED ZNF628 WILD-TYPE 
               5               29 
  ZNF628 MUTATED ZNF628 WILD-TYPE 
               5               29 
[1] "ASPDH MUTATION ANALYSIS"
[1] 3
  ASPDH MUTATED ASPDH WILD-TYPE 
             11              23 
  ASPDH MUTATED ASPDH WILD-TYPE 
             11              23 
[1] "TPO MUTATION ANALYSIS"
[1] 3
  TPO MUTATED TPO WILD-TYPE 
           10            24 
  TPO MUTATED TPO WILD-TYPE 
           10            24 
[1] "GLTSCR2 MUTATION ANALYSIS"
[1] 3
  GLTSCR2 MUTATED GLTSCR2 WILD-TYPE 
                4                30 
  GLTSCR2 MUTATED GLTSCR2 WILD-TYPE 
                4                30 
[1] "PANK2 MUTATION ANALYSIS"
[1] 3
  PANK2 MUTATED PANK2 WILD-TYPE 
              7              27 
  PANK2 MUTATED PANK2 WILD-TYPE 
              7              27 
[1] "RNF39 MUTATION ANALYSIS"
[1] 3
  RNF39 MUTATED RNF39 WILD-TYPE 
              3              31 
  RNF39 MUTATED RNF39 WILD-TYPE 
              3              31 
[1] "MAL2 MUTATION ANALYSIS"
[1] 3
  MAL2 MUTATED MAL2 WILD-TYPE 
             7             27 
  MAL2 MUTATED MAL2 WILD-TYPE 
             7             27 
[1] "ZAR1 MUTATION ANALYSIS"
[1] 3
  ZAR1 MUTATED ZAR1 WILD-TYPE 
            11             23 
  ZAR1 MUTATED ZAR1 WILD-TYPE 
            11             23 
[1] "KRTAP5-5 MUTATION ANALYSIS"
[1] 3
  KRTAP5-5 MUTATED KRTAP5-5 WILD-TYPE 
                 3                 31 
  KRTAP5-5 MUTATED KRTAP5-5 WILD-TYPE 
                 3                 31 
[1] "CRIPAK MUTATION ANALYSIS"
[1] 3
  CRIPAK MUTATED CRIPAK WILD-TYPE 
               6               28 
  CRIPAK MUTATED CRIPAK WILD-TYPE 
               6               28 
[1] "TP53 MUTATION ANALYSIS"
[1] 3
  TP53 MUTATED TP53 WILD-TYPE 
             7             27 
  TP53 MUTATED TP53 WILD-TYPE 
             7             27 
[1] "BHLHE22 MUTATION ANALYSIS"
[1] 3
  BHLHE22 MUTATED BHLHE22 WILD-TYPE 
                4                30 
  BHLHE22 MUTATED BHLHE22 WILD-TYPE 
                4                30 
[1] "RGMB MUTATION ANALYSIS"
[1] 3
  RGMB MUTATED RGMB WILD-TYPE 
             3             31 
  RGMB MUTATED RGMB WILD-TYPE 
             3             31 
[1] "APOE MUTATION ANALYSIS"
[1] 3
  APOE MUTATED APOE WILD-TYPE 
             6             28 
  APOE MUTATED APOE WILD-TYPE 
             6             28 
[1] "MEN1 MUTATION ANALYSIS"
[1] 3
  MEN1 MUTATED MEN1 WILD-TYPE 
             3             31 
  MEN1 MUTATED MEN1 WILD-TYPE 
             3             31 
[1] "RASIP1 MUTATION ANALYSIS"
[1] 3
  RASIP1 MUTATED RASIP1 WILD-TYPE 
               4               30 
  RASIP1 MUTATED RASIP1 WILD-TYPE 
               4               30 
[1] "ZC3H12D MUTATION ANALYSIS"
[1] 3
  ZC3H12D MUTATED ZC3H12D WILD-TYPE 
                3                31 
  ZC3H12D MUTATED ZC3H12D WILD-TYPE 
                3                31 
[1] "TSC22D2 MUTATION ANALYSIS"
[1] 3
  TSC22D2 MUTATED TSC22D2 WILD-TYPE 
                7                27 
  TSC22D2 MUTATED TSC22D2 WILD-TYPE 
                7                27 
[1] "COQ2 MUTATION ANALYSIS"
[1] 3
  COQ2 MUTATED COQ2 WILD-TYPE 
             5             29 
  COQ2 MUTATED COQ2 WILD-TYPE 
             5             29 
[1] "DOK7 MUTATION ANALYSIS"
[1] 3
  DOK7 MUTATED DOK7 WILD-TYPE 
             5             29 
  DOK7 MUTATED DOK7 WILD-TYPE 
             5             29 
[1] "KNDC1 MUTATION ANALYSIS"
[1] 3
  KNDC1 MUTATED KNDC1 WILD-TYPE 
              7              27 
  KNDC1 MUTATED KNDC1 WILD-TYPE 
              7              27 
[1] "PDCD6 MUTATION ANALYSIS"
[1] 3
  PDCD6 MUTATED PDCD6 WILD-TYPE 
              3              31 
  PDCD6 MUTATED PDCD6 WILD-TYPE 
              3              31 
[1] "ATP6V0E2 MUTATION ANALYSIS"
[1] 3
  ATP6V0E2 MUTATED ATP6V0E2 WILD-TYPE 
                 4                 30 
  ATP6V0E2 MUTATED ATP6V0E2 WILD-TYPE 
                 4                 30 
[1] "HES3 MUTATION ANALYSIS"
[1] 3
  HES3 MUTATED HES3 WILD-TYPE 
             3             31 
  HES3 MUTATED HES3 WILD-TYPE 
             3             31 
[1] "PRKAR1A MUTATION ANALYSIS"
[1] 3
  PRKAR1A MUTATED PRKAR1A WILD-TYPE 
                3                31 
  PRKAR1A MUTATED PRKAR1A WILD-TYPE 
                3                31 
[1] "ATOH8 MUTATION ANALYSIS"
[1] 3
  ATOH8 MUTATED ATOH8 WILD-TYPE 
              3              31 
  ATOH8 MUTATED ATOH8 WILD-TYPE 
              3              31 
[1] "BTBD11 MUTATION ANALYSIS"
[1] 3
  BTBD11 MUTATED BTBD11 WILD-TYPE 
               4               30 
  BTBD11 MUTATED BTBD11 WILD-TYPE 
               4               30 
[1] "PLIN5 MUTATION ANALYSIS"
[1] 3
  PLIN5 MUTATED PLIN5 WILD-TYPE 
              4              30 
  PLIN5 MUTATED PLIN5 WILD-TYPE 
              4              30 
[1] "ASB16 MUTATION ANALYSIS"
[1] 3
  ASB16 MUTATED ASB16 WILD-TYPE 
              4              30 
  ASB16 MUTATED ASB16 WILD-TYPE 
              4              30 
[1] "SCRT1 MUTATION ANALYSIS"
[1] 3
  SCRT1 MUTATED SCRT1 WILD-TYPE 
              4              30 
  SCRT1 MUTATED SCRT1 WILD-TYPE 
              4              30 
[1] "NPTX1 MUTATION ANALYSIS"
[1] 3
  NPTX1 MUTATED NPTX1 WILD-TYPE 
              5              29 
  NPTX1 MUTATED NPTX1 WILD-TYPE 
              5              29 
[1] "LRRN4 MUTATION ANALYSIS"
[1] 3
  LRRN4 MUTATED LRRN4 WILD-TYPE 
              3              31 
  LRRN4 MUTATED LRRN4 WILD-TYPE 
              3              31 
[1] "CCDC96 MUTATION ANALYSIS"
[1] 3
  CCDC96 MUTATED CCDC96 WILD-TYPE 
               4               30 
  CCDC96 MUTATED CCDC96 WILD-TYPE 
               4               30 
[1] "PCMTD1 MUTATION ANALYSIS"
[1] 3
  PCMTD1 MUTATED PCMTD1 WILD-TYPE 
               3               31 
  PCMTD1 MUTATED PCMTD1 WILD-TYPE 
               3               31 
[1] "GLI3 MUTATION ANALYSIS"
[1] 3
  GLI3 MUTATED GLI3 WILD-TYPE 
             5             29 
  GLI3 MUTATED GLI3 WILD-TYPE 
             5             29 
[1] "MN1 MUTATION ANALYSIS"
[1] 3
  MN1 MUTATED MN1 WILD-TYPE 
            3            31 
  MN1 MUTATED MN1 WILD-TYPE 
            3            31 
[1] "C9ORF66 MUTATION ANALYSIS"
[1] 3
  C9ORF66 MUTATED C9ORF66 WILD-TYPE 
                3                31 
  C9ORF66 MUTATED C9ORF66 WILD-TYPE 
                3                31 
[1] "MADCAM1 MUTATION ANALYSIS"
[1] 3
  MADCAM1 MUTATED MADCAM1 WILD-TYPE 
                3                31 
  MADCAM1 MUTATED MADCAM1 WILD-TYPE 
                3                31 
[1] "KRTAP10-7 MUTATION ANALYSIS"
[1] 3
  KRTAP10-7 MUTATED KRTAP10-7 WILD-TYPE 
                  3                  31 
  KRTAP10-7 MUTATED KRTAP10-7 WILD-TYPE 
                  3                  31 
[1] "ARRDC4 MUTATION ANALYSIS"
[1] 3
  ARRDC4 MUTATED ARRDC4 WILD-TYPE 
               5               29 
  ARRDC4 MUTATED ARRDC4 WILD-TYPE 
               5               29 
[1] "VARS MUTATION ANALYSIS"
[1] 3
  VARS MUTATED VARS WILD-TYPE 
             3             31 
  VARS MUTATED VARS WILD-TYPE 
             3             31 
[1] "PLEC MUTATION ANALYSIS"
[1] 3
  PLEC MUTATED PLEC WILD-TYPE 
             6             28 
  PLEC MUTATED PLEC WILD-TYPE 
             6             28 
[1] "RCCD1 MUTATION ANALYSIS"
[1] 3
  RCCD1 MUTATED RCCD1 WILD-TYPE 
              3              31 
  RCCD1 MUTATED RCCD1 WILD-TYPE 
              3              31 
[1] "terrence_modification_tag"
[1] TRUE
[1] "data2feature, selection="
 [1] "YEARSTOBIRTH"                          
 [2] "VITALSTATUS"                           
 [3] "DAYSTODEATH"                           
 [4] "DAYSTOLASTFOLLOWUP"                    
 [5] "NEOPLASM.DISEASESTAGE"                 
 [6] "PATHOLOGY.T.STAGE"                     
 [7] "PATHOLOGY.N.STAGE"                     
 [8] "PATHOLOGY.M.STAGE"                     
 [9] "DCCUPLOADDATE"                         
[10] "GENDER"                                
[11] "RADIATIONTHERAPY"                      
[12] "RADIATIONS.RADIATION.REGIMENINDICATION"
[13] "GLEASON_SCORE"                         
[14] "PSA_VALUE"                             
[15] "DAYS_TO_PSA"                           
[16] "BATCHNUMBER"                           

Input Data has 16 rows and 34 columns.

[1] "Batch" "16"   
[1] "Last Follow UP"
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI 
          NA           NA           NA         1259           NA         1424 
TCGA-OR-A5JJ TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ 
         309         1255          670           NA          889          674 
TCGA-OR-A5JR TCGA-OR-A5JS TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX 
        3688          383          488         1541         1924          950 
TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 
          NA          211         1029         2723           NA         2842 
TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-OU-A5PI 
         528          253         1130           NA         2222          709 
TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
        3240          307          830         1293 
Variable 1:'AGE':	nDistinctValues=26,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'VITALSTATUS':	nDistinctValues=2,	numeric=TRUE,	binary=TRUE,	exclude=FALSE.
Variable 3:'DAYSTODEATH':	nDistinctValues=8,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 4:'DAYSTOLASTFOLLOWUP':	nDistinctValues=26,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 5:'NEOPLASM.DISEASESTAGE':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 6:'PATHOLOGY.T.STAGE':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'PATHOLOGY.N.STAGE':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'PATHOLOGY.M.STAGE':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 9:'DCCUPLOADDAY':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 10:'GENDER':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 11:'RADIATION.THERAPY':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 12:'RADIATIONS.RADIATION.REGIMENINDICATION':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 13:'GLEASON_SCORE':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 14:'PSA_VALUE':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 15:'DAYS_TO_PSA':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 16:'BATCH.NUMBER':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "rownames(nsurv.mat)"
[1] "AGE"                   "NEOPLASM.DISEASESTAGE" "PATHOLOGY.T.STAGE"    
[4] "PATHOLOGY.N.STAGE"     "GENDER"               
[1] "TUMOR.?STAGE"
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T" "3"          
[1] "PATHOLOGY.N" "4"          
Output Data has 34 columns, 1 survival variables, and 5 non-survival variables.
AGE, nv=26, binary=FALSE, numeric=TRUE
NEOPLASM.DISEASESTAGE, nv=4, binary=FALSE, numeric=FALSE
PATHOLOGY.T.STAGE, nv=4, binary=FALSE, numeric=TRUE
[1] "grepl('PATHOLOGY.T',vnm)"
vv
T1 T2 T3 T4 
 4 14  2  9 
[1] "table(vv)"
vv
   T1 T2+T3    T4 
    4    16     9 
$ClinVariableName
[1] "PATHOLOGY.T.STAGE"

$Table
vv
T1 T2 T3 T4 
 4 14  2  9 

$nClasses
[1] 3

$ClinVariableType
[1] "multiclass(3)"


   T1 T2+T3    T4 
    4    16     9 
PATHOLOGY.N.STAGE, nv=2, binary=FALSE, numeric=TRUE
GENDER, nv=2, binary=FALSE, numeric=FALSE

Clustering(1) Variable = NMU MUTATION ANALYSIS
D1V1, survival
               sevent
clus2            0  1
  NMU MUTATED    6  1
  NMU WILD-TYPE 20  7
  NMU MUTATED NMU WILD-TYPE 
            7            27 
  NMU MUTATED NMU WILD-TYPE 
            1             7 
$`NMU MUTATED`
TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JJ TCGA-OR-A5JT TCGA-OR-A5K6 TCGA-OU-A5PI 
       41.39        17.79        10.16        16.04        37.15        23.31 
TCGA-PK-A5H9 
       10.09 

$`NMU WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JI TCGA-OR-A5JK TCGA-OR-A5JL 
       30.31        18.12        57.53        46.82        41.26        22.03 
TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JS TCGA-OR-A5JV 
       18.48        29.23        22.16       121.25        12.59        50.66 
TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 
       63.25        31.23        18.15         6.94        33.83        89.52 
TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K9 TCGA-OR-A5LK 
       32.68        93.44        17.36         8.32        11.31        73.05 
TCGA-PK-A5H8 TCGA-PK-A5HA TCGA-PK-A5HB 
      106.52        27.29        42.51 

  NMU MUTATED NMU WILD-TYPE 
        10.09          6.94 
  NMU MUTATED NMU WILD-TYPE 
        41.39        121.25 
  NMU MUTATED NMU WILD-TYPE 
        17.79         31.23 
[1] "10.1 - 41.4 (17.8)" "6.9 - 121.2 (31.2)"
   TCGA-OR-A5JA    TCGA-OR-A5JB    TCGA-OR-A5JC    TCGA-OR-A5JF    TCGA-OR-A5JG 
"NMU WILD-TYPE" "NMU WILD-TYPE" "NMU WILD-TYPE"   "NMU MUTATED"   "NMU MUTATED" 
   TCGA-OR-A5JI    TCGA-OR-A5JJ    TCGA-OR-A5JK    TCGA-OR-A5JL    TCGA-OR-A5JM 
"NMU WILD-TYPE"   "NMU MUTATED" "NMU WILD-TYPE" "NMU WILD-TYPE" "NMU WILD-TYPE" 
   TCGA-OR-A5JO    TCGA-OR-A5JQ    TCGA-OR-A5JR    TCGA-OR-A5JS    TCGA-OR-A5JT 
"NMU WILD-TYPE" "NMU WILD-TYPE" "NMU WILD-TYPE" "NMU WILD-TYPE"   "NMU MUTATED" 
   TCGA-OR-A5JV    TCGA-OR-A5JW    TCGA-OR-A5JX    TCGA-OR-A5JY    TCGA-OR-A5JZ 
"NMU WILD-TYPE" "NMU WILD-TYPE" "NMU WILD-TYPE" "NMU WILD-TYPE" "NMU WILD-TYPE" 
   TCGA-OR-A5K0    TCGA-OR-A5K1    TCGA-OR-A5K2    TCGA-OR-A5K3    TCGA-OR-A5K4 
"NMU WILD-TYPE" "NMU WILD-TYPE" "NMU WILD-TYPE" "NMU WILD-TYPE" "NMU WILD-TYPE" 
   TCGA-OR-A5K5    TCGA-OR-A5K6    TCGA-OR-A5K9    TCGA-OR-A5LK    TCGA-OU-A5PI 
"NMU WILD-TYPE"   "NMU MUTATED" "NMU WILD-TYPE" "NMU WILD-TYPE"   "NMU MUTATED" 
   TCGA-PK-A5H8    TCGA-PK-A5H9    TCGA-PK-A5HA    TCGA-PK-A5HB 
"NMU WILD-TYPE"   "NMU MUTATED" "NMU WILD-TYPE" "NMU WILD-TYPE" 
   TCGA-OR-A5JA    TCGA-OR-A5JB    TCGA-OR-A5JC    TCGA-OR-A5JF    TCGA-OR-A5JG 
"NMU WILD-TYPE" "NMU WILD-TYPE" "NMU WILD-TYPE"   "NMU MUTATED"   "NMU MUTATED" 
   TCGA-OR-A5JI    TCGA-OR-A5JJ    TCGA-OR-A5JK    TCGA-OR-A5JL    TCGA-OR-A5JM 
"NMU WILD-TYPE"   "NMU MUTATED" "NMU WILD-TYPE" "NMU WILD-TYPE" "NMU WILD-TYPE" 
   TCGA-OR-A5JO    TCGA-OR-A5JQ    TCGA-OR-A5JR    TCGA-OR-A5JS    TCGA-OR-A5JT 
"NMU WILD-TYPE" "NMU WILD-TYPE" "NMU WILD-TYPE" "NMU WILD-TYPE"   "NMU MUTATED" 
   TCGA-OR-A5JV    TCGA-OR-A5JW    TCGA-OR-A5JX    TCGA-OR-A5JY    TCGA-OR-A5JZ 
"NMU WILD-TYPE" "NMU WILD-TYPE" "NMU WILD-TYPE" "NMU WILD-TYPE" "NMU WILD-TYPE" 
   TCGA-OR-A5K0    TCGA-OR-A5K1    TCGA-OR-A5K2    TCGA-OR-A5K3    TCGA-OR-A5K4 
"NMU WILD-TYPE" "NMU WILD-TYPE" "NMU WILD-TYPE" "NMU WILD-TYPE" "NMU WILD-TYPE" 
   TCGA-OR-A5K5    TCGA-OR-A5K6    TCGA-OR-A5K9    TCGA-OR-A5LK    TCGA-OU-A5PI 
"NMU WILD-TYPE"   "NMU MUTATED" "NMU WILD-TYPE" "NMU WILD-TYPE"   "NMU MUTATED" 
   TCGA-PK-A5H8    TCGA-PK-A5H9    TCGA-PK-A5HA    TCGA-PK-A5HB 
"NMU WILD-TYPE"   "NMU MUTATED" "NMU WILD-TYPE" "NMU WILD-TYPE" 
   TCGA-OR-A5JA    TCGA-OR-A5JB    TCGA-OR-A5JC    TCGA-OR-A5JF    TCGA-OR-A5JG 
"NMU WILD-TYPE" "NMU WILD-TYPE" "NMU WILD-TYPE"   "NMU MUTATED"   "NMU MUTATED" 
   TCGA-OR-A5JI    TCGA-OR-A5JJ    TCGA-OR-A5JK    TCGA-OR-A5JL    TCGA-OR-A5JM 
"NMU WILD-TYPE"   "NMU MUTATED" "NMU WILD-TYPE" "NMU WILD-TYPE" "NMU WILD-TYPE" 
   TCGA-OR-A5JO    TCGA-OR-A5JQ    TCGA-OR-A5JR    TCGA-OR-A5JS    TCGA-OR-A5JT 
"NMU WILD-TYPE" "NMU WILD-TYPE" "NMU WILD-TYPE" "NMU WILD-TYPE"   "NMU MUTATED" 
   TCGA-OR-A5JV    TCGA-OR-A5JW    TCGA-OR-A5JX    TCGA-OR-A5JY    TCGA-OR-A5JZ 
"NMU WILD-TYPE" "NMU WILD-TYPE" "NMU WILD-TYPE" "NMU WILD-TYPE" "NMU WILD-TYPE" 
   TCGA-OR-A5K0    TCGA-OR-A5K1    TCGA-OR-A5K2    TCGA-OR-A5K3    TCGA-OR-A5K4 
"NMU WILD-TYPE" "NMU WILD-TYPE" "NMU WILD-TYPE" "NMU WILD-TYPE" "NMU WILD-TYPE" 
   TCGA-OR-A5K5    TCGA-OR-A5K6    TCGA-OR-A5K9    TCGA-OR-A5LK    TCGA-OU-A5PI 
"NMU WILD-TYPE"   "NMU MUTATED" "NMU WILD-TYPE" "NMU WILD-TYPE"   "NMU MUTATED" 
   TCGA-PK-A5H8    TCGA-PK-A5H9    TCGA-PK-A5HA    TCGA-PK-A5HB 
"NMU WILD-TYPE"   "NMU MUTATED" "NMU WILD-TYPE" "NMU WILD-TYPE" 
[1] "hr=" "1.1"
D1V2, continuous
               vv
clus            STAGE I STAGE II STAGE III STAGE IV
  NMU MUTATED         0        3         0        3
  NMU WILD-TYPE       4       10         4        5
D1V3, multiclass
           clus
vv          NMU MUTATED NMU WILD-TYPE
  STAGE I             0             4
  STAGE II            3            10
  STAGE III           0             4
  STAGE IV            3             5
               vv
clus            T1 T2+T3 T4
  NMU MUTATED    0     4  2
  NMU WILD-TYPE  4    12  7
D1V4, multiclass
       clus
vv      NMU MUTATED NMU WILD-TYPE
  T1              0             4
  T2+T3           4            12
  T4              2             7
D1V5, binary
               cls
clus             0  1
  NMU MUTATED    3  3
  NMU WILD-TYPE 23  1
[1] "tbl2"
               cls
clus            [,1] [,2]
  NMU MUTATED      3    3
  NMU WILD-TYPE   23    1
   clus
vv  NMU MUTATED NMU WILD-TYPE
  0           3            23
  1           3             1
D1V6, binary
               cls
clus             0  1
  NMU MUTATED    5  2
  NMU WILD-TYPE 12 15
[1] "tbl2"
               cls
clus            [,1] [,2]
  NMU MUTATED      5    2
  NMU WILD-TYPE   12   15
        clus
vv       NMU MUTATED NMU WILD-TYPE
  FEMALE           5            12
  MALE             2            15

Clustering(2) Variable = LPPR2 MUTATION ANALYSIS
D2V1, survival
                 sevent
clus2              0  1
  LPPR2 MUTATED    1  2
  LPPR2 WILD-TYPE 25  6
  LPPR2 MUTATED LPPR2 WILD-TYPE 
              3              31 
  LPPR2 MUTATED LPPR2 WILD-TYPE 
              2               6 
$`LPPR2 MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JG TCGA-PK-A5H9 
       30.31        17.79        10.09 

$`LPPR2 WILD-TYPE`
TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JI TCGA-OR-A5JJ TCGA-OR-A5JK 
       18.12        57.53        41.39        46.82        10.16        41.26 
TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JS 
       22.03        18.48        29.23        22.16       121.25        12.59 
TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ 
       16.04        50.66        63.25        31.23        18.15         6.94 
TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 
       33.83        89.52        32.68        93.44        17.36         8.32 
TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5HA 
       37.15        11.31        73.05        23.31       106.52        27.29 
TCGA-PK-A5HB 
       42.51 

  LPPR2 MUTATED LPPR2 WILD-TYPE 
          10.09            6.94 
  LPPR2 MUTATED LPPR2 WILD-TYPE 
          30.31          121.25 
  LPPR2 MUTATED LPPR2 WILD-TYPE 
          17.79           31.23 
[1] "10.1 - 30.3 (17.8)" "6.9 - 121.2 (31.2)"
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
  "LPPR2 MUTATED" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
  "LPPR2 MUTATED" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE"   "LPPR2 MUTATED" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
  "LPPR2 MUTATED" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
  "LPPR2 MUTATED" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE"   "LPPR2 MUTATED" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
  "LPPR2 MUTATED" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
  "LPPR2 MUTATED" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE"   "LPPR2 MUTATED" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" 
[1] "hr=" "8.8"
D2V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV
  LPPR2 MUTATED         0        0         0        2
  LPPR2 WILD-TYPE       4       13         4        6
D2V3, multiclass
[1] "Remove cluster labels:" "LPPR2 MUTATED"         
clus
  LPPR2 MUTATED LPPR2 WILD-TYPE 
              2              27 
     TCGA-OR-A5JB      TCGA-OR-A5JF      TCGA-OR-A5JI      TCGA-OR-A5JJ 
"LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" 
     TCGA-OR-A5JK      TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO 
"LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" 
     TCGA-OR-A5JQ      TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT 
"LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" 
     TCGA-OR-A5JV      TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY 
"LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" 
     TCGA-OR-A5JZ      TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2 
"LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" 
     TCGA-OR-A5K3      TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6 
"LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" 
     TCGA-OR-A5K9      TCGA-OR-A5LK      TCGA-OU-A5PI 
"LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" 
                 vv
clus              T1 T2+T3 T4
  LPPR2 MUTATED    0     0  2
  LPPR2 WILD-TYPE  4    16  7
D2V4, multiclass
[1] "Remove cluster labels:" "LPPR2 MUTATED"         
clus
  LPPR2 MUTATED LPPR2 WILD-TYPE 
              2              27 
     TCGA-OR-A5JB      TCGA-OR-A5JF      TCGA-OR-A5JI      TCGA-OR-A5JJ 
"LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" 
     TCGA-OR-A5JK      TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO 
"LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" 
     TCGA-OR-A5JQ      TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT 
"LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" 
     TCGA-OR-A5JV      TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY 
"LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" 
     TCGA-OR-A5JZ      TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2 
"LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" 
     TCGA-OR-A5K3      TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6 
"LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" 
     TCGA-OR-A5K9      TCGA-OR-A5LK      TCGA-OU-A5PI 
"LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" "LPPR2 WILD-TYPE" 
D2V5, binary
                 cls
clus               0  1
  LPPR2 MUTATED    1  1
  LPPR2 WILD-TYPE 25  3
[1] "tbl2"
                 cls
clus              [,1] [,2]
  LPPR2 MUTATED      1    1
  LPPR2 WILD-TYPE   25    3
   clus
vv  LPPR2 MUTATED LPPR2 WILD-TYPE
  0             1              25
  1             1               3
D2V6, binary
                 cls
clus               0  1
  LPPR2 MUTATED    2  1
  LPPR2 WILD-TYPE 15 16
[1] "tbl2"
                 cls
clus              [,1] [,2]
  LPPR2 MUTATED      2    1
  LPPR2 WILD-TYPE   15   16
        clus
vv       LPPR2 MUTATED LPPR2 WILD-TYPE
  FEMALE             2              15
  MALE               1              16

Clustering(3) Variable = SYT8 MUTATION ANALYSIS
D3V1, survival
                sevent
clus2             0  1
  SYT8 MUTATED    5  1
  SYT8 WILD-TYPE 21  7
  SYT8 MUTATED SYT8 WILD-TYPE 
             6             28 
  SYT8 MUTATED SYT8 WILD-TYPE 
             1              7 
$`SYT8 MUTATED`
TCGA-OR-A5JF TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5K3 TCGA-OR-A5K6 TCGA-PK-A5H9 
       41.39        18.48        29.23        93.44        37.15        10.09 

$`SYT8 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JJ 
       30.31        18.12        57.53        17.79        46.82        10.16 
TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JS TCGA-OR-A5JT 
       41.26        22.03        22.16       121.25        12.59        16.04 
TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K0 
       50.66        63.25        31.23        18.15         6.94        33.83 
TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K9 TCGA-OR-A5LK 
       89.52        32.68        17.36         8.32        11.31        73.05 
TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5HA TCGA-PK-A5HB 
       23.31       106.52        27.29        42.51 

  SYT8 MUTATED SYT8 WILD-TYPE 
         10.09           6.94 
  SYT8 MUTATED SYT8 WILD-TYPE 
         93.44         121.25 
  SYT8 MUTATED SYT8 WILD-TYPE 
         33.19          28.80 
[1] "10.1 - 93.4 (33.2)" "6.9 - 121.2 (28.8)"
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"SYT8 WILD-TYPE" "SYT8 WILD-TYPE" "SYT8 WILD-TYPE"   "SYT8 MUTATED" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"SYT8 WILD-TYPE" "SYT8 WILD-TYPE" "SYT8 WILD-TYPE" "SYT8 WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"SYT8 WILD-TYPE"   "SYT8 MUTATED"   "SYT8 MUTATED" "SYT8 WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"SYT8 WILD-TYPE" "SYT8 WILD-TYPE" "SYT8 WILD-TYPE" "SYT8 WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"SYT8 WILD-TYPE" "SYT8 WILD-TYPE" "SYT8 WILD-TYPE" "SYT8 WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"SYT8 WILD-TYPE" "SYT8 WILD-TYPE" "SYT8 WILD-TYPE"   "SYT8 MUTATED" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"SYT8 WILD-TYPE" "SYT8 WILD-TYPE"   "SYT8 MUTATED" "SYT8 WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"SYT8 WILD-TYPE" "SYT8 WILD-TYPE" "SYT8 WILD-TYPE"   "SYT8 MUTATED" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"SYT8 WILD-TYPE" "SYT8 WILD-TYPE" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"SYT8 WILD-TYPE" "SYT8 WILD-TYPE" "SYT8 WILD-TYPE"   "SYT8 MUTATED" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"SYT8 WILD-TYPE" "SYT8 WILD-TYPE" "SYT8 WILD-TYPE" "SYT8 WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"SYT8 WILD-TYPE"   "SYT8 MUTATED"   "SYT8 MUTATED" "SYT8 WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"SYT8 WILD-TYPE" "SYT8 WILD-TYPE" "SYT8 WILD-TYPE" "SYT8 WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"SYT8 WILD-TYPE" "SYT8 WILD-TYPE" "SYT8 WILD-TYPE" "SYT8 WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"SYT8 WILD-TYPE" "SYT8 WILD-TYPE" "SYT8 WILD-TYPE"   "SYT8 MUTATED" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"SYT8 WILD-TYPE" "SYT8 WILD-TYPE"   "SYT8 MUTATED" "SYT8 WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"SYT8 WILD-TYPE" "SYT8 WILD-TYPE" "SYT8 WILD-TYPE"   "SYT8 MUTATED" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"SYT8 WILD-TYPE" "SYT8 WILD-TYPE" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"SYT8 WILD-TYPE" "SYT8 WILD-TYPE" "SYT8 WILD-TYPE"   "SYT8 MUTATED" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"SYT8 WILD-TYPE" "SYT8 WILD-TYPE" "SYT8 WILD-TYPE" "SYT8 WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"SYT8 WILD-TYPE"   "SYT8 MUTATED"   "SYT8 MUTATED" "SYT8 WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"SYT8 WILD-TYPE" "SYT8 WILD-TYPE" "SYT8 WILD-TYPE" "SYT8 WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"SYT8 WILD-TYPE" "SYT8 WILD-TYPE" "SYT8 WILD-TYPE" "SYT8 WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"SYT8 WILD-TYPE" "SYT8 WILD-TYPE" "SYT8 WILD-TYPE"   "SYT8 MUTATED" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"SYT8 WILD-TYPE" "SYT8 WILD-TYPE"   "SYT8 MUTATED" "SYT8 WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"SYT8 WILD-TYPE" "SYT8 WILD-TYPE" "SYT8 WILD-TYPE"   "SYT8 MUTATED" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"SYT8 WILD-TYPE" "SYT8 WILD-TYPE" 
[1] "hr=" "1.6"
D3V2, continuous
                vv
clus             STAGE I STAGE II STAGE III STAGE IV
  SYT8 MUTATED         1        3         0        1
  SYT8 WILD-TYPE       3       10         4        7
D3V3, multiclass
           clus
vv          SYT8 MUTATED SYT8 WILD-TYPE
  STAGE I              1              3
  STAGE II             3             10
  STAGE III            0              4
  STAGE IV             1              7
                vv
clus             T1 T2+T3 T4
  SYT8 MUTATED    1     3  1
  SYT8 WILD-TYPE  3    13  8
D3V4, multiclass
       clus
vv      SYT8 MUTATED SYT8 WILD-TYPE
  T1               1              3
  T2+T3            3             13
  T4               1              8
D3V5, binary
                cls
clus              0  1
  SYT8 MUTATED    5  0
  SYT8 WILD-TYPE 21  4
[1] "tbl2"
                cls
clus             [,1] [,2]
  SYT8 MUTATED      5    0
  SYT8 WILD-TYPE   21    4
   clus
vv  SYT8 MUTATED SYT8 WILD-TYPE
  0            5             21
  1            0              4
D3V6, binary
                cls
clus              0  1
  SYT8 MUTATED    5  1
  SYT8 WILD-TYPE 12 16
[1] "tbl2"
                cls
clus             [,1] [,2]
  SYT8 MUTATED      5    1
  SYT8 WILD-TYPE   12   16
        clus
vv       SYT8 MUTATED SYT8 WILD-TYPE
  FEMALE            5             12
  MALE              1             16

Clustering(4) Variable = RINL MUTATION ANALYSIS
D4V1, survival
                sevent
clus2             0  1
  RINL MUTATED    6  2
  RINL WILD-TYPE 20  6
  RINL MUTATED RINL WILD-TYPE 
             8             26 
  RINL MUTATED RINL WILD-TYPE 
             2              6 
$`RINL MUTATED`
TCGA-OR-A5JJ TCGA-OR-A5JM TCGA-OR-A5JS TCGA-OR-A5JT TCGA-OR-A5JW TCGA-OR-A5K2 
       10.16        18.48        12.59        16.04        63.25        32.68 
TCGA-OR-A5K3 TCGA-PK-A5H9 
       93.44        10.09 

$`RINL WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI 
       30.31        18.12        57.53        41.39        17.79        46.82 
TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JV 
       41.26        22.03        29.23        22.16       121.25        50.66 
TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K4 
       31.23        18.15         6.94        33.83        89.52        17.36 
TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 
        8.32        37.15        11.31        73.05        23.31       106.52 
TCGA-PK-A5HA TCGA-PK-A5HB 
       27.29        42.51 

  RINL MUTATED RINL WILD-TYPE 
         10.09           6.94 
  RINL MUTATED RINL WILD-TYPE 
         93.44         121.25 
  RINL MUTATED RINL WILD-TYPE 
         17.26          30.77 
[1] "10.1 - 93.4 (17.3)" "6.9 - 121.2 (30.8)"
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"RINL WILD-TYPE" "RINL WILD-TYPE" "RINL WILD-TYPE" "RINL WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"RINL WILD-TYPE" "RINL WILD-TYPE"   "RINL MUTATED" "RINL WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"RINL WILD-TYPE"   "RINL MUTATED" "RINL WILD-TYPE" "RINL WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"RINL WILD-TYPE"   "RINL MUTATED"   "RINL MUTATED" "RINL WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
  "RINL MUTATED" "RINL WILD-TYPE" "RINL WILD-TYPE" "RINL WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"RINL WILD-TYPE" "RINL WILD-TYPE"   "RINL MUTATED"   "RINL MUTATED" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"RINL WILD-TYPE" "RINL WILD-TYPE" "RINL WILD-TYPE" "RINL WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"RINL WILD-TYPE" "RINL WILD-TYPE" "RINL WILD-TYPE"   "RINL MUTATED" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"RINL WILD-TYPE" "RINL WILD-TYPE" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"RINL WILD-TYPE" "RINL WILD-TYPE" "RINL WILD-TYPE" "RINL WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"RINL WILD-TYPE" "RINL WILD-TYPE"   "RINL MUTATED" "RINL WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"RINL WILD-TYPE"   "RINL MUTATED" "RINL WILD-TYPE" "RINL WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"RINL WILD-TYPE"   "RINL MUTATED"   "RINL MUTATED" "RINL WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
  "RINL MUTATED" "RINL WILD-TYPE" "RINL WILD-TYPE" "RINL WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"RINL WILD-TYPE" "RINL WILD-TYPE"   "RINL MUTATED"   "RINL MUTATED" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"RINL WILD-TYPE" "RINL WILD-TYPE" "RINL WILD-TYPE" "RINL WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"RINL WILD-TYPE" "RINL WILD-TYPE" "RINL WILD-TYPE"   "RINL MUTATED" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"RINL WILD-TYPE" "RINL WILD-TYPE" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"RINL WILD-TYPE" "RINL WILD-TYPE" "RINL WILD-TYPE" "RINL WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"RINL WILD-TYPE" "RINL WILD-TYPE"   "RINL MUTATED" "RINL WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"RINL WILD-TYPE"   "RINL MUTATED" "RINL WILD-TYPE" "RINL WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"RINL WILD-TYPE"   "RINL MUTATED"   "RINL MUTATED" "RINL WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
  "RINL MUTATED" "RINL WILD-TYPE" "RINL WILD-TYPE" "RINL WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"RINL WILD-TYPE" "RINL WILD-TYPE"   "RINL MUTATED"   "RINL MUTATED" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"RINL WILD-TYPE" "RINL WILD-TYPE" "RINL WILD-TYPE" "RINL WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"RINL WILD-TYPE" "RINL WILD-TYPE" "RINL WILD-TYPE"   "RINL MUTATED" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"RINL WILD-TYPE" "RINL WILD-TYPE" 
[1] "hr=" "1.4"
D4V2, continuous
                vv
clus             STAGE I STAGE II STAGE III STAGE IV
  RINL MUTATED         0        4         1        2
  RINL WILD-TYPE       4        9         3        6
D4V3, multiclass
           clus
vv          RINL MUTATED RINL WILD-TYPE
  STAGE I              0              4
  STAGE II             4              9
  STAGE III            1              3
  STAGE IV             2              6
                vv
clus             T1 T2+T3 T4
  RINL MUTATED    0     4  3
  RINL WILD-TYPE  4    12  6
D4V4, multiclass
       clus
vv      RINL MUTATED RINL WILD-TYPE
  T1               0              4
  T2+T3            4             12
  T4               3              6
D4V5, binary
                cls
clus              0  1
  RINL MUTATED    6  1
  RINL WILD-TYPE 20  3
[1] "tbl2"
                cls
clus             [,1] [,2]
  RINL MUTATED      6    1
  RINL WILD-TYPE   20    3
   clus
vv  RINL MUTATED RINL WILD-TYPE
  0            6             20
  1            1              3
D4V6, binary
                cls
clus              0  1
  RINL MUTATED    5  3
  RINL WILD-TYPE 12 14
[1] "tbl2"
                cls
clus             [,1] [,2]
  RINL MUTATED      5    3
  RINL WILD-TYPE   12   14
        clus
vv       RINL MUTATED RINL WILD-TYPE
  FEMALE            5             12
  MALE              3             14

Clustering(5) Variable = OBSCN MUTATION ANALYSIS
D5V1, survival
                 sevent
clus2              0  1
  OBSCN MUTATED   11  4
  OBSCN WILD-TYPE 15  4
  OBSCN MUTATED OBSCN WILD-TYPE 
             15              19 
  OBSCN MUTATED OBSCN WILD-TYPE 
              4               4 
$`OBSCN MUTATED`
TCGA-OR-A5JB TCGA-OR-A5JF TCGA-OR-A5JI TCGA-OR-A5JJ TCGA-OR-A5JM TCGA-OR-A5JS 
       18.12        41.39        46.82        10.16        18.48        12.59 
TCGA-OR-A5JV TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K6 
       50.66        18.15         6.94        93.44        17.36        37.15 
TCGA-OR-A5K9 TCGA-PK-A5HA TCGA-PK-A5HB 
       11.31        27.29        42.51 

$`OBSCN WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JC TCGA-OR-A5JG TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JO 
       30.31        57.53        17.79        41.26        22.03        29.23 
TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JT TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5K0 
       22.16       121.25        16.04        63.25        31.23        33.83 
TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K5 TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 
       89.52        32.68         8.32        73.05        23.31       106.52 
TCGA-PK-A5H9 
       10.09 

  OBSCN MUTATED OBSCN WILD-TYPE 
           6.94            8.32 
  OBSCN MUTATED OBSCN WILD-TYPE 
          93.44          121.25 
  OBSCN MUTATED OBSCN WILD-TYPE 
          18.48           31.23 
[1] "6.9 - 93.4 (18.5)"  "8.3 - 121.2 (31.2)"
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"OBSCN WILD-TYPE"   "OBSCN MUTATED" "OBSCN WILD-TYPE"   "OBSCN MUTATED" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"OBSCN WILD-TYPE"   "OBSCN MUTATED"   "OBSCN MUTATED" "OBSCN WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"OBSCN WILD-TYPE"   "OBSCN MUTATED" "OBSCN WILD-TYPE" "OBSCN WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"OBSCN WILD-TYPE"   "OBSCN MUTATED" "OBSCN WILD-TYPE"   "OBSCN MUTATED" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"OBSCN WILD-TYPE" "OBSCN WILD-TYPE"   "OBSCN MUTATED"   "OBSCN MUTATED" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"OBSCN WILD-TYPE" "OBSCN WILD-TYPE" "OBSCN WILD-TYPE"   "OBSCN MUTATED" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
  "OBSCN MUTATED" "OBSCN WILD-TYPE"   "OBSCN MUTATED"   "OBSCN MUTATED" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"OBSCN WILD-TYPE" "OBSCN WILD-TYPE" "OBSCN WILD-TYPE" "OBSCN WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
  "OBSCN MUTATED"   "OBSCN MUTATED" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"OBSCN WILD-TYPE"   "OBSCN MUTATED" "OBSCN WILD-TYPE"   "OBSCN MUTATED" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"OBSCN WILD-TYPE"   "OBSCN MUTATED"   "OBSCN MUTATED" "OBSCN WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"OBSCN WILD-TYPE"   "OBSCN MUTATED" "OBSCN WILD-TYPE" "OBSCN WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"OBSCN WILD-TYPE"   "OBSCN MUTATED" "OBSCN WILD-TYPE"   "OBSCN MUTATED" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"OBSCN WILD-TYPE" "OBSCN WILD-TYPE"   "OBSCN MUTATED"   "OBSCN MUTATED" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"OBSCN WILD-TYPE" "OBSCN WILD-TYPE" "OBSCN WILD-TYPE"   "OBSCN MUTATED" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
  "OBSCN MUTATED" "OBSCN WILD-TYPE"   "OBSCN MUTATED"   "OBSCN MUTATED" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"OBSCN WILD-TYPE" "OBSCN WILD-TYPE" "OBSCN WILD-TYPE" "OBSCN WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
  "OBSCN MUTATED"   "OBSCN MUTATED" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"OBSCN WILD-TYPE"   "OBSCN MUTATED" "OBSCN WILD-TYPE"   "OBSCN MUTATED" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"OBSCN WILD-TYPE"   "OBSCN MUTATED"   "OBSCN MUTATED" "OBSCN WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"OBSCN WILD-TYPE"   "OBSCN MUTATED" "OBSCN WILD-TYPE" "OBSCN WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"OBSCN WILD-TYPE"   "OBSCN MUTATED" "OBSCN WILD-TYPE"   "OBSCN MUTATED" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"OBSCN WILD-TYPE" "OBSCN WILD-TYPE"   "OBSCN MUTATED"   "OBSCN MUTATED" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"OBSCN WILD-TYPE" "OBSCN WILD-TYPE" "OBSCN WILD-TYPE"   "OBSCN MUTATED" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
  "OBSCN MUTATED" "OBSCN WILD-TYPE"   "OBSCN MUTATED"   "OBSCN MUTATED" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"OBSCN WILD-TYPE" "OBSCN WILD-TYPE" "OBSCN WILD-TYPE" "OBSCN WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
  "OBSCN MUTATED"   "OBSCN MUTATED" 
[1] "hr=" "1.9"
D5V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV
  OBSCN MUTATED         1        7         1        4
  OBSCN WILD-TYPE       3        6         3        4
D5V3, multiclass
           clus
vv          OBSCN MUTATED OBSCN WILD-TYPE
  STAGE I               1               3
  STAGE II              7               6
  STAGE III             1               3
  STAGE IV              4               4
                 vv
clus              T1 T2+T3 T4
  OBSCN MUTATED    1     7  5
  OBSCN WILD-TYPE  3     9  4
D5V4, multiclass
       clus
vv      OBSCN MUTATED OBSCN WILD-TYPE
  T1                1               3
  T2+T3             7               9
  T4                5               4
D5V5, binary
                 cls
clus               0  1
  OBSCN MUTATED   12  2
  OBSCN WILD-TYPE 14  2
[1] "tbl2"
                 cls
clus              [,1] [,2]
  OBSCN MUTATED     12    2
  OBSCN WILD-TYPE   14    2
   clus
vv  OBSCN MUTATED OBSCN WILD-TYPE
  0            12              14
  1             2               2
D5V6, binary
                 cls
clus               0  1
  OBSCN MUTATED    7  8
  OBSCN WILD-TYPE 10  9
[1] "tbl2"
                 cls
clus              [,1] [,2]
  OBSCN MUTATED      7    8
  OBSCN WILD-TYPE   10    9
        clus
vv       OBSCN MUTATED OBSCN WILD-TYPE
  FEMALE             7              10
  MALE               8               9

Clustering(6) Variable = MAP1S MUTATION ANALYSIS
D6V1, survival
                 sevent
clus2              0  1
  MAP1S MUTATED    4  0
  MAP1S WILD-TYPE 22  8
  MAP1S MUTATED MAP1S WILD-TYPE 
              4              30 
  MAP1S MUTATED MAP1S WILD-TYPE 
              0               8 
$`MAP1S MUTATED`
TCGA-OR-A5JK TCGA-OR-A5JT TCGA-OR-A5LK TCGA-OU-A5PI 
       41.26        16.04        73.05        23.31 

$`MAP1S WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI 
       30.31        18.12        57.53        41.39        17.79        46.82 
TCGA-OR-A5JJ TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR 
       10.16        22.03        18.48        29.23        22.16       121.25 
TCGA-OR-A5JS TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ 
       12.59        50.66        63.25        31.23        18.15         6.94 
TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 
       33.83        89.52        32.68        93.44        17.36         8.32 
TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
       37.15        11.31       106.52        10.09        27.29        42.51 

  MAP1S MUTATED MAP1S WILD-TYPE 
          16.04            6.94 
  MAP1S MUTATED MAP1S WILD-TYPE 
          73.05          121.25 
  MAP1S MUTATED MAP1S WILD-TYPE 
         32.285          29.770 
[1] "16.0 - 73.0 (32.3)" "6.9 - 121.2 (29.8)"
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"MAP1S WILD-TYPE" "MAP1S WILD-TYPE" "MAP1S WILD-TYPE" "MAP1S WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"MAP1S WILD-TYPE" "MAP1S WILD-TYPE" "MAP1S WILD-TYPE"   "MAP1S MUTATED" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"MAP1S WILD-TYPE" "MAP1S WILD-TYPE" "MAP1S WILD-TYPE" "MAP1S WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"MAP1S WILD-TYPE" "MAP1S WILD-TYPE"   "MAP1S MUTATED" "MAP1S WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"MAP1S WILD-TYPE" "MAP1S WILD-TYPE" "MAP1S WILD-TYPE" "MAP1S WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"MAP1S WILD-TYPE" "MAP1S WILD-TYPE" "MAP1S WILD-TYPE" "MAP1S WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"MAP1S WILD-TYPE" "MAP1S WILD-TYPE" "MAP1S WILD-TYPE" "MAP1S WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
  "MAP1S MUTATED"   "MAP1S MUTATED" "MAP1S WILD-TYPE" "MAP1S WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"MAP1S WILD-TYPE" "MAP1S WILD-TYPE" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"MAP1S WILD-TYPE" "MAP1S WILD-TYPE" "MAP1S WILD-TYPE" "MAP1S WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"MAP1S WILD-TYPE" "MAP1S WILD-TYPE" "MAP1S WILD-TYPE"   "MAP1S MUTATED" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"MAP1S WILD-TYPE" "MAP1S WILD-TYPE" "MAP1S WILD-TYPE" "MAP1S WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"MAP1S WILD-TYPE" "MAP1S WILD-TYPE"   "MAP1S MUTATED" "MAP1S WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"MAP1S WILD-TYPE" "MAP1S WILD-TYPE" "MAP1S WILD-TYPE" "MAP1S WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"MAP1S WILD-TYPE" "MAP1S WILD-TYPE" "MAP1S WILD-TYPE" "MAP1S WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"MAP1S WILD-TYPE" "MAP1S WILD-TYPE" "MAP1S WILD-TYPE" "MAP1S WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
  "MAP1S MUTATED"   "MAP1S MUTATED" "MAP1S WILD-TYPE" "MAP1S WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"MAP1S WILD-TYPE" "MAP1S WILD-TYPE" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"MAP1S WILD-TYPE" "MAP1S WILD-TYPE" "MAP1S WILD-TYPE" "MAP1S WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"MAP1S WILD-TYPE" "MAP1S WILD-TYPE" "MAP1S WILD-TYPE"   "MAP1S MUTATED" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"MAP1S WILD-TYPE" "MAP1S WILD-TYPE" "MAP1S WILD-TYPE" "MAP1S WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"MAP1S WILD-TYPE" "MAP1S WILD-TYPE"   "MAP1S MUTATED" "MAP1S WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"MAP1S WILD-TYPE" "MAP1S WILD-TYPE" "MAP1S WILD-TYPE" "MAP1S WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"MAP1S WILD-TYPE" "MAP1S WILD-TYPE" "MAP1S WILD-TYPE" "MAP1S WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"MAP1S WILD-TYPE" "MAP1S WILD-TYPE" "MAP1S WILD-TYPE" "MAP1S WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
  "MAP1S MUTATED"   "MAP1S MUTATED" "MAP1S WILD-TYPE" "MAP1S WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"MAP1S WILD-TYPE" "MAP1S WILD-TYPE" 
[1] "hr="     "2.2e+08"
D6V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV
  MAP1S MUTATED         0        2         0        2
  MAP1S WILD-TYPE       4       11         4        6
D6V3, multiclass
           clus
vv          MAP1S MUTATED MAP1S WILD-TYPE
  STAGE I               0               4
  STAGE II              2              11
  STAGE III             0               4
  STAGE IV              2               6
                 vv
clus              T1 T2+T3 T4
  MAP1S MUTATED    0     3  1
  MAP1S WILD-TYPE  4    13  8
D6V4, multiclass
       clus
vv      MAP1S MUTATED MAP1S WILD-TYPE
  T1                0               4
  T2+T3             3              13
  T4                1               8
D6V5, binary
                 cls
clus               0  1
  MAP1S MUTATED    3  1
  MAP1S WILD-TYPE 23  3
[1] "tbl2"
                 cls
clus              [,1] [,2]
  MAP1S MUTATED      3    1
  MAP1S WILD-TYPE   23    3
   clus
vv  MAP1S MUTATED MAP1S WILD-TYPE
  0             3              23
  1             1               3
D6V6, binary
                 cls
clus               0  1
  MAP1S MUTATED    2  2
  MAP1S WILD-TYPE 15 15
[1] "tbl2"
                 cls
clus              [,1] [,2]
  MAP1S MUTATED      2    2
  MAP1S WILD-TYPE   15   15
        clus
vv       MAP1S MUTATED MAP1S WILD-TYPE
  FEMALE             2              15
  MALE               2              15

Clustering(7) Variable = GPRIN2 MUTATION ANALYSIS
D7V1, survival
                  sevent
clus2               0  1
  GPRIN2 MUTATED    3  1
  GPRIN2 WILD-TYPE 23  7
  GPRIN2 MUTATED GPRIN2 WILD-TYPE 
               4               30 
  GPRIN2 MUTATED GPRIN2 WILD-TYPE 
               1                7 
$`GPRIN2 MUTATED`
TCGA-OR-A5JT TCGA-OR-A5JW TCGA-OR-A5K2 TCGA-OR-A5K6 
       16.04        63.25        32.68        37.15 

$`GPRIN2 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI 
       30.31        18.12        57.53        41.39        17.79        46.82 
TCGA-OR-A5JJ TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ 
       10.16        41.26        22.03        18.48        29.23        22.16 
TCGA-OR-A5JR TCGA-OR-A5JS TCGA-OR-A5JV TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ 
      121.25        12.59        50.66        31.23        18.15         6.94 
TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K9 
       33.83        89.52        93.44        17.36         8.32        11.31 
TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
       73.05        23.31       106.52        10.09        27.29        42.51 

  GPRIN2 MUTATED GPRIN2 WILD-TYPE 
           16.04             6.94 
  GPRIN2 MUTATED GPRIN2 WILD-TYPE 
           63.25           121.25 
  GPRIN2 MUTATED GPRIN2 WILD-TYPE 
          34.915           28.260 
[1] "16.0 - 63.2 (34.9)" "6.9 - 121.2 (28.3)"
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE"   "GPRIN2 MUTATED" "GPRIN2 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
  "GPRIN2 MUTATED" "GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
"GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE"   "GPRIN2 MUTATED" "GPRIN2 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE"   "GPRIN2 MUTATED" "GPRIN2 WILD-TYPE" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE"   "GPRIN2 MUTATED" "GPRIN2 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
  "GPRIN2 MUTATED" "GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
"GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE"   "GPRIN2 MUTATED" "GPRIN2 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE"   "GPRIN2 MUTATED" "GPRIN2 WILD-TYPE" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE"   "GPRIN2 MUTATED" "GPRIN2 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
  "GPRIN2 MUTATED" "GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
"GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE"   "GPRIN2 MUTATED" "GPRIN2 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE"   "GPRIN2 MUTATED" "GPRIN2 WILD-TYPE" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"GPRIN2 WILD-TYPE" "GPRIN2 WILD-TYPE" 
[1] "hr=" "1.2"
D7V2, continuous
                  vv
clus               STAGE I STAGE II STAGE III STAGE IV
  GPRIN2 MUTATED         0        3         1        0
  GPRIN2 WILD-TYPE       4       10         3        8
D7V3, multiclass
           clus
vv          GPRIN2 MUTATED GPRIN2 WILD-TYPE
  STAGE I                0                4
  STAGE II               3               10
  STAGE III              1                3
  STAGE IV               0                8
                  vv
clus               T1 T2+T3 T4
  GPRIN2 MUTATED    0     3  1
  GPRIN2 WILD-TYPE  4    13  8
D7V4, multiclass
       clus
vv      GPRIN2 MUTATED GPRIN2 WILD-TYPE
  T1                 0                4
  T2+T3              3               13
  T4                 1                8
D7V5, binary
                  cls
clus                0  1
  GPRIN2 MUTATED    4  0
  GPRIN2 WILD-TYPE 22  4
[1] "tbl2"
                  cls
clus               [,1] [,2]
  GPRIN2 MUTATED      4    0
  GPRIN2 WILD-TYPE   22    4
   clus
vv  GPRIN2 MUTATED GPRIN2 WILD-TYPE
  0              4               22
  1              0                4
D7V6, binary
                  cls
clus                0  1
  GPRIN2 MUTATED    3  1
  GPRIN2 WILD-TYPE 14 16
[1] "tbl2"
                  cls
clus               [,1] [,2]
  GPRIN2 MUTATED      3    1
  GPRIN2 WILD-TYPE   14   16
        clus
vv       GPRIN2 MUTATED GPRIN2 WILD-TYPE
  FEMALE              3               14
  MALE                1               16

Clustering(8) Variable = ATP9B MUTATION ANALYSIS
D8V1, survival
                 sevent
clus2              0  1
  ATP9B MUTATED    3  0
  ATP9B WILD-TYPE 23  8
  ATP9B MUTATED ATP9B WILD-TYPE 
              3              31 
  ATP9B MUTATED ATP9B WILD-TYPE 
              0               8 
$`ATP9B MUTATED`
TCGA-OR-A5K6 TCGA-OU-A5PI TCGA-PK-A5HB 
       37.15        23.31        42.51 

$`ATP9B WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI 
       30.31        18.12        57.53        41.39        17.79        46.82 
TCGA-OR-A5JJ TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ 
       10.16        41.26        22.03        18.48        29.23        22.16 
TCGA-OR-A5JR TCGA-OR-A5JS TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX 
      121.25        12.59        16.04        50.66        63.25        31.23 
TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 
       18.15         6.94        33.83        89.52        32.68        93.44 
TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-PK-A5H8 TCGA-PK-A5H9 
       17.36         8.32        11.31        73.05       106.52        10.09 
TCGA-PK-A5HA 
       27.29 

  ATP9B MUTATED ATP9B WILD-TYPE 
          23.31            6.94 
  ATP9B MUTATED ATP9B WILD-TYPE 
          42.51          121.25 
  ATP9B MUTATED ATP9B WILD-TYPE 
          37.15           29.23 
[1] "23.3 - 42.5 (37.1)" "6.9 - 121.2 (29.2)"
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"ATP9B WILD-TYPE" "ATP9B WILD-TYPE"   "ATP9B MUTATED" "ATP9B WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"ATP9B WILD-TYPE"   "ATP9B MUTATED" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"ATP9B WILD-TYPE"   "ATP9B MUTATED" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"ATP9B WILD-TYPE" "ATP9B WILD-TYPE"   "ATP9B MUTATED" "ATP9B WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"ATP9B WILD-TYPE"   "ATP9B MUTATED" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"ATP9B WILD-TYPE"   "ATP9B MUTATED" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"ATP9B WILD-TYPE" "ATP9B WILD-TYPE"   "ATP9B MUTATED" "ATP9B WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"ATP9B WILD-TYPE"   "ATP9B MUTATED" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"ATP9B WILD-TYPE"   "ATP9B MUTATED" 
[1] "hr="     "8.1e+07"
D8V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV
  ATP9B MUTATED         0        1         0        1
  ATP9B WILD-TYPE       4       12         4        7
D8V3, multiclass
[1] "Remove cluster labels:" "ATP9B MUTATED"         
clus
  ATP9B MUTATED ATP9B WILD-TYPE 
              2              27 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JF      TCGA-OR-A5JG 
"ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" 
     TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK      TCGA-OR-A5JL 
"ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" 
     TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ      TCGA-OR-A5JR 
"ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" 
     TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV      TCGA-OR-A5JW 
"ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" 
     TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ      TCGA-OR-A5K0 
"ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" 
     TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3      TCGA-OR-A5K4 
"ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" 
     TCGA-OR-A5K5      TCGA-OR-A5K9      TCGA-OR-A5LK 
"ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" 
                 vv
clus              T1 T2+T3 T4
  ATP9B MUTATED    0     2  0
  ATP9B WILD-TYPE  4    14  9
D8V4, multiclass
[1] "Remove cluster labels:" "ATP9B MUTATED"         
clus
  ATP9B MUTATED ATP9B WILD-TYPE 
              2              27 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JF      TCGA-OR-A5JG 
"ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" 
     TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK      TCGA-OR-A5JL 
"ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" 
     TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ      TCGA-OR-A5JR 
"ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" 
     TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV      TCGA-OR-A5JW 
"ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" 
     TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ      TCGA-OR-A5K0 
"ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" 
     TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3      TCGA-OR-A5K4 
"ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" 
     TCGA-OR-A5K5      TCGA-OR-A5K9      TCGA-OR-A5LK 
"ATP9B WILD-TYPE" "ATP9B WILD-TYPE" "ATP9B WILD-TYPE" 
D8V5, binary
                 cls
clus               0  1
  ATP9B MUTATED    1  1
  ATP9B WILD-TYPE 25  3
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ATP9B MUTATED      1    1
  ATP9B WILD-TYPE   25    3
   clus
vv  ATP9B MUTATED ATP9B WILD-TYPE
  0             1              25
  1             1               3
D8V6, binary
                 cls
clus               0  1
  ATP9B MUTATED    2  1
  ATP9B WILD-TYPE 15 16
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ATP9B MUTATED      2    1
  ATP9B WILD-TYPE   15   16
        clus
vv       ATP9B MUTATED ATP9B WILD-TYPE
  FEMALE             2              15
  MALE               1              16

Clustering(9) Variable = RREB1 MUTATION ANALYSIS
D9V1, survival
                 sevent
clus2              0  1
  RREB1 MUTATED    3  1
  RREB1 WILD-TYPE 23  7
  RREB1 MUTATED RREB1 WILD-TYPE 
              4              30 
  RREB1 MUTATED RREB1 WILD-TYPE 
              1               7 
$`RREB1 MUTATED`
TCGA-OR-A5JV TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5K6 
       50.66        31.23        18.15        37.15 

$`RREB1 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI 
       30.31        18.12        57.53        41.39        17.79        46.82 
TCGA-OR-A5JJ TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ 
       10.16        41.26        22.03        18.48        29.23        22.16 
TCGA-OR-A5JR TCGA-OR-A5JS TCGA-OR-A5JT TCGA-OR-A5JW TCGA-OR-A5JZ TCGA-OR-A5K0 
      121.25        12.59        16.04        63.25         6.94        33.83 
TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K9 
       89.52        32.68        93.44        17.36         8.32        11.31 
TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
       73.05        23.31       106.52        10.09        27.29        42.51 

  RREB1 MUTATED RREB1 WILD-TYPE 
          18.15            6.94 
  RREB1 MUTATED RREB1 WILD-TYPE 
          50.66          121.25 
  RREB1 MUTATED RREB1 WILD-TYPE 
          34.19           28.26 
[1] "18.1 - 50.7 (34.2)" "6.9 - 121.2 (28.3)"
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"RREB1 WILD-TYPE" "RREB1 WILD-TYPE" "RREB1 WILD-TYPE" "RREB1 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"RREB1 WILD-TYPE" "RREB1 WILD-TYPE" "RREB1 WILD-TYPE" "RREB1 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"RREB1 WILD-TYPE" "RREB1 WILD-TYPE" "RREB1 WILD-TYPE" "RREB1 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"RREB1 WILD-TYPE" "RREB1 WILD-TYPE" "RREB1 WILD-TYPE"   "RREB1 MUTATED" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"RREB1 WILD-TYPE"   "RREB1 MUTATED"   "RREB1 MUTATED" "RREB1 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"RREB1 WILD-TYPE" "RREB1 WILD-TYPE" "RREB1 WILD-TYPE" "RREB1 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"RREB1 WILD-TYPE" "RREB1 WILD-TYPE"   "RREB1 MUTATED" "RREB1 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"RREB1 WILD-TYPE" "RREB1 WILD-TYPE" "RREB1 WILD-TYPE" "RREB1 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"RREB1 WILD-TYPE" "RREB1 WILD-TYPE" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"RREB1 WILD-TYPE" "RREB1 WILD-TYPE" "RREB1 WILD-TYPE" "RREB1 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"RREB1 WILD-TYPE" "RREB1 WILD-TYPE" "RREB1 WILD-TYPE" "RREB1 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"RREB1 WILD-TYPE" "RREB1 WILD-TYPE" "RREB1 WILD-TYPE" "RREB1 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"RREB1 WILD-TYPE" "RREB1 WILD-TYPE" "RREB1 WILD-TYPE"   "RREB1 MUTATED" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"RREB1 WILD-TYPE"   "RREB1 MUTATED"   "RREB1 MUTATED" "RREB1 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"RREB1 WILD-TYPE" "RREB1 WILD-TYPE" "RREB1 WILD-TYPE" "RREB1 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"RREB1 WILD-TYPE" "RREB1 WILD-TYPE"   "RREB1 MUTATED" "RREB1 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"RREB1 WILD-TYPE" "RREB1 WILD-TYPE" "RREB1 WILD-TYPE" "RREB1 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"RREB1 WILD-TYPE" "RREB1 WILD-TYPE" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"RREB1 WILD-TYPE" "RREB1 WILD-TYPE" "RREB1 WILD-TYPE" "RREB1 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"RREB1 WILD-TYPE" "RREB1 WILD-TYPE" "RREB1 WILD-TYPE" "RREB1 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"RREB1 WILD-TYPE" "RREB1 WILD-TYPE" "RREB1 WILD-TYPE" "RREB1 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"RREB1 WILD-TYPE" "RREB1 WILD-TYPE" "RREB1 WILD-TYPE"   "RREB1 MUTATED" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"RREB1 WILD-TYPE"   "RREB1 MUTATED"   "RREB1 MUTATED" "RREB1 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"RREB1 WILD-TYPE" "RREB1 WILD-TYPE" "RREB1 WILD-TYPE" "RREB1 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"RREB1 WILD-TYPE" "RREB1 WILD-TYPE"   "RREB1 MUTATED" "RREB1 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"RREB1 WILD-TYPE" "RREB1 WILD-TYPE" "RREB1 WILD-TYPE" "RREB1 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"RREB1 WILD-TYPE" "RREB1 WILD-TYPE" 
[1] "hr=" "1.1"
D9V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV
  RREB1 MUTATED         0        2         1        1
  RREB1 WILD-TYPE       4       11         3        7
D9V3, multiclass
           clus
vv          RREB1 MUTATED RREB1 WILD-TYPE
  STAGE I               0               4
  STAGE II              2              11
  STAGE III             1               3
  STAGE IV              1               7
                 vv
clus              T1 T2+T3 T4
  RREB1 MUTATED    0     3  1
  RREB1 WILD-TYPE  4    13  8
D9V4, multiclass
       clus
vv      RREB1 MUTATED RREB1 WILD-TYPE
  T1                0               4
  T2+T3             3              13
  T4                1               8
D9V5, binary
                 cls
clus               0  1
  RREB1 MUTATED    3  1
  RREB1 WILD-TYPE 23  3
[1] "tbl2"
                 cls
clus              [,1] [,2]
  RREB1 MUTATED      3    1
  RREB1 WILD-TYPE   23    3
   clus
vv  RREB1 MUTATED RREB1 WILD-TYPE
  0             3              23
  1             1               3
D9V6, binary
                 cls
clus               0  1
  RREB1 MUTATED    2  2
  RREB1 WILD-TYPE 15 15
[1] "tbl2"
                 cls
clus              [,1] [,2]
  RREB1 MUTATED      2    2
  RREB1 WILD-TYPE   15   15
        clus
vv       RREB1 MUTATED RREB1 WILD-TYPE
  FEMALE             2              15
  MALE               2              15

Clustering(10) Variable = IDUA MUTATION ANALYSIS
D10V1, survival
                sevent
clus2             0  1
  IDUA MUTATED    4  2
  IDUA WILD-TYPE 22  6
  IDUA MUTATED IDUA WILD-TYPE 
             6             28 
  IDUA MUTATED IDUA WILD-TYPE 
             2              6 
$`IDUA MUTATED`
TCGA-OR-A5JM TCGA-OR-A5K3 TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-PK-A5H9 TCGA-PK-A5HB 
       18.48        93.44        11.31        73.05        10.09        42.51 

$`IDUA WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI 
       30.31        18.12        57.53        41.39        17.79        46.82 
TCGA-OR-A5JJ TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR 
       10.16        41.26        22.03        29.23        22.16       121.25 
TCGA-OR-A5JS TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY 
       12.59        16.04        50.66        63.25        31.23        18.15 
TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K4 TCGA-OR-A5K5 
        6.94        33.83        89.52        32.68        17.36         8.32 
TCGA-OR-A5K6 TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5HA 
       37.15        23.31       106.52        27.29 

  IDUA MUTATED IDUA WILD-TYPE 
         10.09           6.94 
  IDUA MUTATED IDUA WILD-TYPE 
         93.44         121.25 
  IDUA MUTATED IDUA WILD-TYPE 
        30.495         29.770 
[1] "10.1 - 93.4 (30.5)" "6.9 - 121.2 (29.8)"
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"IDUA WILD-TYPE" "IDUA WILD-TYPE" "IDUA WILD-TYPE" "IDUA WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"IDUA WILD-TYPE" "IDUA WILD-TYPE" "IDUA WILD-TYPE" "IDUA WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"IDUA WILD-TYPE"   "IDUA MUTATED" "IDUA WILD-TYPE" "IDUA WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"IDUA WILD-TYPE" "IDUA WILD-TYPE" "IDUA WILD-TYPE" "IDUA WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"IDUA WILD-TYPE" "IDUA WILD-TYPE" "IDUA WILD-TYPE" "IDUA WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"IDUA WILD-TYPE" "IDUA WILD-TYPE" "IDUA WILD-TYPE"   "IDUA MUTATED" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"IDUA WILD-TYPE" "IDUA WILD-TYPE" "IDUA WILD-TYPE"   "IDUA MUTATED" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
  "IDUA MUTATED" "IDUA WILD-TYPE" "IDUA WILD-TYPE"   "IDUA MUTATED" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"IDUA WILD-TYPE"   "IDUA MUTATED" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"IDUA WILD-TYPE" "IDUA WILD-TYPE" "IDUA WILD-TYPE" "IDUA WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"IDUA WILD-TYPE" "IDUA WILD-TYPE" "IDUA WILD-TYPE" "IDUA WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"IDUA WILD-TYPE"   "IDUA MUTATED" "IDUA WILD-TYPE" "IDUA WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"IDUA WILD-TYPE" "IDUA WILD-TYPE" "IDUA WILD-TYPE" "IDUA WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"IDUA WILD-TYPE" "IDUA WILD-TYPE" "IDUA WILD-TYPE" "IDUA WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"IDUA WILD-TYPE" "IDUA WILD-TYPE" "IDUA WILD-TYPE"   "IDUA MUTATED" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"IDUA WILD-TYPE" "IDUA WILD-TYPE" "IDUA WILD-TYPE"   "IDUA MUTATED" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
  "IDUA MUTATED" "IDUA WILD-TYPE" "IDUA WILD-TYPE"   "IDUA MUTATED" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"IDUA WILD-TYPE"   "IDUA MUTATED" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"IDUA WILD-TYPE" "IDUA WILD-TYPE" "IDUA WILD-TYPE" "IDUA WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"IDUA WILD-TYPE" "IDUA WILD-TYPE" "IDUA WILD-TYPE" "IDUA WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"IDUA WILD-TYPE"   "IDUA MUTATED" "IDUA WILD-TYPE" "IDUA WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"IDUA WILD-TYPE" "IDUA WILD-TYPE" "IDUA WILD-TYPE" "IDUA WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"IDUA WILD-TYPE" "IDUA WILD-TYPE" "IDUA WILD-TYPE" "IDUA WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"IDUA WILD-TYPE" "IDUA WILD-TYPE" "IDUA WILD-TYPE"   "IDUA MUTATED" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"IDUA WILD-TYPE" "IDUA WILD-TYPE" "IDUA WILD-TYPE"   "IDUA MUTATED" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
  "IDUA MUTATED" "IDUA WILD-TYPE" "IDUA WILD-TYPE"   "IDUA MUTATED" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"IDUA WILD-TYPE"   "IDUA MUTATED" 
[1] "hr=" "1.5"
D10V2, continuous
                vv
clus             STAGE I STAGE II STAGE III STAGE IV
  IDUA MUTATED         0        3         0        1
  IDUA WILD-TYPE       4       10         4        7
D10V3, multiclass
           clus
vv          IDUA MUTATED IDUA WILD-TYPE
  STAGE I              0              4
  STAGE II             3             10
  STAGE III            0              4
  STAGE IV             1              7
                vv
clus             T1 T2+T3 T4
  IDUA MUTATED    0     3  1
  IDUA WILD-TYPE  4    13  8
D10V4, multiclass
       clus
vv      IDUA MUTATED IDUA WILD-TYPE
  T1               0              4
  T2+T3            3             13
  T4               1              8
D10V5, binary
                cls
clus              0  1
  IDUA MUTATED    4  0
  IDUA WILD-TYPE 22  4
[1] "tbl2"
                cls
clus             [,1] [,2]
  IDUA MUTATED      4    0
  IDUA WILD-TYPE   22    4
   clus
vv  IDUA MUTATED IDUA WILD-TYPE
  0            4             22
  1            0              4
D10V6, binary
                cls
clus              0  1
  IDUA MUTATED    3  3
  IDUA WILD-TYPE 14 14
[1] "tbl2"
                cls
clus             [,1] [,2]
  IDUA MUTATED      3    3
  IDUA WILD-TYPE   14   14
        clus
vv       IDUA MUTATED IDUA WILD-TYPE
  FEMALE            3             14
  MALE              3             14

Clustering(11) Variable = RGS9BP MUTATION ANALYSIS
D11V1, survival
                  sevent
clus2               0  1
  RGS9BP MUTATED    5  1
  RGS9BP WILD-TYPE 21  7
  RGS9BP MUTATED RGS9BP WILD-TYPE 
               6               28 
  RGS9BP MUTATED RGS9BP WILD-TYPE 
               1                7 
$`RGS9BP MUTATED`
TCGA-OR-A5JR TCGA-OR-A5JX TCGA-OR-A5K5 TCGA-OR-A5K9 TCGA-PK-A5HA TCGA-PK-A5HB 
      121.25        31.23         8.32        11.31        27.29        42.51 

$`RGS9BP WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI 
       30.31        18.12        57.53        41.39        17.79        46.82 
TCGA-OR-A5JJ TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ 
       10.16        41.26        22.03        18.48        29.23        22.16 
TCGA-OR-A5JS TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JY TCGA-OR-A5JZ 
       12.59        16.04        50.66        63.25        18.15         6.94 
TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K6 
       33.83        89.52        32.68        93.44        17.36        37.15 
TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 
       73.05        23.31       106.52        10.09 

  RGS9BP MUTATED RGS9BP WILD-TYPE 
            8.32             6.94 
  RGS9BP MUTATED RGS9BP WILD-TYPE 
          121.25           106.52 
  RGS9BP MUTATED RGS9BP WILD-TYPE 
           29.26            29.77 
[1] "8.3 - 121.2 (29.3)" "6.9 - 106.5 (29.8)"
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
  "RGS9BP MUTATED" "RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"RGS9BP WILD-TYPE"   "RGS9BP MUTATED" "RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
"RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"RGS9BP WILD-TYPE"   "RGS9BP MUTATED" "RGS9BP WILD-TYPE"   "RGS9BP MUTATED" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
  "RGS9BP MUTATED"   "RGS9BP MUTATED" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
  "RGS9BP MUTATED" "RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"RGS9BP WILD-TYPE"   "RGS9BP MUTATED" "RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
"RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"RGS9BP WILD-TYPE"   "RGS9BP MUTATED" "RGS9BP WILD-TYPE"   "RGS9BP MUTATED" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
  "RGS9BP MUTATED"   "RGS9BP MUTATED" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
  "RGS9BP MUTATED" "RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"RGS9BP WILD-TYPE"   "RGS9BP MUTATED" "RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
"RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"RGS9BP WILD-TYPE"   "RGS9BP MUTATED" "RGS9BP WILD-TYPE"   "RGS9BP MUTATED" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" "RGS9BP WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
  "RGS9BP MUTATED"   "RGS9BP MUTATED" 
[1] "hr=" "1.3"
D11V2, continuous
                  vv
clus               STAGE I STAGE II STAGE III STAGE IV
  RGS9BP MUTATED         1        1         2        0
  RGS9BP WILD-TYPE       3       12         2        8
D11V3, multiclass
           clus
vv          RGS9BP MUTATED RGS9BP WILD-TYPE
  STAGE I                1                3
  STAGE II               1               12
  STAGE III              2                2
  STAGE IV               0                8
                  vv
clus               T1 T2+T3 T4
  RGS9BP MUTATED    1     3  0
  RGS9BP WILD-TYPE  3    13  9
D11V4, multiclass
       clus
vv      RGS9BP MUTATED RGS9BP WILD-TYPE
  T1                 1                3
  T2+T3              3               13
  T4                 0                9
D11V5, binary
                  cls
clus                0  1
  RGS9BP MUTATED    5  0
  RGS9BP WILD-TYPE 21  4
[1] "tbl2"
                  cls
clus               [,1] [,2]
  RGS9BP MUTATED      5    0
  RGS9BP WILD-TYPE   21    4
   clus
vv  RGS9BP MUTATED RGS9BP WILD-TYPE
  0              5               21
  1              0                4
D11V6, binary
                  cls
clus                0  1
  RGS9BP MUTATED    2  4
  RGS9BP WILD-TYPE 15 13
[1] "tbl2"
                  cls
clus               [,1] [,2]
  RGS9BP MUTATED      2    4
  RGS9BP WILD-TYPE   15   13
        clus
vv       RGS9BP MUTATED RGS9BP WILD-TYPE
  FEMALE              2               15
  MALE                4               13

Clustering(12) Variable = WDR34 MUTATION ANALYSIS
D12V1, survival
                 sevent
clus2              0  1
  WDR34 MUTATED    3  1
  WDR34 WILD-TYPE 23  7
  WDR34 MUTATED WDR34 WILD-TYPE 
              4              30 
  WDR34 MUTATED WDR34 WILD-TYPE 
              1               7 
$`WDR34 MUTATED`
TCGA-OR-A5JG TCGA-OR-A5JK TCGA-OR-A5JS TCGA-PK-A5HB 
       17.79        41.26        12.59        42.51 

$`WDR34 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JI TCGA-OR-A5JJ 
       30.31        18.12        57.53        41.39        46.82        10.16 
TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JT 
       22.03        18.48        29.23        22.16       121.25        16.04 
TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K0 
       50.66        63.25        31.23        18.15         6.94        33.83 
TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 
       89.52        32.68        93.44        17.36         8.32        37.15 
TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA 
       11.31        73.05        23.31       106.52        10.09        27.29 

  WDR34 MUTATED WDR34 WILD-TYPE 
          12.59            6.94 
  WDR34 MUTATED WDR34 WILD-TYPE 
          42.51          121.25 
  WDR34 MUTATED WDR34 WILD-TYPE 
         29.525          29.770 
[1] "12.6 - 42.5 (29.5)" "6.9 - 121.2 (29.8)"
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"WDR34 WILD-TYPE" "WDR34 WILD-TYPE" "WDR34 WILD-TYPE" "WDR34 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
  "WDR34 MUTATED" "WDR34 WILD-TYPE" "WDR34 WILD-TYPE"   "WDR34 MUTATED" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"WDR34 WILD-TYPE" "WDR34 WILD-TYPE" "WDR34 WILD-TYPE" "WDR34 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"WDR34 WILD-TYPE"   "WDR34 MUTATED" "WDR34 WILD-TYPE" "WDR34 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"WDR34 WILD-TYPE" "WDR34 WILD-TYPE" "WDR34 WILD-TYPE" "WDR34 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"WDR34 WILD-TYPE" "WDR34 WILD-TYPE" "WDR34 WILD-TYPE" "WDR34 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"WDR34 WILD-TYPE" "WDR34 WILD-TYPE" "WDR34 WILD-TYPE" "WDR34 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"WDR34 WILD-TYPE" "WDR34 WILD-TYPE" "WDR34 WILD-TYPE" "WDR34 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"WDR34 WILD-TYPE"   "WDR34 MUTATED" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"WDR34 WILD-TYPE" "WDR34 WILD-TYPE" "WDR34 WILD-TYPE" "WDR34 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
  "WDR34 MUTATED" "WDR34 WILD-TYPE" "WDR34 WILD-TYPE"   "WDR34 MUTATED" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"WDR34 WILD-TYPE" "WDR34 WILD-TYPE" "WDR34 WILD-TYPE" "WDR34 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"WDR34 WILD-TYPE"   "WDR34 MUTATED" "WDR34 WILD-TYPE" "WDR34 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"WDR34 WILD-TYPE" "WDR34 WILD-TYPE" "WDR34 WILD-TYPE" "WDR34 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"WDR34 WILD-TYPE" "WDR34 WILD-TYPE" "WDR34 WILD-TYPE" "WDR34 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"WDR34 WILD-TYPE" "WDR34 WILD-TYPE" "WDR34 WILD-TYPE" "WDR34 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"WDR34 WILD-TYPE" "WDR34 WILD-TYPE" "WDR34 WILD-TYPE" "WDR34 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"WDR34 WILD-TYPE"   "WDR34 MUTATED" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"WDR34 WILD-TYPE" "WDR34 WILD-TYPE" "WDR34 WILD-TYPE" "WDR34 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
  "WDR34 MUTATED" "WDR34 WILD-TYPE" "WDR34 WILD-TYPE"   "WDR34 MUTATED" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"WDR34 WILD-TYPE" "WDR34 WILD-TYPE" "WDR34 WILD-TYPE" "WDR34 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"WDR34 WILD-TYPE"   "WDR34 MUTATED" "WDR34 WILD-TYPE" "WDR34 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"WDR34 WILD-TYPE" "WDR34 WILD-TYPE" "WDR34 WILD-TYPE" "WDR34 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"WDR34 WILD-TYPE" "WDR34 WILD-TYPE" "WDR34 WILD-TYPE" "WDR34 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"WDR34 WILD-TYPE" "WDR34 WILD-TYPE" "WDR34 WILD-TYPE" "WDR34 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"WDR34 WILD-TYPE" "WDR34 WILD-TYPE" "WDR34 WILD-TYPE" "WDR34 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"WDR34 WILD-TYPE"   "WDR34 MUTATED" 
[1] "hr=" "1.4"
D12V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV
  WDR34 MUTATED         0        1         0        2
  WDR34 WILD-TYPE       4       12         4        6
D12V3, multiclass
           clus
vv          WDR34 MUTATED WDR34 WILD-TYPE
  STAGE I               0               4
  STAGE II              1              12
  STAGE III             0               4
  STAGE IV              2               6
                 vv
clus              T1 T2+T3 T4
  WDR34 MUTATED    0     1  2
  WDR34 WILD-TYPE  4    15  7
D12V4, multiclass
       clus
vv      WDR34 MUTATED WDR34 WILD-TYPE
  T1                0               4
  T2+T3             1              15
  T4                2               7
D12V5, binary
                 cls
clus               0  1
  WDR34 MUTATED    2  1
  WDR34 WILD-TYPE 24  3
[1] "tbl2"
                 cls
clus              [,1] [,2]
  WDR34 MUTATED      2    1
  WDR34 WILD-TYPE   24    3
   clus
vv  WDR34 MUTATED WDR34 WILD-TYPE
  0             2              24
  1             1               3
D12V6, binary
                 cls
clus               0  1
  WDR34 MUTATED    1  3
  WDR34 WILD-TYPE 16 14
[1] "tbl2"
                 cls
clus              [,1] [,2]
  WDR34 MUTATED      1    3
  WDR34 WILD-TYPE   16   14
        clus
vv       WDR34 MUTATED WDR34 WILD-TYPE
  FEMALE             1              16
  MALE               3              14

Clustering(13) Variable = NOTCH2 MUTATION ANALYSIS
D13V1, survival
                  sevent
clus2               0  1
  NOTCH2 MUTATED    2  1
  NOTCH2 WILD-TYPE 24  7
  NOTCH2 MUTATED NOTCH2 WILD-TYPE 
               3               31 
  NOTCH2 MUTATED NOTCH2 WILD-TYPE 
               1                7 
$`NOTCH2 MUTATED`
TCGA-OR-A5JG TCGA-PK-A5H9 TCGA-PK-A5HB 
       17.79        10.09        42.51 

$`NOTCH2 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JI TCGA-OR-A5JJ 
       30.31        18.12        57.53        41.39        46.82        10.16 
TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR 
       41.26        22.03        18.48        29.23        22.16       121.25 
TCGA-OR-A5JS TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY 
       12.59        16.04        50.66        63.25        31.23        18.15 
TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 
        6.94        33.83        89.52        32.68        93.44        17.36 
TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 
        8.32        37.15        11.31        73.05        23.31       106.52 
TCGA-PK-A5HA 
       27.29 

  NOTCH2 MUTATED NOTCH2 WILD-TYPE 
           10.09             6.94 
  NOTCH2 MUTATED NOTCH2 WILD-TYPE 
           42.51           121.25 
  NOTCH2 MUTATED NOTCH2 WILD-TYPE 
           17.79            30.31 
[1] "10.1 - 42.5 (17.8)" "6.9 - 121.2 (30.3)"
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
  "NOTCH2 MUTATED" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
"NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE"   "NOTCH2 MUTATED" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"NOTCH2 WILD-TYPE"   "NOTCH2 MUTATED" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
  "NOTCH2 MUTATED" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
"NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE"   "NOTCH2 MUTATED" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"NOTCH2 WILD-TYPE"   "NOTCH2 MUTATED" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
  "NOTCH2 MUTATED" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
"NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE"   "NOTCH2 MUTATED" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"NOTCH2 WILD-TYPE"   "NOTCH2 MUTATED" 
[1] "hr=" "2.8"
D13V2, continuous
                  vv
clus               STAGE I STAGE II STAGE III STAGE IV
  NOTCH2 MUTATED         0        0         0        1
  NOTCH2 WILD-TYPE       4       13         4        7
D13V3, multiclass
[1] "Remove cluster labels:" "NOTCH2 MUTATED"        
clus
  NOTCH2 MUTATED NOTCH2 WILD-TYPE 
               1               28 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JF       TCGA-OR-A5JI 
"NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" 
      TCGA-OR-A5JJ       TCGA-OR-A5JK       TCGA-OR-A5JL       TCGA-OR-A5JM 
"NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" 
      TCGA-OR-A5JO       TCGA-OR-A5JQ       TCGA-OR-A5JR       TCGA-OR-A5JS 
"NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" 
      TCGA-OR-A5JT       TCGA-OR-A5JV       TCGA-OR-A5JW       TCGA-OR-A5JX 
"NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" 
      TCGA-OR-A5JY       TCGA-OR-A5JZ       TCGA-OR-A5K0       TCGA-OR-A5K1 
"NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" 
      TCGA-OR-A5K2       TCGA-OR-A5K3       TCGA-OR-A5K4       TCGA-OR-A5K5 
"NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" 
      TCGA-OR-A5K6       TCGA-OR-A5K9       TCGA-OR-A5LK       TCGA-OU-A5PI 
"NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" 
                  vv
clus               T1 T2+T3 T4
  NOTCH2 MUTATED    0     0  1
  NOTCH2 WILD-TYPE  4    16  8
D13V4, multiclass
[1] "Remove cluster labels:" "NOTCH2 MUTATED"        
clus
  NOTCH2 MUTATED NOTCH2 WILD-TYPE 
               1               28 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JF       TCGA-OR-A5JI 
"NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" 
      TCGA-OR-A5JJ       TCGA-OR-A5JK       TCGA-OR-A5JL       TCGA-OR-A5JM 
"NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" 
      TCGA-OR-A5JO       TCGA-OR-A5JQ       TCGA-OR-A5JR       TCGA-OR-A5JS 
"NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" 
      TCGA-OR-A5JT       TCGA-OR-A5JV       TCGA-OR-A5JW       TCGA-OR-A5JX 
"NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" 
      TCGA-OR-A5JY       TCGA-OR-A5JZ       TCGA-OR-A5K0       TCGA-OR-A5K1 
"NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" 
      TCGA-OR-A5K2       TCGA-OR-A5K3       TCGA-OR-A5K4       TCGA-OR-A5K5 
"NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" 
      TCGA-OR-A5K6       TCGA-OR-A5K9       TCGA-OR-A5LK       TCGA-OU-A5PI 
"NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" "NOTCH2 WILD-TYPE" 
D13V5, binary
                  cls
clus                0  1
  NOTCH2 MUTATED    0  1
  NOTCH2 WILD-TYPE 26  3
[1] "tbl2"
                  cls
clus               [,1] [,2]
  NOTCH2 MUTATED      0    1
  NOTCH2 WILD-TYPE   26    3
   clus
vv  NOTCH2 MUTATED NOTCH2 WILD-TYPE
  0              0               26
  1              1                3
D13V6, binary
                  cls
clus                0  1
  NOTCH2 MUTATED    1  2
  NOTCH2 WILD-TYPE 16 15
[1] "tbl2"
                  cls
clus               [,1] [,2]
  NOTCH2 MUTATED      1    2
  NOTCH2 WILD-TYPE   16   15
        clus
vv       NOTCH2 MUTATED NOTCH2 WILD-TYPE
  FEMALE              1               16
  MALE                2               15

Clustering(14) Variable = TMEM189 MUTATION ANALYSIS
D14V1, survival
                   sevent
clus2                0  1
  TMEM189 MUTATED    3  0
  TMEM189 WILD-TYPE 23  8
  TMEM189 MUTATED TMEM189 WILD-TYPE 
                3                31 
  TMEM189 MUTATED TMEM189 WILD-TYPE 
                0                 8 
$`TMEM189 MUTATED`
TCGA-OR-A5JS TCGA-OR-A5K1 TCGA-PK-A5HB 
       12.59        89.52        42.51 

$`TMEM189 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI 
       30.31        18.12        57.53        41.39        17.79        46.82 
TCGA-OR-A5JJ TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ 
       10.16        41.26        22.03        18.48        29.23        22.16 
TCGA-OR-A5JR TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY 
      121.25        16.04        50.66        63.25        31.23        18.15 
TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 
        6.94        33.83        32.68        93.44        17.36         8.32 
TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 
       37.15        11.31        73.05        23.31       106.52        10.09 
TCGA-PK-A5HA 
       27.29 

  TMEM189 MUTATED TMEM189 WILD-TYPE 
            12.59              6.94 
  TMEM189 MUTATED TMEM189 WILD-TYPE 
            89.52            121.25 
  TMEM189 MUTATED TMEM189 WILD-TYPE 
            42.51             29.23 
[1] "12.6 - 89.5 (42.5)" "6.9 - 121.2 (29.2)"
       TCGA-OR-A5JA        TCGA-OR-A5JB        TCGA-OR-A5JC        TCGA-OR-A5JF 
"TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" 
       TCGA-OR-A5JG        TCGA-OR-A5JI        TCGA-OR-A5JJ        TCGA-OR-A5JK 
"TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" 
       TCGA-OR-A5JL        TCGA-OR-A5JM        TCGA-OR-A5JO        TCGA-OR-A5JQ 
"TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" 
       TCGA-OR-A5JR        TCGA-OR-A5JS        TCGA-OR-A5JT        TCGA-OR-A5JV 
"TMEM189 WILD-TYPE"   "TMEM189 MUTATED" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" 
       TCGA-OR-A5JW        TCGA-OR-A5JX        TCGA-OR-A5JY        TCGA-OR-A5JZ 
"TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" 
       TCGA-OR-A5K0        TCGA-OR-A5K1        TCGA-OR-A5K2        TCGA-OR-A5K3 
"TMEM189 WILD-TYPE"   "TMEM189 MUTATED" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" 
       TCGA-OR-A5K4        TCGA-OR-A5K5        TCGA-OR-A5K6        TCGA-OR-A5K9 
"TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" 
       TCGA-OR-A5LK        TCGA-OU-A5PI        TCGA-PK-A5H8        TCGA-PK-A5H9 
"TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" 
       TCGA-PK-A5HA        TCGA-PK-A5HB 
"TMEM189 WILD-TYPE"   "TMEM189 MUTATED" 
       TCGA-OR-A5JA        TCGA-OR-A5JB        TCGA-OR-A5JC        TCGA-OR-A5JF 
"TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" 
       TCGA-OR-A5JG        TCGA-OR-A5JI        TCGA-OR-A5JJ        TCGA-OR-A5JK 
"TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" 
       TCGA-OR-A5JL        TCGA-OR-A5JM        TCGA-OR-A5JO        TCGA-OR-A5JQ 
"TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" 
       TCGA-OR-A5JR        TCGA-OR-A5JS        TCGA-OR-A5JT        TCGA-OR-A5JV 
"TMEM189 WILD-TYPE"   "TMEM189 MUTATED" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" 
       TCGA-OR-A5JW        TCGA-OR-A5JX        TCGA-OR-A5JY        TCGA-OR-A5JZ 
"TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" 
       TCGA-OR-A5K0        TCGA-OR-A5K1        TCGA-OR-A5K2        TCGA-OR-A5K3 
"TMEM189 WILD-TYPE"   "TMEM189 MUTATED" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" 
       TCGA-OR-A5K4        TCGA-OR-A5K5        TCGA-OR-A5K6        TCGA-OR-A5K9 
"TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" 
       TCGA-OR-A5LK        TCGA-OU-A5PI        TCGA-PK-A5H8        TCGA-PK-A5H9 
"TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" 
       TCGA-PK-A5HA        TCGA-PK-A5HB 
"TMEM189 WILD-TYPE"   "TMEM189 MUTATED" 
       TCGA-OR-A5JA        TCGA-OR-A5JB        TCGA-OR-A5JC        TCGA-OR-A5JF 
"TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" 
       TCGA-OR-A5JG        TCGA-OR-A5JI        TCGA-OR-A5JJ        TCGA-OR-A5JK 
"TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" 
       TCGA-OR-A5JL        TCGA-OR-A5JM        TCGA-OR-A5JO        TCGA-OR-A5JQ 
"TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" 
       TCGA-OR-A5JR        TCGA-OR-A5JS        TCGA-OR-A5JT        TCGA-OR-A5JV 
"TMEM189 WILD-TYPE"   "TMEM189 MUTATED" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" 
       TCGA-OR-A5JW        TCGA-OR-A5JX        TCGA-OR-A5JY        TCGA-OR-A5JZ 
"TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" 
       TCGA-OR-A5K0        TCGA-OR-A5K1        TCGA-OR-A5K2        TCGA-OR-A5K3 
"TMEM189 WILD-TYPE"   "TMEM189 MUTATED" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" 
       TCGA-OR-A5K4        TCGA-OR-A5K5        TCGA-OR-A5K6        TCGA-OR-A5K9 
"TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" 
       TCGA-OR-A5LK        TCGA-OU-A5PI        TCGA-PK-A5H8        TCGA-PK-A5H9 
"TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" 
       TCGA-PK-A5HA        TCGA-PK-A5HB 
"TMEM189 WILD-TYPE"   "TMEM189 MUTATED" 
[1] "hr="     "7.9e+07"
D14V2, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV
  TMEM189 MUTATED         0        2         0        0
  TMEM189 WILD-TYPE       4       11         4        8
D14V3, multiclass
[1] "Remove cluster labels:" "TMEM189 MUTATED"       
clus
  TMEM189 MUTATED TMEM189 WILD-TYPE 
                2                27 
       TCGA-OR-A5JA        TCGA-OR-A5JB        TCGA-OR-A5JF        TCGA-OR-A5JG 
"TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" 
       TCGA-OR-A5JI        TCGA-OR-A5JJ        TCGA-OR-A5JK        TCGA-OR-A5JL 
"TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" 
       TCGA-OR-A5JM        TCGA-OR-A5JO        TCGA-OR-A5JQ        TCGA-OR-A5JR 
"TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" 
       TCGA-OR-A5JT        TCGA-OR-A5JV        TCGA-OR-A5JW        TCGA-OR-A5JX 
"TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" 
       TCGA-OR-A5JY        TCGA-OR-A5JZ        TCGA-OR-A5K0        TCGA-OR-A5K2 
"TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" 
       TCGA-OR-A5K3        TCGA-OR-A5K4        TCGA-OR-A5K5        TCGA-OR-A5K6 
"TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" 
       TCGA-OR-A5K9        TCGA-OR-A5LK        TCGA-OU-A5PI 
"TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" 
                   vv
clus                T1 T2+T3 T4
  TMEM189 MUTATED    0     2  0
  TMEM189 WILD-TYPE  4    14  9
D14V4, multiclass
[1] "Remove cluster labels:" "TMEM189 MUTATED"       
clus
  TMEM189 MUTATED TMEM189 WILD-TYPE 
                2                27 
       TCGA-OR-A5JA        TCGA-OR-A5JB        TCGA-OR-A5JF        TCGA-OR-A5JG 
"TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" 
       TCGA-OR-A5JI        TCGA-OR-A5JJ        TCGA-OR-A5JK        TCGA-OR-A5JL 
"TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" 
       TCGA-OR-A5JM        TCGA-OR-A5JO        TCGA-OR-A5JQ        TCGA-OR-A5JR 
"TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" 
       TCGA-OR-A5JT        TCGA-OR-A5JV        TCGA-OR-A5JW        TCGA-OR-A5JX 
"TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" 
       TCGA-OR-A5JY        TCGA-OR-A5JZ        TCGA-OR-A5K0        TCGA-OR-A5K2 
"TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" 
       TCGA-OR-A5K3        TCGA-OR-A5K4        TCGA-OR-A5K5        TCGA-OR-A5K6 
"TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" 
       TCGA-OR-A5K9        TCGA-OR-A5LK        TCGA-OU-A5PI 
"TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" "TMEM189 WILD-TYPE" 
D14V5, binary
                   cls
clus                 0  1
  TMEM189 MUTATED    2  0
  TMEM189 WILD-TYPE 24  4
[1] "tbl2"
                   cls
clus                [,1] [,2]
  TMEM189 MUTATED      2    0
  TMEM189 WILD-TYPE   24    4
   clus
vv  TMEM189 MUTATED TMEM189 WILD-TYPE
  0               2                24
  1               0                 4
D14V6, binary
                   cls
clus                 0  1
  TMEM189 MUTATED    1  2
  TMEM189 WILD-TYPE 16 15
[1] "tbl2"
                   cls
clus                [,1] [,2]
  TMEM189 MUTATED      1    2
  TMEM189 WILD-TYPE   16   15
        clus
vv       TMEM189 MUTATED TMEM189 WILD-TYPE
  FEMALE               1                16
  MALE                 2                15

Clustering(15) Variable = TAF5 MUTATION ANALYSIS
D15V1, survival
                sevent
clus2             0  1
  TAF5 MUTATED    3  2
  TAF5 WILD-TYPE 23  6
  TAF5 MUTATED TAF5 WILD-TYPE 
             5             29 
  TAF5 MUTATED TAF5 WILD-TYPE 
             2              6 
$`TAF5 MUTATED`
TCGA-OR-A5JM TCGA-OR-A5JY TCGA-OR-A5K1 TCGA-OR-A5K6 TCGA-PK-A5H9 
       18.48        18.15        89.52        37.15        10.09 

$`TAF5 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI 
       30.31        18.12        57.53        41.39        17.79        46.82 
TCGA-OR-A5JJ TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR 
       10.16        41.26        22.03        29.23        22.16       121.25 
TCGA-OR-A5JS TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JZ 
       12.59        16.04        50.66        63.25        31.23         6.94 
TCGA-OR-A5K0 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K9 
       33.83        32.68        93.44        17.36         8.32        11.31 
TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5HA TCGA-PK-A5HB 
       73.05        23.31       106.52        27.29        42.51 

  TAF5 MUTATED TAF5 WILD-TYPE 
         10.09           6.94 
  TAF5 MUTATED TAF5 WILD-TYPE 
         89.52         121.25 
  TAF5 MUTATED TAF5 WILD-TYPE 
         18.48          30.31 
[1] "10.1 - 89.5 (18.5)" "6.9 - 121.2 (30.3)"
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"TAF5 WILD-TYPE" "TAF5 WILD-TYPE" "TAF5 WILD-TYPE" "TAF5 WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"TAF5 WILD-TYPE" "TAF5 WILD-TYPE" "TAF5 WILD-TYPE" "TAF5 WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"TAF5 WILD-TYPE"   "TAF5 MUTATED" "TAF5 WILD-TYPE" "TAF5 WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"TAF5 WILD-TYPE" "TAF5 WILD-TYPE" "TAF5 WILD-TYPE" "TAF5 WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"TAF5 WILD-TYPE" "TAF5 WILD-TYPE"   "TAF5 MUTATED" "TAF5 WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"TAF5 WILD-TYPE"   "TAF5 MUTATED" "TAF5 WILD-TYPE" "TAF5 WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"TAF5 WILD-TYPE" "TAF5 WILD-TYPE"   "TAF5 MUTATED" "TAF5 WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"TAF5 WILD-TYPE" "TAF5 WILD-TYPE" "TAF5 WILD-TYPE"   "TAF5 MUTATED" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"TAF5 WILD-TYPE" "TAF5 WILD-TYPE" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"TAF5 WILD-TYPE" "TAF5 WILD-TYPE" "TAF5 WILD-TYPE" "TAF5 WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"TAF5 WILD-TYPE" "TAF5 WILD-TYPE" "TAF5 WILD-TYPE" "TAF5 WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"TAF5 WILD-TYPE"   "TAF5 MUTATED" "TAF5 WILD-TYPE" "TAF5 WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"TAF5 WILD-TYPE" "TAF5 WILD-TYPE" "TAF5 WILD-TYPE" "TAF5 WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"TAF5 WILD-TYPE" "TAF5 WILD-TYPE"   "TAF5 MUTATED" "TAF5 WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"TAF5 WILD-TYPE"   "TAF5 MUTATED" "TAF5 WILD-TYPE" "TAF5 WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"TAF5 WILD-TYPE" "TAF5 WILD-TYPE"   "TAF5 MUTATED" "TAF5 WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"TAF5 WILD-TYPE" "TAF5 WILD-TYPE" "TAF5 WILD-TYPE"   "TAF5 MUTATED" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"TAF5 WILD-TYPE" "TAF5 WILD-TYPE" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"TAF5 WILD-TYPE" "TAF5 WILD-TYPE" "TAF5 WILD-TYPE" "TAF5 WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"TAF5 WILD-TYPE" "TAF5 WILD-TYPE" "TAF5 WILD-TYPE" "TAF5 WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"TAF5 WILD-TYPE"   "TAF5 MUTATED" "TAF5 WILD-TYPE" "TAF5 WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"TAF5 WILD-TYPE" "TAF5 WILD-TYPE" "TAF5 WILD-TYPE" "TAF5 WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"TAF5 WILD-TYPE" "TAF5 WILD-TYPE"   "TAF5 MUTATED" "TAF5 WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"TAF5 WILD-TYPE"   "TAF5 MUTATED" "TAF5 WILD-TYPE" "TAF5 WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"TAF5 WILD-TYPE" "TAF5 WILD-TYPE"   "TAF5 MUTATED" "TAF5 WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"TAF5 WILD-TYPE" "TAF5 WILD-TYPE" "TAF5 WILD-TYPE"   "TAF5 MUTATED" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"TAF5 WILD-TYPE" "TAF5 WILD-TYPE" 
[1] "hr=" "2"  
D15V2, continuous
                vv
clus             STAGE I STAGE II STAGE III STAGE IV
  TAF5 MUTATED         0        2         0        2
  TAF5 WILD-TYPE       4       11         4        6
D15V3, multiclass
           clus
vv          TAF5 MUTATED TAF5 WILD-TYPE
  STAGE I              0              4
  STAGE II             2             11
  STAGE III            0              4
  STAGE IV             2              6
                vv
clus             T1 T2+T3 T4
  TAF5 MUTATED    0     2  2
  TAF5 WILD-TYPE  4    14  7
D15V4, multiclass
       clus
vv      TAF5 MUTATED TAF5 WILD-TYPE
  T1               0              4
  T2+T3            2             14
  T4               2              7
D15V5, binary
                cls
clus              0  1
  TAF5 MUTATED    3  1
  TAF5 WILD-TYPE 23  3
[1] "tbl2"
                cls
clus             [,1] [,2]
  TAF5 MUTATED      3    1
  TAF5 WILD-TYPE   23    3
   clus
vv  TAF5 MUTATED TAF5 WILD-TYPE
  0            3             23
  1            1              3
D15V6, binary
                cls
clus              0  1
  TAF5 MUTATED    4  1
  TAF5 WILD-TYPE 13 16
[1] "tbl2"
                cls
clus             [,1] [,2]
  TAF5 MUTATED      4    1
  TAF5 WILD-TYPE   13   16
        clus
vv       TAF5 MUTATED TAF5 WILD-TYPE
  FEMALE            4             13
  MALE              1             16

Clustering(16) Variable = LRP11 MUTATION ANALYSIS
D16V1, survival
                 sevent
clus2              0  1
  LRP11 MUTATED    3  1
  LRP11 WILD-TYPE 23  7
  LRP11 MUTATED LRP11 WILD-TYPE 
              4              30 
  LRP11 MUTATED LRP11 WILD-TYPE 
              1               7 
$`LRP11 MUTATED`
TCGA-OR-A5JS TCGA-OR-A5K9 TCGA-PK-A5H9 TCGA-PK-A5HB 
       12.59        11.31        10.09        42.51 

$`LRP11 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI 
       30.31        18.12        57.53        41.39        17.79        46.82 
TCGA-OR-A5JJ TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ 
       10.16        41.26        22.03        18.48        29.23        22.16 
TCGA-OR-A5JR TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY 
      121.25        16.04        50.66        63.25        31.23        18.15 
TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 
        6.94        33.83        89.52        32.68        93.44        17.36 
TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5HA 
        8.32        37.15        73.05        23.31       106.52        27.29 

  LRP11 MUTATED LRP11 WILD-TYPE 
          10.09            6.94 
  LRP11 MUTATED LRP11 WILD-TYPE 
          42.51          121.25 
  LRP11 MUTATED LRP11 WILD-TYPE 
          11.95           30.77 
[1] "10.1 - 42.5 (11.9)" "6.9 - 121.2 (30.8)"
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"LRP11 WILD-TYPE"   "LRP11 MUTATED" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE"   "LRP11 MUTATED" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE"   "LRP11 MUTATED" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"LRP11 WILD-TYPE"   "LRP11 MUTATED" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"LRP11 WILD-TYPE"   "LRP11 MUTATED" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE"   "LRP11 MUTATED" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE"   "LRP11 MUTATED" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"LRP11 WILD-TYPE"   "LRP11 MUTATED" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"LRP11 WILD-TYPE"   "LRP11 MUTATED" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE"   "LRP11 MUTATED" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE"   "LRP11 MUTATED" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"LRP11 WILD-TYPE"   "LRP11 MUTATED" 
[1] "hr=" "2.9"
D16V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV
  LRP11 MUTATED         0        2         0        0
  LRP11 WILD-TYPE       4       11         4        8
D16V3, multiclass
[1] "Remove cluster labels:" "LRP11 MUTATED"         
clus
  LRP11 MUTATED LRP11 WILD-TYPE 
              2              27 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JF      TCGA-OR-A5JG 
"LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" 
     TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK      TCGA-OR-A5JL 
"LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" 
     TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ      TCGA-OR-A5JR 
"LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" 
     TCGA-OR-A5JT      TCGA-OR-A5JV      TCGA-OR-A5JW      TCGA-OR-A5JX 
"LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" 
     TCGA-OR-A5JY      TCGA-OR-A5JZ      TCGA-OR-A5K0      TCGA-OR-A5K1 
"LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" 
     TCGA-OR-A5K2      TCGA-OR-A5K3      TCGA-OR-A5K4      TCGA-OR-A5K5 
"LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" 
     TCGA-OR-A5K6      TCGA-OR-A5LK      TCGA-OU-A5PI 
"LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" 
                 vv
clus              T1 T2+T3 T4
  LRP11 MUTATED    0     2  0
  LRP11 WILD-TYPE  4    14  9
D16V4, multiclass
[1] "Remove cluster labels:" "LRP11 MUTATED"         
clus
  LRP11 MUTATED LRP11 WILD-TYPE 
              2              27 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JF      TCGA-OR-A5JG 
"LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" 
     TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK      TCGA-OR-A5JL 
"LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" 
     TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ      TCGA-OR-A5JR 
"LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" 
     TCGA-OR-A5JT      TCGA-OR-A5JV      TCGA-OR-A5JW      TCGA-OR-A5JX 
"LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" 
     TCGA-OR-A5JY      TCGA-OR-A5JZ      TCGA-OR-A5K0      TCGA-OR-A5K1 
"LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" 
     TCGA-OR-A5K2      TCGA-OR-A5K3      TCGA-OR-A5K4      TCGA-OR-A5K5 
"LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" 
     TCGA-OR-A5K6      TCGA-OR-A5LK      TCGA-OU-A5PI 
"LRP11 WILD-TYPE" "LRP11 WILD-TYPE" "LRP11 WILD-TYPE" 
D16V5, binary
                 cls
clus               0  1
  LRP11 MUTATED    2  0
  LRP11 WILD-TYPE 24  4
[1] "tbl2"
                 cls
clus              [,1] [,2]
  LRP11 MUTATED      2    0
  LRP11 WILD-TYPE   24    4
   clus
vv  LRP11 MUTATED LRP11 WILD-TYPE
  0             2              24
  1             0               4
D16V6, binary
                 cls
clus               0  1
  LRP11 MUTATED    3  1
  LRP11 WILD-TYPE 14 16
[1] "tbl2"
                 cls
clus              [,1] [,2]
  LRP11 MUTATED      3    1
  LRP11 WILD-TYPE   14   16
        clus
vv       LRP11 MUTATED LRP11 WILD-TYPE
  FEMALE             3              14
  MALE               1              16

Clustering(17) Variable = FPGS MUTATION ANALYSIS
D17V1, survival
                sevent
clus2             0  1
  FPGS MUTATED    7  0
  FPGS WILD-TYPE 19  8
  FPGS MUTATED FPGS WILD-TYPE 
             7             27 
  FPGS MUTATED FPGS WILD-TYPE 
             0              8 
$`FPGS MUTATED`
TCGA-OR-A5JJ TCGA-OR-A5JR TCGA-OR-A5JS TCGA-OR-A5JZ TCGA-OR-A5K5 TCGA-OU-A5PI 
       10.16       121.25        12.59         6.94         8.32        23.31 
TCGA-PK-A5HA 
       27.29 

$`FPGS WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI 
       30.31        18.12        57.53        41.39        17.79        46.82 
TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JT 
       41.26        22.03        18.48        29.23        22.16        16.04 
TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5K0 TCGA-OR-A5K1 
       50.66        63.25        31.23        18.15        33.83        89.52 
TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-OR-A5LK 
       32.68        93.44        17.36        37.15        11.31        73.05 
TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HB 
      106.52        10.09        42.51 

  FPGS MUTATED FPGS WILD-TYPE 
          6.94          10.09 
  FPGS MUTATED FPGS WILD-TYPE 
        121.25         106.52 
  FPGS MUTATED FPGS WILD-TYPE 
         12.59          32.68 
[1] "6.9 - 121.2 (12.6)"  "10.1 - 106.5 (32.7)"
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"FPGS WILD-TYPE" "FPGS WILD-TYPE" "FPGS WILD-TYPE" "FPGS WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"FPGS WILD-TYPE" "FPGS WILD-TYPE"   "FPGS MUTATED" "FPGS WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"FPGS WILD-TYPE" "FPGS WILD-TYPE" "FPGS WILD-TYPE" "FPGS WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
  "FPGS MUTATED"   "FPGS MUTATED" "FPGS WILD-TYPE" "FPGS WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"FPGS WILD-TYPE" "FPGS WILD-TYPE" "FPGS WILD-TYPE"   "FPGS MUTATED" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"FPGS WILD-TYPE" "FPGS WILD-TYPE" "FPGS WILD-TYPE" "FPGS WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"FPGS WILD-TYPE"   "FPGS MUTATED" "FPGS WILD-TYPE" "FPGS WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"FPGS WILD-TYPE"   "FPGS MUTATED" "FPGS WILD-TYPE" "FPGS WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
  "FPGS MUTATED" "FPGS WILD-TYPE" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"FPGS WILD-TYPE" "FPGS WILD-TYPE" "FPGS WILD-TYPE" "FPGS WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"FPGS WILD-TYPE" "FPGS WILD-TYPE"   "FPGS MUTATED" "FPGS WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"FPGS WILD-TYPE" "FPGS WILD-TYPE" "FPGS WILD-TYPE" "FPGS WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
  "FPGS MUTATED"   "FPGS MUTATED" "FPGS WILD-TYPE" "FPGS WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"FPGS WILD-TYPE" "FPGS WILD-TYPE" "FPGS WILD-TYPE"   "FPGS MUTATED" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"FPGS WILD-TYPE" "FPGS WILD-TYPE" "FPGS WILD-TYPE" "FPGS WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"FPGS WILD-TYPE"   "FPGS MUTATED" "FPGS WILD-TYPE" "FPGS WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"FPGS WILD-TYPE"   "FPGS MUTATED" "FPGS WILD-TYPE" "FPGS WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
  "FPGS MUTATED" "FPGS WILD-TYPE" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"FPGS WILD-TYPE" "FPGS WILD-TYPE" "FPGS WILD-TYPE" "FPGS WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"FPGS WILD-TYPE" "FPGS WILD-TYPE"   "FPGS MUTATED" "FPGS WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"FPGS WILD-TYPE" "FPGS WILD-TYPE" "FPGS WILD-TYPE" "FPGS WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
  "FPGS MUTATED"   "FPGS MUTATED" "FPGS WILD-TYPE" "FPGS WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"FPGS WILD-TYPE" "FPGS WILD-TYPE" "FPGS WILD-TYPE"   "FPGS MUTATED" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"FPGS WILD-TYPE" "FPGS WILD-TYPE" "FPGS WILD-TYPE" "FPGS WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"FPGS WILD-TYPE"   "FPGS MUTATED" "FPGS WILD-TYPE" "FPGS WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"FPGS WILD-TYPE"   "FPGS MUTATED" "FPGS WILD-TYPE" "FPGS WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
  "FPGS MUTATED" "FPGS WILD-TYPE" 
[1] "hr="   "8e+07"
D17V2, continuous
                vv
clus             STAGE I STAGE II STAGE III STAGE IV
  FPGS MUTATED         1        2         1        2
  FPGS WILD-TYPE       3       11         3        6
D17V3, multiclass
           clus
vv          FPGS MUTATED FPGS WILD-TYPE
  STAGE I              1              3
  STAGE II             2             11
  STAGE III            1              3
  STAGE IV             2              6
                vv
clus             T1 T2+T3 T4
  FPGS MUTATED    1     4  1
  FPGS WILD-TYPE  3    12  8
D17V4, multiclass
       clus
vv      FPGS MUTATED FPGS WILD-TYPE
  T1               1              3
  T2+T3            4             12
  T4               1              8
D17V5, binary
                cls
clus              0  1
  FPGS MUTATED    5  2
  FPGS WILD-TYPE 21  2
[1] "tbl2"
                cls
clus             [,1] [,2]
  FPGS MUTATED      5    2
  FPGS WILD-TYPE   21    2
   clus
vv  FPGS MUTATED FPGS WILD-TYPE
  0            5             21
  1            2              2
D17V6, binary
                cls
clus              0  1
  FPGS MUTATED    3  4
  FPGS WILD-TYPE 14 13
[1] "tbl2"
                cls
clus             [,1] [,2]
  FPGS MUTATED      3    4
  FPGS WILD-TYPE   14   13
        clus
vv       FPGS MUTATED FPGS WILD-TYPE
  FEMALE            3             14
  MALE              4             13

Clustering(18) Variable = TOR3A MUTATION ANALYSIS
D18V1, survival
                 sevent
clus2              0  1
  TOR3A MUTATED    9  4
  TOR3A WILD-TYPE 17  4
  TOR3A MUTATED TOR3A WILD-TYPE 
             13              21 
  TOR3A MUTATED TOR3A WILD-TYPE 
              4               4 
$`TOR3A MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JG TCGA-OR-A5JJ TCGA-OR-A5JL TCGA-OR-A5JM 
       30.31        18.12        17.79        10.16        22.03        18.48 
TCGA-OR-A5JR TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5K1 TCGA-PK-A5H9 TCGA-PK-A5HA 
      121.25        16.04        50.66        89.52        10.09        27.29 
TCGA-PK-A5HB 
       42.51 

$`TOR3A WILD-TYPE`
TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JI TCGA-OR-A5JK TCGA-OR-A5JO TCGA-OR-A5JQ 
       57.53        41.39        46.82        41.26        29.23        22.16 
TCGA-OR-A5JS TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K0 
       12.59        63.25        31.23        18.15         6.94        33.83 
TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5K9 
       32.68        93.44        17.36         8.32        37.15        11.31 
TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 
       73.05        23.31       106.52 

  TOR3A MUTATED TOR3A WILD-TYPE 
          10.09            6.94 
  TOR3A MUTATED TOR3A WILD-TYPE 
         121.25          106.52 
  TOR3A MUTATED TOR3A WILD-TYPE 
          22.03           32.68 
[1] "10.1 - 121.2 (22.0)" "6.9 - 106.5 (32.7)" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
  "TOR3A MUTATED"   "TOR3A MUTATED" "TOR3A WILD-TYPE" "TOR3A WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
  "TOR3A MUTATED" "TOR3A WILD-TYPE"   "TOR3A MUTATED" "TOR3A WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
  "TOR3A MUTATED"   "TOR3A MUTATED" "TOR3A WILD-TYPE" "TOR3A WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
  "TOR3A MUTATED" "TOR3A WILD-TYPE"   "TOR3A MUTATED"   "TOR3A MUTATED" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"TOR3A WILD-TYPE" "TOR3A WILD-TYPE" "TOR3A WILD-TYPE" "TOR3A WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"TOR3A WILD-TYPE"   "TOR3A MUTATED" "TOR3A WILD-TYPE" "TOR3A WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"TOR3A WILD-TYPE" "TOR3A WILD-TYPE" "TOR3A WILD-TYPE" "TOR3A WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"TOR3A WILD-TYPE" "TOR3A WILD-TYPE" "TOR3A WILD-TYPE"   "TOR3A MUTATED" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
  "TOR3A MUTATED"   "TOR3A MUTATED" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
  "TOR3A MUTATED"   "TOR3A MUTATED" "TOR3A WILD-TYPE" "TOR3A WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
  "TOR3A MUTATED" "TOR3A WILD-TYPE"   "TOR3A MUTATED" "TOR3A WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
  "TOR3A MUTATED"   "TOR3A MUTATED" "TOR3A WILD-TYPE" "TOR3A WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
  "TOR3A MUTATED" "TOR3A WILD-TYPE"   "TOR3A MUTATED"   "TOR3A MUTATED" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"TOR3A WILD-TYPE" "TOR3A WILD-TYPE" "TOR3A WILD-TYPE" "TOR3A WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"TOR3A WILD-TYPE"   "TOR3A MUTATED" "TOR3A WILD-TYPE" "TOR3A WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"TOR3A WILD-TYPE" "TOR3A WILD-TYPE" "TOR3A WILD-TYPE" "TOR3A WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"TOR3A WILD-TYPE" "TOR3A WILD-TYPE" "TOR3A WILD-TYPE"   "TOR3A MUTATED" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
  "TOR3A MUTATED"   "TOR3A MUTATED" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
  "TOR3A MUTATED"   "TOR3A MUTATED" "TOR3A WILD-TYPE" "TOR3A WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
  "TOR3A MUTATED" "TOR3A WILD-TYPE"   "TOR3A MUTATED" "TOR3A WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
  "TOR3A MUTATED"   "TOR3A MUTATED" "TOR3A WILD-TYPE" "TOR3A WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
  "TOR3A MUTATED" "TOR3A WILD-TYPE"   "TOR3A MUTATED"   "TOR3A MUTATED" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"TOR3A WILD-TYPE" "TOR3A WILD-TYPE" "TOR3A WILD-TYPE" "TOR3A WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"TOR3A WILD-TYPE"   "TOR3A MUTATED" "TOR3A WILD-TYPE" "TOR3A WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"TOR3A WILD-TYPE" "TOR3A WILD-TYPE" "TOR3A WILD-TYPE" "TOR3A WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"TOR3A WILD-TYPE" "TOR3A WILD-TYPE" "TOR3A WILD-TYPE"   "TOR3A MUTATED" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
  "TOR3A MUTATED"   "TOR3A MUTATED" 
[1] "hr=" "2"  
D18V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV
  TOR3A MUTATED         2        3         0        5
  TOR3A WILD-TYPE       2       10         4        3
D18V3, multiclass
           clus
vv          TOR3A MUTATED TOR3A WILD-TYPE
  STAGE I               2               2
  STAGE II              3              10
  STAGE III             0               4
  STAGE IV              5               3
                 vv
clus              T1 T2+T3 T4
  TOR3A MUTATED    2     3  5
  TOR3A WILD-TYPE  2    13  4
D18V4, multiclass
       clus
vv      TOR3A MUTATED TOR3A WILD-TYPE
  T1                2               2
  T2+T3             3              13
  T4                5               4
D18V5, binary
                 cls
clus               0  1
  TOR3A MUTATED    9  2
  TOR3A WILD-TYPE 17  2
[1] "tbl2"
                 cls
clus              [,1] [,2]
  TOR3A MUTATED      9    2
  TOR3A WILD-TYPE   17    2
   clus
vv  TOR3A MUTATED TOR3A WILD-TYPE
  0             9              17
  1             2               2
D18V6, binary
                 cls
clus               0  1
  TOR3A MUTATED    5  8
  TOR3A WILD-TYPE 12  9
[1] "tbl2"
                 cls
clus              [,1] [,2]
  TOR3A MUTATED      5    8
  TOR3A WILD-TYPE   12    9
        clus
vv       TOR3A MUTATED TOR3A WILD-TYPE
  FEMALE             5              12
  MALE               8               9

Clustering(19) Variable = ZNF517 MUTATION ANALYSIS
D19V1, survival
                  sevent
clus2               0  1
  ZNF517 MUTATED   13  4
  ZNF517 WILD-TYPE 13  4
  ZNF517 MUTATED ZNF517 WILD-TYPE 
              17               17 
  ZNF517 MUTATED ZNF517 WILD-TYPE 
               4                4 
$`ZNF517 MUTATED`
TCGA-OR-A5JB TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JJ TCGA-OR-A5JM TCGA-OR-A5JO 
       18.12        41.39        17.79        10.16        18.48        29.23 
TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 
        6.94        33.83        89.52        93.44        17.36         8.32 
TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-OU-A5PI TCGA-PK-A5H9 TCGA-PK-A5HB 
       37.15        11.31        23.31        10.09        42.51 

$`ZNF517 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JC TCGA-OR-A5JI TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JQ 
       30.31        57.53        46.82        41.26        22.03        22.16 
TCGA-OR-A5JR TCGA-OR-A5JS TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX 
      121.25        12.59        16.04        50.66        63.25        31.23 
TCGA-OR-A5JY TCGA-OR-A5K2 TCGA-OR-A5LK TCGA-PK-A5H8 TCGA-PK-A5HA 
       18.15        32.68        73.05       106.52        27.29 

  ZNF517 MUTATED ZNF517 WILD-TYPE 
            6.94            12.59 
  ZNF517 MUTATED ZNF517 WILD-TYPE 
           93.44           121.25 
  ZNF517 MUTATED ZNF517 WILD-TYPE 
           18.48            32.68 
[1] "6.9 - 93.4 (18.5)"   "12.6 - 121.2 (32.7)"
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"ZNF517 WILD-TYPE"   "ZNF517 MUTATED" "ZNF517 WILD-TYPE"   "ZNF517 MUTATED" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
  "ZNF517 MUTATED" "ZNF517 WILD-TYPE"   "ZNF517 MUTATED" "ZNF517 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"ZNF517 WILD-TYPE"   "ZNF517 MUTATED"   "ZNF517 MUTATED" "ZNF517 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"ZNF517 WILD-TYPE" "ZNF517 WILD-TYPE" "ZNF517 WILD-TYPE" "ZNF517 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"ZNF517 WILD-TYPE" "ZNF517 WILD-TYPE" "ZNF517 WILD-TYPE"   "ZNF517 MUTATED" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
  "ZNF517 MUTATED"   "ZNF517 MUTATED" "ZNF517 WILD-TYPE"   "ZNF517 MUTATED" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
  "ZNF517 MUTATED"   "ZNF517 MUTATED"   "ZNF517 MUTATED"   "ZNF517 MUTATED" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"ZNF517 WILD-TYPE"   "ZNF517 MUTATED" "ZNF517 WILD-TYPE"   "ZNF517 MUTATED" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"ZNF517 WILD-TYPE"   "ZNF517 MUTATED" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"ZNF517 WILD-TYPE"   "ZNF517 MUTATED" "ZNF517 WILD-TYPE"   "ZNF517 MUTATED" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
  "ZNF517 MUTATED" "ZNF517 WILD-TYPE"   "ZNF517 MUTATED" "ZNF517 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"ZNF517 WILD-TYPE"   "ZNF517 MUTATED"   "ZNF517 MUTATED" "ZNF517 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"ZNF517 WILD-TYPE" "ZNF517 WILD-TYPE" "ZNF517 WILD-TYPE" "ZNF517 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"ZNF517 WILD-TYPE" "ZNF517 WILD-TYPE" "ZNF517 WILD-TYPE"   "ZNF517 MUTATED" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
  "ZNF517 MUTATED"   "ZNF517 MUTATED" "ZNF517 WILD-TYPE"   "ZNF517 MUTATED" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
  "ZNF517 MUTATED"   "ZNF517 MUTATED"   "ZNF517 MUTATED"   "ZNF517 MUTATED" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"ZNF517 WILD-TYPE"   "ZNF517 MUTATED" "ZNF517 WILD-TYPE"   "ZNF517 MUTATED" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"ZNF517 WILD-TYPE"   "ZNF517 MUTATED" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"ZNF517 WILD-TYPE"   "ZNF517 MUTATED" "ZNF517 WILD-TYPE"   "ZNF517 MUTATED" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
  "ZNF517 MUTATED" "ZNF517 WILD-TYPE"   "ZNF517 MUTATED" "ZNF517 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"ZNF517 WILD-TYPE"   "ZNF517 MUTATED"   "ZNF517 MUTATED" "ZNF517 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"ZNF517 WILD-TYPE" "ZNF517 WILD-TYPE" "ZNF517 WILD-TYPE" "ZNF517 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"ZNF517 WILD-TYPE" "ZNF517 WILD-TYPE" "ZNF517 WILD-TYPE"   "ZNF517 MUTATED" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
  "ZNF517 MUTATED"   "ZNF517 MUTATED" "ZNF517 WILD-TYPE"   "ZNF517 MUTATED" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
  "ZNF517 MUTATED"   "ZNF517 MUTATED"   "ZNF517 MUTATED"   "ZNF517 MUTATED" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"ZNF517 WILD-TYPE"   "ZNF517 MUTATED" "ZNF517 WILD-TYPE"   "ZNF517 MUTATED" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"ZNF517 WILD-TYPE"   "ZNF517 MUTATED" 
[1] "hr=" "1.6"
D19V2, continuous
                  vv
clus               STAGE I STAGE II STAGE III STAGE IV
  ZNF517 MUTATED         1        7         2        5
  ZNF517 WILD-TYPE       3        6         2        3
D19V3, multiclass
           clus
vv          ZNF517 MUTATED ZNF517 WILD-TYPE
  STAGE I                1                3
  STAGE II               7                6
  STAGE III              2                2
  STAGE IV               5                3
                  vv
clus               T1 T2+T3 T4
  ZNF517 MUTATED    1     9  5
  ZNF517 WILD-TYPE  3     7  4
D19V4, multiclass
       clus
vv      ZNF517 MUTATED ZNF517 WILD-TYPE
  T1                 1                3
  T2+T3              9                7
  T4                 5                4
D19V5, binary
                  cls
clus                0  1
  ZNF517 MUTATED   12  3
  ZNF517 WILD-TYPE 14  1
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ZNF517 MUTATED     12    3
  ZNF517 WILD-TYPE   14    1
   clus
vv  ZNF517 MUTATED ZNF517 WILD-TYPE
  0             12               14
  1              3                1
D19V6, binary
                  cls
clus                0  1
  ZNF517 MUTATED   10  7
  ZNF517 WILD-TYPE  7 10
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ZNF517 MUTATED     10    7
  ZNF517 WILD-TYPE    7   10
        clus
vv       ZNF517 MUTATED ZNF517 WILD-TYPE
  FEMALE             10                7
  MALE                7               10

Clustering(20) Variable = GLTPD2 MUTATION ANALYSIS
D20V1, survival
                  sevent
clus2               0  1
  GLTPD2 MUTATED    7  3
  GLTPD2 WILD-TYPE 19  5
  GLTPD2 MUTATED GLTPD2 WILD-TYPE 
              10               24 
  GLTPD2 MUTATED GLTPD2 WILD-TYPE 
               3                5 
$`GLTPD2 MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JG TCGA-OR-A5JK TCGA-OR-A5JO TCGA-OR-A5JS TCGA-OR-A5K0 
       30.31        17.79        41.26        29.23        12.59        33.83 
TCGA-OR-A5K1 TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-PK-A5HB 
       89.52        37.15        11.31        42.51 

$`GLTPD2 WILD-TYPE`
TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JI TCGA-OR-A5JJ TCGA-OR-A5JL 
       18.12        57.53        41.39        46.82        10.16        22.03 
TCGA-OR-A5JM TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW 
       18.48        22.16       121.25        16.04        50.66        63.25 
TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 
       31.23        18.15         6.94        32.68        93.44        17.36 
TCGA-OR-A5K5 TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA 
        8.32        73.05        23.31       106.52        10.09        27.29 

  GLTPD2 MUTATED GLTPD2 WILD-TYPE 
           11.31             6.94 
  GLTPD2 MUTATED GLTPD2 WILD-TYPE 
           89.52           121.25 
  GLTPD2 MUTATED GLTPD2 WILD-TYPE 
           32.07            25.30 
[1] "11.3 - 89.5 (32.1)" "6.9 - 121.2 (25.3)"
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
  "GLTPD2 MUTATED" "GLTPD2 WILD-TYPE" "GLTPD2 WILD-TYPE" "GLTPD2 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
  "GLTPD2 MUTATED" "GLTPD2 WILD-TYPE" "GLTPD2 WILD-TYPE"   "GLTPD2 MUTATED" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"GLTPD2 WILD-TYPE" "GLTPD2 WILD-TYPE"   "GLTPD2 MUTATED" "GLTPD2 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"GLTPD2 WILD-TYPE"   "GLTPD2 MUTATED" "GLTPD2 WILD-TYPE" "GLTPD2 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"GLTPD2 WILD-TYPE" "GLTPD2 WILD-TYPE" "GLTPD2 WILD-TYPE" "GLTPD2 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
  "GLTPD2 MUTATED"   "GLTPD2 MUTATED" "GLTPD2 WILD-TYPE" "GLTPD2 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"GLTPD2 WILD-TYPE" "GLTPD2 WILD-TYPE"   "GLTPD2 MUTATED"   "GLTPD2 MUTATED" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"GLTPD2 WILD-TYPE" "GLTPD2 WILD-TYPE" "GLTPD2 WILD-TYPE" "GLTPD2 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"GLTPD2 WILD-TYPE"   "GLTPD2 MUTATED" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
  "GLTPD2 MUTATED" "GLTPD2 WILD-TYPE" "GLTPD2 WILD-TYPE" "GLTPD2 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
  "GLTPD2 MUTATED" "GLTPD2 WILD-TYPE" "GLTPD2 WILD-TYPE"   "GLTPD2 MUTATED" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"GLTPD2 WILD-TYPE" "GLTPD2 WILD-TYPE"   "GLTPD2 MUTATED" "GLTPD2 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"GLTPD2 WILD-TYPE"   "GLTPD2 MUTATED" "GLTPD2 WILD-TYPE" "GLTPD2 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"GLTPD2 WILD-TYPE" "GLTPD2 WILD-TYPE" "GLTPD2 WILD-TYPE" "GLTPD2 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
  "GLTPD2 MUTATED"   "GLTPD2 MUTATED" "GLTPD2 WILD-TYPE" "GLTPD2 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"GLTPD2 WILD-TYPE" "GLTPD2 WILD-TYPE"   "GLTPD2 MUTATED"   "GLTPD2 MUTATED" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"GLTPD2 WILD-TYPE" "GLTPD2 WILD-TYPE" "GLTPD2 WILD-TYPE" "GLTPD2 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"GLTPD2 WILD-TYPE"   "GLTPD2 MUTATED" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
  "GLTPD2 MUTATED" "GLTPD2 WILD-TYPE" "GLTPD2 WILD-TYPE" "GLTPD2 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
  "GLTPD2 MUTATED" "GLTPD2 WILD-TYPE" "GLTPD2 WILD-TYPE"   "GLTPD2 MUTATED" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"GLTPD2 WILD-TYPE" "GLTPD2 WILD-TYPE"   "GLTPD2 MUTATED" "GLTPD2 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"GLTPD2 WILD-TYPE"   "GLTPD2 MUTATED" "GLTPD2 WILD-TYPE" "GLTPD2 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"GLTPD2 WILD-TYPE" "GLTPD2 WILD-TYPE" "GLTPD2 WILD-TYPE" "GLTPD2 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
  "GLTPD2 MUTATED"   "GLTPD2 MUTATED" "GLTPD2 WILD-TYPE" "GLTPD2 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"GLTPD2 WILD-TYPE" "GLTPD2 WILD-TYPE"   "GLTPD2 MUTATED"   "GLTPD2 MUTATED" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"GLTPD2 WILD-TYPE" "GLTPD2 WILD-TYPE" "GLTPD2 WILD-TYPE" "GLTPD2 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"GLTPD2 WILD-TYPE"   "GLTPD2 MUTATED" 
[1] "hr=" "1.5"
D20V2, continuous
                  vv
clus               STAGE I STAGE II STAGE III STAGE IV
  GLTPD2 MUTATED         1        5         0        3
  GLTPD2 WILD-TYPE       3        8         4        5
D20V3, multiclass
           clus
vv          GLTPD2 MUTATED GLTPD2 WILD-TYPE
  STAGE I                1                3
  STAGE II               5                8
  STAGE III              0                4
  STAGE IV               3                5
                  vv
clus               T1 T2+T3 T4
  GLTPD2 MUTATED    1     5  3
  GLTPD2 WILD-TYPE  3    11  6
D20V4, multiclass
       clus
vv      GLTPD2 MUTATED GLTPD2 WILD-TYPE
  T1                 1                3
  T2+T3              5               11
  T4                 3                6
D20V5, binary
                  cls
clus                0  1
  GLTPD2 MUTATED    8  1
  GLTPD2 WILD-TYPE 18  3
[1] "tbl2"
                  cls
clus               [,1] [,2]
  GLTPD2 MUTATED      8    1
  GLTPD2 WILD-TYPE   18    3
   clus
vv  GLTPD2 MUTATED GLTPD2 WILD-TYPE
  0              8               18
  1              1                3
D20V6, binary
                  cls
clus                0  1
  GLTPD2 MUTATED    6  4
  GLTPD2 WILD-TYPE 11 13
[1] "tbl2"
                  cls
clus               [,1] [,2]
  GLTPD2 MUTATED      6    4
  GLTPD2 WILD-TYPE   11   13
        clus
vv       GLTPD2 MUTATED GLTPD2 WILD-TYPE
  FEMALE              6               11
  MALE                4               13

Clustering(21) Variable = SEMA5B MUTATION ANALYSIS
D21V1, survival
                  sevent
clus2               0  1
  SEMA5B MUTATED    6  1
  SEMA5B WILD-TYPE 20  7
  SEMA5B MUTATED SEMA5B WILD-TYPE 
               7               27 
  SEMA5B MUTATED SEMA5B WILD-TYPE 
               1                7 
$`SEMA5B MUTATED`
TCGA-OR-A5JB TCGA-OR-A5JJ TCGA-OR-A5JO TCGA-OR-A5JR TCGA-OR-A5JS TCGA-OR-A5K0 
       18.12        10.16        29.23       121.25        12.59        33.83 
TCGA-OR-A5LK 
       73.05 

$`SEMA5B WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JK 
       30.31        57.53        41.39        17.79        46.82        41.26 
TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JQ TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW 
       22.03        18.48        22.16        16.04        50.66        63.25 
TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 
       31.23        18.15         6.94        89.52        32.68        93.44 
TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-OU-A5PI TCGA-PK-A5H8 
       17.36         8.32        37.15        11.31        23.31       106.52 
TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
       10.09        27.29        42.51 

  SEMA5B MUTATED SEMA5B WILD-TYPE 
           10.16             6.94 
  SEMA5B MUTATED SEMA5B WILD-TYPE 
          121.25           106.52 
  SEMA5B MUTATED SEMA5B WILD-TYPE 
           29.23            30.31 
[1] "10.2 - 121.2 (29.2)" "6.9 - 106.5 (30.3)" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"SEMA5B WILD-TYPE"   "SEMA5B MUTATED" "SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE"   "SEMA5B MUTATED" "SEMA5B WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE"   "SEMA5B MUTATED" "SEMA5B WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
  "SEMA5B MUTATED"   "SEMA5B MUTATED" "SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
  "SEMA5B MUTATED" "SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
  "SEMA5B MUTATED" "SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"SEMA5B WILD-TYPE"   "SEMA5B MUTATED" "SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE"   "SEMA5B MUTATED" "SEMA5B WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE"   "SEMA5B MUTATED" "SEMA5B WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
  "SEMA5B MUTATED"   "SEMA5B MUTATED" "SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
  "SEMA5B MUTATED" "SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
  "SEMA5B MUTATED" "SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"SEMA5B WILD-TYPE"   "SEMA5B MUTATED" "SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE"   "SEMA5B MUTATED" "SEMA5B WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE"   "SEMA5B MUTATED" "SEMA5B WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
  "SEMA5B MUTATED"   "SEMA5B MUTATED" "SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
  "SEMA5B MUTATED" "SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
  "SEMA5B MUTATED" "SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"SEMA5B WILD-TYPE" "SEMA5B WILD-TYPE" 
[1] "hr=" "1.7"
D21V2, continuous
                  vv
clus               STAGE I STAGE II STAGE III STAGE IV
  SEMA5B MUTATED         2        3         0        2
  SEMA5B WILD-TYPE       2       10         4        6
D21V3, multiclass
           clus
vv          SEMA5B MUTATED SEMA5B WILD-TYPE
  STAGE I                2                2
  STAGE II               3               10
  STAGE III              0                4
  STAGE IV               2                6
                  vv
clus               T1 T2+T3 T4
  SEMA5B MUTATED    2     3  2
  SEMA5B WILD-TYPE  2    13  7
D21V4, multiclass
       clus
vv      SEMA5B MUTATED SEMA5B WILD-TYPE
  T1                 2                2
  T2+T3              3               13
  T4                 2                7
D21V5, binary
                  cls
clus                0  1
  SEMA5B MUTATED    6  1
  SEMA5B WILD-TYPE 20  3
[1] "tbl2"
                  cls
clus               [,1] [,2]
  SEMA5B MUTATED      6    1
  SEMA5B WILD-TYPE   20    3
   clus
vv  SEMA5B MUTATED SEMA5B WILD-TYPE
  0              6               20
  1              1                3
D21V6, binary
                  cls
clus                0  1
  SEMA5B MUTATED    3  4
  SEMA5B WILD-TYPE 14 13
[1] "tbl2"
                  cls
clus               [,1] [,2]
  SEMA5B MUTATED      3    4
  SEMA5B WILD-TYPE   14   13
        clus
vv       SEMA5B MUTATED SEMA5B WILD-TYPE
  FEMALE              3               14
  MALE                4               13

Clustering(22) Variable = TNIP2 MUTATION ANALYSIS
D22V1, survival
                 sevent
clus2              0  1
  TNIP2 MUTATED    3  0
  TNIP2 WILD-TYPE 23  8
  TNIP2 MUTATED TNIP2 WILD-TYPE 
              3              31 
  TNIP2 MUTATED TNIP2 WILD-TYPE 
              0               8 
$`TNIP2 MUTATED`
TCGA-OR-A5JI TCGA-OR-A5K6 TCGA-PK-A5HB 
       46.82        37.15        42.51 

$`TNIP2 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JJ 
       30.31        18.12        57.53        41.39        17.79        10.16 
TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR 
       41.26        22.03        18.48        29.23        22.16       121.25 
TCGA-OR-A5JS TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY 
       12.59        16.04        50.66        63.25        31.23        18.15 
TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 
        6.94        33.83        89.52        32.68        93.44        17.36 
TCGA-OR-A5K5 TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 
        8.32        11.31        73.05        23.31       106.52        10.09 
TCGA-PK-A5HA 
       27.29 

  TNIP2 MUTATED TNIP2 WILD-TYPE 
          37.15            6.94 
  TNIP2 MUTATED TNIP2 WILD-TYPE 
          46.82          121.25 
  TNIP2 MUTATED TNIP2 WILD-TYPE 
          42.51           27.29 
[1] "37.1 - 46.8 (42.5)" "6.9 - 121.2 (27.3)"
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"TNIP2 WILD-TYPE"   "TNIP2 MUTATED" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE"   "TNIP2 MUTATED" "TNIP2 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"TNIP2 WILD-TYPE"   "TNIP2 MUTATED" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"TNIP2 WILD-TYPE"   "TNIP2 MUTATED" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE"   "TNIP2 MUTATED" "TNIP2 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"TNIP2 WILD-TYPE"   "TNIP2 MUTATED" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"TNIP2 WILD-TYPE"   "TNIP2 MUTATED" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE"   "TNIP2 MUTATED" "TNIP2 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"TNIP2 WILD-TYPE"   "TNIP2 MUTATED" 
[1] "hr="     "2.3e+08"
D22V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV
  TNIP2 MUTATED         1        1         0        0
  TNIP2 WILD-TYPE       3       12         4        8
D22V3, multiclass
[1] "Remove cluster labels:" "TNIP2 MUTATED"         
clus
  TNIP2 MUTATED TNIP2 WILD-TYPE 
              2              27 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JF      TCGA-OR-A5JG 
"TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" 
     TCGA-OR-A5JJ      TCGA-OR-A5JK      TCGA-OR-A5JL      TCGA-OR-A5JM 
"TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" 
     TCGA-OR-A5JO      TCGA-OR-A5JQ      TCGA-OR-A5JR      TCGA-OR-A5JS 
"TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" 
     TCGA-OR-A5JT      TCGA-OR-A5JV      TCGA-OR-A5JW      TCGA-OR-A5JX 
"TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" 
     TCGA-OR-A5JY      TCGA-OR-A5JZ      TCGA-OR-A5K0      TCGA-OR-A5K1 
"TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" 
     TCGA-OR-A5K2      TCGA-OR-A5K3      TCGA-OR-A5K4      TCGA-OR-A5K5 
"TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" 
     TCGA-OR-A5K9      TCGA-OR-A5LK      TCGA-OU-A5PI 
"TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" 
                 vv
clus              T1 T2+T3 T4
  TNIP2 MUTATED    1     1  0
  TNIP2 WILD-TYPE  3    15  9
D22V4, multiclass
[1] "Remove cluster labels:" "TNIP2 MUTATED"         
clus
  TNIP2 MUTATED TNIP2 WILD-TYPE 
              2              27 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JF      TCGA-OR-A5JG 
"TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" 
     TCGA-OR-A5JJ      TCGA-OR-A5JK      TCGA-OR-A5JL      TCGA-OR-A5JM 
"TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" 
     TCGA-OR-A5JO      TCGA-OR-A5JQ      TCGA-OR-A5JR      TCGA-OR-A5JS 
"TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" 
     TCGA-OR-A5JT      TCGA-OR-A5JV      TCGA-OR-A5JW      TCGA-OR-A5JX 
"TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" 
     TCGA-OR-A5JY      TCGA-OR-A5JZ      TCGA-OR-A5K0      TCGA-OR-A5K1 
"TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" 
     TCGA-OR-A5K2      TCGA-OR-A5K3      TCGA-OR-A5K4      TCGA-OR-A5K5 
"TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" 
     TCGA-OR-A5K9      TCGA-OR-A5LK      TCGA-OU-A5PI 
"TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" "TNIP2 WILD-TYPE" 
D22V5, binary
                 cls
clus               0  1
  TNIP2 MUTATED    2  0
  TNIP2 WILD-TYPE 24  4
[1] "tbl2"
                 cls
clus              [,1] [,2]
  TNIP2 MUTATED      2    0
  TNIP2 WILD-TYPE   24    4
   clus
vv  TNIP2 MUTATED TNIP2 WILD-TYPE
  0             2              24
  1             0               4
D22V6, binary
                 cls
clus               0  1
  TNIP2 MUTATED    1  2
  TNIP2 WILD-TYPE 16 15
[1] "tbl2"
                 cls
clus              [,1] [,2]
  TNIP2 MUTATED      1    2
  TNIP2 WILD-TYPE   16   15
        clus
vv       TNIP2 MUTATED TNIP2 WILD-TYPE
  FEMALE             1              16
  MALE               2              15

Clustering(23) Variable = HHIPL1 MUTATION ANALYSIS
D23V1, survival
                  sevent
clus2               0  1
  HHIPL1 MUTATED    4  1
  HHIPL1 WILD-TYPE 22  7
  HHIPL1 MUTATED HHIPL1 WILD-TYPE 
               5               29 
  HHIPL1 MUTATED HHIPL1 WILD-TYPE 
               1                7 
$`HHIPL1 MUTATED`
TCGA-OR-A5JG TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5K6 TCGA-OU-A5PI 
       17.79        41.26        22.03        37.15        23.31 

$`HHIPL1 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JI TCGA-OR-A5JJ 
       30.31        18.12        57.53        41.39        46.82        10.16 
TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JS TCGA-OR-A5JT 
       18.48        29.23        22.16       121.25        12.59        16.04 
TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K0 
       50.66        63.25        31.23        18.15         6.94        33.83 
TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K9 
       89.52        32.68        93.44        17.36         8.32        11.31 
TCGA-OR-A5LK TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
       73.05       106.52        10.09        27.29        42.51 

  HHIPL1 MUTATED HHIPL1 WILD-TYPE 
           17.79             6.94 
  HHIPL1 MUTATED HHIPL1 WILD-TYPE 
           41.26           121.25 
  HHIPL1 MUTATED HHIPL1 WILD-TYPE 
           23.31            30.31 
[1] "17.8 - 41.3 (23.3)" "6.9 - 121.2 (30.3)"
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
  "HHIPL1 MUTATED" "HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE"   "HHIPL1 MUTATED" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
  "HHIPL1 MUTATED" "HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
"HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE"   "HHIPL1 MUTATED" "HHIPL1 WILD-TYPE" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"HHIPL1 WILD-TYPE"   "HHIPL1 MUTATED" "HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
  "HHIPL1 MUTATED" "HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE"   "HHIPL1 MUTATED" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
  "HHIPL1 MUTATED" "HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
"HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE"   "HHIPL1 MUTATED" "HHIPL1 WILD-TYPE" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"HHIPL1 WILD-TYPE"   "HHIPL1 MUTATED" "HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
  "HHIPL1 MUTATED" "HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE"   "HHIPL1 MUTATED" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
  "HHIPL1 MUTATED" "HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
"HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE"   "HHIPL1 MUTATED" "HHIPL1 WILD-TYPE" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"HHIPL1 WILD-TYPE"   "HHIPL1 MUTATED" "HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"HHIPL1 WILD-TYPE" "HHIPL1 WILD-TYPE" 
[1] "hr=" "1.1"
D23V2, continuous
                  vv
clus               STAGE I STAGE II STAGE III STAGE IV
  HHIPL1 MUTATED         1        1         0        3
  HHIPL1 WILD-TYPE       3       12         4        5
D23V3, multiclass
           clus
vv          HHIPL1 MUTATED HHIPL1 WILD-TYPE
  STAGE I                1                3
  STAGE II               1               12
  STAGE III              0                4
  STAGE IV               3                5
                  vv
clus               T1 T2+T3 T4
  HHIPL1 MUTATED    1     2  2
  HHIPL1 WILD-TYPE  3    14  7
D23V4, multiclass
       clus
vv      HHIPL1 MUTATED HHIPL1 WILD-TYPE
  T1                 1                3
  T2+T3              2               14
  T4                 2                7
D23V5, binary
                  cls
clus                0  1
  HHIPL1 MUTATED    3  2
  HHIPL1 WILD-TYPE 23  2
[1] "tbl2"
                  cls
clus               [,1] [,2]
  HHIPL1 MUTATED      3    2
  HHIPL1 WILD-TYPE   23    2
   clus
vv  HHIPL1 MUTATED HHIPL1 WILD-TYPE
  0              3               23
  1              2                2
D23V6, binary
                  cls
clus                0  1
  HHIPL1 MUTATED    3  2
  HHIPL1 WILD-TYPE 14 15
[1] "tbl2"
                  cls
clus               [,1] [,2]
  HHIPL1 MUTATED      3    2
  HHIPL1 WILD-TYPE   14   15
        clus
vv       HHIPL1 MUTATED HHIPL1 WILD-TYPE
  FEMALE              3               14
  MALE                2               15

Clustering(24) Variable = HECTD2 MUTATION ANALYSIS
D24V1, survival
                  sevent
clus2               0  1
  HECTD2 MUTATED    1  2
  HECTD2 WILD-TYPE 25  6
  HECTD2 MUTATED HECTD2 WILD-TYPE 
               3               31 
  HECTD2 MUTATED HECTD2 WILD-TYPE 
               2                6 
$`HECTD2 MUTATED`
TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5K9 
       18.48        29.23        11.31 

$`HECTD2 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI 
       30.31        18.12        57.53        41.39        17.79        46.82 
TCGA-OR-A5JJ TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JS 
       10.16        41.26        22.03        22.16       121.25        12.59 
TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ 
       16.04        50.66        63.25        31.23        18.15         6.94 
TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 
       33.83        89.52        32.68        93.44        17.36         8.32 
TCGA-OR-A5K6 TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA 
       37.15        73.05        23.31       106.52        10.09        27.29 
TCGA-PK-A5HB 
       42.51 

  HECTD2 MUTATED HECTD2 WILD-TYPE 
           11.31             6.94 
  HECTD2 MUTATED HECTD2 WILD-TYPE 
           29.23           121.25 
  HECTD2 MUTATED HECTD2 WILD-TYPE 
           18.48            31.23 
[1] "11.3 - 29.2 (18.5)" "6.9 - 121.2 (31.2)"
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"HECTD2 WILD-TYPE"   "HECTD2 MUTATED"   "HECTD2 MUTATED" "HECTD2 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE"   "HECTD2 MUTATED" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"HECTD2 WILD-TYPE"   "HECTD2 MUTATED"   "HECTD2 MUTATED" "HECTD2 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE"   "HECTD2 MUTATED" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"HECTD2 WILD-TYPE"   "HECTD2 MUTATED"   "HECTD2 MUTATED" "HECTD2 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE"   "HECTD2 MUTATED" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"HECTD2 WILD-TYPE" "HECTD2 WILD-TYPE" 
[1] "hr=" "7.2"
D24V2, continuous
                  vv
clus               STAGE I STAGE II STAGE III STAGE IV
  HECTD2 MUTATED         1        1         0        1
  HECTD2 WILD-TYPE       3       12         4        7
D24V3, multiclass
           clus
vv          HECTD2 MUTATED HECTD2 WILD-TYPE
  STAGE I                1                3
  STAGE II               1               12
  STAGE III              0                4
  STAGE IV               1                7
                  vv
clus               T1 T2+T3 T4
  HECTD2 MUTATED    1     1  1
  HECTD2 WILD-TYPE  3    15  8
D24V4, multiclass
       clus
vv      HECTD2 MUTATED HECTD2 WILD-TYPE
  T1                 1                3
  T2+T3              1               15
  T4                 1                8
D24V5, binary
                  cls
clus                0  1
  HECTD2 MUTATED    3  0
  HECTD2 WILD-TYPE 23  4
[1] "tbl2"
                  cls
clus               [,1] [,2]
  HECTD2 MUTATED      3    0
  HECTD2 WILD-TYPE   23    4
   clus
vv  HECTD2 MUTATED HECTD2 WILD-TYPE
  0              3               23
  1              0                4
D24V6, binary
                  cls
clus                0  1
  HECTD2 MUTATED    3  0
  HECTD2 WILD-TYPE 14 17
[1] "tbl2"
                  cls
clus               [,1] [,2]
  HECTD2 MUTATED      3    0
  HECTD2 WILD-TYPE   14   17
        clus
vv       HECTD2 MUTATED HECTD2 WILD-TYPE
  FEMALE              3               14
  MALE                0               17

Clustering(25) Variable = ADAD2 MUTATION ANALYSIS
D25V1, survival
                 sevent
clus2              0  1
  ADAD2 MUTATED    7  3
  ADAD2 WILD-TYPE 19  5
  ADAD2 MUTATED ADAD2 WILD-TYPE 
             10              24 
  ADAD2 MUTATED ADAD2 WILD-TYPE 
              3               5 
$`ADAD2 MUTATED`
TCGA-OR-A5JB TCGA-OR-A5JG TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JS 
       18.12        17.79        18.48        29.23        22.16        12.59 
TCGA-OR-A5JZ TCGA-OU-A5PI TCGA-PK-A5HA TCGA-PK-A5HB 
        6.94        23.31        27.29        42.51 

$`ADAD2 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JI TCGA-OR-A5JJ TCGA-OR-A5JK 
       30.31        57.53        41.39        46.82        10.16        41.26 
TCGA-OR-A5JL TCGA-OR-A5JR TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX 
       22.03       121.25        16.04        50.66        63.25        31.23 
TCGA-OR-A5JY TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 
       18.15        33.83        89.52        32.68        93.44        17.36 
TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-PK-A5H8 TCGA-PK-A5H9 
        8.32        37.15        11.31        73.05       106.52        10.09 

  ADAD2 MUTATED ADAD2 WILD-TYPE 
           6.94            8.32 
  ADAD2 MUTATED ADAD2 WILD-TYPE 
          42.51          121.25 
  ADAD2 MUTATED ADAD2 WILD-TYPE 
          20.32           35.49 
[1] "6.9 - 42.5 (20.3)"  "8.3 - 121.2 (35.5)"
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"ADAD2 WILD-TYPE"   "ADAD2 MUTATED" "ADAD2 WILD-TYPE" "ADAD2 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
  "ADAD2 MUTATED" "ADAD2 WILD-TYPE" "ADAD2 WILD-TYPE" "ADAD2 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"ADAD2 WILD-TYPE"   "ADAD2 MUTATED"   "ADAD2 MUTATED"   "ADAD2 MUTATED" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"ADAD2 WILD-TYPE"   "ADAD2 MUTATED" "ADAD2 WILD-TYPE" "ADAD2 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"ADAD2 WILD-TYPE" "ADAD2 WILD-TYPE" "ADAD2 WILD-TYPE"   "ADAD2 MUTATED" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"ADAD2 WILD-TYPE" "ADAD2 WILD-TYPE" "ADAD2 WILD-TYPE" "ADAD2 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"ADAD2 WILD-TYPE" "ADAD2 WILD-TYPE" "ADAD2 WILD-TYPE" "ADAD2 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"ADAD2 WILD-TYPE"   "ADAD2 MUTATED" "ADAD2 WILD-TYPE" "ADAD2 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
  "ADAD2 MUTATED"   "ADAD2 MUTATED" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"ADAD2 WILD-TYPE"   "ADAD2 MUTATED" "ADAD2 WILD-TYPE" "ADAD2 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
  "ADAD2 MUTATED" "ADAD2 WILD-TYPE" "ADAD2 WILD-TYPE" "ADAD2 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"ADAD2 WILD-TYPE"   "ADAD2 MUTATED"   "ADAD2 MUTATED"   "ADAD2 MUTATED" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"ADAD2 WILD-TYPE"   "ADAD2 MUTATED" "ADAD2 WILD-TYPE" "ADAD2 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"ADAD2 WILD-TYPE" "ADAD2 WILD-TYPE" "ADAD2 WILD-TYPE"   "ADAD2 MUTATED" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"ADAD2 WILD-TYPE" "ADAD2 WILD-TYPE" "ADAD2 WILD-TYPE" "ADAD2 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"ADAD2 WILD-TYPE" "ADAD2 WILD-TYPE" "ADAD2 WILD-TYPE" "ADAD2 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"ADAD2 WILD-TYPE"   "ADAD2 MUTATED" "ADAD2 WILD-TYPE" "ADAD2 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
  "ADAD2 MUTATED"   "ADAD2 MUTATED" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"ADAD2 WILD-TYPE"   "ADAD2 MUTATED" "ADAD2 WILD-TYPE" "ADAD2 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
  "ADAD2 MUTATED" "ADAD2 WILD-TYPE" "ADAD2 WILD-TYPE" "ADAD2 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"ADAD2 WILD-TYPE"   "ADAD2 MUTATED"   "ADAD2 MUTATED"   "ADAD2 MUTATED" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"ADAD2 WILD-TYPE"   "ADAD2 MUTATED" "ADAD2 WILD-TYPE" "ADAD2 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"ADAD2 WILD-TYPE" "ADAD2 WILD-TYPE" "ADAD2 WILD-TYPE"   "ADAD2 MUTATED" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"ADAD2 WILD-TYPE" "ADAD2 WILD-TYPE" "ADAD2 WILD-TYPE" "ADAD2 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"ADAD2 WILD-TYPE" "ADAD2 WILD-TYPE" "ADAD2 WILD-TYPE" "ADAD2 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"ADAD2 WILD-TYPE"   "ADAD2 MUTATED" "ADAD2 WILD-TYPE" "ADAD2 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
  "ADAD2 MUTATED"   "ADAD2 MUTATED" 
[1] "hr=" "3"  
D25V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV
  ADAD2 MUTATED         1        3         0        4
  ADAD2 WILD-TYPE       3       10         4        4
D25V3, multiclass
           clus
vv          ADAD2 MUTATED ADAD2 WILD-TYPE
  STAGE I               1               3
  STAGE II              3              10
  STAGE III             0               4
  STAGE IV              4               4
                 vv
clus              T1 T2+T3 T4
  ADAD2 MUTATED    1     4  3
  ADAD2 WILD-TYPE  3    12  6
D25V4, multiclass
       clus
vv      ADAD2 MUTATED ADAD2 WILD-TYPE
  T1                1               3
  T2+T3             4              12
  T4                3               6
D25V5, binary
                 cls
clus               0  1
  ADAD2 MUTATED    7  2
  ADAD2 WILD-TYPE 19  2
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ADAD2 MUTATED      7    2
  ADAD2 WILD-TYPE   19    2
   clus
vv  ADAD2 MUTATED ADAD2 WILD-TYPE
  0             7              19
  1             2               2
D25V6, binary
                 cls
clus               0  1
  ADAD2 MUTATED    5  5
  ADAD2 WILD-TYPE 12 12
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ADAD2 MUTATED      5    5
  ADAD2 WILD-TYPE   12   12
        clus
vv       ADAD2 MUTATED ADAD2 WILD-TYPE
  FEMALE             5              12
  MALE               5              12

Clustering(26) Variable = CTNNB1 MUTATION ANALYSIS
D26V1, survival
                  sevent
clus2               0  1
  CTNNB1 MUTATED    4  3
  CTNNB1 WILD-TYPE 22  5
  CTNNB1 MUTATED CTNNB1 WILD-TYPE 
               7               27 
  CTNNB1 MUTATED CTNNB1 WILD-TYPE 
               3                5 
$`CTNNB1 MUTATED`
TCGA-OR-A5JJ TCGA-OR-A5JM TCGA-OR-A5JS TCGA-OR-A5JY TCGA-OR-A5K5 TCGA-OR-A5K6 
       10.16        18.48        12.59        18.15         8.32        37.15 
TCGA-OR-A5K9 
       11.31 

$`CTNNB1 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI 
       30.31        18.12        57.53        41.39        17.79        46.82 
TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JT 
       41.26        22.03        29.23        22.16       121.25        16.04 
TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 
       50.66        63.25        31.23         6.94        33.83        89.52 
TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 
       32.68        93.44        17.36        73.05        23.31       106.52 
TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
       10.09        27.29        42.51 

  CTNNB1 MUTATED CTNNB1 WILD-TYPE 
            8.32             6.94 
  CTNNB1 MUTATED CTNNB1 WILD-TYPE 
           37.15           121.25 
  CTNNB1 MUTATED CTNNB1 WILD-TYPE 
           12.59            32.68 
[1] "8.3 - 37.1 (12.6)"  "6.9 - 121.2 (32.7)"
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE"   "CTNNB1 MUTATED" "CTNNB1 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"CTNNB1 WILD-TYPE"   "CTNNB1 MUTATED" "CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"CTNNB1 WILD-TYPE"   "CTNNB1 MUTATED" "CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE"   "CTNNB1 MUTATED" "CTNNB1 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
"CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"CTNNB1 WILD-TYPE"   "CTNNB1 MUTATED"   "CTNNB1 MUTATED"   "CTNNB1 MUTATED" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE"   "CTNNB1 MUTATED" "CTNNB1 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"CTNNB1 WILD-TYPE"   "CTNNB1 MUTATED" "CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"CTNNB1 WILD-TYPE"   "CTNNB1 MUTATED" "CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE"   "CTNNB1 MUTATED" "CTNNB1 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
"CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"CTNNB1 WILD-TYPE"   "CTNNB1 MUTATED"   "CTNNB1 MUTATED"   "CTNNB1 MUTATED" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE"   "CTNNB1 MUTATED" "CTNNB1 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"CTNNB1 WILD-TYPE"   "CTNNB1 MUTATED" "CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"CTNNB1 WILD-TYPE"   "CTNNB1 MUTATED" "CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE"   "CTNNB1 MUTATED" "CTNNB1 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
"CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"CTNNB1 WILD-TYPE"   "CTNNB1 MUTATED"   "CTNNB1 MUTATED"   "CTNNB1 MUTATED" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" 
[1] "hr=" "6.6"
D26V2, continuous
                  vv
clus               STAGE I STAGE II STAGE III STAGE IV
  CTNNB1 MUTATED         0        3         1        3
  CTNNB1 WILD-TYPE       4       10         3        5
D26V3, multiclass
           clus
vv          CTNNB1 MUTATED CTNNB1 WILD-TYPE
  STAGE I                0                4
  STAGE II               3               10
  STAGE III              1                3
  STAGE IV               3                5
                  vv
clus               T1 T2+T3 T4
  CTNNB1 MUTATED    0     4  3
  CTNNB1 WILD-TYPE  4    12  6
D26V4, multiclass
       clus
vv      CTNNB1 MUTATED CTNNB1 WILD-TYPE
  T1                 0                4
  T2+T3              4               12
  T4                 3                6
D26V5, binary
                  cls
clus                0  1
  CTNNB1 MUTATED    5  2
  CTNNB1 WILD-TYPE 21  2
[1] "tbl2"
                  cls
clus               [,1] [,2]
  CTNNB1 MUTATED      5    2
  CTNNB1 WILD-TYPE   21    2
   clus
vv  CTNNB1 MUTATED CTNNB1 WILD-TYPE
  0              5               21
  1              2                2
D26V6, binary
                  cls
clus                0  1
  CTNNB1 MUTATED    6  1
  CTNNB1 WILD-TYPE 11 16
[1] "tbl2"
                  cls
clus               [,1] [,2]
  CTNNB1 MUTATED      6    1
  CTNNB1 WILD-TYPE   11   16
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  FEMALE              6               11
  MALE                1               16

Clustering(27) Variable = ZFPM1 MUTATION ANALYSIS
D27V1, survival
                 sevent
clus2              0  1
  ZFPM1 MUTATED   13  6
  ZFPM1 WILD-TYPE 13  2
  ZFPM1 MUTATED ZFPM1 WILD-TYPE 
             19              15 
  ZFPM1 MUTATED ZFPM1 WILD-TYPE 
              6               2 
$`ZFPM1 MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JG TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JM 
       30.31        18.12        17.79        41.26        22.03        18.48 
TCGA-OR-A5JO TCGA-OR-A5JR TCGA-OR-A5JS TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JY 
       29.23       121.25        12.59        16.04        50.66        18.15 
TCGA-OR-A5JZ TCGA-OR-A5K1 TCGA-OR-A5K9 TCGA-OU-A5PI TCGA-PK-A5H9 TCGA-PK-A5HA 
        6.94        89.52        11.31        23.31        10.09        27.29 
TCGA-PK-A5HB 
       42.51 

$`ZFPM1 WILD-TYPE`
TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JI TCGA-OR-A5JJ TCGA-OR-A5JQ TCGA-OR-A5JW 
       57.53        41.39        46.82        10.16        22.16        63.25 
TCGA-OR-A5JX TCGA-OR-A5K0 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 
       31.23        33.83        32.68        93.44        17.36         8.32 
TCGA-OR-A5K6 TCGA-OR-A5LK TCGA-PK-A5H8 
       37.15        73.05       106.52 

  ZFPM1 MUTATED ZFPM1 WILD-TYPE 
           6.94            8.32 
  ZFPM1 MUTATED ZFPM1 WILD-TYPE 
         121.25          106.52 
  ZFPM1 MUTATED ZFPM1 WILD-TYPE 
          22.03           37.15 
[1] "6.9 - 121.2 (22.0)" "8.3 - 106.5 (37.1)"
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
  "ZFPM1 MUTATED"   "ZFPM1 MUTATED" "ZFPM1 WILD-TYPE" "ZFPM1 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
  "ZFPM1 MUTATED" "ZFPM1 WILD-TYPE" "ZFPM1 WILD-TYPE"   "ZFPM1 MUTATED" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
  "ZFPM1 MUTATED"   "ZFPM1 MUTATED"   "ZFPM1 MUTATED" "ZFPM1 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
  "ZFPM1 MUTATED"   "ZFPM1 MUTATED"   "ZFPM1 MUTATED"   "ZFPM1 MUTATED" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"ZFPM1 WILD-TYPE" "ZFPM1 WILD-TYPE"   "ZFPM1 MUTATED"   "ZFPM1 MUTATED" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"ZFPM1 WILD-TYPE"   "ZFPM1 MUTATED" "ZFPM1 WILD-TYPE" "ZFPM1 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"ZFPM1 WILD-TYPE" "ZFPM1 WILD-TYPE" "ZFPM1 WILD-TYPE"   "ZFPM1 MUTATED" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"ZFPM1 WILD-TYPE"   "ZFPM1 MUTATED" "ZFPM1 WILD-TYPE"   "ZFPM1 MUTATED" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
  "ZFPM1 MUTATED"   "ZFPM1 MUTATED" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
  "ZFPM1 MUTATED"   "ZFPM1 MUTATED" "ZFPM1 WILD-TYPE" "ZFPM1 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
  "ZFPM1 MUTATED" "ZFPM1 WILD-TYPE" "ZFPM1 WILD-TYPE"   "ZFPM1 MUTATED" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
  "ZFPM1 MUTATED"   "ZFPM1 MUTATED"   "ZFPM1 MUTATED" "ZFPM1 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
  "ZFPM1 MUTATED"   "ZFPM1 MUTATED"   "ZFPM1 MUTATED"   "ZFPM1 MUTATED" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"ZFPM1 WILD-TYPE" "ZFPM1 WILD-TYPE"   "ZFPM1 MUTATED"   "ZFPM1 MUTATED" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"ZFPM1 WILD-TYPE"   "ZFPM1 MUTATED" "ZFPM1 WILD-TYPE" "ZFPM1 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"ZFPM1 WILD-TYPE" "ZFPM1 WILD-TYPE" "ZFPM1 WILD-TYPE"   "ZFPM1 MUTATED" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"ZFPM1 WILD-TYPE"   "ZFPM1 MUTATED" "ZFPM1 WILD-TYPE"   "ZFPM1 MUTATED" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
  "ZFPM1 MUTATED"   "ZFPM1 MUTATED" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
  "ZFPM1 MUTATED"   "ZFPM1 MUTATED" "ZFPM1 WILD-TYPE" "ZFPM1 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
  "ZFPM1 MUTATED" "ZFPM1 WILD-TYPE" "ZFPM1 WILD-TYPE"   "ZFPM1 MUTATED" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
  "ZFPM1 MUTATED"   "ZFPM1 MUTATED"   "ZFPM1 MUTATED" "ZFPM1 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
  "ZFPM1 MUTATED"   "ZFPM1 MUTATED"   "ZFPM1 MUTATED"   "ZFPM1 MUTATED" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"ZFPM1 WILD-TYPE" "ZFPM1 WILD-TYPE"   "ZFPM1 MUTATED"   "ZFPM1 MUTATED" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"ZFPM1 WILD-TYPE"   "ZFPM1 MUTATED" "ZFPM1 WILD-TYPE" "ZFPM1 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"ZFPM1 WILD-TYPE" "ZFPM1 WILD-TYPE" "ZFPM1 WILD-TYPE"   "ZFPM1 MUTATED" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"ZFPM1 WILD-TYPE"   "ZFPM1 MUTATED" "ZFPM1 WILD-TYPE"   "ZFPM1 MUTATED" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
  "ZFPM1 MUTATED"   "ZFPM1 MUTATED" 
[1] "hr=" "3.9"
D27V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV
  ZFPM1 MUTATED         3        6         0        7
  ZFPM1 WILD-TYPE       1        7         4        1
D27V3, multiclass
           clus
vv          ZFPM1 MUTATED ZFPM1 WILD-TYPE
  STAGE I               3               1
  STAGE II              6               7
  STAGE III             0               4
  STAGE IV              7               1
                 vv
clus              T1 T2+T3 T4
  ZFPM1 MUTATED    3     7  6
  ZFPM1 WILD-TYPE  1     9  3
D27V4, multiclass
       clus
vv      ZFPM1 MUTATED ZFPM1 WILD-TYPE
  T1                3               1
  T2+T3             7               9
  T4                6               3
D27V5, binary
                 cls
clus               0  1
  ZFPM1 MUTATED   14  3
  ZFPM1 WILD-TYPE 12  1
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ZFPM1 MUTATED     14    3
  ZFPM1 WILD-TYPE   12    1
   clus
vv  ZFPM1 MUTATED ZFPM1 WILD-TYPE
  0            14              12
  1             3               1
D27V6, binary
                 cls
clus               0  1
  ZFPM1 MUTATED   10  9
  ZFPM1 WILD-TYPE  7  8
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ZFPM1 MUTATED     10    9
  ZFPM1 WILD-TYPE    7    8
        clus
vv       ZFPM1 MUTATED ZFPM1 WILD-TYPE
  FEMALE            10               7
  MALE               9               8

Clustering(28) Variable = CLDN23 MUTATION ANALYSIS
D28V1, survival
                  sevent
clus2               0  1
  CLDN23 MUTATED    3  1
  CLDN23 WILD-TYPE 23  7
  CLDN23 MUTATED CLDN23 WILD-TYPE 
               4               30 
  CLDN23 MUTATED CLDN23 WILD-TYPE 
               1                7 
$`CLDN23 MUTATED`
TCGA-OR-A5JI TCGA-OR-A5JK TCGA-OR-A5JQ TCGA-OR-A5JY 
       46.82        41.26        22.16        18.15 

$`CLDN23 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JJ 
       30.31        18.12        57.53        41.39        17.79        10.16 
TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JR TCGA-OR-A5JS TCGA-OR-A5JT 
       22.03        18.48        29.23       121.25        12.59        16.04 
TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 
       50.66        63.25        31.23         6.94        33.83        89.52 
TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5K9 
       32.68        93.44        17.36         8.32        37.15        11.31 
TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
       73.05        23.31       106.52        10.09        27.29        42.51 

  CLDN23 MUTATED CLDN23 WILD-TYPE 
           18.15             6.94 
  CLDN23 MUTATED CLDN23 WILD-TYPE 
           46.82           121.25 
  CLDN23 MUTATED CLDN23 WILD-TYPE 
           31.71            29.77 
[1] "18.1 - 46.8 (31.7)" "6.9 - 121.2 (29.8)"
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"CLDN23 WILD-TYPE"   "CLDN23 MUTATED" "CLDN23 WILD-TYPE"   "CLDN23 MUTATED" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE"   "CLDN23 MUTATED" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE"   "CLDN23 MUTATED" "CLDN23 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
"CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"CLDN23 WILD-TYPE"   "CLDN23 MUTATED" "CLDN23 WILD-TYPE"   "CLDN23 MUTATED" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE"   "CLDN23 MUTATED" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE"   "CLDN23 MUTATED" "CLDN23 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
"CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"CLDN23 WILD-TYPE"   "CLDN23 MUTATED" "CLDN23 WILD-TYPE"   "CLDN23 MUTATED" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE"   "CLDN23 MUTATED" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE"   "CLDN23 MUTATED" "CLDN23 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
"CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"CLDN23 WILD-TYPE" "CLDN23 WILD-TYPE" 
[1] "hr=" "1"  
D28V2, continuous
                  vv
clus               STAGE I STAGE II STAGE III STAGE IV
  CLDN23 MUTATED         1        1         0        2
  CLDN23 WILD-TYPE       3       12         4        6
D28V3, multiclass
           clus
vv          CLDN23 MUTATED CLDN23 WILD-TYPE
  STAGE I                1                3
  STAGE II               1               12
  STAGE III              0                4
  STAGE IV               2                6
                  vv
clus               T1 T2+T3 T4
  CLDN23 MUTATED    1     1  2
  CLDN23 WILD-TYPE  3    15  7
D28V4, multiclass
       clus
vv      CLDN23 MUTATED CLDN23 WILD-TYPE
  T1                 1                3
  T2+T3              1               15
  T4                 2                7
D28V5, binary
                  cls
clus                0  1
  CLDN23 MUTATED    3  1
  CLDN23 WILD-TYPE 23  3
[1] "tbl2"
                  cls
clus               [,1] [,2]
  CLDN23 MUTATED      3    1
  CLDN23 WILD-TYPE   23    3
   clus
vv  CLDN23 MUTATED CLDN23 WILD-TYPE
  0              3               23
  1              1                3
D28V6, binary
                  cls
clus                0  1
  CLDN23 MUTATED    2  2
  CLDN23 WILD-TYPE 15 15
[1] "tbl2"
                  cls
clus               [,1] [,2]
  CLDN23 MUTATED      2    2
  CLDN23 WILD-TYPE   15   15
        clus
vv       CLDN23 MUTATED CLDN23 WILD-TYPE
  FEMALE              2               15
  MALE                2               15

Clustering(29) Variable = CCDC105 MUTATION ANALYSIS
D29V1, survival
                   sevent
clus2                0  1
  CCDC105 MUTATED    3  1
  CCDC105 WILD-TYPE 23  7
  CCDC105 MUTATED CCDC105 WILD-TYPE 
                4                30 
  CCDC105 MUTATED CCDC105 WILD-TYPE 
                1                 7 
$`CCDC105 MUTATED`
TCGA-OR-A5JL TCGA-OR-A5JS TCGA-OR-A5K6 TCGA-OR-A5K9 
       22.03        12.59        37.15        11.31 

$`CCDC105 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI 
       30.31        18.12        57.53        41.39        17.79        46.82 
TCGA-OR-A5JJ TCGA-OR-A5JK TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR 
       10.16        41.26        18.48        29.23        22.16       121.25 
TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ 
       16.04        50.66        63.25        31.23        18.15         6.94 
TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 
       33.83        89.52        32.68        93.44        17.36         8.32 
TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
       73.05        23.31       106.52        10.09        27.29        42.51 

  CCDC105 MUTATED CCDC105 WILD-TYPE 
            11.31              6.94 
  CCDC105 MUTATED CCDC105 WILD-TYPE 
            37.15            121.25 
  CCDC105 MUTATED CCDC105 WILD-TYPE 
            17.31             30.77 
[1] "11.3 - 37.1 (17.3)" "6.9 - 121.2 (30.8)"
       TCGA-OR-A5JA        TCGA-OR-A5JB        TCGA-OR-A5JC        TCGA-OR-A5JF 
"CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" 
       TCGA-OR-A5JG        TCGA-OR-A5JI        TCGA-OR-A5JJ        TCGA-OR-A5JK 
"CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" 
       TCGA-OR-A5JL        TCGA-OR-A5JM        TCGA-OR-A5JO        TCGA-OR-A5JQ 
  "CCDC105 MUTATED" "CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" 
       TCGA-OR-A5JR        TCGA-OR-A5JS        TCGA-OR-A5JT        TCGA-OR-A5JV 
"CCDC105 WILD-TYPE"   "CCDC105 MUTATED" "CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" 
       TCGA-OR-A5JW        TCGA-OR-A5JX        TCGA-OR-A5JY        TCGA-OR-A5JZ 
"CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" 
       TCGA-OR-A5K0        TCGA-OR-A5K1        TCGA-OR-A5K2        TCGA-OR-A5K3 
"CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" 
       TCGA-OR-A5K4        TCGA-OR-A5K5        TCGA-OR-A5K6        TCGA-OR-A5K9 
"CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE"   "CCDC105 MUTATED"   "CCDC105 MUTATED" 
       TCGA-OR-A5LK        TCGA-OU-A5PI        TCGA-PK-A5H8        TCGA-PK-A5H9 
"CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" 
       TCGA-PK-A5HA        TCGA-PK-A5HB 
"CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" 
       TCGA-OR-A5JA        TCGA-OR-A5JB        TCGA-OR-A5JC        TCGA-OR-A5JF 
"CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" 
       TCGA-OR-A5JG        TCGA-OR-A5JI        TCGA-OR-A5JJ        TCGA-OR-A5JK 
"CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" 
       TCGA-OR-A5JL        TCGA-OR-A5JM        TCGA-OR-A5JO        TCGA-OR-A5JQ 
  "CCDC105 MUTATED" "CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" 
       TCGA-OR-A5JR        TCGA-OR-A5JS        TCGA-OR-A5JT        TCGA-OR-A5JV 
"CCDC105 WILD-TYPE"   "CCDC105 MUTATED" "CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" 
       TCGA-OR-A5JW        TCGA-OR-A5JX        TCGA-OR-A5JY        TCGA-OR-A5JZ 
"CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" 
       TCGA-OR-A5K0        TCGA-OR-A5K1        TCGA-OR-A5K2        TCGA-OR-A5K3 
"CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" 
       TCGA-OR-A5K4        TCGA-OR-A5K5        TCGA-OR-A5K6        TCGA-OR-A5K9 
"CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE"   "CCDC105 MUTATED"   "CCDC105 MUTATED" 
       TCGA-OR-A5LK        TCGA-OU-A5PI        TCGA-PK-A5H8        TCGA-PK-A5H9 
"CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" 
       TCGA-PK-A5HA        TCGA-PK-A5HB 
"CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" 
       TCGA-OR-A5JA        TCGA-OR-A5JB        TCGA-OR-A5JC        TCGA-OR-A5JF 
"CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" 
       TCGA-OR-A5JG        TCGA-OR-A5JI        TCGA-OR-A5JJ        TCGA-OR-A5JK 
"CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" 
       TCGA-OR-A5JL        TCGA-OR-A5JM        TCGA-OR-A5JO        TCGA-OR-A5JQ 
  "CCDC105 MUTATED" "CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" 
       TCGA-OR-A5JR        TCGA-OR-A5JS        TCGA-OR-A5JT        TCGA-OR-A5JV 
"CCDC105 WILD-TYPE"   "CCDC105 MUTATED" "CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" 
       TCGA-OR-A5JW        TCGA-OR-A5JX        TCGA-OR-A5JY        TCGA-OR-A5JZ 
"CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" 
       TCGA-OR-A5K0        TCGA-OR-A5K1        TCGA-OR-A5K2        TCGA-OR-A5K3 
"CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" 
       TCGA-OR-A5K4        TCGA-OR-A5K5        TCGA-OR-A5K6        TCGA-OR-A5K9 
"CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE"   "CCDC105 MUTATED"   "CCDC105 MUTATED" 
       TCGA-OR-A5LK        TCGA-OU-A5PI        TCGA-PK-A5H8        TCGA-PK-A5H9 
"CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" 
       TCGA-PK-A5HA        TCGA-PK-A5HB 
"CCDC105 WILD-TYPE" "CCDC105 WILD-TYPE" 
[1] "hr=" "1.8"
D29V2, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV
  CCDC105 MUTATED         1        3         0        0
  CCDC105 WILD-TYPE       3       10         4        8
D29V3, multiclass
           clus
vv          CCDC105 MUTATED CCDC105 WILD-TYPE
  STAGE I                 1                 3
  STAGE II                3                10
  STAGE III               0                 4
  STAGE IV                0                 8
                   vv
clus                T1 T2+T3 T4
  CCDC105 MUTATED    1     3  0
  CCDC105 WILD-TYPE  3    13  9
D29V4, multiclass
       clus
vv      CCDC105 MUTATED CCDC105 WILD-TYPE
  T1                  1                 3
  T2+T3               3                13
  T4                  0                 9
D29V5, binary
                   cls
clus                 0  1
  CCDC105 MUTATED    4  0
  CCDC105 WILD-TYPE 22  4
[1] "tbl2"
                   cls
clus                [,1] [,2]
  CCDC105 MUTATED      4    0
  CCDC105 WILD-TYPE   22    4
   clus
vv  CCDC105 MUTATED CCDC105 WILD-TYPE
  0               4                22
  1               0                 4
D29V6, binary
                   cls
clus                 0  1
  CCDC105 MUTATED    4  0
  CCDC105 WILD-TYPE 13 17
[1] "tbl2"
                   cls
clus                [,1] [,2]
  CCDC105 MUTATED      4    0
  CCDC105 WILD-TYPE   13   17
        clus
vv       CCDC105 MUTATED CCDC105 WILD-TYPE
  FEMALE               4                13
  MALE                 0                17

Clustering(30) Variable = NOL9 MUTATION ANALYSIS
D30V1, survival
                sevent
clus2             0  1
  NOL9 MUTATED    5  2
  NOL9 WILD-TYPE 21  6
  NOL9 MUTATED NOL9 WILD-TYPE 
             7             27 
  NOL9 MUTATED NOL9 WILD-TYPE 
             2              6 
$`NOL9 MUTATED`
TCGA-OR-A5JG TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-OR-A5LK 
       17.79        33.83        89.52        37.15        11.31        73.05 
TCGA-PK-A5HB 
       42.51 

$`NOL9 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JI TCGA-OR-A5JJ 
       30.31        18.12        57.53        41.39        46.82        10.16 
TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR 
       41.26        22.03        18.48        29.23        22.16       121.25 
TCGA-OR-A5JS TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY 
       12.59        16.04        50.66        63.25        31.23        18.15 
TCGA-OR-A5JZ TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OU-A5PI 
        6.94        32.68        93.44        17.36         8.32        23.31 
TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA 
      106.52        10.09        27.29 

  NOL9 MUTATED NOL9 WILD-TYPE 
         11.31           6.94 
  NOL9 MUTATED NOL9 WILD-TYPE 
         89.52         121.25 
  NOL9 MUTATED NOL9 WILD-TYPE 
         37.15          27.29 
[1] "11.3 - 89.5 (37.1)" "6.9 - 121.2 (27.3)"
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
  "NOL9 MUTATED" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
  "NOL9 MUTATED"   "NOL9 MUTATED" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE"   "NOL9 MUTATED"   "NOL9 MUTATED" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
  "NOL9 MUTATED" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"NOL9 WILD-TYPE"   "NOL9 MUTATED" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
  "NOL9 MUTATED" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
  "NOL9 MUTATED"   "NOL9 MUTATED" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE"   "NOL9 MUTATED"   "NOL9 MUTATED" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
  "NOL9 MUTATED" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"NOL9 WILD-TYPE"   "NOL9 MUTATED" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
  "NOL9 MUTATED" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
  "NOL9 MUTATED"   "NOL9 MUTATED" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"NOL9 WILD-TYPE" "NOL9 WILD-TYPE"   "NOL9 MUTATED"   "NOL9 MUTATED" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
  "NOL9 MUTATED" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" "NOL9 WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"NOL9 WILD-TYPE"   "NOL9 MUTATED" 
[1] "hr=" "1"  
D30V2, continuous
                vv
clus             STAGE I STAGE II STAGE III STAGE IV
  NOL9 MUTATED         0        5         0        1
  NOL9 WILD-TYPE       4        8         4        7
D30V3, multiclass
           clus
vv          NOL9 MUTATED NOL9 WILD-TYPE
  STAGE I              0              4
  STAGE II             5              8
  STAGE III            0              4
  STAGE IV             1              7
                vv
clus             T1 T2+T3 T4
  NOL9 MUTATED    0     5  1
  NOL9 WILD-TYPE  4    11  8
D30V4, multiclass
       clus
vv      NOL9 MUTATED NOL9 WILD-TYPE
  T1               0              4
  T2+T3            5             11
  T4               1              8
D30V5, binary
                cls
clus              0  1
  NOL9 MUTATED    5  1
  NOL9 WILD-TYPE 21  3
[1] "tbl2"
                cls
clus             [,1] [,2]
  NOL9 MUTATED      5    1
  NOL9 WILD-TYPE   21    3
   clus
vv  NOL9 MUTATED NOL9 WILD-TYPE
  0            5             21
  1            1              3
D30V6, binary
                cls
clus              0  1
  NOL9 MUTATED    3  4
  NOL9 WILD-TYPE 14 13
[1] "tbl2"
                cls
clus             [,1] [,2]
  NOL9 MUTATED      3    4
  NOL9 WILD-TYPE   14   13
        clus
vv       NOL9 MUTATED NOL9 WILD-TYPE
  FEMALE            3             14
  MALE              4             13

Clustering(31) Variable = ZNF598 MUTATION ANALYSIS
D31V1, survival
                  sevent
clus2               0  1
  ZNF598 MUTATED    6  1
  ZNF598 WILD-TYPE 20  7
  ZNF598 MUTATED ZNF598 WILD-TYPE 
               7               27 
  ZNF598 MUTATED ZNF598 WILD-TYPE 
               1                7 
$`ZNF598 MUTATED`
TCGA-OR-A5JS TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5K1 TCGA-OR-A5K9 TCGA-OR-A5LK 
       12.59        16.04        50.66        89.52        11.31        73.05 
TCGA-PK-A5HB 
       42.51 

$`ZNF598 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI 
       30.31        18.12        57.53        41.39        17.79        46.82 
TCGA-OR-A5JJ TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ 
       10.16        41.26        22.03        18.48        29.23        22.16 
TCGA-OR-A5JR TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K0 
      121.25        63.25        31.23        18.15         6.94        33.83 
TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OU-A5PI 
       32.68        93.44        17.36         8.32        37.15        23.31 
TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA 
      106.52        10.09        27.29 

  ZNF598 MUTATED ZNF598 WILD-TYPE 
           11.31             6.94 
  ZNF598 MUTATED ZNF598 WILD-TYPE 
           89.52           121.25 
  ZNF598 MUTATED ZNF598 WILD-TYPE 
           42.51            29.23 
[1] "11.3 - 89.5 (42.5)" "6.9 - 121.2 (29.2)"
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"ZNF598 WILD-TYPE"   "ZNF598 MUTATED"   "ZNF598 MUTATED"   "ZNF598 MUTATED" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
"ZNF598 WILD-TYPE"   "ZNF598 MUTATED" "ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE"   "ZNF598 MUTATED" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
  "ZNF598 MUTATED" "ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"ZNF598 WILD-TYPE"   "ZNF598 MUTATED" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"ZNF598 WILD-TYPE"   "ZNF598 MUTATED"   "ZNF598 MUTATED"   "ZNF598 MUTATED" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
"ZNF598 WILD-TYPE"   "ZNF598 MUTATED" "ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE"   "ZNF598 MUTATED" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
  "ZNF598 MUTATED" "ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"ZNF598 WILD-TYPE"   "ZNF598 MUTATED" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"ZNF598 WILD-TYPE"   "ZNF598 MUTATED"   "ZNF598 MUTATED"   "ZNF598 MUTATED" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
"ZNF598 WILD-TYPE"   "ZNF598 MUTATED" "ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE"   "ZNF598 MUTATED" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
  "ZNF598 MUTATED" "ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" "ZNF598 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"ZNF598 WILD-TYPE"   "ZNF598 MUTATED" 
[1] "hr=" "1.9"
D31V2, continuous
                  vv
clus               STAGE I STAGE II STAGE III STAGE IV
  ZNF598 MUTATED         0        6         0        0
  ZNF598 WILD-TYPE       4        7         4        8
D31V3, multiclass
           clus
vv          ZNF598 MUTATED ZNF598 WILD-TYPE
  STAGE I                0                4
  STAGE II               6                7
  STAGE III              0                4
  STAGE IV               0                8
                  vv
clus               T1 T2+T3 T4
  ZNF598 MUTATED    0     6  0
  ZNF598 WILD-TYPE  4    10  9
D31V4, multiclass
       clus
vv      ZNF598 MUTATED ZNF598 WILD-TYPE
  T1                 0                4
  T2+T3              6               10
  T4                 0                9
D31V5, binary
                  cls
clus                0  1
  ZNF598 MUTATED    6  0
  ZNF598 WILD-TYPE 20  4
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ZNF598 MUTATED      6    0
  ZNF598 WILD-TYPE   20    4
   clus
vv  ZNF598 MUTATED ZNF598 WILD-TYPE
  0              6               20
  1              0                4
D31V6, binary
                  cls
clus                0  1
  ZNF598 MUTATED    3  4
  ZNF598 WILD-TYPE 14 13
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ZNF598 MUTATED      3    4
  ZNF598 WILD-TYPE   14   13
        clus
vv       ZNF598 MUTATED ZNF598 WILD-TYPE
  FEMALE              3               14
  MALE                4               13

Clustering(32) Variable = THEM4 MUTATION ANALYSIS
D32V1, survival
                 sevent
clus2              0  1
  THEM4 MUTATED    4  2
  THEM4 WILD-TYPE 22  6
  THEM4 MUTATED THEM4 WILD-TYPE 
              6              28 
  THEM4 MUTATED THEM4 WILD-TYPE 
              2               6 
$`THEM4 MUTATED`
TCGA-OR-A5JG TCGA-OR-A5JL TCGA-OR-A5JS TCGA-OR-A5K9 TCGA-PK-A5H9 TCGA-PK-A5HB 
       17.79        22.03        12.59        11.31        10.09        42.51 

$`THEM4 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JI TCGA-OR-A5JJ 
       30.31        18.12        57.53        41.39        46.82        10.16 
TCGA-OR-A5JK TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JT 
       41.26        18.48        29.23        22.16       121.25        16.04 
TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K0 
       50.66        63.25        31.23        18.15         6.94        33.83 
TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 
       89.52        32.68        93.44        17.36         8.32        37.15 
TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5HA 
       73.05        23.31       106.52        27.29 

  THEM4 MUTATED THEM4 WILD-TYPE 
          10.09            6.94 
  THEM4 MUTATED THEM4 WILD-TYPE 
          42.51          121.25 
  THEM4 MUTATED THEM4 WILD-TYPE 
         15.190          31.955 
[1] "10.1 - 42.5 (15.2)" "6.9 - 121.2 (32.0)"
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"THEM4 WILD-TYPE" "THEM4 WILD-TYPE" "THEM4 WILD-TYPE" "THEM4 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
  "THEM4 MUTATED" "THEM4 WILD-TYPE" "THEM4 WILD-TYPE" "THEM4 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
  "THEM4 MUTATED" "THEM4 WILD-TYPE" "THEM4 WILD-TYPE" "THEM4 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"THEM4 WILD-TYPE"   "THEM4 MUTATED" "THEM4 WILD-TYPE" "THEM4 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"THEM4 WILD-TYPE" "THEM4 WILD-TYPE" "THEM4 WILD-TYPE" "THEM4 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"THEM4 WILD-TYPE" "THEM4 WILD-TYPE" "THEM4 WILD-TYPE" "THEM4 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"THEM4 WILD-TYPE" "THEM4 WILD-TYPE" "THEM4 WILD-TYPE"   "THEM4 MUTATED" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"THEM4 WILD-TYPE" "THEM4 WILD-TYPE" "THEM4 WILD-TYPE"   "THEM4 MUTATED" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"THEM4 WILD-TYPE"   "THEM4 MUTATED" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"THEM4 WILD-TYPE" "THEM4 WILD-TYPE" "THEM4 WILD-TYPE" "THEM4 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
  "THEM4 MUTATED" "THEM4 WILD-TYPE" "THEM4 WILD-TYPE" "THEM4 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
  "THEM4 MUTATED" "THEM4 WILD-TYPE" "THEM4 WILD-TYPE" "THEM4 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"THEM4 WILD-TYPE"   "THEM4 MUTATED" "THEM4 WILD-TYPE" "THEM4 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"THEM4 WILD-TYPE" "THEM4 WILD-TYPE" "THEM4 WILD-TYPE" "THEM4 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"THEM4 WILD-TYPE" "THEM4 WILD-TYPE" "THEM4 WILD-TYPE" "THEM4 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"THEM4 WILD-TYPE" "THEM4 WILD-TYPE" "THEM4 WILD-TYPE"   "THEM4 MUTATED" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"THEM4 WILD-TYPE" "THEM4 WILD-TYPE" "THEM4 WILD-TYPE"   "THEM4 MUTATED" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"THEM4 WILD-TYPE"   "THEM4 MUTATED" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"THEM4 WILD-TYPE" "THEM4 WILD-TYPE" "THEM4 WILD-TYPE" "THEM4 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
  "THEM4 MUTATED" "THEM4 WILD-TYPE" "THEM4 WILD-TYPE" "THEM4 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
  "THEM4 MUTATED" "THEM4 WILD-TYPE" "THEM4 WILD-TYPE" "THEM4 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"THEM4 WILD-TYPE"   "THEM4 MUTATED" "THEM4 WILD-TYPE" "THEM4 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"THEM4 WILD-TYPE" "THEM4 WILD-TYPE" "THEM4 WILD-TYPE" "THEM4 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"THEM4 WILD-TYPE" "THEM4 WILD-TYPE" "THEM4 WILD-TYPE" "THEM4 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"THEM4 WILD-TYPE" "THEM4 WILD-TYPE" "THEM4 WILD-TYPE"   "THEM4 MUTATED" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"THEM4 WILD-TYPE" "THEM4 WILD-TYPE" "THEM4 WILD-TYPE"   "THEM4 MUTATED" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"THEM4 WILD-TYPE"   "THEM4 MUTATED" 
[1] "hr=" "4"  
D32V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV
  THEM4 MUTATED         1        2         0        1
  THEM4 WILD-TYPE       3       11         4        7
D32V3, multiclass
           clus
vv          THEM4 MUTATED THEM4 WILD-TYPE
  STAGE I               1               3
  STAGE II              2              11
  STAGE III             0               4
  STAGE IV              1               7
                 vv
clus              T1 T2+T3 T4
  THEM4 MUTATED    1     2  1
  THEM4 WILD-TYPE  3    14  8
D32V4, multiclass
       clus
vv      THEM4 MUTATED THEM4 WILD-TYPE
  T1                1               3
  T2+T3             2              14
  T4                1               8
D32V5, binary
                 cls
clus               0  1
  THEM4 MUTATED    3  1
  THEM4 WILD-TYPE 23  3
[1] "tbl2"
                 cls
clus              [,1] [,2]
  THEM4 MUTATED      3    1
  THEM4 WILD-TYPE   23    3
   clus
vv  THEM4 MUTATED THEM4 WILD-TYPE
  0             3              23
  1             1               3
D32V6, binary
                 cls
clus               0  1
  THEM4 MUTATED    4  2
  THEM4 WILD-TYPE 13 15
[1] "tbl2"
                 cls
clus              [,1] [,2]
  THEM4 MUTATED      4    2
  THEM4 WILD-TYPE   13   15
        clus
vv       THEM4 MUTATED THEM4 WILD-TYPE
  FEMALE             4              13
  MALE               2              15

Clustering(33) Variable = LRIG1 MUTATION ANALYSIS
D33V1, survival
                 sevent
clus2              0  1
  LRIG1 MUTATED   15  1
  LRIG1 WILD-TYPE 11  7
  LRIG1 MUTATED LRIG1 WILD-TYPE 
             16              18 
  LRIG1 MUTATED LRIG1 WILD-TYPE 
              1               7 
$`LRIG1 MUTATED`
TCGA-OR-A5JF TCGA-OR-A5JI TCGA-OR-A5JJ TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO 
       41.39        46.82        10.16        22.03        18.48        29.23 
TCGA-OR-A5JS TCGA-OR-A5K0 TCGA-OR-A5K3 TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5LK 
       12.59        33.83        93.44         8.32        37.15        73.05 
TCGA-OU-A5PI TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
       23.31        10.09        27.29        42.51 

$`LRIG1 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JG TCGA-OR-A5JK TCGA-OR-A5JQ 
       30.31        18.12        57.53        17.79        41.26        22.16 
TCGA-OR-A5JR TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY 
      121.25        16.04        50.66        63.25        31.23        18.15 
TCGA-OR-A5JZ TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K4 TCGA-OR-A5K9 TCGA-PK-A5H8 
        6.94        89.52        32.68        17.36        11.31       106.52 

  LRIG1 MUTATED LRIG1 WILD-TYPE 
           8.32            6.94 
  LRIG1 MUTATED LRIG1 WILD-TYPE 
          93.44          121.25 
  LRIG1 MUTATED LRIG1 WILD-TYPE 
          28.26           30.77 
[1] "8.3 - 93.4 (28.3)"  "6.9 - 121.2 (30.8)"
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"LRIG1 WILD-TYPE" "LRIG1 WILD-TYPE" "LRIG1 WILD-TYPE"   "LRIG1 MUTATED" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"LRIG1 WILD-TYPE"   "LRIG1 MUTATED"   "LRIG1 MUTATED" "LRIG1 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
  "LRIG1 MUTATED"   "LRIG1 MUTATED"   "LRIG1 MUTATED" "LRIG1 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"LRIG1 WILD-TYPE"   "LRIG1 MUTATED" "LRIG1 WILD-TYPE" "LRIG1 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"LRIG1 WILD-TYPE" "LRIG1 WILD-TYPE" "LRIG1 WILD-TYPE" "LRIG1 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
  "LRIG1 MUTATED" "LRIG1 WILD-TYPE" "LRIG1 WILD-TYPE"   "LRIG1 MUTATED" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"LRIG1 WILD-TYPE"   "LRIG1 MUTATED"   "LRIG1 MUTATED" "LRIG1 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
  "LRIG1 MUTATED"   "LRIG1 MUTATED" "LRIG1 WILD-TYPE"   "LRIG1 MUTATED" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
  "LRIG1 MUTATED"   "LRIG1 MUTATED" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"LRIG1 WILD-TYPE" "LRIG1 WILD-TYPE" "LRIG1 WILD-TYPE"   "LRIG1 MUTATED" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"LRIG1 WILD-TYPE"   "LRIG1 MUTATED"   "LRIG1 MUTATED" "LRIG1 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
  "LRIG1 MUTATED"   "LRIG1 MUTATED"   "LRIG1 MUTATED" "LRIG1 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"LRIG1 WILD-TYPE"   "LRIG1 MUTATED" "LRIG1 WILD-TYPE" "LRIG1 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"LRIG1 WILD-TYPE" "LRIG1 WILD-TYPE" "LRIG1 WILD-TYPE" "LRIG1 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
  "LRIG1 MUTATED" "LRIG1 WILD-TYPE" "LRIG1 WILD-TYPE"   "LRIG1 MUTATED" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"LRIG1 WILD-TYPE"   "LRIG1 MUTATED"   "LRIG1 MUTATED" "LRIG1 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
  "LRIG1 MUTATED"   "LRIG1 MUTATED" "LRIG1 WILD-TYPE"   "LRIG1 MUTATED" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
  "LRIG1 MUTATED"   "LRIG1 MUTATED" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"LRIG1 WILD-TYPE" "LRIG1 WILD-TYPE" "LRIG1 WILD-TYPE"   "LRIG1 MUTATED" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"LRIG1 WILD-TYPE"   "LRIG1 MUTATED"   "LRIG1 MUTATED" "LRIG1 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
  "LRIG1 MUTATED"   "LRIG1 MUTATED"   "LRIG1 MUTATED" "LRIG1 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"LRIG1 WILD-TYPE"   "LRIG1 MUTATED" "LRIG1 WILD-TYPE" "LRIG1 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"LRIG1 WILD-TYPE" "LRIG1 WILD-TYPE" "LRIG1 WILD-TYPE" "LRIG1 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
  "LRIG1 MUTATED" "LRIG1 WILD-TYPE" "LRIG1 WILD-TYPE"   "LRIG1 MUTATED" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"LRIG1 WILD-TYPE"   "LRIG1 MUTATED"   "LRIG1 MUTATED" "LRIG1 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
  "LRIG1 MUTATED"   "LRIG1 MUTATED" "LRIG1 WILD-TYPE"   "LRIG1 MUTATED" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
  "LRIG1 MUTATED"   "LRIG1 MUTATED" 
[1] "hr=" "5.7"
D33V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV
  LRIG1 MUTATED         3        6         1        3
  LRIG1 WILD-TYPE       1        7         3        5
D33V3, multiclass
           clus
vv          LRIG1 MUTATED LRIG1 WILD-TYPE
  STAGE I               3               1
  STAGE II              6               7
  STAGE III             1               3
  STAGE IV              3               5
                 vv
clus              T1 T2+T3 T4
  LRIG1 MUTATED    3     8  2
  LRIG1 WILD-TYPE  1     8  7
D33V4, multiclass
       clus
vv      LRIG1 MUTATED LRIG1 WILD-TYPE
  T1                3               1
  T2+T3             8               8
  T4                2               7
D33V5, binary
                 cls
clus               0  1
  LRIG1 MUTATED   12  2
  LRIG1 WILD-TYPE 14  2
[1] "tbl2"
                 cls
clus              [,1] [,2]
  LRIG1 MUTATED     12    2
  LRIG1 WILD-TYPE   14    2
   clus
vv  LRIG1 MUTATED LRIG1 WILD-TYPE
  0            12              14
  1             2               2
D33V6, binary
                 cls
clus               0  1
  LRIG1 MUTATED   10  6
  LRIG1 WILD-TYPE  7 11
[1] "tbl2"
                 cls
clus              [,1] [,2]
  LRIG1 MUTATED     10    6
  LRIG1 WILD-TYPE    7   11
        clus
vv       LRIG1 MUTATED LRIG1 WILD-TYPE
  FEMALE            10               7
  MALE               6              11

Clustering(34) Variable = MUC5B MUTATION ANALYSIS
D34V1, survival
                 sevent
clus2              0  1
  MUC5B MUTATED    5  3
  MUC5B WILD-TYPE 21  5
  MUC5B MUTATED MUC5B WILD-TYPE 
              8              26 
  MUC5B MUTATED MUC5B WILD-TYPE 
              3               5 
$`MUC5B MUTATED`
TCGA-OR-A5JB TCGA-OR-A5JQ TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5K2 TCGA-OR-A5K9 
       18.12        22.16        50.66        63.25        32.68        11.31 
TCGA-PK-A5H8 TCGA-PK-A5HB 
      106.52        42.51 

$`MUC5B WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JJ 
       30.31        57.53        41.39        17.79        46.82        10.16 
TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JR TCGA-OR-A5JS 
       41.26        22.03        18.48        29.23       121.25        12.59 
TCGA-OR-A5JT TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 
       16.04        31.23        18.15         6.94        33.83        89.52 
TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5LK TCGA-OU-A5PI 
       93.44        17.36         8.32        37.15        73.05        23.31 
TCGA-PK-A5H9 TCGA-PK-A5HA 
       10.09        27.29 

  MUC5B MUTATED MUC5B WILD-TYPE 
          11.31            6.94 
  MUC5B MUTATED MUC5B WILD-TYPE 
         106.52          121.25 
  MUC5B MUTATED MUC5B WILD-TYPE 
         37.595          28.260 
[1] "11.3 - 106.5 (37.6)" "6.9 - 121.2 (28.3)" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"MUC5B WILD-TYPE"   "MUC5B MUTATED" "MUC5B WILD-TYPE" "MUC5B WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"MUC5B WILD-TYPE" "MUC5B WILD-TYPE" "MUC5B WILD-TYPE" "MUC5B WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"MUC5B WILD-TYPE" "MUC5B WILD-TYPE" "MUC5B WILD-TYPE"   "MUC5B MUTATED" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"MUC5B WILD-TYPE" "MUC5B WILD-TYPE" "MUC5B WILD-TYPE"   "MUC5B MUTATED" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
  "MUC5B MUTATED" "MUC5B WILD-TYPE" "MUC5B WILD-TYPE" "MUC5B WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"MUC5B WILD-TYPE" "MUC5B WILD-TYPE"   "MUC5B MUTATED" "MUC5B WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"MUC5B WILD-TYPE" "MUC5B WILD-TYPE" "MUC5B WILD-TYPE"   "MUC5B MUTATED" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"MUC5B WILD-TYPE" "MUC5B WILD-TYPE"   "MUC5B MUTATED" "MUC5B WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"MUC5B WILD-TYPE"   "MUC5B MUTATED" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"MUC5B WILD-TYPE"   "MUC5B MUTATED" "MUC5B WILD-TYPE" "MUC5B WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"MUC5B WILD-TYPE" "MUC5B WILD-TYPE" "MUC5B WILD-TYPE" "MUC5B WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"MUC5B WILD-TYPE" "MUC5B WILD-TYPE" "MUC5B WILD-TYPE"   "MUC5B MUTATED" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"MUC5B WILD-TYPE" "MUC5B WILD-TYPE" "MUC5B WILD-TYPE"   "MUC5B MUTATED" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
  "MUC5B MUTATED" "MUC5B WILD-TYPE" "MUC5B WILD-TYPE" "MUC5B WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"MUC5B WILD-TYPE" "MUC5B WILD-TYPE"   "MUC5B MUTATED" "MUC5B WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"MUC5B WILD-TYPE" "MUC5B WILD-TYPE" "MUC5B WILD-TYPE"   "MUC5B MUTATED" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"MUC5B WILD-TYPE" "MUC5B WILD-TYPE"   "MUC5B MUTATED" "MUC5B WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"MUC5B WILD-TYPE"   "MUC5B MUTATED" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"MUC5B WILD-TYPE"   "MUC5B MUTATED" "MUC5B WILD-TYPE" "MUC5B WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"MUC5B WILD-TYPE" "MUC5B WILD-TYPE" "MUC5B WILD-TYPE" "MUC5B WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"MUC5B WILD-TYPE" "MUC5B WILD-TYPE" "MUC5B WILD-TYPE"   "MUC5B MUTATED" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"MUC5B WILD-TYPE" "MUC5B WILD-TYPE" "MUC5B WILD-TYPE"   "MUC5B MUTATED" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
  "MUC5B MUTATED" "MUC5B WILD-TYPE" "MUC5B WILD-TYPE" "MUC5B WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"MUC5B WILD-TYPE" "MUC5B WILD-TYPE"   "MUC5B MUTATED" "MUC5B WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"MUC5B WILD-TYPE" "MUC5B WILD-TYPE" "MUC5B WILD-TYPE"   "MUC5B MUTATED" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"MUC5B WILD-TYPE" "MUC5B WILD-TYPE"   "MUC5B MUTATED" "MUC5B WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"MUC5B WILD-TYPE"   "MUC5B MUTATED" 
[1] "hr=" "1.5"
D34V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV
  MUC5B MUTATED         0        4         1        1
  MUC5B WILD-TYPE       4        9         3        7
D34V3, multiclass
           clus
vv          MUC5B MUTATED MUC5B WILD-TYPE
  STAGE I               0               4
  STAGE II              4               9
  STAGE III             1               3
  STAGE IV              1               7
                 vv
clus              T1 T2+T3 T4
  MUC5B MUTATED    0     4  2
  MUC5B WILD-TYPE  4    12  7
D34V4, multiclass
       clus
vv      MUC5B MUTATED MUC5B WILD-TYPE
  T1                0               4
  T2+T3             4              12
  T4                2               7
D34V5, binary
                 cls
clus               0  1
  MUC5B MUTATED    6  0
  MUC5B WILD-TYPE 20  4
[1] "tbl2"
                 cls
clus              [,1] [,2]
  MUC5B MUTATED      6    0
  MUC5B WILD-TYPE   20    4
   clus
vv  MUC5B MUTATED MUC5B WILD-TYPE
  0             6              20
  1             0               4
D34V6, binary
                 cls
clus               0  1
  MUC5B MUTATED    3  5
  MUC5B WILD-TYPE 14 12
[1] "tbl2"
                 cls
clus              [,1] [,2]
  MUC5B MUTATED      3    5
  MUC5B WILD-TYPE   14   12
        clus
vv       MUC5B MUTATED MUC5B WILD-TYPE
  FEMALE             3              14
  MALE               5              12

Clustering(35) Variable = AMDHD1 MUTATION ANALYSIS
D35V1, survival
                  sevent
clus2               0  1
  AMDHD1 MUTATED    8  2
  AMDHD1 WILD-TYPE 18  6
  AMDHD1 MUTATED AMDHD1 WILD-TYPE 
              10               24 
  AMDHD1 MUTATED AMDHD1 WILD-TYPE 
               2                6 
$`AMDHD1 MUTATED`
TCGA-OR-A5JB TCGA-OR-A5JF TCGA-OR-A5JJ TCGA-OR-A5JL TCGA-OR-A5JW TCGA-OR-A5K0 
       18.12        41.39        10.16        22.03        63.25        33.83 
TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-PK-A5H9 TCGA-PK-A5HB 
       37.15        11.31        10.09        42.51 

$`AMDHD1 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JC TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JK TCGA-OR-A5JM 
       30.31        57.53        17.79        46.82        41.26        18.48 
TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JS TCGA-OR-A5JT TCGA-OR-A5JV 
       29.23        22.16       121.25        12.59        16.04        50.66 
TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 
       31.23        18.15         6.94        89.52        32.68        93.44 
TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5HA 
       17.36         8.32        73.05        23.31       106.52        27.29 

  AMDHD1 MUTATED AMDHD1 WILD-TYPE 
           10.09             6.94 
  AMDHD1 MUTATED AMDHD1 WILD-TYPE 
           63.25           121.25 
  AMDHD1 MUTATED AMDHD1 WILD-TYPE 
           27.93            29.77 
[1] "10.1 - 63.2 (27.9)" "6.9 - 121.2 (29.8)"
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"AMDHD1 WILD-TYPE"   "AMDHD1 MUTATED" "AMDHD1 WILD-TYPE"   "AMDHD1 MUTATED" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"AMDHD1 WILD-TYPE" "AMDHD1 WILD-TYPE"   "AMDHD1 MUTATED" "AMDHD1 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
  "AMDHD1 MUTATED" "AMDHD1 WILD-TYPE" "AMDHD1 WILD-TYPE" "AMDHD1 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"AMDHD1 WILD-TYPE" "AMDHD1 WILD-TYPE" "AMDHD1 WILD-TYPE" "AMDHD1 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
  "AMDHD1 MUTATED" "AMDHD1 WILD-TYPE" "AMDHD1 WILD-TYPE" "AMDHD1 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
  "AMDHD1 MUTATED" "AMDHD1 WILD-TYPE" "AMDHD1 WILD-TYPE" "AMDHD1 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"AMDHD1 WILD-TYPE" "AMDHD1 WILD-TYPE"   "AMDHD1 MUTATED"   "AMDHD1 MUTATED" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"AMDHD1 WILD-TYPE" "AMDHD1 WILD-TYPE" "AMDHD1 WILD-TYPE"   "AMDHD1 MUTATED" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"AMDHD1 WILD-TYPE"   "AMDHD1 MUTATED" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"AMDHD1 WILD-TYPE"   "AMDHD1 MUTATED" "AMDHD1 WILD-TYPE"   "AMDHD1 MUTATED" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"AMDHD1 WILD-TYPE" "AMDHD1 WILD-TYPE"   "AMDHD1 MUTATED" "AMDHD1 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
  "AMDHD1 MUTATED" "AMDHD1 WILD-TYPE" "AMDHD1 WILD-TYPE" "AMDHD1 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"AMDHD1 WILD-TYPE" "AMDHD1 WILD-TYPE" "AMDHD1 WILD-TYPE" "AMDHD1 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
  "AMDHD1 MUTATED" "AMDHD1 WILD-TYPE" "AMDHD1 WILD-TYPE" "AMDHD1 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
  "AMDHD1 MUTATED" "AMDHD1 WILD-TYPE" "AMDHD1 WILD-TYPE" "AMDHD1 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"AMDHD1 WILD-TYPE" "AMDHD1 WILD-TYPE"   "AMDHD1 MUTATED"   "AMDHD1 MUTATED" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"AMDHD1 WILD-TYPE" "AMDHD1 WILD-TYPE" "AMDHD1 WILD-TYPE"   "AMDHD1 MUTATED" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"AMDHD1 WILD-TYPE"   "AMDHD1 MUTATED" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"AMDHD1 WILD-TYPE"   "AMDHD1 MUTATED" "AMDHD1 WILD-TYPE"   "AMDHD1 MUTATED" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"AMDHD1 WILD-TYPE" "AMDHD1 WILD-TYPE"   "AMDHD1 MUTATED" "AMDHD1 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
  "AMDHD1 MUTATED" "AMDHD1 WILD-TYPE" "AMDHD1 WILD-TYPE" "AMDHD1 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"AMDHD1 WILD-TYPE" "AMDHD1 WILD-TYPE" "AMDHD1 WILD-TYPE" "AMDHD1 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
  "AMDHD1 MUTATED" "AMDHD1 WILD-TYPE" "AMDHD1 WILD-TYPE" "AMDHD1 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
  "AMDHD1 MUTATED" "AMDHD1 WILD-TYPE" "AMDHD1 WILD-TYPE" "AMDHD1 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"AMDHD1 WILD-TYPE" "AMDHD1 WILD-TYPE"   "AMDHD1 MUTATED"   "AMDHD1 MUTATED" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"AMDHD1 WILD-TYPE" "AMDHD1 WILD-TYPE" "AMDHD1 WILD-TYPE"   "AMDHD1 MUTATED" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"AMDHD1 WILD-TYPE"   "AMDHD1 MUTATED" 
[1] "hr=" "1.1"
D35V2, continuous
                  vv
clus               STAGE I STAGE II STAGE III STAGE IV
  AMDHD1 MUTATED         1        5         0        2
  AMDHD1 WILD-TYPE       3        8         4        6
D35V3, multiclass
           clus
vv          AMDHD1 MUTATED AMDHD1 WILD-TYPE
  STAGE I                1                3
  STAGE II               5                8
  STAGE III              0                4
  STAGE IV               2                6
                  vv
clus               T1 T2+T3 T4
  AMDHD1 MUTATED    1     5  2
  AMDHD1 WILD-TYPE  3    11  7
D35V4, multiclass
       clus
vv      AMDHD1 MUTATED AMDHD1 WILD-TYPE
  T1                 1                3
  T2+T3              5               11
  T4                 2                7
D35V5, binary
                  cls
clus                0  1
  AMDHD1 MUTATED    7  1
  AMDHD1 WILD-TYPE 19  3
[1] "tbl2"
                  cls
clus               [,1] [,2]
  AMDHD1 MUTATED      7    1
  AMDHD1 WILD-TYPE   19    3
   clus
vv  AMDHD1 MUTATED AMDHD1 WILD-TYPE
  0              7               19
  1              1                3
D35V6, binary
                  cls
clus                0  1
  AMDHD1 MUTATED    6  4
  AMDHD1 WILD-TYPE 11 13
[1] "tbl2"
                  cls
clus               [,1] [,2]
  AMDHD1 MUTATED      6    4
  AMDHD1 WILD-TYPE   11   13
        clus
vv       AMDHD1 MUTATED AMDHD1 WILD-TYPE
  FEMALE              6               11
  MALE                4               13

Clustering(36) Variable = RNF149 MUTATION ANALYSIS
D36V1, survival
                  sevent
clus2               0  1
  RNF149 MUTATED    3  0
  RNF149 WILD-TYPE 23  8
  RNF149 MUTATED RNF149 WILD-TYPE 
               3               31 
  RNF149 MUTATED RNF149 WILD-TYPE 
               0                8 
$`RNF149 MUTATED`
TCGA-OR-A5JL TCGA-OR-A5JO TCGA-OR-A5K0 
       22.03        29.23        33.83 

$`RNF149 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI 
       30.31        18.12        57.53        41.39        17.79        46.82 
TCGA-OR-A5JJ TCGA-OR-A5JK TCGA-OR-A5JM TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JS 
       10.16        41.26        18.48        22.16       121.25        12.59 
TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ 
       16.04        50.66        63.25        31.23        18.15         6.94 
TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 
       89.52        32.68        93.44        17.36         8.32        37.15 
TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA 
       11.31        73.05        23.31       106.52        10.09        27.29 
TCGA-PK-A5HB 
       42.51 

  RNF149 MUTATED RNF149 WILD-TYPE 
           22.03             6.94 
  RNF149 MUTATED RNF149 WILD-TYPE 
           33.83           121.25 
  RNF149 MUTATED RNF149 WILD-TYPE 
           29.23            30.31 
[1] "22.0 - 33.8 (29.2)" "6.9 - 121.2 (30.3)"
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"RNF149 WILD-TYPE" "RNF149 WILD-TYPE" "RNF149 WILD-TYPE" "RNF149 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"RNF149 WILD-TYPE" "RNF149 WILD-TYPE" "RNF149 WILD-TYPE" "RNF149 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
  "RNF149 MUTATED" "RNF149 WILD-TYPE"   "RNF149 MUTATED" "RNF149 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"RNF149 WILD-TYPE" "RNF149 WILD-TYPE" "RNF149 WILD-TYPE" "RNF149 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"RNF149 WILD-TYPE" "RNF149 WILD-TYPE" "RNF149 WILD-TYPE" "RNF149 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
  "RNF149 MUTATED" "RNF149 WILD-TYPE" "RNF149 WILD-TYPE" "RNF149 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"RNF149 WILD-TYPE" "RNF149 WILD-TYPE" "RNF149 WILD-TYPE" "RNF149 WILD-TYPE" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"RNF149 WILD-TYPE" "RNF149 WILD-TYPE" "RNF149 WILD-TYPE" "RNF149 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"RNF149 WILD-TYPE" "RNF149 WILD-TYPE" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"RNF149 WILD-TYPE" "RNF149 WILD-TYPE" "RNF149 WILD-TYPE" "RNF149 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"RNF149 WILD-TYPE" "RNF149 WILD-TYPE" "RNF149 WILD-TYPE" "RNF149 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
  "RNF149 MUTATED" "RNF149 WILD-TYPE"   "RNF149 MUTATED" "RNF149 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"RNF149 WILD-TYPE" "RNF149 WILD-TYPE" "RNF149 WILD-TYPE" "RNF149 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"RNF149 WILD-TYPE" "RNF149 WILD-TYPE" "RNF149 WILD-TYPE" "RNF149 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
  "RNF149 MUTATED" "RNF149 WILD-TYPE" "RNF149 WILD-TYPE" "RNF149 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"RNF149 WILD-TYPE" "RNF149 WILD-TYPE" "RNF149 WILD-TYPE" "RNF149 WILD-TYPE" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"RNF149 WILD-TYPE" "RNF149 WILD-TYPE" "RNF149 WILD-TYPE" "RNF149 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"RNF149 WILD-TYPE" "RNF149 WILD-TYPE" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"RNF149 WILD-TYPE" "RNF149 WILD-TYPE" "RNF149 WILD-TYPE" "RNF149 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"RNF149 WILD-TYPE" "RNF149 WILD-TYPE" "RNF149 WILD-TYPE" "RNF149 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
  "RNF149 MUTATED" "RNF149 WILD-TYPE"   "RNF149 MUTATED" "RNF149 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"RNF149 WILD-TYPE" "RNF149 WILD-TYPE" "RNF149 WILD-TYPE" "RNF149 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"RNF149 WILD-TYPE" "RNF149 WILD-TYPE" "RNF149 WILD-TYPE" "RNF149 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
  "RNF149 MUTATED" "RNF149 WILD-TYPE" "RNF149 WILD-TYPE" "RNF149 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"RNF149 WILD-TYPE" "RNF149 WILD-TYPE" "RNF149 WILD-TYPE" "RNF149 WILD-TYPE" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"RNF149 WILD-TYPE" "RNF149 WILD-TYPE" "RNF149 WILD-TYPE" "RNF149 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"RNF149 WILD-TYPE" "RNF149 WILD-TYPE" 
[1] "hr="     "7.9e+07"
D36V2, continuous
                  vv
clus               STAGE I STAGE II STAGE III STAGE IV
  RNF149 MUTATED         2        1         0        0
  RNF149 WILD-TYPE       2       12         4        8
D36V3, multiclass
           clus
vv          RNF149 MUTATED RNF149 WILD-TYPE
  STAGE I                2                2
  STAGE II               1               12
  STAGE III              0                4
  STAGE IV               0                8
                  vv
clus               T1 T2+T3 T4
  RNF149 MUTATED    2     1  0
  RNF149 WILD-TYPE  2    15  9
D36V4, multiclass
       clus
vv      RNF149 MUTATED RNF149 WILD-TYPE
  T1                 2                2
  T2+T3              1               15
  T4                 0                9
D36V5, binary
                  cls
clus                0  1
  RNF149 MUTATED    3  0
  RNF149 WILD-TYPE 23  4
[1] "tbl2"
                  cls
clus               [,1] [,2]
  RNF149 MUTATED      3    0
  RNF149 WILD-TYPE   23    4
   clus
vv  RNF149 MUTATED RNF149 WILD-TYPE
  0              3               23
  1              0                4
D36V6, binary
                  cls
clus                0  1
  RNF149 MUTATED    3  0
  RNF149 WILD-TYPE 14 17
[1] "tbl2"
                  cls
clus               [,1] [,2]
  RNF149 MUTATED      3    0
  RNF149 WILD-TYPE   14   17
        clus
vv       RNF149 MUTATED RNF149 WILD-TYPE
  FEMALE              3               14
  MALE                0               17

Clustering(37) Variable = MSH3 MUTATION ANALYSIS
D37V1, survival
                sevent
clus2             0  1
  MSH3 MUTATED    1  2
  MSH3 WILD-TYPE 25  6
  MSH3 MUTATED MSH3 WILD-TYPE 
             3             31 
  MSH3 MUTATED MSH3 WILD-TYPE 
             2              6 
$`MSH3 MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JG TCGA-OR-A5JL 
       30.31        17.79        22.03 

$`MSH3 WILD-TYPE`
TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JI TCGA-OR-A5JJ TCGA-OR-A5JK 
       18.12        57.53        41.39        46.82        10.16        41.26 
TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JS TCGA-OR-A5JT 
       18.48        29.23        22.16       121.25        12.59        16.04 
TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K0 
       50.66        63.25        31.23        18.15         6.94        33.83 
TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 
       89.52        32.68        93.44        17.36         8.32        37.15 
TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA 
       11.31        73.05        23.31       106.52        10.09        27.29 
TCGA-PK-A5HB 
       42.51 

  MSH3 MUTATED MSH3 WILD-TYPE 
         17.79           6.94 
  MSH3 MUTATED MSH3 WILD-TYPE 
         30.31         121.25 
  MSH3 MUTATED MSH3 WILD-TYPE 
         22.03          31.23 
[1] "17.8 - 30.3 (22.0)" "6.9 - 121.2 (31.2)"
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
  "MSH3 MUTATED" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
  "MSH3 MUTATED" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
  "MSH3 MUTATED" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"MSH3 WILD-TYPE" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"MSH3 WILD-TYPE" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"MSH3 WILD-TYPE" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"MSH3 WILD-TYPE" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"MSH3 WILD-TYPE" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"MSH3 WILD-TYPE" "MSH3 WILD-TYPE" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
  "MSH3 MUTATED" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
  "MSH3 MUTATED" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
  "MSH3 MUTATED" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"MSH3 WILD-TYPE" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"MSH3 WILD-TYPE" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"MSH3 WILD-TYPE" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"MSH3 WILD-TYPE" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"MSH3 WILD-TYPE" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"MSH3 WILD-TYPE" "MSH3 WILD-TYPE" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
  "MSH3 MUTATED" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
  "MSH3 MUTATED" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
  "MSH3 MUTATED" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"MSH3 WILD-TYPE" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"MSH3 WILD-TYPE" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"MSH3 WILD-TYPE" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"MSH3 WILD-TYPE" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"MSH3 WILD-TYPE" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" "MSH3 WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"MSH3 WILD-TYPE" "MSH3 WILD-TYPE" 
[1] "hr=" "5.3"
D37V2, continuous
                vv
clus             STAGE I STAGE II STAGE III STAGE IV
  MSH3 MUTATED         1        0         0        2
  MSH3 WILD-TYPE       3       13         4        6
D37V3, multiclass
           clus
vv          MSH3 MUTATED MSH3 WILD-TYPE
  STAGE I              1              3
  STAGE II             0             13
  STAGE III            0              4
  STAGE IV             2              6
                vv
clus             T1 T2+T3 T4
  MSH3 MUTATED    1     0  2
  MSH3 WILD-TYPE  3    16  7
D37V4, multiclass
       clus
vv      MSH3 MUTATED MSH3 WILD-TYPE
  T1               1              3
  T2+T3            0             16
  T4               2              7
D37V5, binary
                cls
clus              0  1
  MSH3 MUTATED    2  1
  MSH3 WILD-TYPE 24  3
[1] "tbl2"
                cls
clus             [,1] [,2]
  MSH3 MUTATED      2    1
  MSH3 WILD-TYPE   24    3
   clus
vv  MSH3 MUTATED MSH3 WILD-TYPE
  0            2             24
  1            1              3
D37V6, binary
                cls
clus              0  1
  MSH3 MUTATED    2  1
  MSH3 WILD-TYPE 15 16
[1] "tbl2"
                cls
clus             [,1] [,2]
  MSH3 MUTATED      2    1
  MSH3 WILD-TYPE   15   16
        clus
vv       MSH3 MUTATED MSH3 WILD-TYPE
  FEMALE            2             15
  MALE              1             16

Clustering(38) Variable = ALPPL2 MUTATION ANALYSIS
D38V1, survival
                  sevent
clus2               0  1
  ALPPL2 MUTATED    3  0
  ALPPL2 WILD-TYPE 23  8
  ALPPL2 MUTATED ALPPL2 WILD-TYPE 
               3               31 
  ALPPL2 MUTATED ALPPL2 WILD-TYPE 
               0                8 
$`ALPPL2 MUTATED`
TCGA-OR-A5JK TCGA-OR-A5JO TCGA-OR-A5K0 
       41.26        29.23        33.83 

$`ALPPL2 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI 
       30.31        18.12        57.53        41.39        17.79        46.82 
TCGA-OR-A5JJ TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JS 
       10.16        22.03        18.48        22.16       121.25        12.59 
TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ 
       16.04        50.66        63.25        31.23        18.15         6.94 
TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 
       89.52        32.68        93.44        17.36         8.32        37.15 
TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA 
       11.31        73.05        23.31       106.52        10.09        27.29 
TCGA-PK-A5HB 
       42.51 

  ALPPL2 MUTATED ALPPL2 WILD-TYPE 
           29.23             6.94 
  ALPPL2 MUTATED ALPPL2 WILD-TYPE 
           41.26           121.25 
  ALPPL2 MUTATED ALPPL2 WILD-TYPE 
           33.83            27.29 
[1] "29.2 - 41.3 (33.8)" "6.9 - 121.2 (27.3)"
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE"   "ALPPL2 MUTATED" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE"   "ALPPL2 MUTATED" "ALPPL2 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
  "ALPPL2 MUTATED" "ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE"   "ALPPL2 MUTATED" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE"   "ALPPL2 MUTATED" "ALPPL2 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
  "ALPPL2 MUTATED" "ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE"   "ALPPL2 MUTATED" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE"   "ALPPL2 MUTATED" "ALPPL2 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
  "ALPPL2 MUTATED" "ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"ALPPL2 WILD-TYPE" "ALPPL2 WILD-TYPE" 
[1] "hr="     "8.1e+07"
D38V2, continuous
                  vv
clus               STAGE I STAGE II STAGE III STAGE IV
  ALPPL2 MUTATED         1        1         0        1
  ALPPL2 WILD-TYPE       3       12         4        7
D38V3, multiclass
           clus
vv          ALPPL2 MUTATED ALPPL2 WILD-TYPE
  STAGE I                1                3
  STAGE II               1               12
  STAGE III              0                4
  STAGE IV               1                7
                  vv
clus               T1 T2+T3 T4
  ALPPL2 MUTATED    1     1  1
  ALPPL2 WILD-TYPE  3    15  8
D38V4, multiclass
       clus
vv      ALPPL2 MUTATED ALPPL2 WILD-TYPE
  T1                 1                3
  T2+T3              1               15
  T4                 1                8
D38V5, binary
                  cls
clus                0  1
  ALPPL2 MUTATED    3  0
  ALPPL2 WILD-TYPE 23  4
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ALPPL2 MUTATED      3    0
  ALPPL2 WILD-TYPE   23    4
   clus
vv  ALPPL2 MUTATED ALPPL2 WILD-TYPE
  0              3               23
  1              0                4
D38V6, binary
                  cls
clus                0  1
  ALPPL2 MUTATED    2  1
  ALPPL2 WILD-TYPE 15 16
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ALPPL2 MUTATED      2    1
  ALPPL2 WILD-TYPE   15   16
        clus
vv       ALPPL2 MUTATED ALPPL2 WILD-TYPE
  FEMALE              2               15
  MALE                1               16

Clustering(39) Variable = SNED1 MUTATION ANALYSIS
D39V1, survival
                 sevent
clus2              0  1
  SNED1 MUTATED    2  2
  SNED1 WILD-TYPE 24  6
  SNED1 MUTATED SNED1 WILD-TYPE 
              4              30 
  SNED1 MUTATED SNED1 WILD-TYPE 
              2               6 
$`SNED1 MUTATED`
TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JY 
       41.39        17.79        46.82        18.15 

$`SNED1 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JJ TCGA-OR-A5JK TCGA-OR-A5JL 
       30.31        18.12        57.53        10.16        41.26        22.03 
TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JS TCGA-OR-A5JT 
       18.48        29.23        22.16       121.25        12.59        16.04 
TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 
       50.66        63.25        31.23         6.94        33.83        89.52 
TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5K9 
       32.68        93.44        17.36         8.32        37.15        11.31 
TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
       73.05        23.31       106.52        10.09        27.29        42.51 

  SNED1 MUTATED SNED1 WILD-TYPE 
          17.79            6.94 
  SNED1 MUTATED SNED1 WILD-TYPE 
          46.82          121.25 
  SNED1 MUTATED SNED1 WILD-TYPE 
          29.77           29.77 
[1] "17.8 - 46.8 (29.8)" "6.9 - 121.2 (29.8)"
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"SNED1 WILD-TYPE" "SNED1 WILD-TYPE" "SNED1 WILD-TYPE"   "SNED1 MUTATED" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
  "SNED1 MUTATED"   "SNED1 MUTATED" "SNED1 WILD-TYPE" "SNED1 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"SNED1 WILD-TYPE" "SNED1 WILD-TYPE" "SNED1 WILD-TYPE" "SNED1 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"SNED1 WILD-TYPE" "SNED1 WILD-TYPE" "SNED1 WILD-TYPE" "SNED1 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"SNED1 WILD-TYPE" "SNED1 WILD-TYPE"   "SNED1 MUTATED" "SNED1 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"SNED1 WILD-TYPE" "SNED1 WILD-TYPE" "SNED1 WILD-TYPE" "SNED1 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"SNED1 WILD-TYPE" "SNED1 WILD-TYPE" "SNED1 WILD-TYPE" "SNED1 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"SNED1 WILD-TYPE" "SNED1 WILD-TYPE" "SNED1 WILD-TYPE" "SNED1 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"SNED1 WILD-TYPE" "SNED1 WILD-TYPE" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"SNED1 WILD-TYPE" "SNED1 WILD-TYPE" "SNED1 WILD-TYPE"   "SNED1 MUTATED" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
  "SNED1 MUTATED"   "SNED1 MUTATED" "SNED1 WILD-TYPE" "SNED1 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"SNED1 WILD-TYPE" "SNED1 WILD-TYPE" "SNED1 WILD-TYPE" "SNED1 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"SNED1 WILD-TYPE" "SNED1 WILD-TYPE" "SNED1 WILD-TYPE" "SNED1 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"SNED1 WILD-TYPE" "SNED1 WILD-TYPE"   "SNED1 MUTATED" "SNED1 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"SNED1 WILD-TYPE" "SNED1 WILD-TYPE" "SNED1 WILD-TYPE" "SNED1 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"SNED1 WILD-TYPE" "SNED1 WILD-TYPE" "SNED1 WILD-TYPE" "SNED1 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"SNED1 WILD-TYPE" "SNED1 WILD-TYPE" "SNED1 WILD-TYPE" "SNED1 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"SNED1 WILD-TYPE" "SNED1 WILD-TYPE" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"SNED1 WILD-TYPE" "SNED1 WILD-TYPE" "SNED1 WILD-TYPE"   "SNED1 MUTATED" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
  "SNED1 MUTATED"   "SNED1 MUTATED" "SNED1 WILD-TYPE" "SNED1 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"SNED1 WILD-TYPE" "SNED1 WILD-TYPE" "SNED1 WILD-TYPE" "SNED1 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"SNED1 WILD-TYPE" "SNED1 WILD-TYPE" "SNED1 WILD-TYPE" "SNED1 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"SNED1 WILD-TYPE" "SNED1 WILD-TYPE"   "SNED1 MUTATED" "SNED1 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"SNED1 WILD-TYPE" "SNED1 WILD-TYPE" "SNED1 WILD-TYPE" "SNED1 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"SNED1 WILD-TYPE" "SNED1 WILD-TYPE" "SNED1 WILD-TYPE" "SNED1 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"SNED1 WILD-TYPE" "SNED1 WILD-TYPE" "SNED1 WILD-TYPE" "SNED1 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"SNED1 WILD-TYPE" "SNED1 WILD-TYPE" 
[1] "hr=" "2.8"
D39V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV
  SNED1 MUTATED         1        1         0        2
  SNED1 WILD-TYPE       3       12         4        6
D39V3, multiclass
           clus
vv          SNED1 MUTATED SNED1 WILD-TYPE
  STAGE I               1               3
  STAGE II              1              12
  STAGE III             0               4
  STAGE IV              2               6
                 vv
clus              T1 T2+T3 T4
  SNED1 MUTATED    1     1  2
  SNED1 WILD-TYPE  3    15  7
D39V4, multiclass
       clus
vv      SNED1 MUTATED SNED1 WILD-TYPE
  T1                1               3
  T2+T3             1              15
  T4                2               7
D39V5, binary
                 cls
clus               0  1
  SNED1 MUTATED    2  2
  SNED1 WILD-TYPE 24  2
[1] "tbl2"
                 cls
clus              [,1] [,2]
  SNED1 MUTATED      2    2
  SNED1 WILD-TYPE   24    2
   clus
vv  SNED1 MUTATED SNED1 WILD-TYPE
  0             2              24
  1             2               2
D39V6, binary
                 cls
clus               0  1
  SNED1 MUTATED    2  2
  SNED1 WILD-TYPE 15 15
[1] "tbl2"
                 cls
clus              [,1] [,2]
  SNED1 MUTATED      2    2
  SNED1 WILD-TYPE   15   15
        clus
vv       SNED1 MUTATED SNED1 WILD-TYPE
  FEMALE             2              15
  MALE               2              15

Clustering(40) Variable = OPRD1 MUTATION ANALYSIS
D40V1, survival
                 sevent
clus2              0  1
  OPRD1 MUTATED    9  2
  OPRD1 WILD-TYPE 17  6
  OPRD1 MUTATED OPRD1 WILD-TYPE 
             11              23 
  OPRD1 MUTATED OPRD1 WILD-TYPE 
              2               6 
$`OPRD1 MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JF TCGA-OR-A5JL TCGA-OR-A5JO TCGA-OR-A5JS TCGA-OR-A5JZ 
       30.31        41.39        22.03        29.23        12.59         6.94 
TCGA-OR-A5K2 TCGA-OR-A5K6 TCGA-OU-A5PI TCGA-PK-A5H9 TCGA-PK-A5HA 
       32.68        37.15        23.31        10.09        27.29 

$`OPRD1 WILD-TYPE`
TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JJ TCGA-OR-A5JK 
       18.12        57.53        17.79        46.82        10.16        41.26 
TCGA-OR-A5JM TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW 
       18.48        22.16       121.25        16.04        50.66        63.25 
TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K3 TCGA-OR-A5K4 
       31.23        18.15        33.83        89.52        93.44        17.36 
TCGA-OR-A5K5 TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-PK-A5H8 TCGA-PK-A5HB 
        8.32        11.31        73.05       106.52        42.51 

  OPRD1 MUTATED OPRD1 WILD-TYPE 
           6.94            8.32 
  OPRD1 MUTATED OPRD1 WILD-TYPE 
          41.39          121.25 
  OPRD1 MUTATED OPRD1 WILD-TYPE 
          27.29           33.83 
[1] "6.9 - 41.4 (27.3)"  "8.3 - 121.2 (33.8)"
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
  "OPRD1 MUTATED" "OPRD1 WILD-TYPE" "OPRD1 WILD-TYPE"   "OPRD1 MUTATED" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"OPRD1 WILD-TYPE" "OPRD1 WILD-TYPE" "OPRD1 WILD-TYPE" "OPRD1 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
  "OPRD1 MUTATED" "OPRD1 WILD-TYPE"   "OPRD1 MUTATED" "OPRD1 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"OPRD1 WILD-TYPE"   "OPRD1 MUTATED" "OPRD1 WILD-TYPE" "OPRD1 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"OPRD1 WILD-TYPE" "OPRD1 WILD-TYPE" "OPRD1 WILD-TYPE"   "OPRD1 MUTATED" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"OPRD1 WILD-TYPE" "OPRD1 WILD-TYPE"   "OPRD1 MUTATED" "OPRD1 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"OPRD1 WILD-TYPE" "OPRD1 WILD-TYPE"   "OPRD1 MUTATED" "OPRD1 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"OPRD1 WILD-TYPE"   "OPRD1 MUTATED" "OPRD1 WILD-TYPE"   "OPRD1 MUTATED" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
  "OPRD1 MUTATED" "OPRD1 WILD-TYPE" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
  "OPRD1 MUTATED" "OPRD1 WILD-TYPE" "OPRD1 WILD-TYPE"   "OPRD1 MUTATED" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"OPRD1 WILD-TYPE" "OPRD1 WILD-TYPE" "OPRD1 WILD-TYPE" "OPRD1 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
  "OPRD1 MUTATED" "OPRD1 WILD-TYPE"   "OPRD1 MUTATED" "OPRD1 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"OPRD1 WILD-TYPE"   "OPRD1 MUTATED" "OPRD1 WILD-TYPE" "OPRD1 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"OPRD1 WILD-TYPE" "OPRD1 WILD-TYPE" "OPRD1 WILD-TYPE"   "OPRD1 MUTATED" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"OPRD1 WILD-TYPE" "OPRD1 WILD-TYPE"   "OPRD1 MUTATED" "OPRD1 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"OPRD1 WILD-TYPE" "OPRD1 WILD-TYPE"   "OPRD1 MUTATED" "OPRD1 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"OPRD1 WILD-TYPE"   "OPRD1 MUTATED" "OPRD1 WILD-TYPE"   "OPRD1 MUTATED" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
  "OPRD1 MUTATED" "OPRD1 WILD-TYPE" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
  "OPRD1 MUTATED" "OPRD1 WILD-TYPE" "OPRD1 WILD-TYPE"   "OPRD1 MUTATED" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"OPRD1 WILD-TYPE" "OPRD1 WILD-TYPE" "OPRD1 WILD-TYPE" "OPRD1 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
  "OPRD1 MUTATED" "OPRD1 WILD-TYPE"   "OPRD1 MUTATED" "OPRD1 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"OPRD1 WILD-TYPE"   "OPRD1 MUTATED" "OPRD1 WILD-TYPE" "OPRD1 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"OPRD1 WILD-TYPE" "OPRD1 WILD-TYPE" "OPRD1 WILD-TYPE"   "OPRD1 MUTATED" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"OPRD1 WILD-TYPE" "OPRD1 WILD-TYPE"   "OPRD1 MUTATED" "OPRD1 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"OPRD1 WILD-TYPE" "OPRD1 WILD-TYPE"   "OPRD1 MUTATED" "OPRD1 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"OPRD1 WILD-TYPE"   "OPRD1 MUTATED" "OPRD1 WILD-TYPE"   "OPRD1 MUTATED" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
  "OPRD1 MUTATED" "OPRD1 WILD-TYPE" 
[1] "hr=" "1"  
D40V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV
  OPRD1 MUTATED         2        4         1        2
  OPRD1 WILD-TYPE       2        9         3        6
D40V3, multiclass
           clus
vv          OPRD1 MUTATED OPRD1 WILD-TYPE
  STAGE I               2               2
  STAGE II              4               9
  STAGE III             1               3
  STAGE IV              2               6
                 vv
clus              T1 T2+T3 T4
  OPRD1 MUTATED    2     5  2
  OPRD1 WILD-TYPE  2    11  7
D40V4, multiclass
       clus
vv      OPRD1 MUTATED OPRD1 WILD-TYPE
  T1                2               2
  T2+T3             5              11
  T4                2               7
D40V5, binary
                 cls
clus               0  1
  OPRD1 MUTATED    9  1
  OPRD1 WILD-TYPE 17  3
[1] "tbl2"
                 cls
clus              [,1] [,2]
  OPRD1 MUTATED      9    1
  OPRD1 WILD-TYPE   17    3
   clus
vv  OPRD1 MUTATED OPRD1 WILD-TYPE
  0             9              17
  1             1               3
D40V6, binary
                 cls
clus               0  1
  OPRD1 MUTATED    9  2
  OPRD1 WILD-TYPE  8 15
[1] "tbl2"
                 cls
clus              [,1] [,2]
  OPRD1 MUTATED      9    2
  OPRD1 WILD-TYPE    8   15
        clus
vv       OPRD1 MUTATED OPRD1 WILD-TYPE
  FEMALE             9               8
  MALE               2              15

Clustering(41) Variable = CCDC102A MUTATION ANALYSIS
D41V1, survival
                    sevent
clus2                 0  1
  CCDC102A MUTATED   10  1
  CCDC102A WILD-TYPE 16  7
  CCDC102A MUTATED CCDC102A WILD-TYPE 
                11                 23 
  CCDC102A MUTATED CCDC102A WILD-TYPE 
                 1                  7 
$`CCDC102A MUTATED`
TCGA-OR-A5JI TCGA-OR-A5JL TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JW TCGA-OR-A5JX 
       46.82        22.03        22.16       121.25        63.25        31.23 
TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K9 TCGA-PK-A5H9 TCGA-PK-A5HA 
       93.44        17.36        11.31        10.09        27.29 

$`CCDC102A WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JJ 
       30.31        18.12        57.53        41.39        17.79        10.16 
TCGA-OR-A5JK TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JS TCGA-OR-A5JT TCGA-OR-A5JV 
       41.26        18.48        29.23        12.59        16.04        50.66 
TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K5 
       18.15         6.94        33.83        89.52        32.68         8.32 
TCGA-OR-A5K6 TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5HB 
       37.15        73.05        23.31       106.52        42.51 

  CCDC102A MUTATED CCDC102A WILD-TYPE 
             10.09               6.94 
  CCDC102A MUTATED CCDC102A WILD-TYPE 
            121.25             106.52 
  CCDC102A MUTATED CCDC102A WILD-TYPE 
             27.29              30.31 
[1] "10.1 - 121.2 (27.3)" "6.9 - 106.5 (30.3)" 
        TCGA-OR-A5JA         TCGA-OR-A5JB         TCGA-OR-A5JC 
"CCDC102A WILD-TYPE" "CCDC102A WILD-TYPE" "CCDC102A WILD-TYPE" 
        TCGA-OR-A5JF         TCGA-OR-A5JG         TCGA-OR-A5JI 
"CCDC102A WILD-TYPE" "CCDC102A WILD-TYPE"   "CCDC102A MUTATED" 
        TCGA-OR-A5JJ         TCGA-OR-A5JK         TCGA-OR-A5JL 
"CCDC102A WILD-TYPE" "CCDC102A WILD-TYPE"   "CCDC102A MUTATED" 
        TCGA-OR-A5JM         TCGA-OR-A5JO         TCGA-OR-A5JQ 
"CCDC102A WILD-TYPE" "CCDC102A WILD-TYPE"   "CCDC102A MUTATED" 
        TCGA-OR-A5JR         TCGA-OR-A5JS         TCGA-OR-A5JT 
  "CCDC102A MUTATED" "CCDC102A WILD-TYPE" "CCDC102A WILD-TYPE" 
        TCGA-OR-A5JV         TCGA-OR-A5JW         TCGA-OR-A5JX 
"CCDC102A WILD-TYPE"   "CCDC102A MUTATED"   "CCDC102A MUTATED" 
        TCGA-OR-A5JY         TCGA-OR-A5JZ         TCGA-OR-A5K0 
"CCDC102A WILD-TYPE" "CCDC102A WILD-TYPE" "CCDC102A WILD-TYPE" 
        TCGA-OR-A5K1         TCGA-OR-A5K2         TCGA-OR-A5K3 
"CCDC102A WILD-TYPE" "CCDC102A WILD-TYPE"   "CCDC102A MUTATED" 
        TCGA-OR-A5K4         TCGA-OR-A5K5         TCGA-OR-A5K6 
  "CCDC102A MUTATED" "CCDC102A WILD-TYPE" "CCDC102A WILD-TYPE" 
        TCGA-OR-A5K9         TCGA-OR-A5LK         TCGA-OU-A5PI 
  "CCDC102A MUTATED" "CCDC102A WILD-TYPE" "CCDC102A WILD-TYPE" 
        TCGA-PK-A5H8         TCGA-PK-A5H9         TCGA-PK-A5HA 
"CCDC102A WILD-TYPE"   "CCDC102A MUTATED"   "CCDC102A MUTATED" 
        TCGA-PK-A5HB 
"CCDC102A WILD-TYPE" 
        TCGA-OR-A5JA         TCGA-OR-A5JB         TCGA-OR-A5JC 
"CCDC102A WILD-TYPE" "CCDC102A WILD-TYPE" "CCDC102A WILD-TYPE" 
        TCGA-OR-A5JF         TCGA-OR-A5JG         TCGA-OR-A5JI 
"CCDC102A WILD-TYPE" "CCDC102A WILD-TYPE"   "CCDC102A MUTATED" 
        TCGA-OR-A5JJ         TCGA-OR-A5JK         TCGA-OR-A5JL 
"CCDC102A WILD-TYPE" "CCDC102A WILD-TYPE"   "CCDC102A MUTATED" 
        TCGA-OR-A5JM         TCGA-OR-A5JO         TCGA-OR-A5JQ 
"CCDC102A WILD-TYPE" "CCDC102A WILD-TYPE"   "CCDC102A MUTATED" 
        TCGA-OR-A5JR         TCGA-OR-A5JS         TCGA-OR-A5JT 
  "CCDC102A MUTATED" "CCDC102A WILD-TYPE" "CCDC102A WILD-TYPE" 
        TCGA-OR-A5JV         TCGA-OR-A5JW         TCGA-OR-A5JX 
"CCDC102A WILD-TYPE"   "CCDC102A MUTATED"   "CCDC102A MUTATED" 
        TCGA-OR-A5JY         TCGA-OR-A5JZ         TCGA-OR-A5K0 
"CCDC102A WILD-TYPE" "CCDC102A WILD-TYPE" "CCDC102A WILD-TYPE" 
        TCGA-OR-A5K1         TCGA-OR-A5K2         TCGA-OR-A5K3 
"CCDC102A WILD-TYPE" "CCDC102A WILD-TYPE"   "CCDC102A MUTATED" 
        TCGA-OR-A5K4         TCGA-OR-A5K5         TCGA-OR-A5K6 
  "CCDC102A MUTATED" "CCDC102A WILD-TYPE" "CCDC102A WILD-TYPE" 
        TCGA-OR-A5K9         TCGA-OR-A5LK         TCGA-OU-A5PI 
  "CCDC102A MUTATED" "CCDC102A WILD-TYPE" "CCDC102A WILD-TYPE" 
        TCGA-PK-A5H8         TCGA-PK-A5H9         TCGA-PK-A5HA 
"CCDC102A WILD-TYPE"   "CCDC102A MUTATED"   "CCDC102A MUTATED" 
        TCGA-PK-A5HB 
"CCDC102A WILD-TYPE" 
        TCGA-OR-A5JA         TCGA-OR-A5JB         TCGA-OR-A5JC 
"CCDC102A WILD-TYPE" "CCDC102A WILD-TYPE" "CCDC102A WILD-TYPE" 
        TCGA-OR-A5JF         TCGA-OR-A5JG         TCGA-OR-A5JI 
"CCDC102A WILD-TYPE" "CCDC102A WILD-TYPE"   "CCDC102A MUTATED" 
        TCGA-OR-A5JJ         TCGA-OR-A5JK         TCGA-OR-A5JL 
"CCDC102A WILD-TYPE" "CCDC102A WILD-TYPE"   "CCDC102A MUTATED" 
        TCGA-OR-A5JM         TCGA-OR-A5JO         TCGA-OR-A5JQ 
"CCDC102A WILD-TYPE" "CCDC102A WILD-TYPE"   "CCDC102A MUTATED" 
        TCGA-OR-A5JR         TCGA-OR-A5JS         TCGA-OR-A5JT 
  "CCDC102A MUTATED" "CCDC102A WILD-TYPE" "CCDC102A WILD-TYPE" 
        TCGA-OR-A5JV         TCGA-OR-A5JW         TCGA-OR-A5JX 
"CCDC102A WILD-TYPE"   "CCDC102A MUTATED"   "CCDC102A MUTATED" 
        TCGA-OR-A5JY         TCGA-OR-A5JZ         TCGA-OR-A5K0 
"CCDC102A WILD-TYPE" "CCDC102A WILD-TYPE" "CCDC102A WILD-TYPE" 
        TCGA-OR-A5K1         TCGA-OR-A5K2         TCGA-OR-A5K3 
"CCDC102A WILD-TYPE" "CCDC102A WILD-TYPE"   "CCDC102A MUTATED" 
        TCGA-OR-A5K4         TCGA-OR-A5K5         TCGA-OR-A5K6 
  "CCDC102A MUTATED" "CCDC102A WILD-TYPE" "CCDC102A WILD-TYPE" 
        TCGA-OR-A5K9         TCGA-OR-A5LK         TCGA-OU-A5PI 
  "CCDC102A MUTATED" "CCDC102A WILD-TYPE" "CCDC102A WILD-TYPE" 
        TCGA-PK-A5H8         TCGA-PK-A5H9         TCGA-PK-A5HA 
"CCDC102A WILD-TYPE"   "CCDC102A MUTATED"   "CCDC102A MUTATED" 
        TCGA-PK-A5HB 
"CCDC102A WILD-TYPE" 
[1] "hr=" "3.5"
D41V2, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  CCDC102A MUTATED         3        4         2        0
  CCDC102A WILD-TYPE       1        9         2        8
D41V3, multiclass
           clus
vv          CCDC102A MUTATED CCDC102A WILD-TYPE
  STAGE I                  3                  1
  STAGE II                 4                  9
  STAGE III                2                  2
  STAGE IV                 0                  8
                    vv
clus                 T1 T2+T3 T4
  CCDC102A MUTATED    3     5  1
  CCDC102A WILD-TYPE  1    11  8
D41V4, multiclass
       clus
vv      CCDC102A MUTATED CCDC102A WILD-TYPE
  T1                   3                  1
  T2+T3                5                 11
  T4                   1                  8
D41V5, binary
                    cls
clus                  0  1
  CCDC102A MUTATED   10  0
  CCDC102A WILD-TYPE 16  4
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  CCDC102A MUTATED     10    0
  CCDC102A WILD-TYPE   16    4
   clus
vv  CCDC102A MUTATED CCDC102A WILD-TYPE
  0               10                 16
  1                0                  4
D41V6, binary
                    cls
clus                  0  1
  CCDC102A MUTATED    5  6
  CCDC102A WILD-TYPE 12 11
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  CCDC102A MUTATED      5    6
  CCDC102A WILD-TYPE   12   11
        clus
vv       CCDC102A MUTATED CCDC102A WILD-TYPE
  FEMALE                5                 12
  MALE                  6                 11

Clustering(42) Variable = KCTD3 MUTATION ANALYSIS
D42V1, survival
                 sevent
clus2              0  1
  KCTD3 MUTATED    4  0
  KCTD3 WILD-TYPE 22  8
  KCTD3 MUTATED KCTD3 WILD-TYPE 
              4              30 
  KCTD3 MUTATED KCTD3 WILD-TYPE 
              0               8 
$`KCTD3 MUTATED`
TCGA-OR-A5JJ TCGA-OR-A5JO TCGA-OR-A5JS TCGA-PK-A5HB 
       10.16        29.23        12.59        42.51 

$`KCTD3 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI 
       30.31        18.12        57.53        41.39        17.79        46.82 
TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JT 
       41.26        22.03        18.48        22.16       121.25        16.04 
TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K0 
       50.66        63.25        31.23        18.15         6.94        33.83 
TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 
       89.52        32.68        93.44        17.36         8.32        37.15 
TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA 
       11.31        73.05        23.31       106.52        10.09        27.29 

  KCTD3 MUTATED KCTD3 WILD-TYPE 
          10.16            6.94 
  KCTD3 MUTATED KCTD3 WILD-TYPE 
          42.51          121.25 
  KCTD3 MUTATED KCTD3 WILD-TYPE 
          20.91           30.77 
[1] "10.2 - 42.5 (20.9)" "6.9 - 121.2 (30.8)"
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE"   "KCTD3 MUTATED" "KCTD3 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE"   "KCTD3 MUTATED" "KCTD3 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"KCTD3 WILD-TYPE"   "KCTD3 MUTATED" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"KCTD3 WILD-TYPE"   "KCTD3 MUTATED" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE"   "KCTD3 MUTATED" "KCTD3 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE"   "KCTD3 MUTATED" "KCTD3 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"KCTD3 WILD-TYPE"   "KCTD3 MUTATED" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"KCTD3 WILD-TYPE"   "KCTD3 MUTATED" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE"   "KCTD3 MUTATED" "KCTD3 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE"   "KCTD3 MUTATED" "KCTD3 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"KCTD3 WILD-TYPE"   "KCTD3 MUTATED" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" "KCTD3 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"KCTD3 WILD-TYPE"   "KCTD3 MUTATED" 
[1] "hr="     "7.5e+07"
D42V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV
  KCTD3 MUTATED         1        1         0        1
  KCTD3 WILD-TYPE       3       12         4        7
D42V3, multiclass
           clus
vv          KCTD3 MUTATED KCTD3 WILD-TYPE
  STAGE I               1               3
  STAGE II              1              12
  STAGE III             0               4
  STAGE IV              1               7
                 vv
clus              T1 T2+T3 T4
  KCTD3 MUTATED    1     1  1
  KCTD3 WILD-TYPE  3    15  8
D42V4, multiclass
       clus
vv      KCTD3 MUTATED KCTD3 WILD-TYPE
  T1                1               3
  T2+T3             1              15
  T4                1               8
D42V5, binary
                 cls
clus               0  1
  KCTD3 MUTATED    2  1
  KCTD3 WILD-TYPE 24  3
[1] "tbl2"
                 cls
clus              [,1] [,2]
  KCTD3 MUTATED      2    1
  KCTD3 WILD-TYPE   24    3
   clus
vv  KCTD3 MUTATED KCTD3 WILD-TYPE
  0             2              24
  1             1               3
D42V6, binary
                 cls
clus               0  1
  KCTD3 MUTATED    2  2
  KCTD3 WILD-TYPE 15 15
[1] "tbl2"
                 cls
clus              [,1] [,2]
  KCTD3 MUTATED      2    2
  KCTD3 WILD-TYPE   15   15
        clus
vv       KCTD3 MUTATED KCTD3 WILD-TYPE
  FEMALE             2              15
  MALE               2              15

Clustering(43) Variable = C1ORF106 MUTATION ANALYSIS
D43V1, survival
                    sevent
clus2                 0  1
  C1ORF106 MUTATED    5  1
  C1ORF106 WILD-TYPE 21  7
  C1ORF106 MUTATED C1ORF106 WILD-TYPE 
                 6                 28 
  C1ORF106 MUTATED C1ORF106 WILD-TYPE 
                 1                  7 
$`C1ORF106 MUTATED`
TCGA-OR-A5JL TCGA-OR-A5JO TCGA-OR-A5JS TCGA-OR-A5JY TCGA-OR-A5K3 TCGA-OR-A5K6 
       22.03        29.23        12.59        18.15        93.44        37.15 

$`C1ORF106 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI 
       30.31        18.12        57.53        41.39        17.79        46.82 
TCGA-OR-A5JJ TCGA-OR-A5JK TCGA-OR-A5JM TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JT 
       10.16        41.26        18.48        22.16       121.25        16.04 
TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 
       50.66        63.25        31.23         6.94        33.83        89.52 
TCGA-OR-A5K2 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-OU-A5PI 
       32.68        17.36         8.32        11.31        73.05        23.31 
TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
      106.52        10.09        27.29        42.51 

  C1ORF106 MUTATED C1ORF106 WILD-TYPE 
             12.59               6.94 
  C1ORF106 MUTATED C1ORF106 WILD-TYPE 
             93.44             121.25 
  C1ORF106 MUTATED C1ORF106 WILD-TYPE 
             25.63              30.77 
[1] "12.6 - 93.4 (25.6)" "6.9 - 121.2 (30.8)"
        TCGA-OR-A5JA         TCGA-OR-A5JB         TCGA-OR-A5JC 
"C1ORF106 WILD-TYPE" "C1ORF106 WILD-TYPE" "C1ORF106 WILD-TYPE" 
        TCGA-OR-A5JF         TCGA-OR-A5JG         TCGA-OR-A5JI 
"C1ORF106 WILD-TYPE" "C1ORF106 WILD-TYPE" "C1ORF106 WILD-TYPE" 
        TCGA-OR-A5JJ         TCGA-OR-A5JK         TCGA-OR-A5JL 
"C1ORF106 WILD-TYPE" "C1ORF106 WILD-TYPE"   "C1ORF106 MUTATED" 
        TCGA-OR-A5JM         TCGA-OR-A5JO         TCGA-OR-A5JQ 
"C1ORF106 WILD-TYPE"   "C1ORF106 MUTATED" "C1ORF106 WILD-TYPE" 
        TCGA-OR-A5JR         TCGA-OR-A5JS         TCGA-OR-A5JT 
"C1ORF106 WILD-TYPE"   "C1ORF106 MUTATED" "C1ORF106 WILD-TYPE" 
        TCGA-OR-A5JV         TCGA-OR-A5JW         TCGA-OR-A5JX 
"C1ORF106 WILD-TYPE" "C1ORF106 WILD-TYPE" "C1ORF106 WILD-TYPE" 
        TCGA-OR-A5JY         TCGA-OR-A5JZ         TCGA-OR-A5K0 
  "C1ORF106 MUTATED" "C1ORF106 WILD-TYPE" "C1ORF106 WILD-TYPE" 
        TCGA-OR-A5K1         TCGA-OR-A5K2         TCGA-OR-A5K3 
"C1ORF106 WILD-TYPE" "C1ORF106 WILD-TYPE"   "C1ORF106 MUTATED" 
        TCGA-OR-A5K4         TCGA-OR-A5K5         TCGA-OR-A5K6 
"C1ORF106 WILD-TYPE" "C1ORF106 WILD-TYPE"   "C1ORF106 MUTATED" 
        TCGA-OR-A5K9         TCGA-OR-A5LK         TCGA-OU-A5PI 
"C1ORF106 WILD-TYPE" "C1ORF106 WILD-TYPE" "C1ORF106 WILD-TYPE" 
        TCGA-PK-A5H8         TCGA-PK-A5H9         TCGA-PK-A5HA 
"C1ORF106 WILD-TYPE" "C1ORF106 WILD-TYPE" "C1ORF106 WILD-TYPE" 
        TCGA-PK-A5HB 
"C1ORF106 WILD-TYPE" 
        TCGA-OR-A5JA         TCGA-OR-A5JB         TCGA-OR-A5JC 
"C1ORF106 WILD-TYPE" "C1ORF106 WILD-TYPE" "C1ORF106 WILD-TYPE" 
        TCGA-OR-A5JF         TCGA-OR-A5JG         TCGA-OR-A5JI 
"C1ORF106 WILD-TYPE" "C1ORF106 WILD-TYPE" "C1ORF106 WILD-TYPE" 
        TCGA-OR-A5JJ         TCGA-OR-A5JK         TCGA-OR-A5JL 
"C1ORF106 WILD-TYPE" "C1ORF106 WILD-TYPE"   "C1ORF106 MUTATED" 
        TCGA-OR-A5JM         TCGA-OR-A5JO         TCGA-OR-A5JQ 
"C1ORF106 WILD-TYPE"   "C1ORF106 MUTATED" "C1ORF106 WILD-TYPE" 
        TCGA-OR-A5JR         TCGA-OR-A5JS         TCGA-OR-A5JT 
"C1ORF106 WILD-TYPE"   "C1ORF106 MUTATED" "C1ORF106 WILD-TYPE" 
        TCGA-OR-A5JV         TCGA-OR-A5JW         TCGA-OR-A5JX 
"C1ORF106 WILD-TYPE" "C1ORF106 WILD-TYPE" "C1ORF106 WILD-TYPE" 
        TCGA-OR-A5JY         TCGA-OR-A5JZ         TCGA-OR-A5K0 
  "C1ORF106 MUTATED" "C1ORF106 WILD-TYPE" "C1ORF106 WILD-TYPE" 
        TCGA-OR-A5K1         TCGA-OR-A5K2         TCGA-OR-A5K3 
"C1ORF106 WILD-TYPE" "C1ORF106 WILD-TYPE"   "C1ORF106 MUTATED" 
        TCGA-OR-A5K4         TCGA-OR-A5K5         TCGA-OR-A5K6 
"C1ORF106 WILD-TYPE" "C1ORF106 WILD-TYPE"   "C1ORF106 MUTATED" 
        TCGA-OR-A5K9         TCGA-OR-A5LK         TCGA-OU-A5PI 
"C1ORF106 WILD-TYPE" "C1ORF106 WILD-TYPE" "C1ORF106 WILD-TYPE" 
        TCGA-PK-A5H8         TCGA-PK-A5H9         TCGA-PK-A5HA 
"C1ORF106 WILD-TYPE" "C1ORF106 WILD-TYPE" "C1ORF106 WILD-TYPE" 
        TCGA-PK-A5HB 
"C1ORF106 WILD-TYPE" 
        TCGA-OR-A5JA         TCGA-OR-A5JB         TCGA-OR-A5JC 
"C1ORF106 WILD-TYPE" "C1ORF106 WILD-TYPE" "C1ORF106 WILD-TYPE" 
        TCGA-OR-A5JF         TCGA-OR-A5JG         TCGA-OR-A5JI 
"C1ORF106 WILD-TYPE" "C1ORF106 WILD-TYPE" "C1ORF106 WILD-TYPE" 
        TCGA-OR-A5JJ         TCGA-OR-A5JK         TCGA-OR-A5JL 
"C1ORF106 WILD-TYPE" "C1ORF106 WILD-TYPE"   "C1ORF106 MUTATED" 
        TCGA-OR-A5JM         TCGA-OR-A5JO         TCGA-OR-A5JQ 
"C1ORF106 WILD-TYPE"   "C1ORF106 MUTATED" "C1ORF106 WILD-TYPE" 
        TCGA-OR-A5JR         TCGA-OR-A5JS         TCGA-OR-A5JT 
"C1ORF106 WILD-TYPE"   "C1ORF106 MUTATED" "C1ORF106 WILD-TYPE" 
        TCGA-OR-A5JV         TCGA-OR-A5JW         TCGA-OR-A5JX 
"C1ORF106 WILD-TYPE" "C1ORF106 WILD-TYPE" "C1ORF106 WILD-TYPE" 
        TCGA-OR-A5JY         TCGA-OR-A5JZ         TCGA-OR-A5K0 
  "C1ORF106 MUTATED" "C1ORF106 WILD-TYPE" "C1ORF106 WILD-TYPE" 
        TCGA-OR-A5K1         TCGA-OR-A5K2         TCGA-OR-A5K3 
"C1ORF106 WILD-TYPE" "C1ORF106 WILD-TYPE"   "C1ORF106 MUTATED" 
        TCGA-OR-A5K4         TCGA-OR-A5K5         TCGA-OR-A5K6 
"C1ORF106 WILD-TYPE" "C1ORF106 WILD-TYPE"   "C1ORF106 MUTATED" 
        TCGA-OR-A5K9         TCGA-OR-A5LK         TCGA-OU-A5PI 
"C1ORF106 WILD-TYPE" "C1ORF106 WILD-TYPE" "C1ORF106 WILD-TYPE" 
        TCGA-PK-A5H8         TCGA-PK-A5H9         TCGA-PK-A5HA 
"C1ORF106 WILD-TYPE" "C1ORF106 WILD-TYPE" "C1ORF106 WILD-TYPE" 
        TCGA-PK-A5HB 
"C1ORF106 WILD-TYPE" 
[1] "hr=" "1.4"
D43V2, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  C1ORF106 MUTATED         2        3         0        1
  C1ORF106 WILD-TYPE       2       10         4        7
D43V3, multiclass
           clus
vv          C1ORF106 MUTATED C1ORF106 WILD-TYPE
  STAGE I                  2                  2
  STAGE II                 3                 10
  STAGE III                0                  4
  STAGE IV                 1                  7
                    vv
clus                 T1 T2+T3 T4
  C1ORF106 MUTATED    2     3  1
  C1ORF106 WILD-TYPE  2    13  8
D43V4, multiclass
       clus
vv      C1ORF106 MUTATED C1ORF106 WILD-TYPE
  T1                   2                  2
  T2+T3                3                 13
  T4                   1                  8
D43V5, binary
                    cls
clus                  0  1
  C1ORF106 MUTATED    5  1
  C1ORF106 WILD-TYPE 21  3
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  C1ORF106 MUTATED      5    1
  C1ORF106 WILD-TYPE   21    3
   clus
vv  C1ORF106 MUTATED C1ORF106 WILD-TYPE
  0                5                 21
  1                1                  3
D43V6, binary
                    cls
clus                  0  1
  C1ORF106 MUTATED    5  1
  C1ORF106 WILD-TYPE 12 16
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  C1ORF106 MUTATED      5    1
  C1ORF106 WILD-TYPE   12   16
        clus
vv       C1ORF106 MUTATED C1ORF106 WILD-TYPE
  FEMALE                5                 12
  MALE                  1                 16

Clustering(44) Variable = KCNK17 MUTATION ANALYSIS
D44V1, survival
                  sevent
clus2               0  1
  KCNK17 MUTATED    8  1
  KCNK17 WILD-TYPE 18  7
  KCNK17 MUTATED KCNK17 WILD-TYPE 
               9               25 
  KCNK17 MUTATED KCNK17 WILD-TYPE 
               1                7 
$`KCNK17 MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JI TCGA-OR-A5JJ TCGA-OR-A5JW TCGA-OR-A5K0 TCGA-OR-A5K1 
       30.31        46.82        10.16        63.25        33.83        89.52 
TCGA-OR-A5K3 TCGA-OU-A5PI TCGA-PK-A5HB 
       93.44        23.31        42.51 

$`KCNK17 WILD-TYPE`
TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JK TCGA-OR-A5JL 
       18.12        57.53        41.39        17.79        41.26        22.03 
TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JS TCGA-OR-A5JT 
       18.48        29.23        22.16       121.25        12.59        16.04 
TCGA-OR-A5JV TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K2 TCGA-OR-A5K4 
       50.66        31.23        18.15         6.94        32.68        17.36 
TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-PK-A5H8 TCGA-PK-A5H9 
        8.32        37.15        11.31        73.05       106.52        10.09 
TCGA-PK-A5HA 
       27.29 

  KCNK17 MUTATED KCNK17 WILD-TYPE 
           10.16             6.94 
  KCNK17 MUTATED KCNK17 WILD-TYPE 
           93.44           121.25 
  KCNK17 MUTATED KCNK17 WILD-TYPE 
           42.51            22.16 
[1] "10.2 - 93.4 (42.5)" "6.9 - 121.2 (22.2)"
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
  "KCNK17 MUTATED" "KCNK17 WILD-TYPE" "KCNK17 WILD-TYPE" "KCNK17 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"KCNK17 WILD-TYPE"   "KCNK17 MUTATED"   "KCNK17 MUTATED" "KCNK17 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"KCNK17 WILD-TYPE" "KCNK17 WILD-TYPE" "KCNK17 WILD-TYPE" "KCNK17 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"KCNK17 WILD-TYPE" "KCNK17 WILD-TYPE" "KCNK17 WILD-TYPE" "KCNK17 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
  "KCNK17 MUTATED" "KCNK17 WILD-TYPE" "KCNK17 WILD-TYPE" "KCNK17 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
  "KCNK17 MUTATED"   "KCNK17 MUTATED" "KCNK17 WILD-TYPE"   "KCNK17 MUTATED" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"KCNK17 WILD-TYPE" "KCNK17 WILD-TYPE" "KCNK17 WILD-TYPE" "KCNK17 WILD-TYPE" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"KCNK17 WILD-TYPE"   "KCNK17 MUTATED" "KCNK17 WILD-TYPE" "KCNK17 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"KCNK17 WILD-TYPE"   "KCNK17 MUTATED" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
  "KCNK17 MUTATED" "KCNK17 WILD-TYPE" "KCNK17 WILD-TYPE" "KCNK17 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"KCNK17 WILD-TYPE"   "KCNK17 MUTATED"   "KCNK17 MUTATED" "KCNK17 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"KCNK17 WILD-TYPE" "KCNK17 WILD-TYPE" "KCNK17 WILD-TYPE" "KCNK17 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"KCNK17 WILD-TYPE" "KCNK17 WILD-TYPE" "KCNK17 WILD-TYPE" "KCNK17 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
  "KCNK17 MUTATED" "KCNK17 WILD-TYPE" "KCNK17 WILD-TYPE" "KCNK17 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
  "KCNK17 MUTATED"   "KCNK17 MUTATED" "KCNK17 WILD-TYPE"   "KCNK17 MUTATED" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"KCNK17 WILD-TYPE" "KCNK17 WILD-TYPE" "KCNK17 WILD-TYPE" "KCNK17 WILD-TYPE" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"KCNK17 WILD-TYPE"   "KCNK17 MUTATED" "KCNK17 WILD-TYPE" "KCNK17 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"KCNK17 WILD-TYPE"   "KCNK17 MUTATED" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
  "KCNK17 MUTATED" "KCNK17 WILD-TYPE" "KCNK17 WILD-TYPE" "KCNK17 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"KCNK17 WILD-TYPE"   "KCNK17 MUTATED"   "KCNK17 MUTATED" "KCNK17 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"KCNK17 WILD-TYPE" "KCNK17 WILD-TYPE" "KCNK17 WILD-TYPE" "KCNK17 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"KCNK17 WILD-TYPE" "KCNK17 WILD-TYPE" "KCNK17 WILD-TYPE" "KCNK17 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
  "KCNK17 MUTATED" "KCNK17 WILD-TYPE" "KCNK17 WILD-TYPE" "KCNK17 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
  "KCNK17 MUTATED"   "KCNK17 MUTATED" "KCNK17 WILD-TYPE"   "KCNK17 MUTATED" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"KCNK17 WILD-TYPE" "KCNK17 WILD-TYPE" "KCNK17 WILD-TYPE" "KCNK17 WILD-TYPE" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"KCNK17 WILD-TYPE"   "KCNK17 MUTATED" "KCNK17 WILD-TYPE" "KCNK17 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"KCNK17 WILD-TYPE"   "KCNK17 MUTATED" 
[1] "hr=" "3.8"
D44V2, continuous
                  vv
clus               STAGE I STAGE II STAGE III STAGE IV
  KCNK17 MUTATED         1        4         0        3
  KCNK17 WILD-TYPE       3        9         4        5
D44V3, multiclass
           clus
vv          KCNK17 MUTATED KCNK17 WILD-TYPE
  STAGE I                1                3
  STAGE II               4                9
  STAGE III              0                4
  STAGE IV               3                5
                  vv
clus               T1 T2+T3 T4
  KCNK17 MUTATED    1     5  2
  KCNK17 WILD-TYPE  3    11  7
D44V4, multiclass
       clus
vv      KCNK17 MUTATED KCNK17 WILD-TYPE
  T1                 1                3
  T2+T3              5               11
  T4                 2                7
D44V5, binary
                  cls
clus                0  1
  KCNK17 MUTATED    6  2
  KCNK17 WILD-TYPE 20  2
[1] "tbl2"
                  cls
clus               [,1] [,2]
  KCNK17 MUTATED      6    2
  KCNK17 WILD-TYPE   20    2
   clus
vv  KCNK17 MUTATED KCNK17 WILD-TYPE
  0              6               20
  1              2                2
D44V6, binary
                  cls
clus                0  1
  KCNK17 MUTATED    3  6
  KCNK17 WILD-TYPE 14 11
[1] "tbl2"
                  cls
clus               [,1] [,2]
  KCNK17 MUTATED      3    6
  KCNK17 WILD-TYPE   14   11
        clus
vv       KCNK17 MUTATED KCNK17 WILD-TYPE
  FEMALE              3               14
  MALE                6               11

Clustering(45) Variable = LACTB MUTATION ANALYSIS
D45V1, survival
                 sevent
clus2              0  1
  LACTB MUTATED    8  3
  LACTB WILD-TYPE 18  5
  LACTB MUTATED LACTB WILD-TYPE 
             11              23 
  LACTB MUTATED LACTB WILD-TYPE 
              3               5 
$`LACTB MUTATED`
TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JI TCGA-OR-A5JL TCGA-OR-A5JQ TCGA-OR-A5JS 
       18.12        57.53        46.82        22.03        22.16        12.59 
TCGA-OR-A5JT TCGA-OR-A5JW TCGA-OR-A5K1 TCGA-OR-A5K6 TCGA-OR-A5K9 
       16.04        63.25        89.52        37.15        11.31 

$`LACTB WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JJ TCGA-OR-A5JK TCGA-OR-A5JM 
       30.31        41.39        17.79        10.16        41.26        18.48 
TCGA-OR-A5JO TCGA-OR-A5JR TCGA-OR-A5JV TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ 
       29.23       121.25        50.66        31.23        18.15         6.94 
TCGA-OR-A5K0 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5LK 
       33.83        32.68        93.44        17.36         8.32        73.05 
TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
       23.31       106.52        10.09        27.29        42.51 

  LACTB MUTATED LACTB WILD-TYPE 
          11.31            6.94 
  LACTB MUTATED LACTB WILD-TYPE 
          89.52          121.25 
  LACTB MUTATED LACTB WILD-TYPE 
          22.16           30.31 
[1] "11.3 - 89.5 (22.2)" "6.9 - 121.2 (30.3)"
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"LACTB WILD-TYPE"   "LACTB MUTATED"   "LACTB MUTATED" "LACTB WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"LACTB WILD-TYPE"   "LACTB MUTATED" "LACTB WILD-TYPE" "LACTB WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
  "LACTB MUTATED" "LACTB WILD-TYPE" "LACTB WILD-TYPE"   "LACTB MUTATED" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"LACTB WILD-TYPE"   "LACTB MUTATED"   "LACTB MUTATED" "LACTB WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
  "LACTB MUTATED" "LACTB WILD-TYPE" "LACTB WILD-TYPE" "LACTB WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"LACTB WILD-TYPE"   "LACTB MUTATED" "LACTB WILD-TYPE" "LACTB WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"LACTB WILD-TYPE" "LACTB WILD-TYPE"   "LACTB MUTATED"   "LACTB MUTATED" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"LACTB WILD-TYPE" "LACTB WILD-TYPE" "LACTB WILD-TYPE" "LACTB WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"LACTB WILD-TYPE" "LACTB WILD-TYPE" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"LACTB WILD-TYPE"   "LACTB MUTATED"   "LACTB MUTATED" "LACTB WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"LACTB WILD-TYPE"   "LACTB MUTATED" "LACTB WILD-TYPE" "LACTB WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
  "LACTB MUTATED" "LACTB WILD-TYPE" "LACTB WILD-TYPE"   "LACTB MUTATED" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"LACTB WILD-TYPE"   "LACTB MUTATED"   "LACTB MUTATED" "LACTB WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
  "LACTB MUTATED" "LACTB WILD-TYPE" "LACTB WILD-TYPE" "LACTB WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"LACTB WILD-TYPE"   "LACTB MUTATED" "LACTB WILD-TYPE" "LACTB WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"LACTB WILD-TYPE" "LACTB WILD-TYPE"   "LACTB MUTATED"   "LACTB MUTATED" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"LACTB WILD-TYPE" "LACTB WILD-TYPE" "LACTB WILD-TYPE" "LACTB WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"LACTB WILD-TYPE" "LACTB WILD-TYPE" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"LACTB WILD-TYPE"   "LACTB MUTATED"   "LACTB MUTATED" "LACTB WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"LACTB WILD-TYPE"   "LACTB MUTATED" "LACTB WILD-TYPE" "LACTB WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
  "LACTB MUTATED" "LACTB WILD-TYPE" "LACTB WILD-TYPE"   "LACTB MUTATED" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"LACTB WILD-TYPE"   "LACTB MUTATED"   "LACTB MUTATED" "LACTB WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
  "LACTB MUTATED" "LACTB WILD-TYPE" "LACTB WILD-TYPE" "LACTB WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"LACTB WILD-TYPE"   "LACTB MUTATED" "LACTB WILD-TYPE" "LACTB WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"LACTB WILD-TYPE" "LACTB WILD-TYPE"   "LACTB MUTATED"   "LACTB MUTATED" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"LACTB WILD-TYPE" "LACTB WILD-TYPE" "LACTB WILD-TYPE" "LACTB WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"LACTB WILD-TYPE" "LACTB WILD-TYPE" 
[1] "hr=" "1.2"
D45V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV
  LACTB MUTATED         2        7         0        1
  LACTB WILD-TYPE       2        6         4        7
D45V3, multiclass
           clus
vv          LACTB MUTATED LACTB WILD-TYPE
  STAGE I               2               2
  STAGE II              7               6
  STAGE III             0               4
  STAGE IV              1               7
                 vv
clus              T1 T2+T3 T4
  LACTB MUTATED    2     7  1
  LACTB WILD-TYPE  2     9  8
D45V4, multiclass
       clus
vv      LACTB MUTATED LACTB WILD-TYPE
  T1                2               2
  T2+T3             7               9
  T4                1               8
D45V5, binary
                 cls
clus               0  1
  LACTB MUTATED   10  0
  LACTB WILD-TYPE 16  4
[1] "tbl2"
                 cls
clus              [,1] [,2]
  LACTB MUTATED     10    0
  LACTB WILD-TYPE   16    4
   clus
vv  LACTB MUTATED LACTB WILD-TYPE
  0            10              16
  1             0               4
D45V6, binary
                 cls
clus               0  1
  LACTB MUTATED    6  5
  LACTB WILD-TYPE 11 12
[1] "tbl2"
                 cls
clus              [,1] [,2]
  LACTB MUTATED      6    5
  LACTB WILD-TYPE   11   12
        clus
vv       LACTB MUTATED LACTB WILD-TYPE
  FEMALE             6              11
  MALE               5              12

Clustering(46) Variable = TRIOBP MUTATION ANALYSIS
D46V1, survival
                  sevent
clus2               0  1
  TRIOBP MUTATED    7  2
  TRIOBP WILD-TYPE 19  6
  TRIOBP MUTATED TRIOBP WILD-TYPE 
               9               25 
  TRIOBP MUTATED TRIOBP WILD-TYPE 
               2                6 
$`TRIOBP MUTATED`
TCGA-OR-A5JJ TCGA-OR-A5JM TCGA-OR-A5JS TCGA-OR-A5JV TCGA-OR-A5K2 TCGA-OR-A5K3 
       10.16        18.48        12.59        50.66        32.68        93.44 
TCGA-OR-A5K4 TCGA-OR-A5K6 TCGA-PK-A5HA 
       17.36        37.15        27.29 

$`TRIOBP WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI 
       30.31        18.12        57.53        41.39        17.79        46.82 
TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JT 
       41.26        22.03        29.23        22.16       121.25        16.04 
TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 
       63.25        31.23        18.15         6.94        33.83        89.52 
TCGA-OR-A5K5 TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 
        8.32        11.31        73.05        23.31       106.52        10.09 
TCGA-PK-A5HB 
       42.51 

  TRIOBP MUTATED TRIOBP WILD-TYPE 
           10.16             6.94 
  TRIOBP MUTATED TRIOBP WILD-TYPE 
           93.44           121.25 
  TRIOBP MUTATED TRIOBP WILD-TYPE 
           27.29            30.31 
[1] "10.2 - 93.4 (27.3)" "6.9 - 121.2 (30.3)"
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"TRIOBP WILD-TYPE" "TRIOBP WILD-TYPE" "TRIOBP WILD-TYPE" "TRIOBP WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"TRIOBP WILD-TYPE" "TRIOBP WILD-TYPE"   "TRIOBP MUTATED" "TRIOBP WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"TRIOBP WILD-TYPE"   "TRIOBP MUTATED" "TRIOBP WILD-TYPE" "TRIOBP WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"TRIOBP WILD-TYPE"   "TRIOBP MUTATED" "TRIOBP WILD-TYPE"   "TRIOBP MUTATED" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"TRIOBP WILD-TYPE" "TRIOBP WILD-TYPE" "TRIOBP WILD-TYPE" "TRIOBP WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
"TRIOBP WILD-TYPE" "TRIOBP WILD-TYPE"   "TRIOBP MUTATED"   "TRIOBP MUTATED" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
  "TRIOBP MUTATED" "TRIOBP WILD-TYPE"   "TRIOBP MUTATED" "TRIOBP WILD-TYPE" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"TRIOBP WILD-TYPE" "TRIOBP WILD-TYPE" "TRIOBP WILD-TYPE" "TRIOBP WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
  "TRIOBP MUTATED" "TRIOBP WILD-TYPE" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"TRIOBP WILD-TYPE" "TRIOBP WILD-TYPE" "TRIOBP WILD-TYPE" "TRIOBP WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"TRIOBP WILD-TYPE" "TRIOBP WILD-TYPE"   "TRIOBP MUTATED" "TRIOBP WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"TRIOBP WILD-TYPE"   "TRIOBP MUTATED" "TRIOBP WILD-TYPE" "TRIOBP WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"TRIOBP WILD-TYPE"   "TRIOBP MUTATED" "TRIOBP WILD-TYPE"   "TRIOBP MUTATED" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"TRIOBP WILD-TYPE" "TRIOBP WILD-TYPE" "TRIOBP WILD-TYPE" "TRIOBP WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
"TRIOBP WILD-TYPE" "TRIOBP WILD-TYPE"   "TRIOBP MUTATED"   "TRIOBP MUTATED" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
  "TRIOBP MUTATED" "TRIOBP WILD-TYPE"   "TRIOBP MUTATED" "TRIOBP WILD-TYPE" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"TRIOBP WILD-TYPE" "TRIOBP WILD-TYPE" "TRIOBP WILD-TYPE" "TRIOBP WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
  "TRIOBP MUTATED" "TRIOBP WILD-TYPE" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"TRIOBP WILD-TYPE" "TRIOBP WILD-TYPE" "TRIOBP WILD-TYPE" "TRIOBP WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"TRIOBP WILD-TYPE" "TRIOBP WILD-TYPE"   "TRIOBP MUTATED" "TRIOBP WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"TRIOBP WILD-TYPE"   "TRIOBP MUTATED" "TRIOBP WILD-TYPE" "TRIOBP WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"TRIOBP WILD-TYPE"   "TRIOBP MUTATED" "TRIOBP WILD-TYPE"   "TRIOBP MUTATED" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"TRIOBP WILD-TYPE" "TRIOBP WILD-TYPE" "TRIOBP WILD-TYPE" "TRIOBP WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
"TRIOBP WILD-TYPE" "TRIOBP WILD-TYPE"   "TRIOBP MUTATED"   "TRIOBP MUTATED" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
  "TRIOBP MUTATED" "TRIOBP WILD-TYPE"   "TRIOBP MUTATED" "TRIOBP WILD-TYPE" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"TRIOBP WILD-TYPE" "TRIOBP WILD-TYPE" "TRIOBP WILD-TYPE" "TRIOBP WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
  "TRIOBP MUTATED" "TRIOBP WILD-TYPE" 
[1] "hr=" "1.1"
D46V2, continuous
                  vv
clus               STAGE I STAGE II STAGE III STAGE IV
  TRIOBP MUTATED         0        4         2        2
  TRIOBP WILD-TYPE       4        9         2        6
D46V3, multiclass
           clus
vv          TRIOBP MUTATED TRIOBP WILD-TYPE
  STAGE I                0                4
  STAGE II               4                9
  STAGE III              2                2
  STAGE IV               2                6
                  vv
clus               T1 T2+T3 T4
  TRIOBP MUTATED    0     4  4
  TRIOBP WILD-TYPE  4    12  5
D46V4, multiclass
       clus
vv      TRIOBP MUTATED TRIOBP WILD-TYPE
  T1                 0                4
  T2+T3              4               12
  T4                 4                5
D46V5, binary
                  cls
clus                0  1
  TRIOBP MUTATED    8  1
  TRIOBP WILD-TYPE 18  3
[1] "tbl2"
                  cls
clus               [,1] [,2]
  TRIOBP MUTATED      8    1
  TRIOBP WILD-TYPE   18    3
   clus
vv  TRIOBP MUTATED TRIOBP WILD-TYPE
  0              8               18
  1              1                3
D46V6, binary
                  cls
clus                0  1
  TRIOBP MUTATED    5  4
  TRIOBP WILD-TYPE 12 13
[1] "tbl2"
                  cls
clus               [,1] [,2]
  TRIOBP MUTATED      5    4
  TRIOBP WILD-TYPE   12   13
        clus
vv       TRIOBP MUTATED TRIOBP WILD-TYPE
  FEMALE              5               12
  MALE                4               13

Clustering(47) Variable = SARM1 MUTATION ANALYSIS
D47V1, survival
                 sevent
clus2              0  1
  SARM1 MUTATED    3  2
  SARM1 WILD-TYPE 23  6
  SARM1 MUTATED SARM1 WILD-TYPE 
              5              29 
  SARM1 MUTATED SARM1 WILD-TYPE 
              2               6 
$`SARM1 MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JC TCGA-OR-A5JS TCGA-OR-A5JW TCGA-PK-A5H9 
       30.31        57.53        12.59        63.25        10.09 

$`SARM1 WILD-TYPE`
TCGA-OR-A5JB TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JJ TCGA-OR-A5JK 
       18.12        41.39        17.79        46.82        10.16        41.26 
TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JT 
       22.03        18.48        29.23        22.16       121.25        16.04 
TCGA-OR-A5JV TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 
       50.66        31.23        18.15         6.94        33.83        89.52 
TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5K9 
       32.68        93.44        17.36         8.32        37.15        11.31 
TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5HA TCGA-PK-A5HB 
       73.05        23.31       106.52        27.29        42.51 

  SARM1 MUTATED SARM1 WILD-TYPE 
          10.09            6.94 
  SARM1 MUTATED SARM1 WILD-TYPE 
          63.25          121.25 
  SARM1 MUTATED SARM1 WILD-TYPE 
          30.31           29.23 
[1] "10.1 - 63.2 (30.3)" "6.9 - 121.2 (29.2)"
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
  "SARM1 MUTATED" "SARM1 WILD-TYPE"   "SARM1 MUTATED" "SARM1 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"SARM1 WILD-TYPE" "SARM1 WILD-TYPE" "SARM1 WILD-TYPE" "SARM1 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"SARM1 WILD-TYPE" "SARM1 WILD-TYPE" "SARM1 WILD-TYPE" "SARM1 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"SARM1 WILD-TYPE"   "SARM1 MUTATED" "SARM1 WILD-TYPE" "SARM1 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
  "SARM1 MUTATED" "SARM1 WILD-TYPE" "SARM1 WILD-TYPE" "SARM1 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"SARM1 WILD-TYPE" "SARM1 WILD-TYPE" "SARM1 WILD-TYPE" "SARM1 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"SARM1 WILD-TYPE" "SARM1 WILD-TYPE" "SARM1 WILD-TYPE" "SARM1 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"SARM1 WILD-TYPE" "SARM1 WILD-TYPE" "SARM1 WILD-TYPE"   "SARM1 MUTATED" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"SARM1 WILD-TYPE" "SARM1 WILD-TYPE" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
  "SARM1 MUTATED" "SARM1 WILD-TYPE"   "SARM1 MUTATED" "SARM1 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"SARM1 WILD-TYPE" "SARM1 WILD-TYPE" "SARM1 WILD-TYPE" "SARM1 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"SARM1 WILD-TYPE" "SARM1 WILD-TYPE" "SARM1 WILD-TYPE" "SARM1 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"SARM1 WILD-TYPE"   "SARM1 MUTATED" "SARM1 WILD-TYPE" "SARM1 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
  "SARM1 MUTATED" "SARM1 WILD-TYPE" "SARM1 WILD-TYPE" "SARM1 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"SARM1 WILD-TYPE" "SARM1 WILD-TYPE" "SARM1 WILD-TYPE" "SARM1 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"SARM1 WILD-TYPE" "SARM1 WILD-TYPE" "SARM1 WILD-TYPE" "SARM1 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"SARM1 WILD-TYPE" "SARM1 WILD-TYPE" "SARM1 WILD-TYPE"   "SARM1 MUTATED" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"SARM1 WILD-TYPE" "SARM1 WILD-TYPE" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
  "SARM1 MUTATED" "SARM1 WILD-TYPE"   "SARM1 MUTATED" "SARM1 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"SARM1 WILD-TYPE" "SARM1 WILD-TYPE" "SARM1 WILD-TYPE" "SARM1 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"SARM1 WILD-TYPE" "SARM1 WILD-TYPE" "SARM1 WILD-TYPE" "SARM1 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"SARM1 WILD-TYPE"   "SARM1 MUTATED" "SARM1 WILD-TYPE" "SARM1 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
  "SARM1 MUTATED" "SARM1 WILD-TYPE" "SARM1 WILD-TYPE" "SARM1 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"SARM1 WILD-TYPE" "SARM1 WILD-TYPE" "SARM1 WILD-TYPE" "SARM1 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"SARM1 WILD-TYPE" "SARM1 WILD-TYPE" "SARM1 WILD-TYPE" "SARM1 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"SARM1 WILD-TYPE" "SARM1 WILD-TYPE" "SARM1 WILD-TYPE"   "SARM1 MUTATED" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"SARM1 WILD-TYPE" "SARM1 WILD-TYPE" 
[1] "hr=" "1.9"
D47V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV
  SARM1 MUTATED         0        2         0        1
  SARM1 WILD-TYPE       4       11         4        7
D47V3, multiclass
           clus
vv          SARM1 MUTATED SARM1 WILD-TYPE
  STAGE I               0               4
  STAGE II              2              11
  STAGE III             0               4
  STAGE IV              1               7
                 vv
clus              T1 T2+T3 T4
  SARM1 MUTATED    0     2  1
  SARM1 WILD-TYPE  4    14  8
D47V4, multiclass
       clus
vv      SARM1 MUTATED SARM1 WILD-TYPE
  T1                0               4
  T2+T3             2              14
  T4                1               8
D47V5, binary
                 cls
clus               0  1
  SARM1 MUTATED    3  0
  SARM1 WILD-TYPE 23  4
[1] "tbl2"
                 cls
clus              [,1] [,2]
  SARM1 MUTATED      3    0
  SARM1 WILD-TYPE   23    4
   clus
vv  SARM1 MUTATED SARM1 WILD-TYPE
  0             3              23
  1             0               4
D47V6, binary
                 cls
clus               0  1
  SARM1 MUTATED    3  2
  SARM1 WILD-TYPE 14 15
[1] "tbl2"
                 cls
clus              [,1] [,2]
  SARM1 MUTATED      3    2
  SARM1 WILD-TYPE   14   15
        clus
vv       SARM1 MUTATED SARM1 WILD-TYPE
  FEMALE             3              14
  MALE               2              15

Clustering(48) Variable = ERCC2 MUTATION ANALYSIS
D48V1, survival
                 sevent
clus2              0  1
  ERCC2 MUTATED    7  4
  ERCC2 WILD-TYPE 19  4
  ERCC2 MUTATED ERCC2 WILD-TYPE 
             11              23 
  ERCC2 MUTATED ERCC2 WILD-TYPE 
              4               4 
$`ERCC2 MUTATED`
TCGA-OR-A5JG TCGA-OR-A5JM TCGA-OR-A5JR TCGA-OR-A5JS TCGA-OR-A5JW TCGA-OR-A5K2 
       17.79        18.48       121.25        12.59        63.25        32.68 
TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-OU-A5PI TCGA-PK-A5HA 
        8.32        37.15        11.31        23.31        27.29 

$`ERCC2 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JI TCGA-OR-A5JJ 
       30.31        18.12        57.53        41.39        46.82        10.16 
TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JT TCGA-OR-A5JV 
       41.26        22.03        29.23        22.16        16.04        50.66 
TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K3 
       31.23        18.15         6.94        33.83        89.52        93.44 
TCGA-OR-A5K4 TCGA-OR-A5LK TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HB 
       17.36        73.05       106.52        10.09        42.51 

  ERCC2 MUTATED ERCC2 WILD-TYPE 
           8.32            6.94 
  ERCC2 MUTATED ERCC2 WILD-TYPE 
         121.25          106.52 
  ERCC2 MUTATED ERCC2 WILD-TYPE 
          23.31           31.23 
[1] "8.3 - 121.2 (23.3)" "6.9 - 106.5 (31.2)"
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"ERCC2 WILD-TYPE" "ERCC2 WILD-TYPE" "ERCC2 WILD-TYPE" "ERCC2 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
  "ERCC2 MUTATED" "ERCC2 WILD-TYPE" "ERCC2 WILD-TYPE" "ERCC2 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"ERCC2 WILD-TYPE"   "ERCC2 MUTATED" "ERCC2 WILD-TYPE" "ERCC2 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
  "ERCC2 MUTATED"   "ERCC2 MUTATED" "ERCC2 WILD-TYPE" "ERCC2 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
  "ERCC2 MUTATED" "ERCC2 WILD-TYPE" "ERCC2 WILD-TYPE" "ERCC2 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"ERCC2 WILD-TYPE" "ERCC2 WILD-TYPE"   "ERCC2 MUTATED" "ERCC2 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"ERCC2 WILD-TYPE"   "ERCC2 MUTATED"   "ERCC2 MUTATED"   "ERCC2 MUTATED" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"ERCC2 WILD-TYPE"   "ERCC2 MUTATED" "ERCC2 WILD-TYPE" "ERCC2 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
  "ERCC2 MUTATED" "ERCC2 WILD-TYPE" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"ERCC2 WILD-TYPE" "ERCC2 WILD-TYPE" "ERCC2 WILD-TYPE" "ERCC2 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
  "ERCC2 MUTATED" "ERCC2 WILD-TYPE" "ERCC2 WILD-TYPE" "ERCC2 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"ERCC2 WILD-TYPE"   "ERCC2 MUTATED" "ERCC2 WILD-TYPE" "ERCC2 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
  "ERCC2 MUTATED"   "ERCC2 MUTATED" "ERCC2 WILD-TYPE" "ERCC2 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
  "ERCC2 MUTATED" "ERCC2 WILD-TYPE" "ERCC2 WILD-TYPE" "ERCC2 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"ERCC2 WILD-TYPE" "ERCC2 WILD-TYPE"   "ERCC2 MUTATED" "ERCC2 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"ERCC2 WILD-TYPE"   "ERCC2 MUTATED"   "ERCC2 MUTATED"   "ERCC2 MUTATED" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"ERCC2 WILD-TYPE"   "ERCC2 MUTATED" "ERCC2 WILD-TYPE" "ERCC2 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
  "ERCC2 MUTATED" "ERCC2 WILD-TYPE" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"ERCC2 WILD-TYPE" "ERCC2 WILD-TYPE" "ERCC2 WILD-TYPE" "ERCC2 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
  "ERCC2 MUTATED" "ERCC2 WILD-TYPE" "ERCC2 WILD-TYPE" "ERCC2 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"ERCC2 WILD-TYPE"   "ERCC2 MUTATED" "ERCC2 WILD-TYPE" "ERCC2 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
  "ERCC2 MUTATED"   "ERCC2 MUTATED" "ERCC2 WILD-TYPE" "ERCC2 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
  "ERCC2 MUTATED" "ERCC2 WILD-TYPE" "ERCC2 WILD-TYPE" "ERCC2 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"ERCC2 WILD-TYPE" "ERCC2 WILD-TYPE"   "ERCC2 MUTATED" "ERCC2 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"ERCC2 WILD-TYPE"   "ERCC2 MUTATED"   "ERCC2 MUTATED"   "ERCC2 MUTATED" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"ERCC2 WILD-TYPE"   "ERCC2 MUTATED" "ERCC2 WILD-TYPE" "ERCC2 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
  "ERCC2 MUTATED" "ERCC2 WILD-TYPE" 
[1] "hr=" "2.5"
D48V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV
  ERCC2 MUTATED         1        4         2        3
  ERCC2 WILD-TYPE       3        9         2        5
D48V3, multiclass
           clus
vv          ERCC2 MUTATED ERCC2 WILD-TYPE
  STAGE I               1               3
  STAGE II              4               9
  STAGE III             2               2
  STAGE IV              3               5
                 vv
clus              T1 T2+T3 T4
  ERCC2 MUTATED    1     6  3
  ERCC2 WILD-TYPE  3    10  6
D48V4, multiclass
       clus
vv      ERCC2 MUTATED ERCC2 WILD-TYPE
  T1                1               3
  T2+T3             6              10
  T4                3               6
D48V5, binary
                 cls
clus               0  1
  ERCC2 MUTATED    9  2
  ERCC2 WILD-TYPE 17  2
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ERCC2 MUTATED      9    2
  ERCC2 WILD-TYPE   17    2
   clus
vv  ERCC2 MUTATED ERCC2 WILD-TYPE
  0             9              17
  1             2               2
D48V6, binary
                 cls
clus               0  1
  ERCC2 MUTATED    7  4
  ERCC2 WILD-TYPE 10 13
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ERCC2 MUTATED      7    4
  ERCC2 WILD-TYPE   10   13
        clus
vv       ERCC2 MUTATED ERCC2 WILD-TYPE
  FEMALE             7              10
  MALE               4              13

Clustering(49) Variable = NEFH MUTATION ANALYSIS
D49V1, survival
                sevent
clus2             0  1
  NEFH MUTATED    3  1
  NEFH WILD-TYPE 23  7
  NEFH MUTATED NEFH WILD-TYPE 
             4             30 
  NEFH MUTATED NEFH WILD-TYPE 
             1              7 
$`NEFH MUTATED`
TCGA-OR-A5JJ TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OU-A5PI 
       10.16        89.52        32.68        23.31 

$`NEFH WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI 
       30.31        18.12        57.53        41.39        17.79        46.82 
TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR 
       41.26        22.03        18.48        29.23        22.16       121.25 
TCGA-OR-A5JS TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY 
       12.59        16.04        50.66        63.25        31.23        18.15 
TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 
        6.94        33.83        93.44        17.36         8.32        37.15 
TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
       11.31        73.05       106.52        10.09        27.29        42.51 

  NEFH MUTATED NEFH WILD-TYPE 
         10.16           6.94 
  NEFH MUTATED NEFH WILD-TYPE 
         89.52         121.25 
  NEFH MUTATED NEFH WILD-TYPE 
        27.995         29.770 
[1] "10.2 - 89.5 (28.0)" "6.9 - 121.2 (29.8)"
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"NEFH WILD-TYPE" "NEFH WILD-TYPE"   "NEFH MUTATED" "NEFH WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"NEFH WILD-TYPE"   "NEFH MUTATED"   "NEFH MUTATED" "NEFH WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"NEFH WILD-TYPE"   "NEFH MUTATED" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"NEFH WILD-TYPE" "NEFH WILD-TYPE"   "NEFH MUTATED" "NEFH WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"NEFH WILD-TYPE"   "NEFH MUTATED"   "NEFH MUTATED" "NEFH WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"NEFH WILD-TYPE"   "NEFH MUTATED" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"NEFH WILD-TYPE" "NEFH WILD-TYPE"   "NEFH MUTATED" "NEFH WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"NEFH WILD-TYPE"   "NEFH MUTATED"   "NEFH MUTATED" "NEFH WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"NEFH WILD-TYPE"   "NEFH MUTATED" "NEFH WILD-TYPE" "NEFH WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"NEFH WILD-TYPE" "NEFH WILD-TYPE" 
[1] "hr=" "1"  
D49V2, continuous
                vv
clus             STAGE I STAGE II STAGE III STAGE IV
  NEFH MUTATED         0        1         1        2
  NEFH WILD-TYPE       4       12         3        6
D49V3, multiclass
           clus
vv          NEFH MUTATED NEFH WILD-TYPE
  STAGE I              0              4
  STAGE II             1             12
  STAGE III            1              3
  STAGE IV             2              6
                vv
clus             T1 T2+T3 T4
  NEFH MUTATED    0     2  2
  NEFH WILD-TYPE  4    14  7
D49V4, multiclass
       clus
vv      NEFH MUTATED NEFH WILD-TYPE
  T1               0              4
  T2+T3            2             14
  T4               2              7
D49V5, binary
                cls
clus              0  1
  NEFH MUTATED    2  2
  NEFH WILD-TYPE 24  2
[1] "tbl2"
                cls
clus             [,1] [,2]
  NEFH MUTATED      2    2
  NEFH WILD-TYPE   24    2
   clus
vv  NEFH MUTATED NEFH WILD-TYPE
  0            2             24
  1            2              2
D49V6, binary
                cls
clus              0  1
  NEFH MUTATED    2  2
  NEFH WILD-TYPE 15 15
[1] "tbl2"
                cls
clus             [,1] [,2]
  NEFH MUTATED      2    2
  NEFH WILD-TYPE   15   15
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  FEMALE            2             15
  MALE              2             15

Clustering(50) Variable = KBTBD13 MUTATION ANALYSIS
D50V1, survival
                   sevent
clus2                0  1
  KBTBD13 MUTATED    7  1
  KBTBD13 WILD-TYPE 19  7
  KBTBD13 MUTATED KBTBD13 WILD-TYPE 
                8                26 
  KBTBD13 MUTATED KBTBD13 WILD-TYPE 
                1                 7 
$`KBTBD13 MUTATED`
TCGA-OR-A5JL TCGA-OR-A5JS TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K1 TCGA-OR-A5K3 
       22.03        12.59        18.15         6.94        89.52        93.44 
TCGA-OR-A5K6 TCGA-OU-A5PI 
       37.15        23.31 

$`KBTBD13 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI 
       30.31        18.12        57.53        41.39        17.79        46.82 
TCGA-OR-A5JJ TCGA-OR-A5JK TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR 
       10.16        41.26        18.48        29.23        22.16       121.25 
TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5K0 TCGA-OR-A5K2 
       16.04        50.66        63.25        31.23        33.83        32.68 
TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-PK-A5H8 TCGA-PK-A5H9 
       17.36         8.32        11.31        73.05       106.52        10.09 
TCGA-PK-A5HA TCGA-PK-A5HB 
       27.29        42.51 

  KBTBD13 MUTATED KBTBD13 WILD-TYPE 
             6.94              8.32 
  KBTBD13 MUTATED KBTBD13 WILD-TYPE 
            93.44            121.25 
  KBTBD13 MUTATED KBTBD13 WILD-TYPE 
            22.67             30.77 
[1] "6.9 - 93.4 (22.7)"  "8.3 - 121.2 (30.8)"
       TCGA-OR-A5JA        TCGA-OR-A5JB        TCGA-OR-A5JC        TCGA-OR-A5JF 
"KBTBD13 WILD-TYPE" "KBTBD13 WILD-TYPE" "KBTBD13 WILD-TYPE" "KBTBD13 WILD-TYPE" 
       TCGA-OR-A5JG        TCGA-OR-A5JI        TCGA-OR-A5JJ        TCGA-OR-A5JK 
"KBTBD13 WILD-TYPE" "KBTBD13 WILD-TYPE" "KBTBD13 WILD-TYPE" "KBTBD13 WILD-TYPE" 
       TCGA-OR-A5JL        TCGA-OR-A5JM        TCGA-OR-A5JO        TCGA-OR-A5JQ 
  "KBTBD13 MUTATED" "KBTBD13 WILD-TYPE" "KBTBD13 WILD-TYPE" "KBTBD13 WILD-TYPE" 
       TCGA-OR-A5JR        TCGA-OR-A5JS        TCGA-OR-A5JT        TCGA-OR-A5JV 
"KBTBD13 WILD-TYPE"   "KBTBD13 MUTATED" "KBTBD13 WILD-TYPE" "KBTBD13 WILD-TYPE" 
       TCGA-OR-A5JW        TCGA-OR-A5JX        TCGA-OR-A5JY        TCGA-OR-A5JZ 
"KBTBD13 WILD-TYPE" "KBTBD13 WILD-TYPE"   "KBTBD13 MUTATED"   "KBTBD13 MUTATED" 
       TCGA-OR-A5K0        TCGA-OR-A5K1        TCGA-OR-A5K2        TCGA-OR-A5K3 
"KBTBD13 WILD-TYPE"   "KBTBD13 MUTATED" "KBTBD13 WILD-TYPE"   "KBTBD13 MUTATED" 
       TCGA-OR-A5K4        TCGA-OR-A5K5        TCGA-OR-A5K6        TCGA-OR-A5K9 
"KBTBD13 WILD-TYPE" "KBTBD13 WILD-TYPE"   "KBTBD13 MUTATED" "KBTBD13 WILD-TYPE" 
       TCGA-OR-A5LK        TCGA-OU-A5PI        TCGA-PK-A5H8        TCGA-PK-A5H9 
"KBTBD13 WILD-TYPE"   "KBTBD13 MUTATED" "KBTBD13 WILD-TYPE" "KBTBD13 WILD-TYPE" 
       TCGA-PK-A5HA        TCGA-PK-A5HB 
"KBTBD13 WILD-TYPE" "KBTBD13 WILD-TYPE" 
       TCGA-OR-A5JA        TCGA-OR-A5JB        TCGA-OR-A5JC        TCGA-OR-A5JF 
"KBTBD13 WILD-TYPE" "KBTBD13 WILD-TYPE" "KBTBD13 WILD-TYPE" "KBTBD13 WILD-TYPE" 
       TCGA-OR-A5JG        TCGA-OR-A5JI        TCGA-OR-A5JJ        TCGA-OR-A5JK 
"KBTBD13 WILD-TYPE" "KBTBD13 WILD-TYPE" "KBTBD13 WILD-TYPE" "KBTBD13 WILD-TYPE" 
       TCGA-OR-A5JL        TCGA-OR-A5JM        TCGA-OR-A5JO        TCGA-OR-A5JQ 
  "KBTBD13 MUTATED" "KBTBD13 WILD-TYPE" "KBTBD13 WILD-TYPE" "KBTBD13 WILD-TYPE" 
       TCGA-OR-A5JR        TCGA-OR-A5JS        TCGA-OR-A5JT        TCGA-OR-A5JV 
"KBTBD13 WILD-TYPE"   "KBTBD13 MUTATED" "KBTBD13 WILD-TYPE" "KBTBD13 WILD-TYPE" 
       TCGA-OR-A5JW        TCGA-OR-A5JX        TCGA-OR-A5JY        TCGA-OR-A5JZ 
"KBTBD13 WILD-TYPE" "KBTBD13 WILD-TYPE"   "KBTBD13 MUTATED"   "KBTBD13 MUTATED" 
       TCGA-OR-A5K0        TCGA-OR-A5K1        TCGA-OR-A5K2        TCGA-OR-A5K3 
"KBTBD13 WILD-TYPE"   "KBTBD13 MUTATED" "KBTBD13 WILD-TYPE"   "KBTBD13 MUTATED" 
       TCGA-OR-A5K4        TCGA-OR-A5K5        TCGA-OR-A5K6        TCGA-OR-A5K9 
"KBTBD13 WILD-TYPE" "KBTBD13 WILD-TYPE"   "KBTBD13 MUTATED" "KBTBD13 WILD-TYPE" 
       TCGA-OR-A5LK        TCGA-OU-A5PI        TCGA-PK-A5H8        TCGA-PK-A5H9 
"KBTBD13 WILD-TYPE"   "KBTBD13 MUTATED" "KBTBD13 WILD-TYPE" "KBTBD13 WILD-TYPE" 
       TCGA-PK-A5HA        TCGA-PK-A5HB 
"KBTBD13 WILD-TYPE" "KBTBD13 WILD-TYPE" 
       TCGA-OR-A5JA        TCGA-OR-A5JB        TCGA-OR-A5JC        TCGA-OR-A5JF 
"KBTBD13 WILD-TYPE" "KBTBD13 WILD-TYPE" "KBTBD13 WILD-TYPE" "KBTBD13 WILD-TYPE" 
       TCGA-OR-A5JG        TCGA-OR-A5JI        TCGA-OR-A5JJ        TCGA-OR-A5JK 
"KBTBD13 WILD-TYPE" "KBTBD13 WILD-TYPE" "KBTBD13 WILD-TYPE" "KBTBD13 WILD-TYPE" 
       TCGA-OR-A5JL        TCGA-OR-A5JM        TCGA-OR-A5JO        TCGA-OR-A5JQ 
  "KBTBD13 MUTATED" "KBTBD13 WILD-TYPE" "KBTBD13 WILD-TYPE" "KBTBD13 WILD-TYPE" 
       TCGA-OR-A5JR        TCGA-OR-A5JS        TCGA-OR-A5JT        TCGA-OR-A5JV 
"KBTBD13 WILD-TYPE"   "KBTBD13 MUTATED" "KBTBD13 WILD-TYPE" "KBTBD13 WILD-TYPE" 
       TCGA-OR-A5JW        TCGA-OR-A5JX        TCGA-OR-A5JY        TCGA-OR-A5JZ 
"KBTBD13 WILD-TYPE" "KBTBD13 WILD-TYPE"   "KBTBD13 MUTATED"   "KBTBD13 MUTATED" 
       TCGA-OR-A5K0        TCGA-OR-A5K1        TCGA-OR-A5K2        TCGA-OR-A5K3 
"KBTBD13 WILD-TYPE"   "KBTBD13 MUTATED" "KBTBD13 WILD-TYPE"   "KBTBD13 MUTATED" 
       TCGA-OR-A5K4        TCGA-OR-A5K5        TCGA-OR-A5K6        TCGA-OR-A5K9 
"KBTBD13 WILD-TYPE" "KBTBD13 WILD-TYPE"   "KBTBD13 MUTATED" "KBTBD13 WILD-TYPE" 
       TCGA-OR-A5LK        TCGA-OU-A5PI        TCGA-PK-A5H8        TCGA-PK-A5H9 
"KBTBD13 WILD-TYPE"   "KBTBD13 MUTATED" "KBTBD13 WILD-TYPE" "KBTBD13 WILD-TYPE" 
       TCGA-PK-A5HA        TCGA-PK-A5HB 
"KBTBD13 WILD-TYPE" "KBTBD13 WILD-TYPE" 
[1] "hr=" "2.1"
D50V2, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV
  KBTBD13 MUTATED         1        5         0        2
  KBTBD13 WILD-TYPE       3        8         4        6
D50V3, multiclass
           clus
vv          KBTBD13 MUTATED KBTBD13 WILD-TYPE
  STAGE I                 1                 3
  STAGE II                5                 8
  STAGE III               0                 4
  STAGE IV                2                 6
                   vv
clus                T1 T2+T3 T4
  KBTBD13 MUTATED    1     6  1
  KBTBD13 WILD-TYPE  3    10  8
D50V4, multiclass
       clus
vv      KBTBD13 MUTATED KBTBD13 WILD-TYPE
  T1                  1                 3
  T2+T3               6                10
  T4                  1                 8
D50V5, binary
                   cls
clus                 0  1
  KBTBD13 MUTATED    6  2
  KBTBD13 WILD-TYPE 20  2
[1] "tbl2"
                   cls
clus                [,1] [,2]
  KBTBD13 MUTATED      6    2
  KBTBD13 WILD-TYPE   20    2
   clus
vv  KBTBD13 MUTATED KBTBD13 WILD-TYPE
  0               6                20
  1               2                 2
D50V6, binary
                   cls
clus                 0  1
  KBTBD13 MUTATED    5  3
  KBTBD13 WILD-TYPE 12 14
[1] "tbl2"
                   cls
clus                [,1] [,2]
  KBTBD13 MUTATED      5    3
  KBTBD13 WILD-TYPE   12   14
        clus
vv       KBTBD13 MUTATED KBTBD13 WILD-TYPE
  FEMALE               5                12
  MALE                 3                14

Clustering(51) Variable = IRX3 MUTATION ANALYSIS
D51V1, survival
                sevent
clus2             0  1
  IRX3 MUTATED    6  3
  IRX3 WILD-TYPE 20  5
  IRX3 MUTATED IRX3 WILD-TYPE 
             9             25 
  IRX3 MUTATED IRX3 WILD-TYPE 
             3              5 
$`IRX3 MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JM TCGA-OR-A5JS TCGA-OR-A5K0 TCGA-OR-A5K1 
       30.31        18.12        18.48        12.59        33.83        89.52 
TCGA-OR-A5K6 TCGA-OU-A5PI TCGA-PK-A5H9 
       37.15        23.31        10.09 

$`IRX3 WILD-TYPE`
TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JJ TCGA-OR-A5JK 
       57.53        41.39        17.79        46.82        10.16        41.26 
TCGA-OR-A5JL TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JT TCGA-OR-A5JV 
       22.03        29.23        22.16       121.25        16.04        50.66 
TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K2 TCGA-OR-A5K3 
       63.25        31.23        18.15         6.94        32.68        93.44 
TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-PK-A5H8 TCGA-PK-A5HA 
       17.36         8.32        11.31        73.05       106.52        27.29 
TCGA-PK-A5HB 
       42.51 

  IRX3 MUTATED IRX3 WILD-TYPE 
         10.09           6.94 
  IRX3 MUTATED IRX3 WILD-TYPE 
         89.52         121.25 
  IRX3 MUTATED IRX3 WILD-TYPE 
         23.31          31.23 
[1] "10.1 - 89.5 (23.3)" "6.9 - 121.2 (31.2)"
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
  "IRX3 MUTATED"   "IRX3 MUTATED" "IRX3 WILD-TYPE" "IRX3 WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"IRX3 WILD-TYPE" "IRX3 WILD-TYPE" "IRX3 WILD-TYPE" "IRX3 WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"IRX3 WILD-TYPE"   "IRX3 MUTATED" "IRX3 WILD-TYPE" "IRX3 WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"IRX3 WILD-TYPE"   "IRX3 MUTATED" "IRX3 WILD-TYPE" "IRX3 WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"IRX3 WILD-TYPE" "IRX3 WILD-TYPE" "IRX3 WILD-TYPE" "IRX3 WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
  "IRX3 MUTATED"   "IRX3 MUTATED" "IRX3 WILD-TYPE" "IRX3 WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"IRX3 WILD-TYPE" "IRX3 WILD-TYPE"   "IRX3 MUTATED" "IRX3 WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"IRX3 WILD-TYPE"   "IRX3 MUTATED" "IRX3 WILD-TYPE"   "IRX3 MUTATED" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"IRX3 WILD-TYPE" "IRX3 WILD-TYPE" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
  "IRX3 MUTATED"   "IRX3 MUTATED" "IRX3 WILD-TYPE" "IRX3 WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"IRX3 WILD-TYPE" "IRX3 WILD-TYPE" "IRX3 WILD-TYPE" "IRX3 WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"IRX3 WILD-TYPE"   "IRX3 MUTATED" "IRX3 WILD-TYPE" "IRX3 WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"IRX3 WILD-TYPE"   "IRX3 MUTATED" "IRX3 WILD-TYPE" "IRX3 WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"IRX3 WILD-TYPE" "IRX3 WILD-TYPE" "IRX3 WILD-TYPE" "IRX3 WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
  "IRX3 MUTATED"   "IRX3 MUTATED" "IRX3 WILD-TYPE" "IRX3 WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"IRX3 WILD-TYPE" "IRX3 WILD-TYPE"   "IRX3 MUTATED" "IRX3 WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"IRX3 WILD-TYPE"   "IRX3 MUTATED" "IRX3 WILD-TYPE"   "IRX3 MUTATED" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"IRX3 WILD-TYPE" "IRX3 WILD-TYPE" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
  "IRX3 MUTATED"   "IRX3 MUTATED" "IRX3 WILD-TYPE" "IRX3 WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"IRX3 WILD-TYPE" "IRX3 WILD-TYPE" "IRX3 WILD-TYPE" "IRX3 WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"IRX3 WILD-TYPE"   "IRX3 MUTATED" "IRX3 WILD-TYPE" "IRX3 WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"IRX3 WILD-TYPE"   "IRX3 MUTATED" "IRX3 WILD-TYPE" "IRX3 WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"IRX3 WILD-TYPE" "IRX3 WILD-TYPE" "IRX3 WILD-TYPE" "IRX3 WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
  "IRX3 MUTATED"   "IRX3 MUTATED" "IRX3 WILD-TYPE" "IRX3 WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"IRX3 WILD-TYPE" "IRX3 WILD-TYPE"   "IRX3 MUTATED" "IRX3 WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"IRX3 WILD-TYPE"   "IRX3 MUTATED" "IRX3 WILD-TYPE"   "IRX3 MUTATED" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"IRX3 WILD-TYPE" "IRX3 WILD-TYPE" 
[1] "hr=" "1.9"
D51V2, continuous
                vv
clus             STAGE I STAGE II STAGE III STAGE IV
  IRX3 MUTATED         0        4         0        4
  IRX3 WILD-TYPE       4        9         4        4
D51V3, multiclass
           clus
vv          IRX3 MUTATED IRX3 WILD-TYPE
  STAGE I              0              4
  STAGE II             4              9
  STAGE III            0              4
  STAGE IV             4              4
                vv
clus             T1 T2+T3 T4
  IRX3 MUTATED    0     5  3
  IRX3 WILD-TYPE  4    11  6
D51V4, multiclass
       clus
vv      IRX3 MUTATED IRX3 WILD-TYPE
  T1               0              4
  T2+T3            5             11
  T4               3              6
D51V5, binary
                cls
clus              0  1
  IRX3 MUTATED    7  1
  IRX3 WILD-TYPE 19  3
[1] "tbl2"
                cls
clus             [,1] [,2]
  IRX3 MUTATED      7    1
  IRX3 WILD-TYPE   19    3
   clus
vv  IRX3 MUTATED IRX3 WILD-TYPE
  0            7             19
  1            1              3
D51V6, binary
                cls
clus              0  1
  IRX3 MUTATED    7  2
  IRX3 WILD-TYPE 10 15
[1] "tbl2"
                cls
clus             [,1] [,2]
  IRX3 MUTATED      7    2
  IRX3 WILD-TYPE   10   15
        clus
vv       IRX3 MUTATED IRX3 WILD-TYPE
  FEMALE            7             10
  MALE              2             15

Clustering(52) Variable = MUC2 MUTATION ANALYSIS
D52V1, survival
                sevent
clus2             0  1
  MUC2 MUTATED    6  1
  MUC2 WILD-TYPE 20  7
  MUC2 MUTATED MUC2 WILD-TYPE 
             7             27 
  MUC2 MUTATED MUC2 WILD-TYPE 
             1              7 
$`MUC2 MUTATED`
TCGA-OR-A5JB TCGA-OR-A5JI TCGA-OR-A5JL TCGA-OR-A5JR TCGA-OR-A5JW TCGA-OR-A5LK 
       18.12        46.82        22.03       121.25        63.25        73.05 
TCGA-PK-A5H8 
      106.52 

$`MUC2 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JJ TCGA-OR-A5JK 
       30.31        57.53        41.39        17.79        10.16        41.26 
TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JS TCGA-OR-A5JT TCGA-OR-A5JV 
       18.48        29.23        22.16        12.59        16.04        50.66 
TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K2 
       31.23        18.15         6.94        33.83        89.52        32.68 
TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-OU-A5PI 
       93.44        17.36         8.32        37.15        11.31        23.31 
TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
       10.09        27.29        42.51 

  MUC2 MUTATED MUC2 WILD-TYPE 
         18.12           6.94 
  MUC2 MUTATED MUC2 WILD-TYPE 
        121.25          93.44 
  MUC2 MUTATED MUC2 WILD-TYPE 
         63.25          27.29 
[1] "18.1 - 121.2 (63.2)" "6.9 - 93.4 (27.3)"  
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"MUC2 WILD-TYPE"   "MUC2 MUTATED" "MUC2 WILD-TYPE" "MUC2 WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"MUC2 WILD-TYPE"   "MUC2 MUTATED" "MUC2 WILD-TYPE" "MUC2 WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
  "MUC2 MUTATED" "MUC2 WILD-TYPE" "MUC2 WILD-TYPE" "MUC2 WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
  "MUC2 MUTATED" "MUC2 WILD-TYPE" "MUC2 WILD-TYPE" "MUC2 WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
  "MUC2 MUTATED" "MUC2 WILD-TYPE" "MUC2 WILD-TYPE" "MUC2 WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"MUC2 WILD-TYPE" "MUC2 WILD-TYPE" "MUC2 WILD-TYPE" "MUC2 WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"MUC2 WILD-TYPE" "MUC2 WILD-TYPE" "MUC2 WILD-TYPE" "MUC2 WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
  "MUC2 MUTATED" "MUC2 WILD-TYPE"   "MUC2 MUTATED" "MUC2 WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"MUC2 WILD-TYPE" "MUC2 WILD-TYPE" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"MUC2 WILD-TYPE"   "MUC2 MUTATED" "MUC2 WILD-TYPE" "MUC2 WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"MUC2 WILD-TYPE"   "MUC2 MUTATED" "MUC2 WILD-TYPE" "MUC2 WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
  "MUC2 MUTATED" "MUC2 WILD-TYPE" "MUC2 WILD-TYPE" "MUC2 WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
  "MUC2 MUTATED" "MUC2 WILD-TYPE" "MUC2 WILD-TYPE" "MUC2 WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
  "MUC2 MUTATED" "MUC2 WILD-TYPE" "MUC2 WILD-TYPE" "MUC2 WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"MUC2 WILD-TYPE" "MUC2 WILD-TYPE" "MUC2 WILD-TYPE" "MUC2 WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"MUC2 WILD-TYPE" "MUC2 WILD-TYPE" "MUC2 WILD-TYPE" "MUC2 WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
  "MUC2 MUTATED" "MUC2 WILD-TYPE"   "MUC2 MUTATED" "MUC2 WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"MUC2 WILD-TYPE" "MUC2 WILD-TYPE" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"MUC2 WILD-TYPE"   "MUC2 MUTATED" "MUC2 WILD-TYPE" "MUC2 WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"MUC2 WILD-TYPE"   "MUC2 MUTATED" "MUC2 WILD-TYPE" "MUC2 WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
  "MUC2 MUTATED" "MUC2 WILD-TYPE" "MUC2 WILD-TYPE" "MUC2 WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
  "MUC2 MUTATED" "MUC2 WILD-TYPE" "MUC2 WILD-TYPE" "MUC2 WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
  "MUC2 MUTATED" "MUC2 WILD-TYPE" "MUC2 WILD-TYPE" "MUC2 WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"MUC2 WILD-TYPE" "MUC2 WILD-TYPE" "MUC2 WILD-TYPE" "MUC2 WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"MUC2 WILD-TYPE" "MUC2 WILD-TYPE" "MUC2 WILD-TYPE" "MUC2 WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
  "MUC2 MUTATED" "MUC2 WILD-TYPE"   "MUC2 MUTATED" "MUC2 WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"MUC2 WILD-TYPE" "MUC2 WILD-TYPE" 
[1] "hr=" "3.3"
D52V2, continuous
                vv
clus             STAGE I STAGE II STAGE III STAGE IV
  MUC2 MUTATED         3        2         0        1
  MUC2 WILD-TYPE       1       11         4        7
D52V3, multiclass
           clus
vv          MUC2 MUTATED MUC2 WILD-TYPE
  STAGE I              3              1
  STAGE II             2             11
  STAGE III            0              4
  STAGE IV             1              7
                vv
clus             T1 T2+T3 T4
  MUC2 MUTATED    3     2  1
  MUC2 WILD-TYPE  1    14  8
D52V4, multiclass
       clus
vv      MUC2 MUTATED MUC2 WILD-TYPE
  T1               3              1
  T2+T3            2             14
  T4               1              8
D52V5, binary
                cls
clus              0  1
  MUC2 MUTATED    6  0
  MUC2 WILD-TYPE 20  4
[1] "tbl2"
                cls
clus             [,1] [,2]
  MUC2 MUTATED      6    0
  MUC2 WILD-TYPE   20    4
   clus
vv  MUC2 MUTATED MUC2 WILD-TYPE
  0            6             20
  1            0              4
D52V6, binary
                cls
clus              0  1
  MUC2 MUTATED    1  6
  MUC2 WILD-TYPE 16 11
[1] "tbl2"
                cls
clus             [,1] [,2]
  MUC2 MUTATED      1    6
  MUC2 WILD-TYPE   16   11
        clus
vv       MUC2 MUTATED MUC2 WILD-TYPE
  FEMALE            1             16
  MALE              6             11

Clustering(53) Variable = GARS MUTATION ANALYSIS
D53V1, survival
                sevent
clus2             0  1
  GARS MUTATED   11  3
  GARS WILD-TYPE 15  5
  GARS MUTATED GARS WILD-TYPE 
            14             20 
  GARS MUTATED GARS WILD-TYPE 
             3              5 
$`GARS MUTATED`
TCGA-OR-A5JC TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JQ 
       57.53        17.79        46.82        22.03        18.48        22.16 
TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K3 TCGA-OR-A5K6 
       16.04        50.66        33.83        89.52        93.44        37.15 
TCGA-OR-A5LK TCGA-PK-A5HA 
       73.05        27.29 

$`GARS WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JF TCGA-OR-A5JJ TCGA-OR-A5JK TCGA-OR-A5JO 
       30.31        18.12        41.39        10.16        41.26        29.23 
TCGA-OR-A5JR TCGA-OR-A5JS TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ 
      121.25        12.59        63.25        31.23        18.15         6.94 
TCGA-OR-A5K2 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K9 TCGA-OU-A5PI TCGA-PK-A5H8 
       32.68        17.36         8.32        11.31        23.31       106.52 
TCGA-PK-A5H9 TCGA-PK-A5HB 
       10.09        42.51 

  GARS MUTATED GARS WILD-TYPE 
         16.04           6.94 
  GARS MUTATED GARS WILD-TYPE 
         93.44         121.25 
  GARS MUTATED GARS WILD-TYPE 
         35.49          26.27 
[1] "16.0 - 93.4 (35.5)" "6.9 - 121.2 (26.3)"
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"GARS WILD-TYPE" "GARS WILD-TYPE"   "GARS MUTATED" "GARS WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
  "GARS MUTATED"   "GARS MUTATED" "GARS WILD-TYPE" "GARS WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
  "GARS MUTATED"   "GARS MUTATED" "GARS WILD-TYPE"   "GARS MUTATED" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"GARS WILD-TYPE" "GARS WILD-TYPE"   "GARS MUTATED"   "GARS MUTATED" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"GARS WILD-TYPE" "GARS WILD-TYPE" "GARS WILD-TYPE" "GARS WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
  "GARS MUTATED"   "GARS MUTATED" "GARS WILD-TYPE"   "GARS MUTATED" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"GARS WILD-TYPE" "GARS WILD-TYPE"   "GARS MUTATED" "GARS WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
  "GARS MUTATED" "GARS WILD-TYPE" "GARS WILD-TYPE" "GARS WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
  "GARS MUTATED" "GARS WILD-TYPE" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"GARS WILD-TYPE" "GARS WILD-TYPE"   "GARS MUTATED" "GARS WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
  "GARS MUTATED"   "GARS MUTATED" "GARS WILD-TYPE" "GARS WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
  "GARS MUTATED"   "GARS MUTATED" "GARS WILD-TYPE"   "GARS MUTATED" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"GARS WILD-TYPE" "GARS WILD-TYPE"   "GARS MUTATED"   "GARS MUTATED" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"GARS WILD-TYPE" "GARS WILD-TYPE" "GARS WILD-TYPE" "GARS WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
  "GARS MUTATED"   "GARS MUTATED" "GARS WILD-TYPE"   "GARS MUTATED" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"GARS WILD-TYPE" "GARS WILD-TYPE"   "GARS MUTATED" "GARS WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
  "GARS MUTATED" "GARS WILD-TYPE" "GARS WILD-TYPE" "GARS WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
  "GARS MUTATED" "GARS WILD-TYPE" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"GARS WILD-TYPE" "GARS WILD-TYPE"   "GARS MUTATED" "GARS WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
  "GARS MUTATED"   "GARS MUTATED" "GARS WILD-TYPE" "GARS WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
  "GARS MUTATED"   "GARS MUTATED" "GARS WILD-TYPE"   "GARS MUTATED" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"GARS WILD-TYPE" "GARS WILD-TYPE"   "GARS MUTATED"   "GARS MUTATED" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"GARS WILD-TYPE" "GARS WILD-TYPE" "GARS WILD-TYPE" "GARS WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
  "GARS MUTATED"   "GARS MUTATED" "GARS WILD-TYPE"   "GARS MUTATED" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"GARS WILD-TYPE" "GARS WILD-TYPE"   "GARS MUTATED" "GARS WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
  "GARS MUTATED" "GARS WILD-TYPE" "GARS WILD-TYPE" "GARS WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
  "GARS MUTATED" "GARS WILD-TYPE" 
[1] "hr=" "1.7"
D53V2, continuous
                vv
clus             STAGE I STAGE II STAGE III STAGE IV
  GARS MUTATED         2        8         0        2
  GARS WILD-TYPE       2        5         4        6
D53V3, multiclass
           clus
vv          GARS MUTATED GARS WILD-TYPE
  STAGE I              2              2
  STAGE II             8              5
  STAGE III            0              4
  STAGE IV             2              6
                vv
clus             T1 T2+T3 T4
  GARS MUTATED    2     8  2
  GARS WILD-TYPE  2     8  7
D53V4, multiclass
       clus
vv      GARS MUTATED GARS WILD-TYPE
  T1               2              2
  T2+T3            8              8
  T4               2              7
D53V5, binary
                cls
clus              0  1
  GARS MUTATED   12  1
  GARS WILD-TYPE 14  3
[1] "tbl2"
                cls
clus             [,1] [,2]
  GARS MUTATED     12    1
  GARS WILD-TYPE   14    3
   clus
vv  GARS MUTATED GARS WILD-TYPE
  0           12             14
  1            1              3
D53V6, binary
                cls
clus              0  1
  GARS MUTATED    6  8
  GARS WILD-TYPE 11  9
[1] "tbl2"
                cls
clus             [,1] [,2]
  GARS MUTATED      6    8
  GARS WILD-TYPE   11    9
        clus
vv       GARS MUTATED GARS WILD-TYPE
  FEMALE            6             11
  MALE              8              9

Clustering(54) Variable = UQCRFS1 MUTATION ANALYSIS
D54V1, survival
                   sevent
clus2                0  1
  UQCRFS1 MUTATED    6  1
  UQCRFS1 WILD-TYPE 20  7
  UQCRFS1 MUTATED UQCRFS1 WILD-TYPE 
                7                27 
  UQCRFS1 MUTATED UQCRFS1 WILD-TYPE 
                1                 7 
$`UQCRFS1 MUTATED`
TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JJ TCGA-OR-A5JO TCGA-OR-A5JS TCGA-OR-A5K0 
       17.79        46.82        10.16        29.23        12.59        33.83 
TCGA-OR-A5K3 
       93.44 

$`UQCRFS1 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JK TCGA-OR-A5JL 
       30.31        18.12        57.53        41.39        41.26        22.03 
TCGA-OR-A5JM TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW 
       18.48        22.16       121.25        16.04        50.66        63.25 
TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K4 
       31.23        18.15         6.94        89.52        32.68        17.36 
TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 
        8.32        37.15        11.31        73.05        23.31       106.52 
TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
       10.09        27.29        42.51 

  UQCRFS1 MUTATED UQCRFS1 WILD-TYPE 
            10.16              6.94 
  UQCRFS1 MUTATED UQCRFS1 WILD-TYPE 
            93.44            121.25 
  UQCRFS1 MUTATED UQCRFS1 WILD-TYPE 
            29.23             30.31 
[1] "10.2 - 93.4 (29.2)" "6.9 - 121.2 (30.3)"
       TCGA-OR-A5JA        TCGA-OR-A5JB        TCGA-OR-A5JC        TCGA-OR-A5JF 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-OR-A5JG        TCGA-OR-A5JI        TCGA-OR-A5JJ        TCGA-OR-A5JK 
  "UQCRFS1 MUTATED"   "UQCRFS1 MUTATED"   "UQCRFS1 MUTATED" "UQCRFS1 WILD-TYPE" 
       TCGA-OR-A5JL        TCGA-OR-A5JM        TCGA-OR-A5JO        TCGA-OR-A5JQ 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE"   "UQCRFS1 MUTATED" "UQCRFS1 WILD-TYPE" 
       TCGA-OR-A5JR        TCGA-OR-A5JS        TCGA-OR-A5JT        TCGA-OR-A5JV 
"UQCRFS1 WILD-TYPE"   "UQCRFS1 MUTATED" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-OR-A5JW        TCGA-OR-A5JX        TCGA-OR-A5JY        TCGA-OR-A5JZ 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-OR-A5K0        TCGA-OR-A5K1        TCGA-OR-A5K2        TCGA-OR-A5K3 
  "UQCRFS1 MUTATED" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE"   "UQCRFS1 MUTATED" 
       TCGA-OR-A5K4        TCGA-OR-A5K5        TCGA-OR-A5K6        TCGA-OR-A5K9 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-OR-A5LK        TCGA-OU-A5PI        TCGA-PK-A5H8        TCGA-PK-A5H9 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-PK-A5HA        TCGA-PK-A5HB 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-OR-A5JA        TCGA-OR-A5JB        TCGA-OR-A5JC        TCGA-OR-A5JF 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-OR-A5JG        TCGA-OR-A5JI        TCGA-OR-A5JJ        TCGA-OR-A5JK 
  "UQCRFS1 MUTATED"   "UQCRFS1 MUTATED"   "UQCRFS1 MUTATED" "UQCRFS1 WILD-TYPE" 
       TCGA-OR-A5JL        TCGA-OR-A5JM        TCGA-OR-A5JO        TCGA-OR-A5JQ 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE"   "UQCRFS1 MUTATED" "UQCRFS1 WILD-TYPE" 
       TCGA-OR-A5JR        TCGA-OR-A5JS        TCGA-OR-A5JT        TCGA-OR-A5JV 
"UQCRFS1 WILD-TYPE"   "UQCRFS1 MUTATED" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-OR-A5JW        TCGA-OR-A5JX        TCGA-OR-A5JY        TCGA-OR-A5JZ 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-OR-A5K0        TCGA-OR-A5K1        TCGA-OR-A5K2        TCGA-OR-A5K3 
  "UQCRFS1 MUTATED" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE"   "UQCRFS1 MUTATED" 
       TCGA-OR-A5K4        TCGA-OR-A5K5        TCGA-OR-A5K6        TCGA-OR-A5K9 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-OR-A5LK        TCGA-OU-A5PI        TCGA-PK-A5H8        TCGA-PK-A5H9 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-PK-A5HA        TCGA-PK-A5HB 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-OR-A5JA        TCGA-OR-A5JB        TCGA-OR-A5JC        TCGA-OR-A5JF 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-OR-A5JG        TCGA-OR-A5JI        TCGA-OR-A5JJ        TCGA-OR-A5JK 
  "UQCRFS1 MUTATED"   "UQCRFS1 MUTATED"   "UQCRFS1 MUTATED" "UQCRFS1 WILD-TYPE" 
       TCGA-OR-A5JL        TCGA-OR-A5JM        TCGA-OR-A5JO        TCGA-OR-A5JQ 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE"   "UQCRFS1 MUTATED" "UQCRFS1 WILD-TYPE" 
       TCGA-OR-A5JR        TCGA-OR-A5JS        TCGA-OR-A5JT        TCGA-OR-A5JV 
"UQCRFS1 WILD-TYPE"   "UQCRFS1 MUTATED" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-OR-A5JW        TCGA-OR-A5JX        TCGA-OR-A5JY        TCGA-OR-A5JZ 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-OR-A5K0        TCGA-OR-A5K1        TCGA-OR-A5K2        TCGA-OR-A5K3 
  "UQCRFS1 MUTATED" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE"   "UQCRFS1 MUTATED" 
       TCGA-OR-A5K4        TCGA-OR-A5K5        TCGA-OR-A5K6        TCGA-OR-A5K9 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-OR-A5LK        TCGA-OU-A5PI        TCGA-PK-A5H8        TCGA-PK-A5H9 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
       TCGA-PK-A5HA        TCGA-PK-A5HB 
"UQCRFS1 WILD-TYPE" "UQCRFS1 WILD-TYPE" 
[1] "hr=" "1.5"
D54V2, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV
  UQCRFS1 MUTATED         2        3         0        2
  UQCRFS1 WILD-TYPE       2       10         4        6
D54V3, multiclass
           clus
vv          UQCRFS1 MUTATED UQCRFS1 WILD-TYPE
  STAGE I                 2                 2
  STAGE II                3                10
  STAGE III               0                 4
  STAGE IV                2                 6
                   vv
clus                T1 T2+T3 T4
  UQCRFS1 MUTATED    2     3  2
  UQCRFS1 WILD-TYPE  2    13  7
D54V4, multiclass
       clus
vv      UQCRFS1 MUTATED UQCRFS1 WILD-TYPE
  T1                  2                 2
  T2+T3               3                13
  T4                  2                 7
D54V5, binary
                   cls
clus                 0  1
  UQCRFS1 MUTATED    5  2
  UQCRFS1 WILD-TYPE 21  2
[1] "tbl2"
                   cls
clus                [,1] [,2]
  UQCRFS1 MUTATED      5    2
  UQCRFS1 WILD-TYPE   21    2
   clus
vv  UQCRFS1 MUTATED UQCRFS1 WILD-TYPE
  0               5                21
  1               2                 2
D54V6, binary
                   cls
clus                 0  1
  UQCRFS1 MUTATED    3  4
  UQCRFS1 WILD-TYPE 14 13
[1] "tbl2"
                   cls
clus                [,1] [,2]
  UQCRFS1 MUTATED      3    4
  UQCRFS1 WILD-TYPE   14   13
        clus
vv       UQCRFS1 MUTATED UQCRFS1 WILD-TYPE
  FEMALE               3                14
  MALE                 4                13

Clustering(55) Variable = ZNF628 MUTATION ANALYSIS
D55V1, survival
                  sevent
clus2               0  1
  ZNF628 MUTATED    2  3
  ZNF628 WILD-TYPE 24  5
  ZNF628 MUTATED ZNF628 WILD-TYPE 
               5               29 
  ZNF628 MUTATED ZNF628 WILD-TYPE 
               3                5 
$`ZNF628 MUTATED`
TCGA-OR-A5JB TCGA-OR-A5JM TCGA-OR-A5JW TCGA-OR-A5K5 TCGA-OR-A5K9 
       18.12        18.48        63.25         8.32        11.31 

$`ZNF628 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JJ 
       30.31        57.53        41.39        17.79        46.82        10.16 
TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JS 
       41.26        22.03        29.23        22.16       121.25        12.59 
TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K0 
       16.04        50.66        31.23        18.15         6.94        33.83 
TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K6 TCGA-OR-A5LK 
       89.52        32.68        93.44        17.36        37.15        73.05 
TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
       23.31       106.52        10.09        27.29        42.51 

  ZNF628 MUTATED ZNF628 WILD-TYPE 
            8.32             6.94 
  ZNF628 MUTATED ZNF628 WILD-TYPE 
           63.25           121.25 
  ZNF628 MUTATED ZNF628 WILD-TYPE 
           18.12            31.23 
[1] "8.3 - 63.2 (18.1)"  "6.9 - 121.2 (31.2)"
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"ZNF628 WILD-TYPE"   "ZNF628 MUTATED" "ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"ZNF628 WILD-TYPE"   "ZNF628 MUTATED" "ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
  "ZNF628 MUTATED" "ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
"ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"ZNF628 WILD-TYPE"   "ZNF628 MUTATED" "ZNF628 WILD-TYPE"   "ZNF628 MUTATED" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"ZNF628 WILD-TYPE"   "ZNF628 MUTATED" "ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"ZNF628 WILD-TYPE"   "ZNF628 MUTATED" "ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
  "ZNF628 MUTATED" "ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
"ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"ZNF628 WILD-TYPE"   "ZNF628 MUTATED" "ZNF628 WILD-TYPE"   "ZNF628 MUTATED" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"ZNF628 WILD-TYPE"   "ZNF628 MUTATED" "ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"ZNF628 WILD-TYPE"   "ZNF628 MUTATED" "ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
  "ZNF628 MUTATED" "ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
"ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"ZNF628 WILD-TYPE"   "ZNF628 MUTATED" "ZNF628 WILD-TYPE"   "ZNF628 MUTATED" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"ZNF628 WILD-TYPE" "ZNF628 WILD-TYPE" 
[1] "hr=" "5.5"
D55V2, continuous
                  vv
clus               STAGE I STAGE II STAGE III STAGE IV
  ZNF628 MUTATED         0        2         1        2
  ZNF628 WILD-TYPE       4       11         3        6
D55V3, multiclass
           clus
vv          ZNF628 MUTATED ZNF628 WILD-TYPE
  STAGE I                0                4
  STAGE II               2               11
  STAGE III              1                3
  STAGE IV               2                6
                  vv
clus               T1 T2+T3 T4
  ZNF628 MUTATED    0     3  2
  ZNF628 WILD-TYPE  4    13  7
D55V4, multiclass
       clus
vv      ZNF628 MUTATED ZNF628 WILD-TYPE
  T1                 0                4
  T2+T3              3               13
  T4                 2                7
D55V5, binary
                  cls
clus                0  1
  ZNF628 MUTATED    5  0
  ZNF628 WILD-TYPE 21  4
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ZNF628 MUTATED      5    0
  ZNF628 WILD-TYPE   21    4
   clus
vv  ZNF628 MUTATED ZNF628 WILD-TYPE
  0              5               21
  1              0                4
D55V6, binary
                  cls
clus                0  1
  ZNF628 MUTATED    3  2
  ZNF628 WILD-TYPE 14 15
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ZNF628 MUTATED      3    2
  ZNF628 WILD-TYPE   14   15
        clus
vv       ZNF628 MUTATED ZNF628 WILD-TYPE
  FEMALE              3               14
  MALE                2               15

Clustering(56) Variable = ASPDH MUTATION ANALYSIS
D56V1, survival
                 sevent
clus2              0  1
  ASPDH MUTATED    8  3
  ASPDH WILD-TYPE 18  5
  ASPDH MUTATED ASPDH WILD-TYPE 
             11              23 
  ASPDH MUTATED ASPDH WILD-TYPE 
              3               5 
$`ASPDH MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JC TCGA-OR-A5JJ TCGA-OR-A5JO TCGA-OR-A5JS TCGA-OR-A5K2 
       30.31        57.53        10.16        29.23        12.59        32.68 
TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-PK-A5HB 
       93.44        17.36         8.32        37.15        42.51 

$`ASPDH WILD-TYPE`
TCGA-OR-A5JB TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JK TCGA-OR-A5JL 
       18.12        41.39        17.79        46.82        41.26        22.03 
TCGA-OR-A5JM TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW 
       18.48        22.16       121.25        16.04        50.66        63.25 
TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K9 
       31.23        18.15         6.94        33.83        89.52        11.31 
TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA 
       73.05        23.31       106.52        10.09        27.29 

  ASPDH MUTATED ASPDH WILD-TYPE 
           8.32            6.94 
  ASPDH MUTATED ASPDH WILD-TYPE 
          93.44          121.25 
  ASPDH MUTATED ASPDH WILD-TYPE 
          30.31           27.29 
[1] "8.3 - 93.4 (30.3)"  "6.9 - 121.2 (27.3)"
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
  "ASPDH MUTATED" "ASPDH WILD-TYPE"   "ASPDH MUTATED" "ASPDH WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"ASPDH WILD-TYPE" "ASPDH WILD-TYPE"   "ASPDH MUTATED" "ASPDH WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"ASPDH WILD-TYPE" "ASPDH WILD-TYPE"   "ASPDH MUTATED" "ASPDH WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"ASPDH WILD-TYPE"   "ASPDH MUTATED" "ASPDH WILD-TYPE" "ASPDH WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"ASPDH WILD-TYPE" "ASPDH WILD-TYPE" "ASPDH WILD-TYPE" "ASPDH WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"ASPDH WILD-TYPE" "ASPDH WILD-TYPE"   "ASPDH MUTATED"   "ASPDH MUTATED" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
  "ASPDH MUTATED"   "ASPDH MUTATED"   "ASPDH MUTATED" "ASPDH WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"ASPDH WILD-TYPE" "ASPDH WILD-TYPE" "ASPDH WILD-TYPE" "ASPDH WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"ASPDH WILD-TYPE"   "ASPDH MUTATED" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
  "ASPDH MUTATED" "ASPDH WILD-TYPE"   "ASPDH MUTATED" "ASPDH WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"ASPDH WILD-TYPE" "ASPDH WILD-TYPE"   "ASPDH MUTATED" "ASPDH WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"ASPDH WILD-TYPE" "ASPDH WILD-TYPE"   "ASPDH MUTATED" "ASPDH WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"ASPDH WILD-TYPE"   "ASPDH MUTATED" "ASPDH WILD-TYPE" "ASPDH WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"ASPDH WILD-TYPE" "ASPDH WILD-TYPE" "ASPDH WILD-TYPE" "ASPDH WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"ASPDH WILD-TYPE" "ASPDH WILD-TYPE"   "ASPDH MUTATED"   "ASPDH MUTATED" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
  "ASPDH MUTATED"   "ASPDH MUTATED"   "ASPDH MUTATED" "ASPDH WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"ASPDH WILD-TYPE" "ASPDH WILD-TYPE" "ASPDH WILD-TYPE" "ASPDH WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"ASPDH WILD-TYPE"   "ASPDH MUTATED" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
  "ASPDH MUTATED" "ASPDH WILD-TYPE"   "ASPDH MUTATED" "ASPDH WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"ASPDH WILD-TYPE" "ASPDH WILD-TYPE"   "ASPDH MUTATED" "ASPDH WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"ASPDH WILD-TYPE" "ASPDH WILD-TYPE"   "ASPDH MUTATED" "ASPDH WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"ASPDH WILD-TYPE"   "ASPDH MUTATED" "ASPDH WILD-TYPE" "ASPDH WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"ASPDH WILD-TYPE" "ASPDH WILD-TYPE" "ASPDH WILD-TYPE" "ASPDH WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"ASPDH WILD-TYPE" "ASPDH WILD-TYPE"   "ASPDH MUTATED"   "ASPDH MUTATED" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
  "ASPDH MUTATED"   "ASPDH MUTATED"   "ASPDH MUTATED" "ASPDH WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"ASPDH WILD-TYPE" "ASPDH WILD-TYPE" "ASPDH WILD-TYPE" "ASPDH WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"ASPDH WILD-TYPE"   "ASPDH MUTATED" 
[1] "hr=" "1.4"
D56V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV
  ASPDH MUTATED         1        3         3        2
  ASPDH WILD-TYPE       3       10         1        6
D56V3, multiclass
           clus
vv          ASPDH MUTATED ASPDH WILD-TYPE
  STAGE I               1               3
  STAGE II              3              10
  STAGE III             3               1
  STAGE IV              2               6
                 vv
clus              T1 T2+T3 T4
  ASPDH MUTATED    1     4  4
  ASPDH WILD-TYPE  3    12  5
D56V4, multiclass
       clus
vv      ASPDH MUTATED ASPDH WILD-TYPE
  T1                1               3
  T2+T3             4              12
  T4                4               5
D56V5, binary
                 cls
clus               0  1
  ASPDH MUTATED    8  1
  ASPDH WILD-TYPE 18  3
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ASPDH MUTATED      8    1
  ASPDH WILD-TYPE   18    3
   clus
vv  ASPDH MUTATED ASPDH WILD-TYPE
  0             8              18
  1             1               3
D56V6, binary
                 cls
clus               0  1
  ASPDH MUTATED    7  4
  ASPDH WILD-TYPE 10 13
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ASPDH MUTATED      7    4
  ASPDH WILD-TYPE   10   13
        clus
vv       ASPDH MUTATED ASPDH WILD-TYPE
  FEMALE             7              10
  MALE               4              13

Clustering(57) Variable = TPO MUTATION ANALYSIS
D57V1, survival
               sevent
clus2            0  1
  TPO MUTATED    8  2
  TPO WILD-TYPE 18  6
  TPO MUTATED TPO WILD-TYPE 
           10            24 
  TPO MUTATED TPO WILD-TYPE 
            2             6 
$`TPO MUTATED`
TCGA-OR-A5JB TCGA-OR-A5JF TCGA-OR-A5JI TCGA-OR-A5JO TCGA-OR-A5JS TCGA-OR-A5K0 
       18.12        41.39        46.82        29.23        12.59        33.83 
TCGA-OR-A5K1 TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-PK-A5H9 
       89.52        37.15        11.31        10.09 

$`TPO WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JC TCGA-OR-A5JG TCGA-OR-A5JJ TCGA-OR-A5JK TCGA-OR-A5JL 
       30.31        57.53        17.79        10.16        41.26        22.03 
TCGA-OR-A5JM TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW 
       18.48        22.16       121.25        16.04        50.66        63.25 
TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 
       31.23        18.15         6.94        32.68        93.44        17.36 
TCGA-OR-A5K5 TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5HA TCGA-PK-A5HB 
        8.32        73.05        23.31       106.52        27.29        42.51 

  TPO MUTATED TPO WILD-TYPE 
        10.09          6.94 
  TPO MUTATED TPO WILD-TYPE 
        89.52        121.25 
  TPO MUTATED TPO WILD-TYPE 
        31.53         28.80 
[1] "10.1 - 89.5 (31.5)" "6.9 - 121.2 (28.8)"
   TCGA-OR-A5JA    TCGA-OR-A5JB    TCGA-OR-A5JC    TCGA-OR-A5JF    TCGA-OR-A5JG 
"TPO WILD-TYPE"   "TPO MUTATED" "TPO WILD-TYPE"   "TPO MUTATED" "TPO WILD-TYPE" 
   TCGA-OR-A5JI    TCGA-OR-A5JJ    TCGA-OR-A5JK    TCGA-OR-A5JL    TCGA-OR-A5JM 
  "TPO MUTATED" "TPO WILD-TYPE" "TPO WILD-TYPE" "TPO WILD-TYPE" "TPO WILD-TYPE" 
   TCGA-OR-A5JO    TCGA-OR-A5JQ    TCGA-OR-A5JR    TCGA-OR-A5JS    TCGA-OR-A5JT 
  "TPO MUTATED" "TPO WILD-TYPE" "TPO WILD-TYPE"   "TPO MUTATED" "TPO WILD-TYPE" 
   TCGA-OR-A5JV    TCGA-OR-A5JW    TCGA-OR-A5JX    TCGA-OR-A5JY    TCGA-OR-A5JZ 
"TPO WILD-TYPE" "TPO WILD-TYPE" "TPO WILD-TYPE" "TPO WILD-TYPE" "TPO WILD-TYPE" 
   TCGA-OR-A5K0    TCGA-OR-A5K1    TCGA-OR-A5K2    TCGA-OR-A5K3    TCGA-OR-A5K4 
  "TPO MUTATED"   "TPO MUTATED" "TPO WILD-TYPE" "TPO WILD-TYPE" "TPO WILD-TYPE" 
   TCGA-OR-A5K5    TCGA-OR-A5K6    TCGA-OR-A5K9    TCGA-OR-A5LK    TCGA-OU-A5PI 
"TPO WILD-TYPE"   "TPO MUTATED"   "TPO MUTATED" "TPO WILD-TYPE" "TPO WILD-TYPE" 
   TCGA-PK-A5H8    TCGA-PK-A5H9    TCGA-PK-A5HA    TCGA-PK-A5HB 
"TPO WILD-TYPE"   "TPO MUTATED" "TPO WILD-TYPE" "TPO WILD-TYPE" 
   TCGA-OR-A5JA    TCGA-OR-A5JB    TCGA-OR-A5JC    TCGA-OR-A5JF    TCGA-OR-A5JG 
"TPO WILD-TYPE"   "TPO MUTATED" "TPO WILD-TYPE"   "TPO MUTATED" "TPO WILD-TYPE" 
   TCGA-OR-A5JI    TCGA-OR-A5JJ    TCGA-OR-A5JK    TCGA-OR-A5JL    TCGA-OR-A5JM 
  "TPO MUTATED" "TPO WILD-TYPE" "TPO WILD-TYPE" "TPO WILD-TYPE" "TPO WILD-TYPE" 
   TCGA-OR-A5JO    TCGA-OR-A5JQ    TCGA-OR-A5JR    TCGA-OR-A5JS    TCGA-OR-A5JT 
  "TPO MUTATED" "TPO WILD-TYPE" "TPO WILD-TYPE"   "TPO MUTATED" "TPO WILD-TYPE" 
   TCGA-OR-A5JV    TCGA-OR-A5JW    TCGA-OR-A5JX    TCGA-OR-A5JY    TCGA-OR-A5JZ 
"TPO WILD-TYPE" "TPO WILD-TYPE" "TPO WILD-TYPE" "TPO WILD-TYPE" "TPO WILD-TYPE" 
   TCGA-OR-A5K0    TCGA-OR-A5K1    TCGA-OR-A5K2    TCGA-OR-A5K3    TCGA-OR-A5K4 
  "TPO MUTATED"   "TPO MUTATED" "TPO WILD-TYPE" "TPO WILD-TYPE" "TPO WILD-TYPE" 
   TCGA-OR-A5K5    TCGA-OR-A5K6    TCGA-OR-A5K9    TCGA-OR-A5LK    TCGA-OU-A5PI 
"TPO WILD-TYPE"   "TPO MUTATED"   "TPO MUTATED" "TPO WILD-TYPE" "TPO WILD-TYPE" 
   TCGA-PK-A5H8    TCGA-PK-A5H9    TCGA-PK-A5HA    TCGA-PK-A5HB 
"TPO WILD-TYPE"   "TPO MUTATED" "TPO WILD-TYPE" "TPO WILD-TYPE" 
   TCGA-OR-A5JA    TCGA-OR-A5JB    TCGA-OR-A5JC    TCGA-OR-A5JF    TCGA-OR-A5JG 
"TPO WILD-TYPE"   "TPO MUTATED" "TPO WILD-TYPE"   "TPO MUTATED" "TPO WILD-TYPE" 
   TCGA-OR-A5JI    TCGA-OR-A5JJ    TCGA-OR-A5JK    TCGA-OR-A5JL    TCGA-OR-A5JM 
  "TPO MUTATED" "TPO WILD-TYPE" "TPO WILD-TYPE" "TPO WILD-TYPE" "TPO WILD-TYPE" 
   TCGA-OR-A5JO    TCGA-OR-A5JQ    TCGA-OR-A5JR    TCGA-OR-A5JS    TCGA-OR-A5JT 
  "TPO MUTATED" "TPO WILD-TYPE" "TPO WILD-TYPE"   "TPO MUTATED" "TPO WILD-TYPE" 
   TCGA-OR-A5JV    TCGA-OR-A5JW    TCGA-OR-A5JX    TCGA-OR-A5JY    TCGA-OR-A5JZ 
"TPO WILD-TYPE" "TPO WILD-TYPE" "TPO WILD-TYPE" "TPO WILD-TYPE" "TPO WILD-TYPE" 
   TCGA-OR-A5K0    TCGA-OR-A5K1    TCGA-OR-A5K2    TCGA-OR-A5K3    TCGA-OR-A5K4 
  "TPO MUTATED"   "TPO MUTATED" "TPO WILD-TYPE" "TPO WILD-TYPE" "TPO WILD-TYPE" 
   TCGA-OR-A5K5    TCGA-OR-A5K6    TCGA-OR-A5K9    TCGA-OR-A5LK    TCGA-OU-A5PI 
"TPO WILD-TYPE"   "TPO MUTATED"   "TPO MUTATED" "TPO WILD-TYPE" "TPO WILD-TYPE" 
   TCGA-PK-A5H8    TCGA-PK-A5H9    TCGA-PK-A5HA    TCGA-PK-A5HB 
"TPO WILD-TYPE"   "TPO MUTATED" "TPO WILD-TYPE" "TPO WILD-TYPE" 
[1] "hr=" "1.1"
D57V2, continuous
               vv
clus            STAGE I STAGE II STAGE III STAGE IV
  TPO MUTATED         2        6         0        1
  TPO WILD-TYPE       2        7         4        7
D57V3, multiclass
           clus
vv          TPO MUTATED TPO WILD-TYPE
  STAGE I             2             2
  STAGE II            6             7
  STAGE III           0             4
  STAGE IV            1             7
               vv
clus            T1 T2+T3 T4
  TPO MUTATED    2     6  1
  TPO WILD-TYPE  2    10  8
D57V4, multiclass
       clus
vv      TPO MUTATED TPO WILD-TYPE
  T1              2             2
  T2+T3           6            10
  T4              1             8
D57V5, binary
               cls
clus             0  1
  TPO MUTATED    9  0
  TPO WILD-TYPE 17  4
[1] "tbl2"
               cls
clus            [,1] [,2]
  TPO MUTATED      9    0
  TPO WILD-TYPE   17    4
   clus
vv  TPO MUTATED TPO WILD-TYPE
  0           9            17
  1           0             4
D57V6, binary
               cls
clus             0  1
  TPO MUTATED    7  3
  TPO WILD-TYPE 10 14
[1] "tbl2"
               cls
clus            [,1] [,2]
  TPO MUTATED      7    3
  TPO WILD-TYPE   10   14
        clus
vv       TPO MUTATED TPO WILD-TYPE
  FEMALE           7            10
  MALE             3            14

Clustering(58) Variable = GLTSCR2 MUTATION ANALYSIS
D58V1, survival
                   sevent
clus2                0  1
  GLTSCR2 MUTATED    2  2
  GLTSCR2 WILD-TYPE 24  6
  GLTSCR2 MUTATED GLTSCR2 WILD-TYPE 
                4                30 
  GLTSCR2 MUTATED GLTSCR2 WILD-TYPE 
                2                 6 
$`GLTSCR2 MUTATED`
TCGA-OR-A5JB TCGA-OR-A5JM TCGA-OR-A5JW TCGA-OR-A5K3 
       18.12        18.48        63.25        93.44 

$`GLTSCR2 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JJ 
       30.31        57.53        41.39        17.79        46.82        10.16 
TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JS 
       41.26        22.03        29.23        22.16       121.25        12.59 
TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K0 
       16.04        50.66        31.23        18.15         6.94        33.83 
TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5K9 
       89.52        32.68        17.36         8.32        37.15        11.31 
TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
       73.05        23.31       106.52        10.09        27.29        42.51 

  GLTSCR2 MUTATED GLTSCR2 WILD-TYPE 
            18.12              6.94 
  GLTSCR2 MUTATED GLTSCR2 WILD-TYPE 
            93.44            121.25 
  GLTSCR2 MUTATED GLTSCR2 WILD-TYPE 
           40.865            29.770 
[1] "18.1 - 93.4 (40.9)" "6.9 - 121.2 (29.8)"
       TCGA-OR-A5JA        TCGA-OR-A5JB        TCGA-OR-A5JC        TCGA-OR-A5JF 
"GLTSCR2 WILD-TYPE"   "GLTSCR2 MUTATED" "GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" 
       TCGA-OR-A5JG        TCGA-OR-A5JI        TCGA-OR-A5JJ        TCGA-OR-A5JK 
"GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" 
       TCGA-OR-A5JL        TCGA-OR-A5JM        TCGA-OR-A5JO        TCGA-OR-A5JQ 
"GLTSCR2 WILD-TYPE"   "GLTSCR2 MUTATED" "GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" 
       TCGA-OR-A5JR        TCGA-OR-A5JS        TCGA-OR-A5JT        TCGA-OR-A5JV 
"GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" 
       TCGA-OR-A5JW        TCGA-OR-A5JX        TCGA-OR-A5JY        TCGA-OR-A5JZ 
  "GLTSCR2 MUTATED" "GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" 
       TCGA-OR-A5K0        TCGA-OR-A5K1        TCGA-OR-A5K2        TCGA-OR-A5K3 
"GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE"   "GLTSCR2 MUTATED" 
       TCGA-OR-A5K4        TCGA-OR-A5K5        TCGA-OR-A5K6        TCGA-OR-A5K9 
"GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" 
       TCGA-OR-A5LK        TCGA-OU-A5PI        TCGA-PK-A5H8        TCGA-PK-A5H9 
"GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" 
       TCGA-PK-A5HA        TCGA-PK-A5HB 
"GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" 
       TCGA-OR-A5JA        TCGA-OR-A5JB        TCGA-OR-A5JC        TCGA-OR-A5JF 
"GLTSCR2 WILD-TYPE"   "GLTSCR2 MUTATED" "GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" 
       TCGA-OR-A5JG        TCGA-OR-A5JI        TCGA-OR-A5JJ        TCGA-OR-A5JK 
"GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" 
       TCGA-OR-A5JL        TCGA-OR-A5JM        TCGA-OR-A5JO        TCGA-OR-A5JQ 
"GLTSCR2 WILD-TYPE"   "GLTSCR2 MUTATED" "GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" 
       TCGA-OR-A5JR        TCGA-OR-A5JS        TCGA-OR-A5JT        TCGA-OR-A5JV 
"GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" 
       TCGA-OR-A5JW        TCGA-OR-A5JX        TCGA-OR-A5JY        TCGA-OR-A5JZ 
  "GLTSCR2 MUTATED" "GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" 
       TCGA-OR-A5K0        TCGA-OR-A5K1        TCGA-OR-A5K2        TCGA-OR-A5K3 
"GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE"   "GLTSCR2 MUTATED" 
       TCGA-OR-A5K4        TCGA-OR-A5K5        TCGA-OR-A5K6        TCGA-OR-A5K9 
"GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" 
       TCGA-OR-A5LK        TCGA-OU-A5PI        TCGA-PK-A5H8        TCGA-PK-A5H9 
"GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" 
       TCGA-PK-A5HA        TCGA-PK-A5HB 
"GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" 
       TCGA-OR-A5JA        TCGA-OR-A5JB        TCGA-OR-A5JC        TCGA-OR-A5JF 
"GLTSCR2 WILD-TYPE"   "GLTSCR2 MUTATED" "GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" 
       TCGA-OR-A5JG        TCGA-OR-A5JI        TCGA-OR-A5JJ        TCGA-OR-A5JK 
"GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" 
       TCGA-OR-A5JL        TCGA-OR-A5JM        TCGA-OR-A5JO        TCGA-OR-A5JQ 
"GLTSCR2 WILD-TYPE"   "GLTSCR2 MUTATED" "GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" 
       TCGA-OR-A5JR        TCGA-OR-A5JS        TCGA-OR-A5JT        TCGA-OR-A5JV 
"GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" 
       TCGA-OR-A5JW        TCGA-OR-A5JX        TCGA-OR-A5JY        TCGA-OR-A5JZ 
  "GLTSCR2 MUTATED" "GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" 
       TCGA-OR-A5K0        TCGA-OR-A5K1        TCGA-OR-A5K2        TCGA-OR-A5K3 
"GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE"   "GLTSCR2 MUTATED" 
       TCGA-OR-A5K4        TCGA-OR-A5K5        TCGA-OR-A5K6        TCGA-OR-A5K9 
"GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" 
       TCGA-OR-A5LK        TCGA-OU-A5PI        TCGA-PK-A5H8        TCGA-PK-A5H9 
"GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" 
       TCGA-PK-A5HA        TCGA-PK-A5HB 
"GLTSCR2 WILD-TYPE" "GLTSCR2 WILD-TYPE" 
[1] "hr=" "1.8"
D58V2, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV
  GLTSCR2 MUTATED         0        2         0        2
  GLTSCR2 WILD-TYPE       4       11         4        6
D58V3, multiclass
           clus
vv          GLTSCR2 MUTATED GLTSCR2 WILD-TYPE
  STAGE I                 0                 4
  STAGE II                2                11
  STAGE III               0                 4
  STAGE IV                2                 6
                   vv
clus                T1 T2+T3 T4
  GLTSCR2 MUTATED    0     2  2
  GLTSCR2 WILD-TYPE  4    14  7
D58V4, multiclass
       clus
vv      GLTSCR2 MUTATED GLTSCR2 WILD-TYPE
  T1                  0                 4
  T2+T3               2                14
  T4                  2                 7
D58V5, binary
                   cls
clus                 0  1
  GLTSCR2 MUTATED    4  0
  GLTSCR2 WILD-TYPE 22  4
[1] "tbl2"
                   cls
clus                [,1] [,2]
  GLTSCR2 MUTATED      4    0
  GLTSCR2 WILD-TYPE   22    4
   clus
vv  GLTSCR2 MUTATED GLTSCR2 WILD-TYPE
  0               4                22
  1               0                 4
D58V6, binary
                   cls
clus                 0  1
  GLTSCR2 MUTATED    1  3
  GLTSCR2 WILD-TYPE 16 14
[1] "tbl2"
                   cls
clus                [,1] [,2]
  GLTSCR2 MUTATED      1    3
  GLTSCR2 WILD-TYPE   16   14
        clus
vv       GLTSCR2 MUTATED GLTSCR2 WILD-TYPE
  FEMALE               1                16
  MALE                 3                14

Clustering(59) Variable = PANK2 MUTATION ANALYSIS
D59V1, survival
                 sevent
clus2              0  1
  PANK2 MUTATED    6  1
  PANK2 WILD-TYPE 20  7
  PANK2 MUTATED PANK2 WILD-TYPE 
              7              27 
  PANK2 MUTATED PANK2 WILD-TYPE 
              1               7 
$`PANK2 MUTATED`
TCGA-OR-A5JG TCGA-OR-A5JO TCGA-OR-A5JS TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OU-A5PI 
       17.79        29.23        12.59         6.94        33.83        23.31 
TCGA-PK-A5H9 
       10.09 

$`PANK2 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JI TCGA-OR-A5JJ 
       30.31        18.12        57.53        41.39        46.82        10.16 
TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JT 
       41.26        22.03        18.48        22.16       121.25        16.04 
TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5K1 TCGA-OR-A5K2 
       50.66        63.25        31.23        18.15        89.52        32.68 
TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-OR-A5LK 
       93.44        17.36         8.32        37.15        11.31        73.05 
TCGA-PK-A5H8 TCGA-PK-A5HA TCGA-PK-A5HB 
      106.52        27.29        42.51 

  PANK2 MUTATED PANK2 WILD-TYPE 
           6.94            8.32 
  PANK2 MUTATED PANK2 WILD-TYPE 
          33.83          121.25 
  PANK2 MUTATED PANK2 WILD-TYPE 
          17.79           32.68 
[1] "6.9 - 33.8 (17.8)"  "8.3 - 121.2 (32.7)"
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"PANK2 WILD-TYPE" "PANK2 WILD-TYPE" "PANK2 WILD-TYPE" "PANK2 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
  "PANK2 MUTATED" "PANK2 WILD-TYPE" "PANK2 WILD-TYPE" "PANK2 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"PANK2 WILD-TYPE" "PANK2 WILD-TYPE"   "PANK2 MUTATED" "PANK2 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"PANK2 WILD-TYPE"   "PANK2 MUTATED" "PANK2 WILD-TYPE" "PANK2 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"PANK2 WILD-TYPE" "PANK2 WILD-TYPE" "PANK2 WILD-TYPE"   "PANK2 MUTATED" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
  "PANK2 MUTATED" "PANK2 WILD-TYPE" "PANK2 WILD-TYPE" "PANK2 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"PANK2 WILD-TYPE" "PANK2 WILD-TYPE" "PANK2 WILD-TYPE" "PANK2 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"PANK2 WILD-TYPE"   "PANK2 MUTATED" "PANK2 WILD-TYPE"   "PANK2 MUTATED" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"PANK2 WILD-TYPE" "PANK2 WILD-TYPE" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"PANK2 WILD-TYPE" "PANK2 WILD-TYPE" "PANK2 WILD-TYPE" "PANK2 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
  "PANK2 MUTATED" "PANK2 WILD-TYPE" "PANK2 WILD-TYPE" "PANK2 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"PANK2 WILD-TYPE" "PANK2 WILD-TYPE"   "PANK2 MUTATED" "PANK2 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"PANK2 WILD-TYPE"   "PANK2 MUTATED" "PANK2 WILD-TYPE" "PANK2 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"PANK2 WILD-TYPE" "PANK2 WILD-TYPE" "PANK2 WILD-TYPE"   "PANK2 MUTATED" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
  "PANK2 MUTATED" "PANK2 WILD-TYPE" "PANK2 WILD-TYPE" "PANK2 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"PANK2 WILD-TYPE" "PANK2 WILD-TYPE" "PANK2 WILD-TYPE" "PANK2 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"PANK2 WILD-TYPE"   "PANK2 MUTATED" "PANK2 WILD-TYPE"   "PANK2 MUTATED" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"PANK2 WILD-TYPE" "PANK2 WILD-TYPE" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"PANK2 WILD-TYPE" "PANK2 WILD-TYPE" "PANK2 WILD-TYPE" "PANK2 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
  "PANK2 MUTATED" "PANK2 WILD-TYPE" "PANK2 WILD-TYPE" "PANK2 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"PANK2 WILD-TYPE" "PANK2 WILD-TYPE"   "PANK2 MUTATED" "PANK2 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"PANK2 WILD-TYPE"   "PANK2 MUTATED" "PANK2 WILD-TYPE" "PANK2 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"PANK2 WILD-TYPE" "PANK2 WILD-TYPE" "PANK2 WILD-TYPE"   "PANK2 MUTATED" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
  "PANK2 MUTATED" "PANK2 WILD-TYPE" "PANK2 WILD-TYPE" "PANK2 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"PANK2 WILD-TYPE" "PANK2 WILD-TYPE" "PANK2 WILD-TYPE" "PANK2 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"PANK2 WILD-TYPE"   "PANK2 MUTATED" "PANK2 WILD-TYPE"   "PANK2 MUTATED" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"PANK2 WILD-TYPE" "PANK2 WILD-TYPE" 
[1] "hr=" "1.3"
D59V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV
  PANK2 MUTATED         1        3         0        2
  PANK2 WILD-TYPE       3       10         4        6
D59V3, multiclass
           clus
vv          PANK2 MUTATED PANK2 WILD-TYPE
  STAGE I               1               3
  STAGE II              3              10
  STAGE III             0               4
  STAGE IV              2               6
                 vv
clus              T1 T2+T3 T4
  PANK2 MUTATED    1     4  1
  PANK2 WILD-TYPE  3    12  8
D59V4, multiclass
       clus
vv      PANK2 MUTATED PANK2 WILD-TYPE
  T1                1               3
  T2+T3             4              12
  T4                1               8
D59V5, binary
                 cls
clus               0  1
  PANK2 MUTATED    4  2
  PANK2 WILD-TYPE 22  2
[1] "tbl2"
                 cls
clus              [,1] [,2]
  PANK2 MUTATED      4    2
  PANK2 WILD-TYPE   22    2
   clus
vv  PANK2 MUTATED PANK2 WILD-TYPE
  0             4              22
  1             2               2
D59V6, binary
                 cls
clus               0  1
  PANK2 MUTATED    5  2
  PANK2 WILD-TYPE 12 15
[1] "tbl2"
                 cls
clus              [,1] [,2]
  PANK2 MUTATED      5    2
  PANK2 WILD-TYPE   12   15
        clus
vv       PANK2 MUTATED PANK2 WILD-TYPE
  FEMALE             5              12
  MALE               2              15

Clustering(60) Variable = RNF39 MUTATION ANALYSIS
D60V1, survival
                 sevent
clus2              0  1
  RNF39 MUTATED    1  2
  RNF39 WILD-TYPE 25  6
  RNF39 MUTATED RNF39 WILD-TYPE 
              3              31 
  RNF39 MUTATED RNF39 WILD-TYPE 
              2               6 
$`RNF39 MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JG TCGA-PK-A5HB 
       30.31        17.79        42.51 

$`RNF39 WILD-TYPE`
TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JI TCGA-OR-A5JJ TCGA-OR-A5JK 
       18.12        57.53        41.39        46.82        10.16        41.26 
TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JS 
       22.03        18.48        29.23        22.16       121.25        12.59 
TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ 
       16.04        50.66        63.25        31.23        18.15         6.94 
TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 
       33.83        89.52        32.68        93.44        17.36         8.32 
TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 
       37.15        11.31        73.05        23.31       106.52        10.09 
TCGA-PK-A5HA 
       27.29 

  RNF39 MUTATED RNF39 WILD-TYPE 
          17.79            6.94 
  RNF39 MUTATED RNF39 WILD-TYPE 
          42.51          121.25 
  RNF39 MUTATED RNF39 WILD-TYPE 
          30.31           29.23 
[1] "17.8 - 42.5 (30.3)" "6.9 - 121.2 (29.2)"
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
  "RNF39 MUTATED" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
  "RNF39 MUTATED" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"RNF39 WILD-TYPE"   "RNF39 MUTATED" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
  "RNF39 MUTATED" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
  "RNF39 MUTATED" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"RNF39 WILD-TYPE"   "RNF39 MUTATED" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
  "RNF39 MUTATED" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
  "RNF39 MUTATED" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"RNF39 WILD-TYPE"   "RNF39 MUTATED" 
[1] "hr=" "3.9"
D60V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV
  RNF39 MUTATED         0        0         0        2
  RNF39 WILD-TYPE       4       13         4        6
D60V3, multiclass
[1] "Remove cluster labels:" "RNF39 MUTATED"         
clus
  RNF39 MUTATED RNF39 WILD-TYPE 
              2              27 
     TCGA-OR-A5JB      TCGA-OR-A5JF      TCGA-OR-A5JI      TCGA-OR-A5JJ 
"RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" 
     TCGA-OR-A5JK      TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO 
"RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" 
     TCGA-OR-A5JQ      TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT 
"RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" 
     TCGA-OR-A5JV      TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY 
"RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" 
     TCGA-OR-A5JZ      TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2 
"RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" 
     TCGA-OR-A5K3      TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6 
"RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" 
     TCGA-OR-A5K9      TCGA-OR-A5LK      TCGA-OU-A5PI 
"RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" 
                 vv
clus              T1 T2+T3 T4
  RNF39 MUTATED    0     0  2
  RNF39 WILD-TYPE  4    16  7
D60V4, multiclass
[1] "Remove cluster labels:" "RNF39 MUTATED"         
clus
  RNF39 MUTATED RNF39 WILD-TYPE 
              2              27 
     TCGA-OR-A5JB      TCGA-OR-A5JF      TCGA-OR-A5JI      TCGA-OR-A5JJ 
"RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" 
     TCGA-OR-A5JK      TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO 
"RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" 
     TCGA-OR-A5JQ      TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT 
"RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" 
     TCGA-OR-A5JV      TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY 
"RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" 
     TCGA-OR-A5JZ      TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2 
"RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" 
     TCGA-OR-A5K3      TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6 
"RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" 
     TCGA-OR-A5K9      TCGA-OR-A5LK      TCGA-OU-A5PI 
"RNF39 WILD-TYPE" "RNF39 WILD-TYPE" "RNF39 WILD-TYPE" 
D60V5, binary
                 cls
clus               0  1
  RNF39 MUTATED    1  1
  RNF39 WILD-TYPE 25  3
[1] "tbl2"
                 cls
clus              [,1] [,2]
  RNF39 MUTATED      1    1
  RNF39 WILD-TYPE   25    3
   clus
vv  RNF39 MUTATED RNF39 WILD-TYPE
  0             1              25
  1             1               3
D60V6, binary
                 cls
clus               0  1
  RNF39 MUTATED    1  2
  RNF39 WILD-TYPE 16 15
[1] "tbl2"
                 cls
clus              [,1] [,2]
  RNF39 MUTATED      1    2
  RNF39 WILD-TYPE   16   15
        clus
vv       RNF39 MUTATED RNF39 WILD-TYPE
  FEMALE             1              16
  MALE               2              15

Clustering(61) Variable = MAL2 MUTATION ANALYSIS
D61V1, survival
                sevent
clus2             0  1
  MAL2 MUTATED    6  1
  MAL2 WILD-TYPE 20  7
  MAL2 MUTATED MAL2 WILD-TYPE 
             7             27 
  MAL2 MUTATED MAL2 WILD-TYPE 
             1              7 
$`MAL2 MUTATED`
TCGA-OR-A5JF TCGA-OR-A5JT TCGA-OR-A5JZ TCGA-OR-A5K1 TCGA-OR-A5K5 TCGA-OR-A5K9 
       41.39        16.04         6.94        89.52         8.32        11.31 
TCGA-OU-A5PI 
       23.31 

$`MAL2 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JJ 
       30.31        18.12        57.53        17.79        46.82        10.16 
TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR 
       41.26        22.03        18.48        29.23        22.16       121.25 
TCGA-OR-A5JS TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5K0 
       12.59        50.66        63.25        31.23        18.15        33.83 
TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K6 TCGA-OR-A5LK TCGA-PK-A5H8 
       32.68        93.44        17.36        37.15        73.05       106.52 
TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
       10.09        27.29        42.51 

  MAL2 MUTATED MAL2 WILD-TYPE 
          6.94          10.09 
  MAL2 MUTATED MAL2 WILD-TYPE 
         89.52         121.25 
  MAL2 MUTATED MAL2 WILD-TYPE 
         16.04          31.23 
[1] "6.9 - 89.5 (16.0)"   "10.1 - 121.2 (31.2)"
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"MAL2 WILD-TYPE" "MAL2 WILD-TYPE" "MAL2 WILD-TYPE"   "MAL2 MUTATED" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"MAL2 WILD-TYPE" "MAL2 WILD-TYPE" "MAL2 WILD-TYPE" "MAL2 WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"MAL2 WILD-TYPE" "MAL2 WILD-TYPE" "MAL2 WILD-TYPE" "MAL2 WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"MAL2 WILD-TYPE" "MAL2 WILD-TYPE"   "MAL2 MUTATED" "MAL2 WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"MAL2 WILD-TYPE" "MAL2 WILD-TYPE" "MAL2 WILD-TYPE"   "MAL2 MUTATED" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"MAL2 WILD-TYPE"   "MAL2 MUTATED" "MAL2 WILD-TYPE" "MAL2 WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"MAL2 WILD-TYPE"   "MAL2 MUTATED" "MAL2 WILD-TYPE"   "MAL2 MUTATED" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"MAL2 WILD-TYPE"   "MAL2 MUTATED" "MAL2 WILD-TYPE" "MAL2 WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"MAL2 WILD-TYPE" "MAL2 WILD-TYPE" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"MAL2 WILD-TYPE" "MAL2 WILD-TYPE" "MAL2 WILD-TYPE"   "MAL2 MUTATED" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"MAL2 WILD-TYPE" "MAL2 WILD-TYPE" "MAL2 WILD-TYPE" "MAL2 WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"MAL2 WILD-TYPE" "MAL2 WILD-TYPE" "MAL2 WILD-TYPE" "MAL2 WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"MAL2 WILD-TYPE" "MAL2 WILD-TYPE"   "MAL2 MUTATED" "MAL2 WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"MAL2 WILD-TYPE" "MAL2 WILD-TYPE" "MAL2 WILD-TYPE"   "MAL2 MUTATED" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"MAL2 WILD-TYPE"   "MAL2 MUTATED" "MAL2 WILD-TYPE" "MAL2 WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"MAL2 WILD-TYPE"   "MAL2 MUTATED" "MAL2 WILD-TYPE"   "MAL2 MUTATED" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"MAL2 WILD-TYPE"   "MAL2 MUTATED" "MAL2 WILD-TYPE" "MAL2 WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"MAL2 WILD-TYPE" "MAL2 WILD-TYPE" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"MAL2 WILD-TYPE" "MAL2 WILD-TYPE" "MAL2 WILD-TYPE"   "MAL2 MUTATED" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"MAL2 WILD-TYPE" "MAL2 WILD-TYPE" "MAL2 WILD-TYPE" "MAL2 WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"MAL2 WILD-TYPE" "MAL2 WILD-TYPE" "MAL2 WILD-TYPE" "MAL2 WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"MAL2 WILD-TYPE" "MAL2 WILD-TYPE"   "MAL2 MUTATED" "MAL2 WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"MAL2 WILD-TYPE" "MAL2 WILD-TYPE" "MAL2 WILD-TYPE"   "MAL2 MUTATED" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"MAL2 WILD-TYPE"   "MAL2 MUTATED" "MAL2 WILD-TYPE" "MAL2 WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"MAL2 WILD-TYPE"   "MAL2 MUTATED" "MAL2 WILD-TYPE"   "MAL2 MUTATED" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"MAL2 WILD-TYPE"   "MAL2 MUTATED" "MAL2 WILD-TYPE" "MAL2 WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"MAL2 WILD-TYPE" "MAL2 WILD-TYPE" 
[1] "hr=" "1.1"
D61V2, continuous
                vv
clus             STAGE I STAGE II STAGE III STAGE IV
  MAL2 MUTATED         0        5         1        1
  MAL2 WILD-TYPE       4        8         3        7
D61V3, multiclass
           clus
vv          MAL2 MUTATED MAL2 WILD-TYPE
  STAGE I              0              4
  STAGE II             5              8
  STAGE III            1              3
  STAGE IV             1              7
                vv
clus             T1 T2+T3 T4
  MAL2 MUTATED    0     7  0
  MAL2 WILD-TYPE  4     9  9
D61V4, multiclass
       clus
vv      MAL2 MUTATED MAL2 WILD-TYPE
  T1               0              4
  T2+T3            7              9
  T4               0              9
D61V5, binary
                cls
clus              0  1
  MAL2 MUTATED    6  1
  MAL2 WILD-TYPE 20  3
[1] "tbl2"
                cls
clus             [,1] [,2]
  MAL2 MUTATED      6    1
  MAL2 WILD-TYPE   20    3
   clus
vv  MAL2 MUTATED MAL2 WILD-TYPE
  0            6             20
  1            1              3
D61V6, binary
                cls
clus              0  1
  MAL2 MUTATED    5  2
  MAL2 WILD-TYPE 12 15
[1] "tbl2"
                cls
clus             [,1] [,2]
  MAL2 MUTATED      5    2
  MAL2 WILD-TYPE   12   15
        clus
vv       MAL2 MUTATED MAL2 WILD-TYPE
  FEMALE            5             12
  MALE              2             15

Clustering(62) Variable = ZAR1 MUTATION ANALYSIS
D62V1, survival
                sevent
clus2             0  1
  ZAR1 MUTATED    7  4
  ZAR1 WILD-TYPE 19  4
  ZAR1 MUTATED ZAR1 WILD-TYPE 
            11             23 
  ZAR1 MUTATED ZAR1 WILD-TYPE 
             4              4 
$`ZAR1 MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JQ TCGA-OR-A5JS TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K2 
       30.31        22.16        12.59        18.15         6.94        32.68 
TCGA-OR-A5K3 TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-PK-A5H9 
       93.44        37.15        11.31        73.05        10.09 

$`ZAR1 WILD-TYPE`
TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JJ 
       18.12        57.53        41.39        17.79        46.82        10.16 
TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JR TCGA-OR-A5JT 
       41.26        22.03        18.48        29.23       121.25        16.04 
TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K4 
       50.66        63.25        31.23        33.83        89.52        17.36 
TCGA-OR-A5K5 TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5HA TCGA-PK-A5HB 
        8.32        23.31       106.52        27.29        42.51 

  ZAR1 MUTATED ZAR1 WILD-TYPE 
          6.94           8.32 
  ZAR1 MUTATED ZAR1 WILD-TYPE 
         93.44         121.25 
  ZAR1 MUTATED ZAR1 WILD-TYPE 
         22.16          31.23 
[1] "6.9 - 93.4 (22.2)"  "8.3 - 121.2 (31.2)"
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
  "ZAR1 MUTATED" "ZAR1 WILD-TYPE" "ZAR1 WILD-TYPE" "ZAR1 WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"ZAR1 WILD-TYPE" "ZAR1 WILD-TYPE" "ZAR1 WILD-TYPE" "ZAR1 WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"ZAR1 WILD-TYPE" "ZAR1 WILD-TYPE" "ZAR1 WILD-TYPE"   "ZAR1 MUTATED" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"ZAR1 WILD-TYPE"   "ZAR1 MUTATED" "ZAR1 WILD-TYPE" "ZAR1 WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"ZAR1 WILD-TYPE" "ZAR1 WILD-TYPE"   "ZAR1 MUTATED"   "ZAR1 MUTATED" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"ZAR1 WILD-TYPE" "ZAR1 WILD-TYPE"   "ZAR1 MUTATED"   "ZAR1 MUTATED" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"ZAR1 WILD-TYPE" "ZAR1 WILD-TYPE"   "ZAR1 MUTATED"   "ZAR1 MUTATED" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
  "ZAR1 MUTATED" "ZAR1 WILD-TYPE" "ZAR1 WILD-TYPE"   "ZAR1 MUTATED" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"ZAR1 WILD-TYPE" "ZAR1 WILD-TYPE" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
  "ZAR1 MUTATED" "ZAR1 WILD-TYPE" "ZAR1 WILD-TYPE" "ZAR1 WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"ZAR1 WILD-TYPE" "ZAR1 WILD-TYPE" "ZAR1 WILD-TYPE" "ZAR1 WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"ZAR1 WILD-TYPE" "ZAR1 WILD-TYPE" "ZAR1 WILD-TYPE"   "ZAR1 MUTATED" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"ZAR1 WILD-TYPE"   "ZAR1 MUTATED" "ZAR1 WILD-TYPE" "ZAR1 WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"ZAR1 WILD-TYPE" "ZAR1 WILD-TYPE"   "ZAR1 MUTATED"   "ZAR1 MUTATED" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"ZAR1 WILD-TYPE" "ZAR1 WILD-TYPE"   "ZAR1 MUTATED"   "ZAR1 MUTATED" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"ZAR1 WILD-TYPE" "ZAR1 WILD-TYPE"   "ZAR1 MUTATED"   "ZAR1 MUTATED" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
  "ZAR1 MUTATED" "ZAR1 WILD-TYPE" "ZAR1 WILD-TYPE"   "ZAR1 MUTATED" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"ZAR1 WILD-TYPE" "ZAR1 WILD-TYPE" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
  "ZAR1 MUTATED" "ZAR1 WILD-TYPE" "ZAR1 WILD-TYPE" "ZAR1 WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"ZAR1 WILD-TYPE" "ZAR1 WILD-TYPE" "ZAR1 WILD-TYPE" "ZAR1 WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"ZAR1 WILD-TYPE" "ZAR1 WILD-TYPE" "ZAR1 WILD-TYPE"   "ZAR1 MUTATED" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"ZAR1 WILD-TYPE"   "ZAR1 MUTATED" "ZAR1 WILD-TYPE" "ZAR1 WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"ZAR1 WILD-TYPE" "ZAR1 WILD-TYPE"   "ZAR1 MUTATED"   "ZAR1 MUTATED" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"ZAR1 WILD-TYPE" "ZAR1 WILD-TYPE"   "ZAR1 MUTATED"   "ZAR1 MUTATED" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"ZAR1 WILD-TYPE" "ZAR1 WILD-TYPE"   "ZAR1 MUTATED"   "ZAR1 MUTATED" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
  "ZAR1 MUTATED" "ZAR1 WILD-TYPE" "ZAR1 WILD-TYPE"   "ZAR1 MUTATED" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"ZAR1 WILD-TYPE" "ZAR1 WILD-TYPE" 
[1] "hr=" "2.6"
D62V2, continuous
                vv
clus             STAGE I STAGE II STAGE III STAGE IV
  ZAR1 MUTATED         0        7         1        2
  ZAR1 WILD-TYPE       4        6         3        6
D62V3, multiclass
           clus
vv          ZAR1 MUTATED ZAR1 WILD-TYPE
  STAGE I              0              4
  STAGE II             7              6
  STAGE III            1              3
  STAGE IV             2              6
                vv
clus             T1 T2+T3 T4
  ZAR1 MUTATED    0     7  3
  ZAR1 WILD-TYPE  4     9  6
D62V4, multiclass
       clus
vv      ZAR1 MUTATED ZAR1 WILD-TYPE
  T1               0              4
  T2+T3            7              9
  T4               3              6
D62V5, binary
                cls
clus              0  1
  ZAR1 MUTATED    9  1
  ZAR1 WILD-TYPE 17  3
[1] "tbl2"
                cls
clus             [,1] [,2]
  ZAR1 MUTATED      9    1
  ZAR1 WILD-TYPE   17    3
   clus
vv  ZAR1 MUTATED ZAR1 WILD-TYPE
  0            9             17
  1            1              3
D62V6, binary
                cls
clus              0  1
  ZAR1 MUTATED    8  3
  ZAR1 WILD-TYPE  9 14
[1] "tbl2"
                cls
clus             [,1] [,2]
  ZAR1 MUTATED      8    3
  ZAR1 WILD-TYPE    9   14
        clus
vv       ZAR1 MUTATED ZAR1 WILD-TYPE
  FEMALE            8              9
  MALE              3             14

Clustering(63) Variable = KRTAP5-5 MUTATION ANALYSIS
D63V1, survival
                    sevent
clus2                 0  1
  KRTAP5-5 MUTATED    1  2
  KRTAP5-5 WILD-TYPE 25  6
  KRTAP5-5 MUTATED KRTAP5-5 WILD-TYPE 
                 3                 31 
  KRTAP5-5 MUTATED KRTAP5-5 WILD-TYPE 
                 2                  6 
$`KRTAP5-5 MUTATED`
TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5K9 
       18.48        29.23        11.31 

$`KRTAP5-5 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI 
       30.31        18.12        57.53        41.39        17.79        46.82 
TCGA-OR-A5JJ TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JS 
       10.16        41.26        22.03        22.16       121.25        12.59 
TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ 
       16.04        50.66        63.25        31.23        18.15         6.94 
TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 
       33.83        89.52        32.68        93.44        17.36         8.32 
TCGA-OR-A5K6 TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA 
       37.15        73.05        23.31       106.52        10.09        27.29 
TCGA-PK-A5HB 
       42.51 

  KRTAP5-5 MUTATED KRTAP5-5 WILD-TYPE 
             11.31               6.94 
  KRTAP5-5 MUTATED KRTAP5-5 WILD-TYPE 
             29.23             121.25 
  KRTAP5-5 MUTATED KRTAP5-5 WILD-TYPE 
             18.48              31.23 
[1] "11.3 - 29.2 (18.5)" "6.9 - 121.2 (31.2)"
        TCGA-OR-A5JA         TCGA-OR-A5JB         TCGA-OR-A5JC 
"KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" 
        TCGA-OR-A5JF         TCGA-OR-A5JG         TCGA-OR-A5JI 
"KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" 
        TCGA-OR-A5JJ         TCGA-OR-A5JK         TCGA-OR-A5JL 
"KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" 
        TCGA-OR-A5JM         TCGA-OR-A5JO         TCGA-OR-A5JQ 
  "KRTAP5-5 MUTATED"   "KRTAP5-5 MUTATED" "KRTAP5-5 WILD-TYPE" 
        TCGA-OR-A5JR         TCGA-OR-A5JS         TCGA-OR-A5JT 
"KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" 
        TCGA-OR-A5JV         TCGA-OR-A5JW         TCGA-OR-A5JX 
"KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" 
        TCGA-OR-A5JY         TCGA-OR-A5JZ         TCGA-OR-A5K0 
"KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" 
        TCGA-OR-A5K1         TCGA-OR-A5K2         TCGA-OR-A5K3 
"KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" 
        TCGA-OR-A5K4         TCGA-OR-A5K5         TCGA-OR-A5K6 
"KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" 
        TCGA-OR-A5K9         TCGA-OR-A5LK         TCGA-OU-A5PI 
  "KRTAP5-5 MUTATED" "KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" 
        TCGA-PK-A5H8         TCGA-PK-A5H9         TCGA-PK-A5HA 
"KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" 
        TCGA-PK-A5HB 
"KRTAP5-5 WILD-TYPE" 
        TCGA-OR-A5JA         TCGA-OR-A5JB         TCGA-OR-A5JC 
"KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" 
        TCGA-OR-A5JF         TCGA-OR-A5JG         TCGA-OR-A5JI 
"KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" 
        TCGA-OR-A5JJ         TCGA-OR-A5JK         TCGA-OR-A5JL 
"KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" 
        TCGA-OR-A5JM         TCGA-OR-A5JO         TCGA-OR-A5JQ 
  "KRTAP5-5 MUTATED"   "KRTAP5-5 MUTATED" "KRTAP5-5 WILD-TYPE" 
        TCGA-OR-A5JR         TCGA-OR-A5JS         TCGA-OR-A5JT 
"KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" 
        TCGA-OR-A5JV         TCGA-OR-A5JW         TCGA-OR-A5JX 
"KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" 
        TCGA-OR-A5JY         TCGA-OR-A5JZ         TCGA-OR-A5K0 
"KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" 
        TCGA-OR-A5K1         TCGA-OR-A5K2         TCGA-OR-A5K3 
"KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" 
        TCGA-OR-A5K4         TCGA-OR-A5K5         TCGA-OR-A5K6 
"KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" 
        TCGA-OR-A5K9         TCGA-OR-A5LK         TCGA-OU-A5PI 
  "KRTAP5-5 MUTATED" "KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" 
        TCGA-PK-A5H8         TCGA-PK-A5H9         TCGA-PK-A5HA 
"KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" 
        TCGA-PK-A5HB 
"KRTAP5-5 WILD-TYPE" 
        TCGA-OR-A5JA         TCGA-OR-A5JB         TCGA-OR-A5JC 
"KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" 
        TCGA-OR-A5JF         TCGA-OR-A5JG         TCGA-OR-A5JI 
"KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" 
        TCGA-OR-A5JJ         TCGA-OR-A5JK         TCGA-OR-A5JL 
"KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" 
        TCGA-OR-A5JM         TCGA-OR-A5JO         TCGA-OR-A5JQ 
  "KRTAP5-5 MUTATED"   "KRTAP5-5 MUTATED" "KRTAP5-5 WILD-TYPE" 
        TCGA-OR-A5JR         TCGA-OR-A5JS         TCGA-OR-A5JT 
"KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" 
        TCGA-OR-A5JV         TCGA-OR-A5JW         TCGA-OR-A5JX 
"KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" 
        TCGA-OR-A5JY         TCGA-OR-A5JZ         TCGA-OR-A5K0 
"KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" 
        TCGA-OR-A5K1         TCGA-OR-A5K2         TCGA-OR-A5K3 
"KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" 
        TCGA-OR-A5K4         TCGA-OR-A5K5         TCGA-OR-A5K6 
"KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" 
        TCGA-OR-A5K9         TCGA-OR-A5LK         TCGA-OU-A5PI 
  "KRTAP5-5 MUTATED" "KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" 
        TCGA-PK-A5H8         TCGA-PK-A5H9         TCGA-PK-A5HA 
"KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" "KRTAP5-5 WILD-TYPE" 
        TCGA-PK-A5HB 
"KRTAP5-5 WILD-TYPE" 
[1] "hr=" "7.2"
D63V2, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  KRTAP5-5 MUTATED         1        1         0        1
  KRTAP5-5 WILD-TYPE       3       12         4        7
D63V3, multiclass
           clus
vv          KRTAP5-5 MUTATED KRTAP5-5 WILD-TYPE
  STAGE I                  1                  3
  STAGE II                 1                 12
  STAGE III                0                  4
  STAGE IV                 1                  7
                    vv
clus                 T1 T2+T3 T4
  KRTAP5-5 MUTATED    1     1  1
  KRTAP5-5 WILD-TYPE  3    15  8
D63V4, multiclass
       clus
vv      KRTAP5-5 MUTATED KRTAP5-5 WILD-TYPE
  T1                   1                  3
  T2+T3                1                 15
  T4                   1                  8
D63V5, binary
                    cls
clus                  0  1
  KRTAP5-5 MUTATED    3  0
  KRTAP5-5 WILD-TYPE 23  4
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  KRTAP5-5 MUTATED      3    0
  KRTAP5-5 WILD-TYPE   23    4
   clus
vv  KRTAP5-5 MUTATED KRTAP5-5 WILD-TYPE
  0                3                 23
  1                0                  4
D63V6, binary
                    cls
clus                  0  1
  KRTAP5-5 MUTATED    3  0
  KRTAP5-5 WILD-TYPE 14 17
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  KRTAP5-5 MUTATED      3    0
  KRTAP5-5 WILD-TYPE   14   17
        clus
vv       KRTAP5-5 MUTATED KRTAP5-5 WILD-TYPE
  FEMALE                3                 14
  MALE                  0                 17

Clustering(64) Variable = CRIPAK MUTATION ANALYSIS
D64V1, survival
                  sevent
clus2               0  1
  CRIPAK MUTATED    4  2
  CRIPAK WILD-TYPE 22  6
  CRIPAK MUTATED CRIPAK WILD-TYPE 
               6               28 
  CRIPAK MUTATED CRIPAK WILD-TYPE 
               2                6 
$`CRIPAK MUTATED`
TCGA-OR-A5JG TCGA-OR-A5JL TCGA-OR-A5JS TCGA-OR-A5K0 TCGA-OR-A5K3 TCGA-OR-A5K9 
       17.79        22.03        12.59        33.83        93.44        11.31 

$`CRIPAK WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JI TCGA-OR-A5JJ 
       30.31        18.12        57.53        41.39        46.82        10.16 
TCGA-OR-A5JK TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JT 
       41.26        18.48        29.23        22.16       121.25        16.04 
TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K1 
       50.66        63.25        31.23        18.15         6.94        89.52 
TCGA-OR-A5K2 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5LK TCGA-OU-A5PI 
       32.68        17.36         8.32        37.15        73.05        23.31 
TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
      106.52        10.09        27.29        42.51 

  CRIPAK MUTATED CRIPAK WILD-TYPE 
           11.31             6.94 
  CRIPAK MUTATED CRIPAK WILD-TYPE 
           93.44           121.25 
  CRIPAK MUTATED CRIPAK WILD-TYPE 
           19.91            30.77 
[1] "11.3 - 93.4 (19.9)" "6.9 - 121.2 (30.8)"
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
  "CRIPAK MUTATED" "CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
  "CRIPAK MUTATED" "CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"CRIPAK WILD-TYPE"   "CRIPAK MUTATED" "CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
  "CRIPAK MUTATED" "CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE"   "CRIPAK MUTATED" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE"   "CRIPAK MUTATED" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
  "CRIPAK MUTATED" "CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
  "CRIPAK MUTATED" "CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"CRIPAK WILD-TYPE"   "CRIPAK MUTATED" "CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
  "CRIPAK MUTATED" "CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE"   "CRIPAK MUTATED" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE"   "CRIPAK MUTATED" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
  "CRIPAK MUTATED" "CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
  "CRIPAK MUTATED" "CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"CRIPAK WILD-TYPE"   "CRIPAK MUTATED" "CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
  "CRIPAK MUTATED" "CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE"   "CRIPAK MUTATED" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE"   "CRIPAK MUTATED" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"CRIPAK WILD-TYPE" "CRIPAK WILD-TYPE" 
[1] "hr=" "2.1"
D64V2, continuous
                  vv
clus               STAGE I STAGE II STAGE III STAGE IV
  CRIPAK MUTATED         1        4         0        1
  CRIPAK WILD-TYPE       3        9         4        7
D64V3, multiclass
           clus
vv          CRIPAK MUTATED CRIPAK WILD-TYPE
  STAGE I                1                3
  STAGE II               4                9
  STAGE III              0                4
  STAGE IV               1                7
                  vv
clus               T1 T2+T3 T4
  CRIPAK MUTATED    1     4  1
  CRIPAK WILD-TYPE  3    12  8
D64V4, multiclass
       clus
vv      CRIPAK MUTATED CRIPAK WILD-TYPE
  T1                 1                3
  T2+T3              4               12
  T4                 1                8
D64V5, binary
                  cls
clus                0  1
  CRIPAK MUTATED    5  1
  CRIPAK WILD-TYPE 21  3
[1] "tbl2"
                  cls
clus               [,1] [,2]
  CRIPAK MUTATED      5    1
  CRIPAK WILD-TYPE   21    3
   clus
vv  CRIPAK MUTATED CRIPAK WILD-TYPE
  0              5               21
  1              1                3
D64V6, binary
                  cls
clus                0  1
  CRIPAK MUTATED    4  2
  CRIPAK WILD-TYPE 13 15
[1] "tbl2"
                  cls
clus               [,1] [,2]
  CRIPAK MUTATED      4    2
  CRIPAK WILD-TYPE   13   15
        clus
vv       CRIPAK MUTATED CRIPAK WILD-TYPE
  FEMALE              4               13
  MALE                2               15

Clustering(65) Variable = TP53 MUTATION ANALYSIS
D65V1, survival
                sevent
clus2             0  1
  TP53 MUTATED    4  3
  TP53 WILD-TYPE 22  5
  TP53 MUTATED TP53 WILD-TYPE 
             7             27 
  TP53 MUTATED TP53 WILD-TYPE 
             3              5 
$`TP53 MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JG TCGA-OR-A5JJ TCGA-OR-A5JL TCGA-OR-A5K4 
       30.31        18.12        17.79        10.16        22.03        17.36 
TCGA-PK-A5HB 
       42.51 

$`TP53 WILD-TYPE`
TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JI TCGA-OR-A5JK TCGA-OR-A5JM TCGA-OR-A5JO 
       57.53        41.39        46.82        41.26        18.48        29.23 
TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JS TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW 
       22.16       121.25        12.59        16.04        50.66        63.25 
TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K2 
       31.23        18.15         6.94        33.83        89.52        32.68 
TCGA-OR-A5K3 TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-OU-A5PI 
       93.44         8.32        37.15        11.31        73.05        23.31 
TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA 
      106.52        10.09        27.29 

  TP53 MUTATED TP53 WILD-TYPE 
         10.16           6.94 
  TP53 MUTATED TP53 WILD-TYPE 
         42.51         121.25 
  TP53 MUTATED TP53 WILD-TYPE 
         18.12          32.68 
[1] "10.2 - 42.5 (18.1)" "6.9 - 121.2 (32.7)"
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
  "TP53 MUTATED"   "TP53 MUTATED" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
  "TP53 MUTATED" "TP53 WILD-TYPE"   "TP53 MUTATED" "TP53 WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
  "TP53 MUTATED" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
  "TP53 MUTATED" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"TP53 WILD-TYPE"   "TP53 MUTATED" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
  "TP53 MUTATED"   "TP53 MUTATED" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
  "TP53 MUTATED" "TP53 WILD-TYPE"   "TP53 MUTATED" "TP53 WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
  "TP53 MUTATED" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
  "TP53 MUTATED" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"TP53 WILD-TYPE"   "TP53 MUTATED" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
  "TP53 MUTATED"   "TP53 MUTATED" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
  "TP53 MUTATED" "TP53 WILD-TYPE"   "TP53 MUTATED" "TP53 WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
  "TP53 MUTATED" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
  "TP53 MUTATED" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"TP53 WILD-TYPE"   "TP53 MUTATED" 
[1] "hr=" "4.7"
D65V2, continuous
                vv
clus             STAGE I STAGE II STAGE III STAGE IV
  TP53 MUTATED         1        0         1        4
  TP53 WILD-TYPE       3       13         3        4
D65V3, multiclass
           clus
vv          TP53 MUTATED TP53 WILD-TYPE
  STAGE I              1              3
  STAGE II             0             13
  STAGE III            1              3
  STAGE IV             4              4
                vv
clus             T1 T2+T3 T4
  TP53 MUTATED    1     0  5
  TP53 WILD-TYPE  3    16  4
D65V4, multiclass
       clus
vv      TP53 MUTATED TP53 WILD-TYPE
  T1               1              3
  T2+T3            0             16
  T4               5              4
D65V5, binary
                cls
clus              0  1
  TP53 MUTATED    4  2
  TP53 WILD-TYPE 22  2
[1] "tbl2"
                cls
clus             [,1] [,2]
  TP53 MUTATED      4    2
  TP53 WILD-TYPE   22    2
   clus
vv  TP53 MUTATED TP53 WILD-TYPE
  0            4             22
  1            2              2
D65V6, binary
                cls
clus              0  1
  TP53 MUTATED    3  4
  TP53 WILD-TYPE 14 13
[1] "tbl2"
                cls
clus             [,1] [,2]
  TP53 MUTATED      3    4
  TP53 WILD-TYPE   14   13
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  FEMALE            3             14
  MALE              4             13

Clustering(66) Variable = BHLHE22 MUTATION ANALYSIS
D66V1, survival
                   sevent
clus2                0  1
  BHLHE22 MUTATED    4  0
  BHLHE22 WILD-TYPE 22  8
  BHLHE22 MUTATED BHLHE22 WILD-TYPE 
                4                30 
  BHLHE22 MUTATED BHLHE22 WILD-TYPE 
                0                 8 
$`BHLHE22 MUTATED`
TCGA-OR-A5JJ TCGA-OR-A5JO TCGA-OR-A5JT TCGA-OR-A5K1 
       10.16        29.23        16.04        89.52 

$`BHLHE22 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI 
       30.31        18.12        57.53        41.39        17.79        46.82 
TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JS 
       41.26        22.03        18.48        22.16       121.25        12.59 
TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K0 
       50.66        63.25        31.23        18.15         6.94        33.83 
TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5K9 
       32.68        93.44        17.36         8.32        37.15        11.31 
TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
       73.05        23.31       106.52        10.09        27.29        42.51 

  BHLHE22 MUTATED BHLHE22 WILD-TYPE 
            10.16              6.94 
  BHLHE22 MUTATED BHLHE22 WILD-TYPE 
            89.52            121.25 
  BHLHE22 MUTATED BHLHE22 WILD-TYPE 
           22.635            30.770 
[1] "10.2 - 89.5 (22.6)" "6.9 - 121.2 (30.8)"
       TCGA-OR-A5JA        TCGA-OR-A5JB        TCGA-OR-A5JC        TCGA-OR-A5JF 
"BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE" 
       TCGA-OR-A5JG        TCGA-OR-A5JI        TCGA-OR-A5JJ        TCGA-OR-A5JK 
"BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE"   "BHLHE22 MUTATED" "BHLHE22 WILD-TYPE" 
       TCGA-OR-A5JL        TCGA-OR-A5JM        TCGA-OR-A5JO        TCGA-OR-A5JQ 
"BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE"   "BHLHE22 MUTATED" "BHLHE22 WILD-TYPE" 
       TCGA-OR-A5JR        TCGA-OR-A5JS        TCGA-OR-A5JT        TCGA-OR-A5JV 
"BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE"   "BHLHE22 MUTATED" "BHLHE22 WILD-TYPE" 
       TCGA-OR-A5JW        TCGA-OR-A5JX        TCGA-OR-A5JY        TCGA-OR-A5JZ 
"BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE" 
       TCGA-OR-A5K0        TCGA-OR-A5K1        TCGA-OR-A5K2        TCGA-OR-A5K3 
"BHLHE22 WILD-TYPE"   "BHLHE22 MUTATED" "BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE" 
       TCGA-OR-A5K4        TCGA-OR-A5K5        TCGA-OR-A5K6        TCGA-OR-A5K9 
"BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE" 
       TCGA-OR-A5LK        TCGA-OU-A5PI        TCGA-PK-A5H8        TCGA-PK-A5H9 
"BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE" 
       TCGA-PK-A5HA        TCGA-PK-A5HB 
"BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE" 
       TCGA-OR-A5JA        TCGA-OR-A5JB        TCGA-OR-A5JC        TCGA-OR-A5JF 
"BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE" 
       TCGA-OR-A5JG        TCGA-OR-A5JI        TCGA-OR-A5JJ        TCGA-OR-A5JK 
"BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE"   "BHLHE22 MUTATED" "BHLHE22 WILD-TYPE" 
       TCGA-OR-A5JL        TCGA-OR-A5JM        TCGA-OR-A5JO        TCGA-OR-A5JQ 
"BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE"   "BHLHE22 MUTATED" "BHLHE22 WILD-TYPE" 
       TCGA-OR-A5JR        TCGA-OR-A5JS        TCGA-OR-A5JT        TCGA-OR-A5JV 
"BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE"   "BHLHE22 MUTATED" "BHLHE22 WILD-TYPE" 
       TCGA-OR-A5JW        TCGA-OR-A5JX        TCGA-OR-A5JY        TCGA-OR-A5JZ 
"BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE" 
       TCGA-OR-A5K0        TCGA-OR-A5K1        TCGA-OR-A5K2        TCGA-OR-A5K3 
"BHLHE22 WILD-TYPE"   "BHLHE22 MUTATED" "BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE" 
       TCGA-OR-A5K4        TCGA-OR-A5K5        TCGA-OR-A5K6        TCGA-OR-A5K9 
"BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE" 
       TCGA-OR-A5LK        TCGA-OU-A5PI        TCGA-PK-A5H8        TCGA-PK-A5H9 
"BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE" 
       TCGA-PK-A5HA        TCGA-PK-A5HB 
"BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE" 
       TCGA-OR-A5JA        TCGA-OR-A5JB        TCGA-OR-A5JC        TCGA-OR-A5JF 
"BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE" 
       TCGA-OR-A5JG        TCGA-OR-A5JI        TCGA-OR-A5JJ        TCGA-OR-A5JK 
"BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE"   "BHLHE22 MUTATED" "BHLHE22 WILD-TYPE" 
       TCGA-OR-A5JL        TCGA-OR-A5JM        TCGA-OR-A5JO        TCGA-OR-A5JQ 
"BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE"   "BHLHE22 MUTATED" "BHLHE22 WILD-TYPE" 
       TCGA-OR-A5JR        TCGA-OR-A5JS        TCGA-OR-A5JT        TCGA-OR-A5JV 
"BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE"   "BHLHE22 MUTATED" "BHLHE22 WILD-TYPE" 
       TCGA-OR-A5JW        TCGA-OR-A5JX        TCGA-OR-A5JY        TCGA-OR-A5JZ 
"BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE" 
       TCGA-OR-A5K0        TCGA-OR-A5K1        TCGA-OR-A5K2        TCGA-OR-A5K3 
"BHLHE22 WILD-TYPE"   "BHLHE22 MUTATED" "BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE" 
       TCGA-OR-A5K4        TCGA-OR-A5K5        TCGA-OR-A5K6        TCGA-OR-A5K9 
"BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE" 
       TCGA-OR-A5LK        TCGA-OU-A5PI        TCGA-PK-A5H8        TCGA-PK-A5H9 
"BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE" 
       TCGA-PK-A5HA        TCGA-PK-A5HB 
"BHLHE22 WILD-TYPE" "BHLHE22 WILD-TYPE" 
[1] "hr="     "7.7e+07"
D66V2, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV
  BHLHE22 MUTATED         1        2         0        1
  BHLHE22 WILD-TYPE       3       11         4        7
D66V3, multiclass
           clus
vv          BHLHE22 MUTATED BHLHE22 WILD-TYPE
  STAGE I                 1                 3
  STAGE II                2                11
  STAGE III               0                 4
  STAGE IV                1                 7
                   vv
clus                T1 T2+T3 T4
  BHLHE22 MUTATED    1     2  1
  BHLHE22 WILD-TYPE  3    14  8
D66V4, multiclass
       clus
vv      BHLHE22 MUTATED BHLHE22 WILD-TYPE
  T1                  1                 3
  T2+T3               2                14
  T4                  1                 8
D66V5, binary
                   cls
clus                 0  1
  BHLHE22 MUTATED    3  1
  BHLHE22 WILD-TYPE 23  3
[1] "tbl2"
                   cls
clus                [,1] [,2]
  BHLHE22 MUTATED      3    1
  BHLHE22 WILD-TYPE   23    3
   clus
vv  BHLHE22 MUTATED BHLHE22 WILD-TYPE
  0               3                23
  1               1                 3
D66V6, binary
                   cls
clus                 0  1
  BHLHE22 MUTATED    2  2
  BHLHE22 WILD-TYPE 15 15
[1] "tbl2"
                   cls
clus                [,1] [,2]
  BHLHE22 MUTATED      2    2
  BHLHE22 WILD-TYPE   15   15
        clus
vv       BHLHE22 MUTATED BHLHE22 WILD-TYPE
  FEMALE               2                15
  MALE                 2                15

Clustering(67) Variable = RGMB MUTATION ANALYSIS
D67V1, survival
                sevent
clus2             0  1
  RGMB MUTATED    2  1
  RGMB WILD-TYPE 24  7
  RGMB MUTATED RGMB WILD-TYPE 
             3             31 
  RGMB MUTATED RGMB WILD-TYPE 
             1              7 
$`RGMB MUTATED`
TCGA-OR-A5JG TCGA-OR-A5JO TCGA-OR-A5K0 
       17.79        29.23        33.83 

$`RGMB WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JI TCGA-OR-A5JJ 
       30.31        18.12        57.53        41.39        46.82        10.16 
TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JS 
       41.26        22.03        18.48        22.16       121.25        12.59 
TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ 
       16.04        50.66        63.25        31.23        18.15         6.94 
TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 
       89.52        32.68        93.44        17.36         8.32        37.15 
TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA 
       11.31        73.05        23.31       106.52        10.09        27.29 
TCGA-PK-A5HB 
       42.51 

  RGMB MUTATED RGMB WILD-TYPE 
         17.79           6.94 
  RGMB MUTATED RGMB WILD-TYPE 
         33.83         121.25 
  RGMB MUTATED RGMB WILD-TYPE 
         29.23          30.31 
[1] "17.8 - 33.8 (29.2)" "6.9 - 121.2 (30.3)"
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"RGMB WILD-TYPE" "RGMB WILD-TYPE" "RGMB WILD-TYPE" "RGMB WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
  "RGMB MUTATED" "RGMB WILD-TYPE" "RGMB WILD-TYPE" "RGMB WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"RGMB WILD-TYPE" "RGMB WILD-TYPE"   "RGMB MUTATED" "RGMB WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"RGMB WILD-TYPE" "RGMB WILD-TYPE" "RGMB WILD-TYPE" "RGMB WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"RGMB WILD-TYPE" "RGMB WILD-TYPE" "RGMB WILD-TYPE" "RGMB WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
  "RGMB MUTATED" "RGMB WILD-TYPE" "RGMB WILD-TYPE" "RGMB WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"RGMB WILD-TYPE" "RGMB WILD-TYPE" "RGMB WILD-TYPE" "RGMB WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"RGMB WILD-TYPE" "RGMB WILD-TYPE" "RGMB WILD-TYPE" "RGMB WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"RGMB WILD-TYPE" "RGMB WILD-TYPE" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"RGMB WILD-TYPE" "RGMB WILD-TYPE" "RGMB WILD-TYPE" "RGMB WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
  "RGMB MUTATED" "RGMB WILD-TYPE" "RGMB WILD-TYPE" "RGMB WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"RGMB WILD-TYPE" "RGMB WILD-TYPE"   "RGMB MUTATED" "RGMB WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"RGMB WILD-TYPE" "RGMB WILD-TYPE" "RGMB WILD-TYPE" "RGMB WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"RGMB WILD-TYPE" "RGMB WILD-TYPE" "RGMB WILD-TYPE" "RGMB WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
  "RGMB MUTATED" "RGMB WILD-TYPE" "RGMB WILD-TYPE" "RGMB WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"RGMB WILD-TYPE" "RGMB WILD-TYPE" "RGMB WILD-TYPE" "RGMB WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"RGMB WILD-TYPE" "RGMB WILD-TYPE" "RGMB WILD-TYPE" "RGMB WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"RGMB WILD-TYPE" "RGMB WILD-TYPE" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"RGMB WILD-TYPE" "RGMB WILD-TYPE" "RGMB WILD-TYPE" "RGMB WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
  "RGMB MUTATED" "RGMB WILD-TYPE" "RGMB WILD-TYPE" "RGMB WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"RGMB WILD-TYPE" "RGMB WILD-TYPE"   "RGMB MUTATED" "RGMB WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"RGMB WILD-TYPE" "RGMB WILD-TYPE" "RGMB WILD-TYPE" "RGMB WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"RGMB WILD-TYPE" "RGMB WILD-TYPE" "RGMB WILD-TYPE" "RGMB WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
  "RGMB MUTATED" "RGMB WILD-TYPE" "RGMB WILD-TYPE" "RGMB WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"RGMB WILD-TYPE" "RGMB WILD-TYPE" "RGMB WILD-TYPE" "RGMB WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"RGMB WILD-TYPE" "RGMB WILD-TYPE" "RGMB WILD-TYPE" "RGMB WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"RGMB WILD-TYPE" "RGMB WILD-TYPE" 
[1] "hr=" "1.8"
D67V2, continuous
                vv
clus             STAGE I STAGE II STAGE III STAGE IV
  RGMB MUTATED         1        1         0        1
  RGMB WILD-TYPE       3       12         4        7
D67V3, multiclass
           clus
vv          RGMB MUTATED RGMB WILD-TYPE
  STAGE I              1              3
  STAGE II             1             12
  STAGE III            0              4
  STAGE IV             1              7
                vv
clus             T1 T2+T3 T4
  RGMB MUTATED    1     1  1
  RGMB WILD-TYPE  3    15  8
D67V4, multiclass
       clus
vv      RGMB MUTATED RGMB WILD-TYPE
  T1               1              3
  T2+T3            1             15
  T4               1              8
D67V5, binary
                cls
clus              0  1
  RGMB MUTATED    2  1
  RGMB WILD-TYPE 24  3
[1] "tbl2"
                cls
clus             [,1] [,2]
  RGMB MUTATED      2    1
  RGMB WILD-TYPE   24    3
   clus
vv  RGMB MUTATED RGMB WILD-TYPE
  0            2             24
  1            1              3
D67V6, binary
                cls
clus              0  1
  RGMB MUTATED    2  1
  RGMB WILD-TYPE 15 16
[1] "tbl2"
                cls
clus             [,1] [,2]
  RGMB MUTATED      2    1
  RGMB WILD-TYPE   15   16
        clus
vv       RGMB MUTATED RGMB WILD-TYPE
  FEMALE            2             15
  MALE              1             16

Clustering(68) Variable = APOE MUTATION ANALYSIS
D68V1, survival
                sevent
clus2             0  1
  APOE MUTATED    4  2
  APOE WILD-TYPE 22  6
  APOE MUTATED APOE WILD-TYPE 
             6             28 
  APOE MUTATED APOE WILD-TYPE 
             2              6 
$`APOE MUTATED`
TCGA-OR-A5JB TCGA-OR-A5JW TCGA-OR-A5K1 TCGA-OR-A5K4 TCGA-OR-A5K9 TCGA-PK-A5HB 
       18.12        63.25        89.52        17.36        11.31        42.51 

$`APOE WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JJ 
       30.31        57.53        41.39        17.79        46.82        10.16 
TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR 
       41.26        22.03        18.48        29.23        22.16       121.25 
TCGA-OR-A5JS TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ 
       12.59        16.04        50.66        31.23        18.15         6.94 
TCGA-OR-A5K0 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5LK 
       33.83        32.68        93.44         8.32        37.15        73.05 
TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA 
       23.31       106.52        10.09        27.29 

  APOE MUTATED APOE WILD-TYPE 
         11.31           6.94 
  APOE MUTATED APOE WILD-TYPE 
         89.52         121.25 
  APOE MUTATED APOE WILD-TYPE 
        30.315         29.770 
[1] "11.3 - 89.5 (30.3)" "6.9 - 121.2 (29.8)"
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"APOE WILD-TYPE"   "APOE MUTATED" "APOE WILD-TYPE" "APOE WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"APOE WILD-TYPE" "APOE WILD-TYPE" "APOE WILD-TYPE" "APOE WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"APOE WILD-TYPE" "APOE WILD-TYPE" "APOE WILD-TYPE" "APOE WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"APOE WILD-TYPE" "APOE WILD-TYPE" "APOE WILD-TYPE" "APOE WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
  "APOE MUTATED" "APOE WILD-TYPE" "APOE WILD-TYPE" "APOE WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"APOE WILD-TYPE"   "APOE MUTATED" "APOE WILD-TYPE" "APOE WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
  "APOE MUTATED" "APOE WILD-TYPE" "APOE WILD-TYPE"   "APOE MUTATED" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"APOE WILD-TYPE" "APOE WILD-TYPE" "APOE WILD-TYPE" "APOE WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"APOE WILD-TYPE"   "APOE MUTATED" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"APOE WILD-TYPE"   "APOE MUTATED" "APOE WILD-TYPE" "APOE WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"APOE WILD-TYPE" "APOE WILD-TYPE" "APOE WILD-TYPE" "APOE WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"APOE WILD-TYPE" "APOE WILD-TYPE" "APOE WILD-TYPE" "APOE WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"APOE WILD-TYPE" "APOE WILD-TYPE" "APOE WILD-TYPE" "APOE WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
  "APOE MUTATED" "APOE WILD-TYPE" "APOE WILD-TYPE" "APOE WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"APOE WILD-TYPE"   "APOE MUTATED" "APOE WILD-TYPE" "APOE WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
  "APOE MUTATED" "APOE WILD-TYPE" "APOE WILD-TYPE"   "APOE MUTATED" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"APOE WILD-TYPE" "APOE WILD-TYPE" "APOE WILD-TYPE" "APOE WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"APOE WILD-TYPE"   "APOE MUTATED" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"APOE WILD-TYPE"   "APOE MUTATED" "APOE WILD-TYPE" "APOE WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"APOE WILD-TYPE" "APOE WILD-TYPE" "APOE WILD-TYPE" "APOE WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"APOE WILD-TYPE" "APOE WILD-TYPE" "APOE WILD-TYPE" "APOE WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"APOE WILD-TYPE" "APOE WILD-TYPE" "APOE WILD-TYPE" "APOE WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
  "APOE MUTATED" "APOE WILD-TYPE" "APOE WILD-TYPE" "APOE WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"APOE WILD-TYPE"   "APOE MUTATED" "APOE WILD-TYPE" "APOE WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
  "APOE MUTATED" "APOE WILD-TYPE" "APOE WILD-TYPE"   "APOE MUTATED" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"APOE WILD-TYPE" "APOE WILD-TYPE" "APOE WILD-TYPE" "APOE WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"APOE WILD-TYPE"   "APOE MUTATED" 
[1] "hr=" "1.5"
D68V2, continuous
                vv
clus             STAGE I STAGE II STAGE III STAGE IV
  APOE MUTATED         0        3         1        1
  APOE WILD-TYPE       4       10         3        7
D68V3, multiclass
           clus
vv          APOE MUTATED APOE WILD-TYPE
  STAGE I              0              4
  STAGE II             3             10
  STAGE III            1              3
  STAGE IV             1              7
                vv
clus             T1 T2+T3 T4
  APOE MUTATED    0     3  2
  APOE WILD-TYPE  4    13  7
D68V4, multiclass
       clus
vv      APOE MUTATED APOE WILD-TYPE
  T1               0              4
  T2+T3            3             13
  T4               2              7
D68V5, binary
                cls
clus              0  1
  APOE MUTATED    5  0
  APOE WILD-TYPE 21  4
[1] "tbl2"
                cls
clus             [,1] [,2]
  APOE MUTATED      5    0
  APOE WILD-TYPE   21    4
   clus
vv  APOE MUTATED APOE WILD-TYPE
  0            5             21
  1            0              4
D68V6, binary
                cls
clus              0  1
  APOE MUTATED    2  4
  APOE WILD-TYPE 15 13
[1] "tbl2"
                cls
clus             [,1] [,2]
  APOE MUTATED      2    4
  APOE WILD-TYPE   15   13
        clus
vv       APOE MUTATED APOE WILD-TYPE
  FEMALE            2             15
  MALE              4             13

Clustering(69) Variable = MEN1 MUTATION ANALYSIS
D69V1, survival
                sevent
clus2             0  1
  MEN1 MUTATED    2  1
  MEN1 WILD-TYPE 24  7
  MEN1 MUTATED MEN1 WILD-TYPE 
             3             31 
  MEN1 MUTATED MEN1 WILD-TYPE 
             1              7 
$`MEN1 MUTATED`
TCGA-OR-A5JA TCGA-OR-A5K6 TCGA-PK-A5HB 
       30.31        37.15        42.51 

$`MEN1 WILD-TYPE`
TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JJ 
       18.12        57.53        41.39        17.79        46.82        10.16 
TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR 
       41.26        22.03        18.48        29.23        22.16       121.25 
TCGA-OR-A5JS TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY 
       12.59        16.04        50.66        63.25        31.23        18.15 
TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 
        6.94        33.83        89.52        32.68        93.44        17.36 
TCGA-OR-A5K5 TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 
        8.32        11.31        73.05        23.31       106.52        10.09 
TCGA-PK-A5HA 
       27.29 

  MEN1 MUTATED MEN1 WILD-TYPE 
         30.31           6.94 
  MEN1 MUTATED MEN1 WILD-TYPE 
         42.51         121.25 
  MEN1 MUTATED MEN1 WILD-TYPE 
         37.15          27.29 
[1] "30.3 - 42.5 (37.1)" "6.9 - 121.2 (27.3)"
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
  "MEN1 MUTATED" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE"   "MEN1 MUTATED" "MEN1 WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"MEN1 WILD-TYPE"   "MEN1 MUTATED" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
  "MEN1 MUTATED" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE"   "MEN1 MUTATED" "MEN1 WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"MEN1 WILD-TYPE"   "MEN1 MUTATED" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
  "MEN1 MUTATED" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE"   "MEN1 MUTATED" "MEN1 WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"MEN1 WILD-TYPE"   "MEN1 MUTATED" 
[1] "hr=" "1.1"
D69V2, continuous
                vv
clus             STAGE I STAGE II STAGE III STAGE IV
  MEN1 MUTATED         0        1         0        1
  MEN1 WILD-TYPE       4       12         4        7
D69V3, multiclass
[1] "Remove cluster labels:" "MEN1 MUTATED"          
clus
  MEN1 MUTATED MEN1 WILD-TYPE 
             2             27 
    TCGA-OR-A5JB     TCGA-OR-A5JF     TCGA-OR-A5JG     TCGA-OR-A5JI 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-OR-A5JJ     TCGA-OR-A5JK     TCGA-OR-A5JL     TCGA-OR-A5JM 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-OR-A5JO     TCGA-OR-A5JQ     TCGA-OR-A5JR     TCGA-OR-A5JS 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-OR-A5JT     TCGA-OR-A5JV     TCGA-OR-A5JW     TCGA-OR-A5JX 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-OR-A5JY     TCGA-OR-A5JZ     TCGA-OR-A5K0     TCGA-OR-A5K1 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-OR-A5K2     TCGA-OR-A5K3     TCGA-OR-A5K4     TCGA-OR-A5K5 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-OR-A5K9     TCGA-OR-A5LK     TCGA-OU-A5PI 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
                vv
clus             T1 T2+T3 T4
  MEN1 MUTATED    0     1  1
  MEN1 WILD-TYPE  4    15  8
D69V4, multiclass
[1] "Remove cluster labels:" "MEN1 MUTATED"          
clus
  MEN1 MUTATED MEN1 WILD-TYPE 
             2             27 
    TCGA-OR-A5JB     TCGA-OR-A5JF     TCGA-OR-A5JG     TCGA-OR-A5JI 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-OR-A5JJ     TCGA-OR-A5JK     TCGA-OR-A5JL     TCGA-OR-A5JM 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-OR-A5JO     TCGA-OR-A5JQ     TCGA-OR-A5JR     TCGA-OR-A5JS 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-OR-A5JT     TCGA-OR-A5JV     TCGA-OR-A5JW     TCGA-OR-A5JX 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-OR-A5JY     TCGA-OR-A5JZ     TCGA-OR-A5K0     TCGA-OR-A5K1 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-OR-A5K2     TCGA-OR-A5K3     TCGA-OR-A5K4     TCGA-OR-A5K5 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
    TCGA-OR-A5K9     TCGA-OR-A5LK     TCGA-OU-A5PI 
"MEN1 WILD-TYPE" "MEN1 WILD-TYPE" "MEN1 WILD-TYPE" 
D69V5, binary
                cls
clus              0  1
  MEN1 MUTATED    2  0
  MEN1 WILD-TYPE 24  4
[1] "tbl2"
                cls
clus             [,1] [,2]
  MEN1 MUTATED      2    0
  MEN1 WILD-TYPE   24    4
   clus
vv  MEN1 MUTATED MEN1 WILD-TYPE
  0            2             24
  1            0              4
D69V6, binary
                cls
clus              0  1
  MEN1 MUTATED    2  1
  MEN1 WILD-TYPE 15 16
[1] "tbl2"
                cls
clus             [,1] [,2]
  MEN1 MUTATED      2    1
  MEN1 WILD-TYPE   15   16
        clus
vv       MEN1 MUTATED MEN1 WILD-TYPE
  FEMALE            2             15
  MALE              1             16

Clustering(70) Variable = RASIP1 MUTATION ANALYSIS
D70V1, survival
                  sevent
clus2               0  1
  RASIP1 MUTATED    2  2
  RASIP1 WILD-TYPE 24  6
  RASIP1 MUTATED RASIP1 WILD-TYPE 
               4               30 
  RASIP1 MUTATED RASIP1 WILD-TYPE 
               2                6 
$`RASIP1 MUTATED`
TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5K0 TCGA-OR-A5K2 
       41.39        17.79        33.83        32.68 

$`RASIP1 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JI TCGA-OR-A5JJ TCGA-OR-A5JK 
       30.31        18.12        57.53        46.82        10.16        41.26 
TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JS 
       22.03        18.48        29.23        22.16       121.25        12.59 
TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ 
       16.04        50.66        63.25        31.23        18.15         6.94 
TCGA-OR-A5K1 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5K9 
       89.52        93.44        17.36         8.32        37.15        11.31 
TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
       73.05        23.31       106.52        10.09        27.29        42.51 

  RASIP1 MUTATED RASIP1 WILD-TYPE 
           17.79             6.94 
  RASIP1 MUTATED RASIP1 WILD-TYPE 
           41.39           121.25 
  RASIP1 MUTATED RASIP1 WILD-TYPE 
          33.255           28.260 
[1] "17.8 - 41.4 (33.3)" "6.9 - 121.2 (28.3)"
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE"   "RASIP1 MUTATED" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
  "RASIP1 MUTATED" "RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
  "RASIP1 MUTATED" "RASIP1 WILD-TYPE"   "RASIP1 MUTATED" "RASIP1 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE"   "RASIP1 MUTATED" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
  "RASIP1 MUTATED" "RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
  "RASIP1 MUTATED" "RASIP1 WILD-TYPE"   "RASIP1 MUTATED" "RASIP1 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE"   "RASIP1 MUTATED" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
  "RASIP1 MUTATED" "RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
  "RASIP1 MUTATED" "RASIP1 WILD-TYPE"   "RASIP1 MUTATED" "RASIP1 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"RASIP1 WILD-TYPE" "RASIP1 WILD-TYPE" 
[1] "hr=" "2.3"
D70V2, continuous
                  vv
clus               STAGE I STAGE II STAGE III STAGE IV
  RASIP1 MUTATED         0        2         1        1
  RASIP1 WILD-TYPE       4       11         3        7
D70V3, multiclass
           clus
vv          RASIP1 MUTATED RASIP1 WILD-TYPE
  STAGE I                0                4
  STAGE II               2               11
  STAGE III              1                3
  STAGE IV               1                7
                  vv
clus               T1 T2+T3 T4
  RASIP1 MUTATED    0     2  2
  RASIP1 WILD-TYPE  4    14  7
D70V4, multiclass
       clus
vv      RASIP1 MUTATED RASIP1 WILD-TYPE
  T1                 0                4
  T2+T3              2               14
  T4                 2                7
D70V5, binary
                  cls
clus                0  1
  RASIP1 MUTATED    3  1
  RASIP1 WILD-TYPE 23  3
[1] "tbl2"
                  cls
clus               [,1] [,2]
  RASIP1 MUTATED      3    1
  RASIP1 WILD-TYPE   23    3
   clus
vv  RASIP1 MUTATED RASIP1 WILD-TYPE
  0              3               23
  1              1                3
D70V6, binary
                  cls
clus                0  1
  RASIP1 MUTATED    3  1
  RASIP1 WILD-TYPE 14 16
[1] "tbl2"
                  cls
clus               [,1] [,2]
  RASIP1 MUTATED      3    1
  RASIP1 WILD-TYPE   14   16
        clus
vv       RASIP1 MUTATED RASIP1 WILD-TYPE
  FEMALE              3               14
  MALE                1               16

Clustering(71) Variable = ZC3H12D MUTATION ANALYSIS
D71V1, survival
                   sevent
clus2                0  1
  ZC3H12D MUTATED    1  2
  ZC3H12D WILD-TYPE 25  6
  ZC3H12D MUTATED ZC3H12D WILD-TYPE 
                3                31 
  ZC3H12D MUTATED ZC3H12D WILD-TYPE 
                2                 6 
$`ZC3H12D MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JC TCGA-PK-A5H9 
       30.31        57.53        10.09 

$`ZC3H12D WILD-TYPE`
TCGA-OR-A5JB TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JJ TCGA-OR-A5JK 
       18.12        41.39        17.79        46.82        10.16        41.26 
TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JS 
       22.03        18.48        29.23        22.16       121.25        12.59 
TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ 
       16.04        50.66        63.25        31.23        18.15         6.94 
TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 
       33.83        89.52        32.68        93.44        17.36         8.32 
TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5HA 
       37.15        11.31        73.05        23.31       106.52        27.29 
TCGA-PK-A5HB 
       42.51 

  ZC3H12D MUTATED ZC3H12D WILD-TYPE 
            10.09              6.94 
  ZC3H12D MUTATED ZC3H12D WILD-TYPE 
            57.53            121.25 
  ZC3H12D MUTATED ZC3H12D WILD-TYPE 
            30.31             29.23 
[1] "10.1 - 57.5 (30.3)" "6.9 - 121.2 (29.2)"
       TCGA-OR-A5JA        TCGA-OR-A5JB        TCGA-OR-A5JC        TCGA-OR-A5JF 
  "ZC3H12D MUTATED" "ZC3H12D WILD-TYPE"   "ZC3H12D MUTATED" "ZC3H12D WILD-TYPE" 
       TCGA-OR-A5JG        TCGA-OR-A5JI        TCGA-OR-A5JJ        TCGA-OR-A5JK 
"ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" 
       TCGA-OR-A5JL        TCGA-OR-A5JM        TCGA-OR-A5JO        TCGA-OR-A5JQ 
"ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" 
       TCGA-OR-A5JR        TCGA-OR-A5JS        TCGA-OR-A5JT        TCGA-OR-A5JV 
"ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" 
       TCGA-OR-A5JW        TCGA-OR-A5JX        TCGA-OR-A5JY        TCGA-OR-A5JZ 
"ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" 
       TCGA-OR-A5K0        TCGA-OR-A5K1        TCGA-OR-A5K2        TCGA-OR-A5K3 
"ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" 
       TCGA-OR-A5K4        TCGA-OR-A5K5        TCGA-OR-A5K6        TCGA-OR-A5K9 
"ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" 
       TCGA-OR-A5LK        TCGA-OU-A5PI        TCGA-PK-A5H8        TCGA-PK-A5H9 
"ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE"   "ZC3H12D MUTATED" 
       TCGA-PK-A5HA        TCGA-PK-A5HB 
"ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" 
       TCGA-OR-A5JA        TCGA-OR-A5JB        TCGA-OR-A5JC        TCGA-OR-A5JF 
  "ZC3H12D MUTATED" "ZC3H12D WILD-TYPE"   "ZC3H12D MUTATED" "ZC3H12D WILD-TYPE" 
       TCGA-OR-A5JG        TCGA-OR-A5JI        TCGA-OR-A5JJ        TCGA-OR-A5JK 
"ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" 
       TCGA-OR-A5JL        TCGA-OR-A5JM        TCGA-OR-A5JO        TCGA-OR-A5JQ 
"ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" 
       TCGA-OR-A5JR        TCGA-OR-A5JS        TCGA-OR-A5JT        TCGA-OR-A5JV 
"ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" 
       TCGA-OR-A5JW        TCGA-OR-A5JX        TCGA-OR-A5JY        TCGA-OR-A5JZ 
"ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" 
       TCGA-OR-A5K0        TCGA-OR-A5K1        TCGA-OR-A5K2        TCGA-OR-A5K3 
"ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" 
       TCGA-OR-A5K4        TCGA-OR-A5K5        TCGA-OR-A5K6        TCGA-OR-A5K9 
"ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" 
       TCGA-OR-A5LK        TCGA-OU-A5PI        TCGA-PK-A5H8        TCGA-PK-A5H9 
"ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE"   "ZC3H12D MUTATED" 
       TCGA-PK-A5HA        TCGA-PK-A5HB 
"ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" 
       TCGA-OR-A5JA        TCGA-OR-A5JB        TCGA-OR-A5JC        TCGA-OR-A5JF 
  "ZC3H12D MUTATED" "ZC3H12D WILD-TYPE"   "ZC3H12D MUTATED" "ZC3H12D WILD-TYPE" 
       TCGA-OR-A5JG        TCGA-OR-A5JI        TCGA-OR-A5JJ        TCGA-OR-A5JK 
"ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" 
       TCGA-OR-A5JL        TCGA-OR-A5JM        TCGA-OR-A5JO        TCGA-OR-A5JQ 
"ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" 
       TCGA-OR-A5JR        TCGA-OR-A5JS        TCGA-OR-A5JT        TCGA-OR-A5JV 
"ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" 
       TCGA-OR-A5JW        TCGA-OR-A5JX        TCGA-OR-A5JY        TCGA-OR-A5JZ 
"ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" 
       TCGA-OR-A5K0        TCGA-OR-A5K1        TCGA-OR-A5K2        TCGA-OR-A5K3 
"ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" 
       TCGA-OR-A5K4        TCGA-OR-A5K5        TCGA-OR-A5K6        TCGA-OR-A5K9 
"ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" 
       TCGA-OR-A5LK        TCGA-OU-A5PI        TCGA-PK-A5H8        TCGA-PK-A5H9 
"ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE"   "ZC3H12D MUTATED" 
       TCGA-PK-A5HA        TCGA-PK-A5HB 
"ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" 
[1] "hr=" "3.4"
D71V2, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV
  ZC3H12D MUTATED         0        0         0        1
  ZC3H12D WILD-TYPE       4       13         4        7
D71V3, multiclass
[1] "Remove cluster labels:" "ZC3H12D MUTATED"       
clus
  ZC3H12D MUTATED ZC3H12D WILD-TYPE 
                1                28 
       TCGA-OR-A5JB        TCGA-OR-A5JF        TCGA-OR-A5JG        TCGA-OR-A5JI 
"ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" 
       TCGA-OR-A5JJ        TCGA-OR-A5JK        TCGA-OR-A5JL        TCGA-OR-A5JM 
"ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" 
       TCGA-OR-A5JO        TCGA-OR-A5JQ        TCGA-OR-A5JR        TCGA-OR-A5JS 
"ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" 
       TCGA-OR-A5JT        TCGA-OR-A5JV        TCGA-OR-A5JW        TCGA-OR-A5JX 
"ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" 
       TCGA-OR-A5JY        TCGA-OR-A5JZ        TCGA-OR-A5K0        TCGA-OR-A5K1 
"ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" 
       TCGA-OR-A5K2        TCGA-OR-A5K3        TCGA-OR-A5K4        TCGA-OR-A5K5 
"ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" 
       TCGA-OR-A5K6        TCGA-OR-A5K9        TCGA-OR-A5LK        TCGA-OU-A5PI 
"ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" 
                   vv
clus                T1 T2+T3 T4
  ZC3H12D MUTATED    0     0  1
  ZC3H12D WILD-TYPE  4    16  8
D71V4, multiclass
[1] "Remove cluster labels:" "ZC3H12D MUTATED"       
clus
  ZC3H12D MUTATED ZC3H12D WILD-TYPE 
                1                28 
       TCGA-OR-A5JB        TCGA-OR-A5JF        TCGA-OR-A5JG        TCGA-OR-A5JI 
"ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" 
       TCGA-OR-A5JJ        TCGA-OR-A5JK        TCGA-OR-A5JL        TCGA-OR-A5JM 
"ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" 
       TCGA-OR-A5JO        TCGA-OR-A5JQ        TCGA-OR-A5JR        TCGA-OR-A5JS 
"ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" 
       TCGA-OR-A5JT        TCGA-OR-A5JV        TCGA-OR-A5JW        TCGA-OR-A5JX 
"ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" 
       TCGA-OR-A5JY        TCGA-OR-A5JZ        TCGA-OR-A5K0        TCGA-OR-A5K1 
"ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" 
       TCGA-OR-A5K2        TCGA-OR-A5K3        TCGA-OR-A5K4        TCGA-OR-A5K5 
"ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" 
       TCGA-OR-A5K6        TCGA-OR-A5K9        TCGA-OR-A5LK        TCGA-OU-A5PI 
"ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" "ZC3H12D WILD-TYPE" 
D71V5, binary
                   cls
clus                 0  1
  ZC3H12D MUTATED    1  0
  ZC3H12D WILD-TYPE 25  4
[1] "tbl2"
                   cls
clus                [,1] [,2]
  ZC3H12D MUTATED      1    0
  ZC3H12D WILD-TYPE   25    4
   clus
vv  ZC3H12D MUTATED ZC3H12D WILD-TYPE
  0               1                25
  1               0                 4
D71V6, binary
                   cls
clus                 0  1
  ZC3H12D MUTATED    2  1
  ZC3H12D WILD-TYPE 15 16
[1] "tbl2"
                   cls
clus                [,1] [,2]
  ZC3H12D MUTATED      2    1
  ZC3H12D WILD-TYPE   15   16
        clus
vv       ZC3H12D MUTATED ZC3H12D WILD-TYPE
  FEMALE               2                15
  MALE                 1                16

Clustering(72) Variable = TSC22D2 MUTATION ANALYSIS
D72V1, survival
                   sevent
clus2                0  1
  TSC22D2 MUTATED    4  3
  TSC22D2 WILD-TYPE 22  5
  TSC22D2 MUTATED TSC22D2 WILD-TYPE 
                7                27 
  TSC22D2 MUTATED TSC22D2 WILD-TYPE 
                3                 5 
$`TSC22D2 MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JG TCGA-OR-A5JJ TCGA-OR-A5JQ TCGA-OR-A5K2 TCGA-PK-A5HA 
       30.31        17.79        10.16        22.16        32.68        27.29 
TCGA-PK-A5HB 
       42.51 

$`TSC22D2 WILD-TYPE`
TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JI TCGA-OR-A5JK TCGA-OR-A5JL 
       18.12        57.53        41.39        46.82        41.26        22.03 
TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JR TCGA-OR-A5JS TCGA-OR-A5JT TCGA-OR-A5JV 
       18.48        29.23       121.25        12.59        16.04        50.66 
TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 
       63.25        31.23        18.15         6.94        33.83        89.52 
TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-OR-A5LK 
       93.44        17.36         8.32        37.15        11.31        73.05 
TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 
       23.31       106.52        10.09 

  TSC22D2 MUTATED TSC22D2 WILD-TYPE 
            10.16              6.94 
  TSC22D2 MUTATED TSC22D2 WILD-TYPE 
            42.51            121.25 
  TSC22D2 MUTATED TSC22D2 WILD-TYPE 
            27.29             31.23 
[1] "10.2 - 42.5 (27.3)" "6.9 - 121.2 (31.2)"
       TCGA-OR-A5JA        TCGA-OR-A5JB        TCGA-OR-A5JC        TCGA-OR-A5JF 
  "TSC22D2 MUTATED" "TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" 
       TCGA-OR-A5JG        TCGA-OR-A5JI        TCGA-OR-A5JJ        TCGA-OR-A5JK 
  "TSC22D2 MUTATED" "TSC22D2 WILD-TYPE"   "TSC22D2 MUTATED" "TSC22D2 WILD-TYPE" 
       TCGA-OR-A5JL        TCGA-OR-A5JM        TCGA-OR-A5JO        TCGA-OR-A5JQ 
"TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE"   "TSC22D2 MUTATED" 
       TCGA-OR-A5JR        TCGA-OR-A5JS        TCGA-OR-A5JT        TCGA-OR-A5JV 
"TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" 
       TCGA-OR-A5JW        TCGA-OR-A5JX        TCGA-OR-A5JY        TCGA-OR-A5JZ 
"TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" 
       TCGA-OR-A5K0        TCGA-OR-A5K1        TCGA-OR-A5K2        TCGA-OR-A5K3 
"TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE"   "TSC22D2 MUTATED" "TSC22D2 WILD-TYPE" 
       TCGA-OR-A5K4        TCGA-OR-A5K5        TCGA-OR-A5K6        TCGA-OR-A5K9 
"TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" 
       TCGA-OR-A5LK        TCGA-OU-A5PI        TCGA-PK-A5H8        TCGA-PK-A5H9 
"TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" 
       TCGA-PK-A5HA        TCGA-PK-A5HB 
  "TSC22D2 MUTATED"   "TSC22D2 MUTATED" 
       TCGA-OR-A5JA        TCGA-OR-A5JB        TCGA-OR-A5JC        TCGA-OR-A5JF 
  "TSC22D2 MUTATED" "TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" 
       TCGA-OR-A5JG        TCGA-OR-A5JI        TCGA-OR-A5JJ        TCGA-OR-A5JK 
  "TSC22D2 MUTATED" "TSC22D2 WILD-TYPE"   "TSC22D2 MUTATED" "TSC22D2 WILD-TYPE" 
       TCGA-OR-A5JL        TCGA-OR-A5JM        TCGA-OR-A5JO        TCGA-OR-A5JQ 
"TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE"   "TSC22D2 MUTATED" 
       TCGA-OR-A5JR        TCGA-OR-A5JS        TCGA-OR-A5JT        TCGA-OR-A5JV 
"TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" 
       TCGA-OR-A5JW        TCGA-OR-A5JX        TCGA-OR-A5JY        TCGA-OR-A5JZ 
"TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" 
       TCGA-OR-A5K0        TCGA-OR-A5K1        TCGA-OR-A5K2        TCGA-OR-A5K3 
"TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE"   "TSC22D2 MUTATED" "TSC22D2 WILD-TYPE" 
       TCGA-OR-A5K4        TCGA-OR-A5K5        TCGA-OR-A5K6        TCGA-OR-A5K9 
"TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" 
       TCGA-OR-A5LK        TCGA-OU-A5PI        TCGA-PK-A5H8        TCGA-PK-A5H9 
"TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" 
       TCGA-PK-A5HA        TCGA-PK-A5HB 
  "TSC22D2 MUTATED"   "TSC22D2 MUTATED" 
       TCGA-OR-A5JA        TCGA-OR-A5JB        TCGA-OR-A5JC        TCGA-OR-A5JF 
  "TSC22D2 MUTATED" "TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" 
       TCGA-OR-A5JG        TCGA-OR-A5JI        TCGA-OR-A5JJ        TCGA-OR-A5JK 
  "TSC22D2 MUTATED" "TSC22D2 WILD-TYPE"   "TSC22D2 MUTATED" "TSC22D2 WILD-TYPE" 
       TCGA-OR-A5JL        TCGA-OR-A5JM        TCGA-OR-A5JO        TCGA-OR-A5JQ 
"TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE"   "TSC22D2 MUTATED" 
       TCGA-OR-A5JR        TCGA-OR-A5JS        TCGA-OR-A5JT        TCGA-OR-A5JV 
"TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" 
       TCGA-OR-A5JW        TCGA-OR-A5JX        TCGA-OR-A5JY        TCGA-OR-A5JZ 
"TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" 
       TCGA-OR-A5K0        TCGA-OR-A5K1        TCGA-OR-A5K2        TCGA-OR-A5K3 
"TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE"   "TSC22D2 MUTATED" "TSC22D2 WILD-TYPE" 
       TCGA-OR-A5K4        TCGA-OR-A5K5        TCGA-OR-A5K6        TCGA-OR-A5K9 
"TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" 
       TCGA-OR-A5LK        TCGA-OU-A5PI        TCGA-PK-A5H8        TCGA-PK-A5H9 
"TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" "TSC22D2 WILD-TYPE" 
       TCGA-PK-A5HA        TCGA-PK-A5HB 
  "TSC22D2 MUTATED"   "TSC22D2 MUTATED" 
[1] "hr=" "3.1"
D72V2, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV
  TSC22D2 MUTATED         0        1         1        3
  TSC22D2 WILD-TYPE       4       12         3        5
D72V3, multiclass
           clus
vv          TSC22D2 MUTATED TSC22D2 WILD-TYPE
  STAGE I                 0                 4
  STAGE II                1                12
  STAGE III               1                 3
  STAGE IV                3                 5
                   vv
clus                T1 T2+T3 T4
  TSC22D2 MUTATED    0     1  4
  TSC22D2 WILD-TYPE  4    15  5
D72V4, multiclass
       clus
vv      TSC22D2 MUTATED TSC22D2 WILD-TYPE
  T1                  0                 4
  T2+T3               1                15
  T4                  4                 5
D72V5, binary
                   cls
clus                 0  1
  TSC22D2 MUTATED    4  2
  TSC22D2 WILD-TYPE 22  2
[1] "tbl2"
                   cls
clus                [,1] [,2]
  TSC22D2 MUTATED      4    2
  TSC22D2 WILD-TYPE   22    2
   clus
vv  TSC22D2 MUTATED TSC22D2 WILD-TYPE
  0               4                22
  1               2                 2
D72V6, binary
                   cls
clus                 0  1
  TSC22D2 MUTATED    3  4
  TSC22D2 WILD-TYPE 14 13
[1] "tbl2"
                   cls
clus                [,1] [,2]
  TSC22D2 MUTATED      3    4
  TSC22D2 WILD-TYPE   14   13
        clus
vv       TSC22D2 MUTATED TSC22D2 WILD-TYPE
  FEMALE               3                14
  MALE                 4                13

Clustering(73) Variable = COQ2 MUTATION ANALYSIS
D73V1, survival
                sevent
clus2             0  1
  COQ2 MUTATED    4  1
  COQ2 WILD-TYPE 22  7
  COQ2 MUTATED COQ2 WILD-TYPE 
             5             29 
  COQ2 MUTATED COQ2 WILD-TYPE 
             1              7 
$`COQ2 MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JF TCGA-OR-A5JL TCGA-OR-A5JS TCGA-OR-A5LK 
       30.31        41.39        22.03        12.59        73.05 

$`COQ2 WILD-TYPE`
TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JJ TCGA-OR-A5JK 
       18.12        57.53        17.79        46.82        10.16        41.26 
TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JT TCGA-OR-A5JV 
       18.48        29.23        22.16       121.25        16.04        50.66 
TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 
       63.25        31.23        18.15         6.94        33.83        89.52 
TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5K9 
       32.68        93.44        17.36         8.32        37.15        11.31 
TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
       23.31       106.52        10.09        27.29        42.51 

  COQ2 MUTATED COQ2 WILD-TYPE 
         12.59           6.94 
  COQ2 MUTATED COQ2 WILD-TYPE 
         73.05         121.25 
  COQ2 MUTATED COQ2 WILD-TYPE 
         30.31          29.23 
[1] "12.6 - 73.0 (30.3)" "6.9 - 121.2 (29.2)"
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
  "COQ2 MUTATED" "COQ2 WILD-TYPE" "COQ2 WILD-TYPE"   "COQ2 MUTATED" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"COQ2 WILD-TYPE" "COQ2 WILD-TYPE" "COQ2 WILD-TYPE" "COQ2 WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
  "COQ2 MUTATED" "COQ2 WILD-TYPE" "COQ2 WILD-TYPE" "COQ2 WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"COQ2 WILD-TYPE"   "COQ2 MUTATED" "COQ2 WILD-TYPE" "COQ2 WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"COQ2 WILD-TYPE" "COQ2 WILD-TYPE" "COQ2 WILD-TYPE" "COQ2 WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"COQ2 WILD-TYPE" "COQ2 WILD-TYPE" "COQ2 WILD-TYPE" "COQ2 WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"COQ2 WILD-TYPE" "COQ2 WILD-TYPE" "COQ2 WILD-TYPE" "COQ2 WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
  "COQ2 MUTATED" "COQ2 WILD-TYPE" "COQ2 WILD-TYPE" "COQ2 WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"COQ2 WILD-TYPE" "COQ2 WILD-TYPE" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
  "COQ2 MUTATED" "COQ2 WILD-TYPE" "COQ2 WILD-TYPE"   "COQ2 MUTATED" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"COQ2 WILD-TYPE" "COQ2 WILD-TYPE" "COQ2 WILD-TYPE" "COQ2 WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
  "COQ2 MUTATED" "COQ2 WILD-TYPE" "COQ2 WILD-TYPE" "COQ2 WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"COQ2 WILD-TYPE"   "COQ2 MUTATED" "COQ2 WILD-TYPE" "COQ2 WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"COQ2 WILD-TYPE" "COQ2 WILD-TYPE" "COQ2 WILD-TYPE" "COQ2 WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"COQ2 WILD-TYPE" "COQ2 WILD-TYPE" "COQ2 WILD-TYPE" "COQ2 WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"COQ2 WILD-TYPE" "COQ2 WILD-TYPE" "COQ2 WILD-TYPE" "COQ2 WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
  "COQ2 MUTATED" "COQ2 WILD-TYPE" "COQ2 WILD-TYPE" "COQ2 WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"COQ2 WILD-TYPE" "COQ2 WILD-TYPE" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
  "COQ2 MUTATED" "COQ2 WILD-TYPE" "COQ2 WILD-TYPE"   "COQ2 MUTATED" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"COQ2 WILD-TYPE" "COQ2 WILD-TYPE" "COQ2 WILD-TYPE" "COQ2 WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
  "COQ2 MUTATED" "COQ2 WILD-TYPE" "COQ2 WILD-TYPE" "COQ2 WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"COQ2 WILD-TYPE"   "COQ2 MUTATED" "COQ2 WILD-TYPE" "COQ2 WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"COQ2 WILD-TYPE" "COQ2 WILD-TYPE" "COQ2 WILD-TYPE" "COQ2 WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"COQ2 WILD-TYPE" "COQ2 WILD-TYPE" "COQ2 WILD-TYPE" "COQ2 WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"COQ2 WILD-TYPE" "COQ2 WILD-TYPE" "COQ2 WILD-TYPE" "COQ2 WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
  "COQ2 MUTATED" "COQ2 WILD-TYPE" "COQ2 WILD-TYPE" "COQ2 WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"COQ2 WILD-TYPE" "COQ2 WILD-TYPE" 
[1] "hr=" "1.3"
D73V2, continuous
                vv
clus             STAGE I STAGE II STAGE III STAGE IV
  COQ2 MUTATED         1        3         0        1
  COQ2 WILD-TYPE       3       10         4        7
D73V3, multiclass
           clus
vv          COQ2 MUTATED COQ2 WILD-TYPE
  STAGE I              1              3
  STAGE II             3             10
  STAGE III            0              4
  STAGE IV             1              7
                vv
clus             T1 T2+T3 T4
  COQ2 MUTATED    1     3  1
  COQ2 WILD-TYPE  3    13  8
D73V4, multiclass
       clus
vv      COQ2 MUTATED COQ2 WILD-TYPE
  T1               1              3
  T2+T3            3             13
  T4               1              8
D73V5, binary
                cls
clus              0  1
  COQ2 MUTATED    5  0
  COQ2 WILD-TYPE 21  4
[1] "tbl2"
                cls
clus             [,1] [,2]
  COQ2 MUTATED      5    0
  COQ2 WILD-TYPE   21    4
   clus
vv  COQ2 MUTATED COQ2 WILD-TYPE
  0            5             21
  1            0              4
D73V6, binary
                cls
clus              0  1
  COQ2 MUTATED    4  1
  COQ2 WILD-TYPE 13 16
[1] "tbl2"
                cls
clus             [,1] [,2]
  COQ2 MUTATED      4    1
  COQ2 WILD-TYPE   13   16
        clus
vv       COQ2 MUTATED COQ2 WILD-TYPE
  FEMALE            4             13
  MALE              1             16

Clustering(74) Variable = DOK7 MUTATION ANALYSIS
D74V1, survival
                sevent
clus2             0  1
  DOK7 MUTATED    5  0
  DOK7 WILD-TYPE 21  8
  DOK7 MUTATED DOK7 WILD-TYPE 
             5             29 
  DOK7 MUTATED DOK7 WILD-TYPE 
             0              8 
$`DOK7 MUTATED`
TCGA-OR-A5JI TCGA-OR-A5JO TCGA-OR-A5JS TCGA-OR-A5K3 TCGA-PK-A5HB 
       46.82        29.23        12.59        93.44        42.51 

$`DOK7 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JJ 
       30.31        18.12        57.53        41.39        17.79        10.16 
TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JT 
       41.26        22.03        18.48        22.16       121.25        16.04 
TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K0 
       50.66        63.25        31.23        18.15         6.94        33.83 
TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5K9 
       89.52        32.68        17.36         8.32        37.15        11.31 
TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA 
       73.05        23.31       106.52        10.09        27.29 

  DOK7 MUTATED DOK7 WILD-TYPE 
         12.59           6.94 
  DOK7 MUTATED DOK7 WILD-TYPE 
         93.44         121.25 
  DOK7 MUTATED DOK7 WILD-TYPE 
         42.51          27.29 
[1] "12.6 - 93.4 (42.5)" "6.9 - 121.2 (27.3)"
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"DOK7 WILD-TYPE" "DOK7 WILD-TYPE" "DOK7 WILD-TYPE" "DOK7 WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"DOK7 WILD-TYPE"   "DOK7 MUTATED" "DOK7 WILD-TYPE" "DOK7 WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"DOK7 WILD-TYPE" "DOK7 WILD-TYPE"   "DOK7 MUTATED" "DOK7 WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"DOK7 WILD-TYPE"   "DOK7 MUTATED" "DOK7 WILD-TYPE" "DOK7 WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"DOK7 WILD-TYPE" "DOK7 WILD-TYPE" "DOK7 WILD-TYPE" "DOK7 WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"DOK7 WILD-TYPE" "DOK7 WILD-TYPE" "DOK7 WILD-TYPE"   "DOK7 MUTATED" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"DOK7 WILD-TYPE" "DOK7 WILD-TYPE" "DOK7 WILD-TYPE" "DOK7 WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"DOK7 WILD-TYPE" "DOK7 WILD-TYPE" "DOK7 WILD-TYPE" "DOK7 WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"DOK7 WILD-TYPE"   "DOK7 MUTATED" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"DOK7 WILD-TYPE" "DOK7 WILD-TYPE" "DOK7 WILD-TYPE" "DOK7 WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"DOK7 WILD-TYPE"   "DOK7 MUTATED" "DOK7 WILD-TYPE" "DOK7 WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"DOK7 WILD-TYPE" "DOK7 WILD-TYPE"   "DOK7 MUTATED" "DOK7 WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"DOK7 WILD-TYPE"   "DOK7 MUTATED" "DOK7 WILD-TYPE" "DOK7 WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"DOK7 WILD-TYPE" "DOK7 WILD-TYPE" "DOK7 WILD-TYPE" "DOK7 WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"DOK7 WILD-TYPE" "DOK7 WILD-TYPE" "DOK7 WILD-TYPE"   "DOK7 MUTATED" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"DOK7 WILD-TYPE" "DOK7 WILD-TYPE" "DOK7 WILD-TYPE" "DOK7 WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"DOK7 WILD-TYPE" "DOK7 WILD-TYPE" "DOK7 WILD-TYPE" "DOK7 WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"DOK7 WILD-TYPE"   "DOK7 MUTATED" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"DOK7 WILD-TYPE" "DOK7 WILD-TYPE" "DOK7 WILD-TYPE" "DOK7 WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"DOK7 WILD-TYPE"   "DOK7 MUTATED" "DOK7 WILD-TYPE" "DOK7 WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"DOK7 WILD-TYPE" "DOK7 WILD-TYPE"   "DOK7 MUTATED" "DOK7 WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"DOK7 WILD-TYPE"   "DOK7 MUTATED" "DOK7 WILD-TYPE" "DOK7 WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"DOK7 WILD-TYPE" "DOK7 WILD-TYPE" "DOK7 WILD-TYPE" "DOK7 WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"DOK7 WILD-TYPE" "DOK7 WILD-TYPE" "DOK7 WILD-TYPE"   "DOK7 MUTATED" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"DOK7 WILD-TYPE" "DOK7 WILD-TYPE" "DOK7 WILD-TYPE" "DOK7 WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"DOK7 WILD-TYPE" "DOK7 WILD-TYPE" "DOK7 WILD-TYPE" "DOK7 WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"DOK7 WILD-TYPE"   "DOK7 MUTATED" 
[1] "hr="     "2.4e+08"
D74V2, continuous
                vv
clus             STAGE I STAGE II STAGE III STAGE IV
  DOK7 MUTATED         2        2         0        0
  DOK7 WILD-TYPE       2       11         4        8
D74V3, multiclass
           clus
vv          DOK7 MUTATED DOK7 WILD-TYPE
  STAGE I              2              2
  STAGE II             2             11
  STAGE III            0              4
  STAGE IV             0              8
                vv
clus             T1 T2+T3 T4
  DOK7 MUTATED    2     2  0
  DOK7 WILD-TYPE  2    14  9
D74V4, multiclass
       clus
vv      DOK7 MUTATED DOK7 WILD-TYPE
  T1               2              2
  T2+T3            2             14
  T4               0              9
D74V5, binary
                cls
clus              0  1
  DOK7 MUTATED    4  0
  DOK7 WILD-TYPE 22  4
[1] "tbl2"
                cls
clus             [,1] [,2]
  DOK7 MUTATED      4    0
  DOK7 WILD-TYPE   22    4
   clus
vv  DOK7 MUTATED DOK7 WILD-TYPE
  0            4             22
  1            0              4
D74V6, binary
                cls
clus              0  1
  DOK7 MUTATED    2  3
  DOK7 WILD-TYPE 15 14
[1] "tbl2"
                cls
clus             [,1] [,2]
  DOK7 MUTATED      2    3
  DOK7 WILD-TYPE   15   14
        clus
vv       DOK7 MUTATED DOK7 WILD-TYPE
  FEMALE            2             15
  MALE              3             14

Clustering(75) Variable = KNDC1 MUTATION ANALYSIS
D75V1, survival
                 sevent
clus2              0  1
  KNDC1 MUTATED    7  0
  KNDC1 WILD-TYPE 19  8
  KNDC1 MUTATED KNDC1 WILD-TYPE 
              7              27 
  KNDC1 MUTATED KNDC1 WILD-TYPE 
              0               8 
$`KNDC1 MUTATED`
TCGA-OR-A5JF TCGA-OR-A5JI TCGA-OR-A5JJ TCGA-OR-A5JL TCGA-OR-A5JS TCGA-OR-A5JT 
       41.39        46.82        10.16        22.03        12.59        16.04 
TCGA-PK-A5HA 
       27.29 

$`KNDC1 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JG TCGA-OR-A5JK TCGA-OR-A5JM 
       30.31        18.12        57.53        17.79        41.26        18.48 
TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX 
       29.23        22.16       121.25        50.66        63.25        31.23 
TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 
       18.15         6.94        33.83        89.52        32.68        93.44 
TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-OU-A5PI 
       17.36         8.32        37.15        11.31        73.05        23.31 
TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HB 
      106.52        10.09        42.51 

  KNDC1 MUTATED KNDC1 WILD-TYPE 
          10.16            6.94 
  KNDC1 MUTATED KNDC1 WILD-TYPE 
          46.82          121.25 
  KNDC1 MUTATED KNDC1 WILD-TYPE 
          22.03           31.23 
[1] "10.2 - 46.8 (22.0)" "6.9 - 121.2 (31.2)"
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE"   "KNDC1 MUTATED" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"KNDC1 WILD-TYPE"   "KNDC1 MUTATED"   "KNDC1 MUTATED" "KNDC1 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
  "KNDC1 MUTATED" "KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"KNDC1 WILD-TYPE"   "KNDC1 MUTATED"   "KNDC1 MUTATED" "KNDC1 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
  "KNDC1 MUTATED" "KNDC1 WILD-TYPE" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE"   "KNDC1 MUTATED" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"KNDC1 WILD-TYPE"   "KNDC1 MUTATED"   "KNDC1 MUTATED" "KNDC1 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
  "KNDC1 MUTATED" "KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"KNDC1 WILD-TYPE"   "KNDC1 MUTATED"   "KNDC1 MUTATED" "KNDC1 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
  "KNDC1 MUTATED" "KNDC1 WILD-TYPE" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE"   "KNDC1 MUTATED" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"KNDC1 WILD-TYPE"   "KNDC1 MUTATED"   "KNDC1 MUTATED" "KNDC1 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
  "KNDC1 MUTATED" "KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"KNDC1 WILD-TYPE"   "KNDC1 MUTATED"   "KNDC1 MUTATED" "KNDC1 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" "KNDC1 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
  "KNDC1 MUTATED" "KNDC1 WILD-TYPE" 
[1] "hr="     "2.4e+08"
D75V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV
  KNDC1 MUTATED         2        3         0        1
  KNDC1 WILD-TYPE       2       10         4        7
D75V3, multiclass
           clus
vv          KNDC1 MUTATED KNDC1 WILD-TYPE
  STAGE I               2               2
  STAGE II              3              10
  STAGE III             0               4
  STAGE IV              1               7
                 vv
clus              T1 T2+T3 T4
  KNDC1 MUTATED    2     3  1
  KNDC1 WILD-TYPE  2    13  8
D75V4, multiclass
       clus
vv      KNDC1 MUTATED KNDC1 WILD-TYPE
  T1                2               2
  T2+T3             3              13
  T4                1               8
D75V5, binary
                 cls
clus               0  1
  KNDC1 MUTATED    6  1
  KNDC1 WILD-TYPE 20  3
[1] "tbl2"
                 cls
clus              [,1] [,2]
  KNDC1 MUTATED      6    1
  KNDC1 WILD-TYPE   20    3
   clus
vv  KNDC1 MUTATED KNDC1 WILD-TYPE
  0             6              20
  1             1               3
D75V6, binary
                 cls
clus               0  1
  KNDC1 MUTATED    4  3
  KNDC1 WILD-TYPE 13 14
[1] "tbl2"
                 cls
clus              [,1] [,2]
  KNDC1 MUTATED      4    3
  KNDC1 WILD-TYPE   13   14
        clus
vv       KNDC1 MUTATED KNDC1 WILD-TYPE
  FEMALE             4              13
  MALE               3              14

Clustering(76) Variable = PDCD6 MUTATION ANALYSIS
D76V1, survival
                 sevent
clus2              0  1
  PDCD6 MUTATED    2  1
  PDCD6 WILD-TYPE 24  7
  PDCD6 MUTATED PDCD6 WILD-TYPE 
              3              31 
  PDCD6 MUTATED PDCD6 WILD-TYPE 
              1               7 
$`PDCD6 MUTATED`
TCGA-OR-A5JG TCGA-OR-A5JL TCGA-OR-A5JR 
       17.79        22.03       121.25 

$`PDCD6 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JI TCGA-OR-A5JJ 
       30.31        18.12        57.53        41.39        46.82        10.16 
TCGA-OR-A5JK TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JS TCGA-OR-A5JT 
       41.26        18.48        29.23        22.16        12.59        16.04 
TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K0 
       50.66        63.25        31.23        18.15         6.94        33.83 
TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 
       89.52        32.68        93.44        17.36         8.32        37.15 
TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA 
       11.31        73.05        23.31       106.52        10.09        27.29 
TCGA-PK-A5HB 
       42.51 

  PDCD6 MUTATED PDCD6 WILD-TYPE 
          17.79            6.94 
  PDCD6 MUTATED PDCD6 WILD-TYPE 
         121.25          106.52 
  PDCD6 MUTATED PDCD6 WILD-TYPE 
          22.03           30.31 
[1] "17.8 - 121.2 (22.0)" "6.9 - 106.5 (30.3)" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
  "PDCD6 MUTATED" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
  "PDCD6 MUTATED" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
  "PDCD6 MUTATED" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
  "PDCD6 MUTATED" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
  "PDCD6 MUTATED" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
  "PDCD6 MUTATED" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
  "PDCD6 MUTATED" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
  "PDCD6 MUTATED" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
  "PDCD6 MUTATED" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"PDCD6 WILD-TYPE" "PDCD6 WILD-TYPE" 
[1] "hr=" "1.4"
D76V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV
  PDCD6 MUTATED         2        0         0        1
  PDCD6 WILD-TYPE       2       13         4        7
D76V3, multiclass
           clus
vv          PDCD6 MUTATED PDCD6 WILD-TYPE
  STAGE I               2               2
  STAGE II              0              13
  STAGE III             0               4
  STAGE IV              1               7
                 vv
clus              T1 T2+T3 T4
  PDCD6 MUTATED    2     0  1
  PDCD6 WILD-TYPE  2    16  8
D76V4, multiclass
       clus
vv      PDCD6 MUTATED PDCD6 WILD-TYPE
  T1                2               2
  T2+T3             0              16
  T4                1               8
D76V5, binary
                 cls
clus               0  1
  PDCD6 MUTATED    2  1
  PDCD6 WILD-TYPE 24  3
[1] "tbl2"
                 cls
clus              [,1] [,2]
  PDCD6 MUTATED      2    1
  PDCD6 WILD-TYPE   24    3
   clus
vv  PDCD6 MUTATED PDCD6 WILD-TYPE
  0             2              24
  1             1               3
D76V6, binary
                 cls
clus               0  1
  PDCD6 MUTATED    1  2
  PDCD6 WILD-TYPE 16 15
[1] "tbl2"
                 cls
clus              [,1] [,2]
  PDCD6 MUTATED      1    2
  PDCD6 WILD-TYPE   16   15
        clus
vv       PDCD6 MUTATED PDCD6 WILD-TYPE
  FEMALE             1              16
  MALE               2              15

Clustering(77) Variable = ATP6V0E2 MUTATION ANALYSIS
D77V1, survival
                    sevent
clus2                 0  1
  ATP6V0E2 MUTATED    4  0
  ATP6V0E2 WILD-TYPE 22  8
  ATP6V0E2 MUTATED ATP6V0E2 WILD-TYPE 
                 4                 30 
  ATP6V0E2 MUTATED ATP6V0E2 WILD-TYPE 
                 0                  8 
$`ATP6V0E2 MUTATED`
TCGA-OR-A5JV TCGA-OR-A5K3 TCGA-OR-A5K5 TCGA-PK-A5HA 
       50.66        93.44         8.32        27.29 

$`ATP6V0E2 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI 
       30.31        18.12        57.53        41.39        17.79        46.82 
TCGA-OR-A5JJ TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ 
       10.16        41.26        22.03        18.48        29.23        22.16 
TCGA-OR-A5JR TCGA-OR-A5JS TCGA-OR-A5JT TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY 
      121.25        12.59        16.04        63.25        31.23        18.15 
TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K4 TCGA-OR-A5K6 
        6.94        33.83        89.52        32.68        17.36        37.15 
TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HB 
       11.31        73.05        23.31       106.52        10.09        42.51 

  ATP6V0E2 MUTATED ATP6V0E2 WILD-TYPE 
              8.32               6.94 
  ATP6V0E2 MUTATED ATP6V0E2 WILD-TYPE 
             93.44             121.25 
  ATP6V0E2 MUTATED ATP6V0E2 WILD-TYPE 
            38.975             29.770 
[1] "8.3 - 93.4 (39.0)"  "6.9 - 121.2 (29.8)"
        TCGA-OR-A5JA         TCGA-OR-A5JB         TCGA-OR-A5JC 
"ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" 
        TCGA-OR-A5JF         TCGA-OR-A5JG         TCGA-OR-A5JI 
"ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" 
        TCGA-OR-A5JJ         TCGA-OR-A5JK         TCGA-OR-A5JL 
"ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" 
        TCGA-OR-A5JM         TCGA-OR-A5JO         TCGA-OR-A5JQ 
"ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" 
        TCGA-OR-A5JR         TCGA-OR-A5JS         TCGA-OR-A5JT 
"ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" 
        TCGA-OR-A5JV         TCGA-OR-A5JW         TCGA-OR-A5JX 
  "ATP6V0E2 MUTATED" "ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" 
        TCGA-OR-A5JY         TCGA-OR-A5JZ         TCGA-OR-A5K0 
"ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" 
        TCGA-OR-A5K1         TCGA-OR-A5K2         TCGA-OR-A5K3 
"ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE"   "ATP6V0E2 MUTATED" 
        TCGA-OR-A5K4         TCGA-OR-A5K5         TCGA-OR-A5K6 
"ATP6V0E2 WILD-TYPE"   "ATP6V0E2 MUTATED" "ATP6V0E2 WILD-TYPE" 
        TCGA-OR-A5K9         TCGA-OR-A5LK         TCGA-OU-A5PI 
"ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" 
        TCGA-PK-A5H8         TCGA-PK-A5H9         TCGA-PK-A5HA 
"ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE"   "ATP6V0E2 MUTATED" 
        TCGA-PK-A5HB 
"ATP6V0E2 WILD-TYPE" 
        TCGA-OR-A5JA         TCGA-OR-A5JB         TCGA-OR-A5JC 
"ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" 
        TCGA-OR-A5JF         TCGA-OR-A5JG         TCGA-OR-A5JI 
"ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" 
        TCGA-OR-A5JJ         TCGA-OR-A5JK         TCGA-OR-A5JL 
"ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" 
        TCGA-OR-A5JM         TCGA-OR-A5JO         TCGA-OR-A5JQ 
"ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" 
        TCGA-OR-A5JR         TCGA-OR-A5JS         TCGA-OR-A5JT 
"ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" 
        TCGA-OR-A5JV         TCGA-OR-A5JW         TCGA-OR-A5JX 
  "ATP6V0E2 MUTATED" "ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" 
        TCGA-OR-A5JY         TCGA-OR-A5JZ         TCGA-OR-A5K0 
"ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" 
        TCGA-OR-A5K1         TCGA-OR-A5K2         TCGA-OR-A5K3 
"ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE"   "ATP6V0E2 MUTATED" 
        TCGA-OR-A5K4         TCGA-OR-A5K5         TCGA-OR-A5K6 
"ATP6V0E2 WILD-TYPE"   "ATP6V0E2 MUTATED" "ATP6V0E2 WILD-TYPE" 
        TCGA-OR-A5K9         TCGA-OR-A5LK         TCGA-OU-A5PI 
"ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" 
        TCGA-PK-A5H8         TCGA-PK-A5H9         TCGA-PK-A5HA 
"ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE"   "ATP6V0E2 MUTATED" 
        TCGA-PK-A5HB 
"ATP6V0E2 WILD-TYPE" 
        TCGA-OR-A5JA         TCGA-OR-A5JB         TCGA-OR-A5JC 
"ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" 
        TCGA-OR-A5JF         TCGA-OR-A5JG         TCGA-OR-A5JI 
"ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" 
        TCGA-OR-A5JJ         TCGA-OR-A5JK         TCGA-OR-A5JL 
"ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" 
        TCGA-OR-A5JM         TCGA-OR-A5JO         TCGA-OR-A5JQ 
"ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" 
        TCGA-OR-A5JR         TCGA-OR-A5JS         TCGA-OR-A5JT 
"ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" 
        TCGA-OR-A5JV         TCGA-OR-A5JW         TCGA-OR-A5JX 
  "ATP6V0E2 MUTATED" "ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" 
        TCGA-OR-A5JY         TCGA-OR-A5JZ         TCGA-OR-A5K0 
"ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" 
        TCGA-OR-A5K1         TCGA-OR-A5K2         TCGA-OR-A5K3 
"ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE"   "ATP6V0E2 MUTATED" 
        TCGA-OR-A5K4         TCGA-OR-A5K5         TCGA-OR-A5K6 
"ATP6V0E2 WILD-TYPE"   "ATP6V0E2 MUTATED" "ATP6V0E2 WILD-TYPE" 
        TCGA-OR-A5K9         TCGA-OR-A5LK         TCGA-OU-A5PI 
"ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE" 
        TCGA-PK-A5H8         TCGA-PK-A5H9         TCGA-PK-A5HA 
"ATP6V0E2 WILD-TYPE" "ATP6V0E2 WILD-TYPE"   "ATP6V0E2 MUTATED" 
        TCGA-PK-A5HB 
"ATP6V0E2 WILD-TYPE" 
[1] "hr="     "2.2e+08"
D77V2, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV
  ATP6V0E2 MUTATED         0        2         1        0
  ATP6V0E2 WILD-TYPE       4       11         3        8
D77V3, multiclass
           clus
vv          ATP6V0E2 MUTATED ATP6V0E2 WILD-TYPE
  STAGE I                  0                  4
  STAGE II                 2                 11
  STAGE III                1                  3
  STAGE IV                 0                  8
                    vv
clus                 T1 T2+T3 T4
  ATP6V0E2 MUTATED    0     3  0
  ATP6V0E2 WILD-TYPE  4    13  9
D77V4, multiclass
       clus
vv      ATP6V0E2 MUTATED ATP6V0E2 WILD-TYPE
  T1                   0                  4
  T2+T3                3                 13
  T4                   0                  9
D77V5, binary
                    cls
clus                  0  1
  ATP6V0E2 MUTATED    4  0
  ATP6V0E2 WILD-TYPE 22  4
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  ATP6V0E2 MUTATED      4    0
  ATP6V0E2 WILD-TYPE   22    4
   clus
vv  ATP6V0E2 MUTATED ATP6V0E2 WILD-TYPE
  0                4                 22
  1                0                  4
D77V6, binary
                    cls
clus                  0  1
  ATP6V0E2 MUTATED    1  3
  ATP6V0E2 WILD-TYPE 16 14
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  ATP6V0E2 MUTATED      1    3
  ATP6V0E2 WILD-TYPE   16   14
        clus
vv       ATP6V0E2 MUTATED ATP6V0E2 WILD-TYPE
  FEMALE                1                 16
  MALE                  3                 14

Clustering(78) Variable = HES3 MUTATION ANALYSIS
D78V1, survival
                sevent
clus2             0  1
  HES3 MUTATED    3  0
  HES3 WILD-TYPE 23  8
  HES3 MUTATED HES3 WILD-TYPE 
             3             31 
  HES3 MUTATED HES3 WILD-TYPE 
             0              8 
$`HES3 MUTATED`
TCGA-OR-A5JK TCGA-OR-A5JS TCGA-OR-A5K0 
       41.26        12.59        33.83 

$`HES3 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI 
       30.31        18.12        57.53        41.39        17.79        46.82 
TCGA-OR-A5JJ TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR 
       10.16        22.03        18.48        29.23        22.16       121.25 
TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ 
       16.04        50.66        63.25        31.23        18.15         6.94 
TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 
       89.52        32.68        93.44        17.36         8.32        37.15 
TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA 
       11.31        73.05        23.31       106.52        10.09        27.29 
TCGA-PK-A5HB 
       42.51 

  HES3 MUTATED HES3 WILD-TYPE 
         12.59           6.94 
  HES3 MUTATED HES3 WILD-TYPE 
         41.26         121.25 
  HES3 MUTATED HES3 WILD-TYPE 
         33.83          29.23 
[1] "12.6 - 41.3 (33.8)" "6.9 - 121.2 (29.2)"
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"HES3 WILD-TYPE" "HES3 WILD-TYPE" "HES3 WILD-TYPE" "HES3 WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"HES3 WILD-TYPE" "HES3 WILD-TYPE" "HES3 WILD-TYPE"   "HES3 MUTATED" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"HES3 WILD-TYPE" "HES3 WILD-TYPE" "HES3 WILD-TYPE" "HES3 WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"HES3 WILD-TYPE"   "HES3 MUTATED" "HES3 WILD-TYPE" "HES3 WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"HES3 WILD-TYPE" "HES3 WILD-TYPE" "HES3 WILD-TYPE" "HES3 WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
  "HES3 MUTATED" "HES3 WILD-TYPE" "HES3 WILD-TYPE" "HES3 WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"HES3 WILD-TYPE" "HES3 WILD-TYPE" "HES3 WILD-TYPE" "HES3 WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"HES3 WILD-TYPE" "HES3 WILD-TYPE" "HES3 WILD-TYPE" "HES3 WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"HES3 WILD-TYPE" "HES3 WILD-TYPE" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"HES3 WILD-TYPE" "HES3 WILD-TYPE" "HES3 WILD-TYPE" "HES3 WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"HES3 WILD-TYPE" "HES3 WILD-TYPE" "HES3 WILD-TYPE"   "HES3 MUTATED" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"HES3 WILD-TYPE" "HES3 WILD-TYPE" "HES3 WILD-TYPE" "HES3 WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"HES3 WILD-TYPE"   "HES3 MUTATED" "HES3 WILD-TYPE" "HES3 WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"HES3 WILD-TYPE" "HES3 WILD-TYPE" "HES3 WILD-TYPE" "HES3 WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
  "HES3 MUTATED" "HES3 WILD-TYPE" "HES3 WILD-TYPE" "HES3 WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"HES3 WILD-TYPE" "HES3 WILD-TYPE" "HES3 WILD-TYPE" "HES3 WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"HES3 WILD-TYPE" "HES3 WILD-TYPE" "HES3 WILD-TYPE" "HES3 WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"HES3 WILD-TYPE" "HES3 WILD-TYPE" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"HES3 WILD-TYPE" "HES3 WILD-TYPE" "HES3 WILD-TYPE" "HES3 WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"HES3 WILD-TYPE" "HES3 WILD-TYPE" "HES3 WILD-TYPE"   "HES3 MUTATED" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"HES3 WILD-TYPE" "HES3 WILD-TYPE" "HES3 WILD-TYPE" "HES3 WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"HES3 WILD-TYPE"   "HES3 MUTATED" "HES3 WILD-TYPE" "HES3 WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"HES3 WILD-TYPE" "HES3 WILD-TYPE" "HES3 WILD-TYPE" "HES3 WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
  "HES3 MUTATED" "HES3 WILD-TYPE" "HES3 WILD-TYPE" "HES3 WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"HES3 WILD-TYPE" "HES3 WILD-TYPE" "HES3 WILD-TYPE" "HES3 WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"HES3 WILD-TYPE" "HES3 WILD-TYPE" "HES3 WILD-TYPE" "HES3 WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"HES3 WILD-TYPE" "HES3 WILD-TYPE" 
[1] "hr="     "7.8e+07"
D78V2, continuous
                vv
clus             STAGE I STAGE II STAGE III STAGE IV
  HES3 MUTATED         0        2         0        1
  HES3 WILD-TYPE       4       11         4        7
D78V3, multiclass
           clus
vv          HES3 MUTATED HES3 WILD-TYPE
  STAGE I              0              4
  STAGE II             2             11
  STAGE III            0              4
  STAGE IV             1              7
                vv
clus             T1 T2+T3 T4
  HES3 MUTATED    0     2  1
  HES3 WILD-TYPE  4    14  8
D78V4, multiclass
       clus
vv      HES3 MUTATED HES3 WILD-TYPE
  T1               0              4
  T2+T3            2             14
  T4               1              8
D78V5, binary
                cls
clus              0  1
  HES3 MUTATED    3  0
  HES3 WILD-TYPE 23  4
[1] "tbl2"
                cls
clus             [,1] [,2]
  HES3 MUTATED      3    0
  HES3 WILD-TYPE   23    4
   clus
vv  HES3 MUTATED HES3 WILD-TYPE
  0            3             23
  1            0              4
D78V6, binary
                cls
clus              0  1
  HES3 MUTATED    2  1
  HES3 WILD-TYPE 15 16
[1] "tbl2"
                cls
clus             [,1] [,2]
  HES3 MUTATED      2    1
  HES3 WILD-TYPE   15   16
        clus
vv       HES3 MUTATED HES3 WILD-TYPE
  FEMALE            2             15
  MALE              1             16

Clustering(79) Variable = PRKAR1A MUTATION ANALYSIS
D79V1, survival
                   sevent
clus2                0  1
  PRKAR1A MUTATED    1  2
  PRKAR1A WILD-TYPE 25  6
  PRKAR1A MUTATED PRKAR1A WILD-TYPE 
                3                31 
  PRKAR1A MUTATED PRKAR1A WILD-TYPE 
                2                 6 
$`PRKAR1A MUTATED`
TCGA-OR-A5JA TCGA-OR-A5JL TCGA-OR-A5JY 
       30.31        22.03        18.15 

$`PRKAR1A WILD-TYPE`
TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JJ 
       18.12        57.53        41.39        17.79        46.82        10.16 
TCGA-OR-A5JK TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JS 
       41.26        18.48        29.23        22.16       121.25        12.59 
TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JZ TCGA-OR-A5K0 
       16.04        50.66        63.25        31.23         6.94        33.83 
TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 
       89.52        32.68        93.44        17.36         8.32        37.15 
TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA 
       11.31        73.05        23.31       106.52        10.09        27.29 
TCGA-PK-A5HB 
       42.51 

  PRKAR1A MUTATED PRKAR1A WILD-TYPE 
            18.15              6.94 
  PRKAR1A MUTATED PRKAR1A WILD-TYPE 
            30.31            121.25 
  PRKAR1A MUTATED PRKAR1A WILD-TYPE 
            22.03             31.23 
[1] "18.1 - 30.3 (22.0)" "6.9 - 121.2 (31.2)"
       TCGA-OR-A5JA        TCGA-OR-A5JB        TCGA-OR-A5JC        TCGA-OR-A5JF 
  "PRKAR1A MUTATED" "PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" 
       TCGA-OR-A5JG        TCGA-OR-A5JI        TCGA-OR-A5JJ        TCGA-OR-A5JK 
"PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" 
       TCGA-OR-A5JL        TCGA-OR-A5JM        TCGA-OR-A5JO        TCGA-OR-A5JQ 
  "PRKAR1A MUTATED" "PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" 
       TCGA-OR-A5JR        TCGA-OR-A5JS        TCGA-OR-A5JT        TCGA-OR-A5JV 
"PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" 
       TCGA-OR-A5JW        TCGA-OR-A5JX        TCGA-OR-A5JY        TCGA-OR-A5JZ 
"PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE"   "PRKAR1A MUTATED" "PRKAR1A WILD-TYPE" 
       TCGA-OR-A5K0        TCGA-OR-A5K1        TCGA-OR-A5K2        TCGA-OR-A5K3 
"PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" 
       TCGA-OR-A5K4        TCGA-OR-A5K5        TCGA-OR-A5K6        TCGA-OR-A5K9 
"PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" 
       TCGA-OR-A5LK        TCGA-OU-A5PI        TCGA-PK-A5H8        TCGA-PK-A5H9 
"PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" 
       TCGA-PK-A5HA        TCGA-PK-A5HB 
"PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" 
       TCGA-OR-A5JA        TCGA-OR-A5JB        TCGA-OR-A5JC        TCGA-OR-A5JF 
  "PRKAR1A MUTATED" "PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" 
       TCGA-OR-A5JG        TCGA-OR-A5JI        TCGA-OR-A5JJ        TCGA-OR-A5JK 
"PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" 
       TCGA-OR-A5JL        TCGA-OR-A5JM        TCGA-OR-A5JO        TCGA-OR-A5JQ 
  "PRKAR1A MUTATED" "PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" 
       TCGA-OR-A5JR        TCGA-OR-A5JS        TCGA-OR-A5JT        TCGA-OR-A5JV 
"PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" 
       TCGA-OR-A5JW        TCGA-OR-A5JX        TCGA-OR-A5JY        TCGA-OR-A5JZ 
"PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE"   "PRKAR1A MUTATED" "PRKAR1A WILD-TYPE" 
       TCGA-OR-A5K0        TCGA-OR-A5K1        TCGA-OR-A5K2        TCGA-OR-A5K3 
"PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" 
       TCGA-OR-A5K4        TCGA-OR-A5K5        TCGA-OR-A5K6        TCGA-OR-A5K9 
"PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" 
       TCGA-OR-A5LK        TCGA-OU-A5PI        TCGA-PK-A5H8        TCGA-PK-A5H9 
"PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" 
       TCGA-PK-A5HA        TCGA-PK-A5HB 
"PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" 
       TCGA-OR-A5JA        TCGA-OR-A5JB        TCGA-OR-A5JC        TCGA-OR-A5JF 
  "PRKAR1A MUTATED" "PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" 
       TCGA-OR-A5JG        TCGA-OR-A5JI        TCGA-OR-A5JJ        TCGA-OR-A5JK 
"PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" 
       TCGA-OR-A5JL        TCGA-OR-A5JM        TCGA-OR-A5JO        TCGA-OR-A5JQ 
  "PRKAR1A MUTATED" "PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" 
       TCGA-OR-A5JR        TCGA-OR-A5JS        TCGA-OR-A5JT        TCGA-OR-A5JV 
"PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" 
       TCGA-OR-A5JW        TCGA-OR-A5JX        TCGA-OR-A5JY        TCGA-OR-A5JZ 
"PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE"   "PRKAR1A MUTATED" "PRKAR1A WILD-TYPE" 
       TCGA-OR-A5K0        TCGA-OR-A5K1        TCGA-OR-A5K2        TCGA-OR-A5K3 
"PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" 
       TCGA-OR-A5K4        TCGA-OR-A5K5        TCGA-OR-A5K6        TCGA-OR-A5K9 
"PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" 
       TCGA-OR-A5LK        TCGA-OU-A5PI        TCGA-PK-A5H8        TCGA-PK-A5H9 
"PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" 
       TCGA-PK-A5HA        TCGA-PK-A5HB 
"PRKAR1A WILD-TYPE" "PRKAR1A WILD-TYPE" 
[1] "hr=" "4.5"
D79V2, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV
  PRKAR1A MUTATED         1        0         0        2
  PRKAR1A WILD-TYPE       3       13         4        6
D79V3, multiclass
           clus
vv          PRKAR1A MUTATED PRKAR1A WILD-TYPE
  STAGE I                 1                 3
  STAGE II                0                13
  STAGE III               0                 4
  STAGE IV                2                 6
                   vv
clus                T1 T2+T3 T4
  PRKAR1A MUTATED    1     0  2
  PRKAR1A WILD-TYPE  3    16  7
D79V4, multiclass
       clus
vv      PRKAR1A MUTATED PRKAR1A WILD-TYPE
  T1                  1                 3
  T2+T3               0                16
  T4                  2                 7
D79V5, binary
                   cls
clus                 0  1
  PRKAR1A MUTATED    2  1
  PRKAR1A WILD-TYPE 24  3
[1] "tbl2"
                   cls
clus                [,1] [,2]
  PRKAR1A MUTATED      2    1
  PRKAR1A WILD-TYPE   24    3
   clus
vv  PRKAR1A MUTATED PRKAR1A WILD-TYPE
  0               2                24
  1               1                 3
D79V6, binary
                   cls
clus                 0  1
  PRKAR1A MUTATED    3  0
  PRKAR1A WILD-TYPE 14 17
[1] "tbl2"
                   cls
clus                [,1] [,2]
  PRKAR1A MUTATED      3    0
  PRKAR1A WILD-TYPE   14   17
        clus
vv       PRKAR1A MUTATED PRKAR1A WILD-TYPE
  FEMALE               3                14
  MALE                 0                17

Clustering(80) Variable = ATOH8 MUTATION ANALYSIS
D80V1, survival
                 sevent
clus2              0  1
  ATOH8 MUTATED    2  1
  ATOH8 WILD-TYPE 24  7
  ATOH8 MUTATED ATOH8 WILD-TYPE 
              3              31 
  ATOH8 MUTATED ATOH8 WILD-TYPE 
              1               7 
$`ATOH8 MUTATED`
TCGA-OR-A5JG TCGA-OR-A5JO TCGA-OR-A5JS 
       17.79        29.23        12.59 

$`ATOH8 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JI TCGA-OR-A5JJ 
       30.31        18.12        57.53        41.39        46.82        10.16 
TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JT 
       41.26        22.03        18.48        22.16       121.25        16.04 
TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K0 
       50.66        63.25        31.23        18.15         6.94        33.83 
TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 
       89.52        32.68        93.44        17.36         8.32        37.15 
TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA 
       11.31        73.05        23.31       106.52        10.09        27.29 
TCGA-PK-A5HB 
       42.51 

  ATOH8 MUTATED ATOH8 WILD-TYPE 
          12.59            6.94 
  ATOH8 MUTATED ATOH8 WILD-TYPE 
          29.23          121.25 
  ATOH8 MUTATED ATOH8 WILD-TYPE 
          17.79           31.23 
[1] "12.6 - 29.2 (17.8)" "6.9 - 121.2 (31.2)"
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
  "ATOH8 MUTATED" "ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE"   "ATOH8 MUTATED" "ATOH8 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"ATOH8 WILD-TYPE"   "ATOH8 MUTATED" "ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
  "ATOH8 MUTATED" "ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE"   "ATOH8 MUTATED" "ATOH8 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"ATOH8 WILD-TYPE"   "ATOH8 MUTATED" "ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
  "ATOH8 MUTATED" "ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE"   "ATOH8 MUTATED" "ATOH8 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"ATOH8 WILD-TYPE"   "ATOH8 MUTATED" "ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"ATOH8 WILD-TYPE" "ATOH8 WILD-TYPE" 
[1] "hr=" "4"  
D80V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV
  ATOH8 MUTATED         1        1         0        1
  ATOH8 WILD-TYPE       3       12         4        7
D80V3, multiclass
           clus
vv          ATOH8 MUTATED ATOH8 WILD-TYPE
  STAGE I               1               3
  STAGE II              1              12
  STAGE III             0               4
  STAGE IV              1               7
                 vv
clus              T1 T2+T3 T4
  ATOH8 MUTATED    1     1  1
  ATOH8 WILD-TYPE  3    15  8
D80V4, multiclass
       clus
vv      ATOH8 MUTATED ATOH8 WILD-TYPE
  T1                1               3
  T2+T3             1              15
  T4                1               8
D80V5, binary
                 cls
clus               0  1
  ATOH8 MUTATED    2  1
  ATOH8 WILD-TYPE 24  3
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ATOH8 MUTATED      2    1
  ATOH8 WILD-TYPE   24    3
   clus
vv  ATOH8 MUTATED ATOH8 WILD-TYPE
  0             2              24
  1             1               3
D80V6, binary
                 cls
clus               0  1
  ATOH8 MUTATED    2  1
  ATOH8 WILD-TYPE 15 16
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ATOH8 MUTATED      2    1
  ATOH8 WILD-TYPE   15   16
        clus
vv       ATOH8 MUTATED ATOH8 WILD-TYPE
  FEMALE             2              15
  MALE               1              16

Clustering(81) Variable = BTBD11 MUTATION ANALYSIS
D81V1, survival
                  sevent
clus2               0  1
  BTBD11 MUTATED    2  2
  BTBD11 WILD-TYPE 24  6
  BTBD11 MUTATED BTBD11 WILD-TYPE 
               4               30 
  BTBD11 MUTATED BTBD11 WILD-TYPE 
               2                6 
$`BTBD11 MUTATED`
TCGA-OR-A5JG TCGA-OR-A5JL TCGA-OR-A5JZ TCGA-OR-A5K2 
       17.79        22.03         6.94        32.68 

$`BTBD11 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JI TCGA-OR-A5JJ 
       30.31        18.12        57.53        41.39        46.82        10.16 
TCGA-OR-A5JK TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JS 
       41.26        18.48        29.23        22.16       121.25        12.59 
TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5K0 
       16.04        50.66        63.25        31.23        18.15        33.83 
TCGA-OR-A5K1 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5K9 
       89.52        93.44        17.36         8.32        37.15        11.31 
TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
       73.05        23.31       106.52        10.09        27.29        42.51 

  BTBD11 MUTATED BTBD11 WILD-TYPE 
            6.94             8.32 
  BTBD11 MUTATED BTBD11 WILD-TYPE 
           32.68           121.25 
  BTBD11 MUTATED BTBD11 WILD-TYPE 
           19.91            30.77 
[1] "6.9 - 32.7 (19.9)"  "8.3 - 121.2 (30.8)"
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
  "BTBD11 MUTATED" "BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
  "BTBD11 MUTATED" "BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE"   "BTBD11 MUTATED" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
"BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE"   "BTBD11 MUTATED" "BTBD11 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
  "BTBD11 MUTATED" "BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
  "BTBD11 MUTATED" "BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE"   "BTBD11 MUTATED" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
"BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE"   "BTBD11 MUTATED" "BTBD11 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
  "BTBD11 MUTATED" "BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
  "BTBD11 MUTATED" "BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE"   "BTBD11 MUTATED" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
"BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE"   "BTBD11 MUTATED" "BTBD11 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"BTBD11 WILD-TYPE" "BTBD11 WILD-TYPE" 
[1] "hr=" "4.4"
D81V2, continuous
                  vv
clus               STAGE I STAGE II STAGE III STAGE IV
  BTBD11 MUTATED         1        1         1        1
  BTBD11 WILD-TYPE       3       12         3        7
D81V3, multiclass
           clus
vv          BTBD11 MUTATED BTBD11 WILD-TYPE
  STAGE I                1                3
  STAGE II               1               12
  STAGE III              1                3
  STAGE IV               1                7
                  vv
clus               T1 T2+T3 T4
  BTBD11 MUTATED    1     1  2
  BTBD11 WILD-TYPE  3    15  7
D81V4, multiclass
       clus
vv      BTBD11 MUTATED BTBD11 WILD-TYPE
  T1                 1                3
  T2+T3              1               15
  T4                 2                7
D81V5, binary
                  cls
clus                0  1
  BTBD11 MUTATED    3  1
  BTBD11 WILD-TYPE 23  3
[1] "tbl2"
                  cls
clus               [,1] [,2]
  BTBD11 MUTATED      3    1
  BTBD11 WILD-TYPE   23    3
   clus
vv  BTBD11 MUTATED BTBD11 WILD-TYPE
  0              3               23
  1              1                3
D81V6, binary
                  cls
clus                0  1
  BTBD11 MUTATED    2  2
  BTBD11 WILD-TYPE 15 15
[1] "tbl2"
                  cls
clus               [,1] [,2]
  BTBD11 MUTATED      2    2
  BTBD11 WILD-TYPE   15   15
        clus
vv       BTBD11 MUTATED BTBD11 WILD-TYPE
  FEMALE              2               15
  MALE                2               15

Clustering(82) Variable = PLIN5 MUTATION ANALYSIS
D82V1, survival
                 sevent
clus2              0  1
  PLIN5 MUTATED    3  1
  PLIN5 WILD-TYPE 23  7
  PLIN5 MUTATED PLIN5 WILD-TYPE 
              4              30 
  PLIN5 MUTATED PLIN5 WILD-TYPE 
              1               7 
$`PLIN5 MUTATED`
TCGA-OR-A5JF TCGA-OR-A5JW TCGA-OR-A5JY TCGA-OR-A5K1 
       41.39        63.25        18.15        89.52 

$`PLIN5 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JJ 
       30.31        18.12        57.53        17.79        46.82        10.16 
TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR 
       41.26        22.03        18.48        29.23        22.16       121.25 
TCGA-OR-A5JS TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JX TCGA-OR-A5JZ TCGA-OR-A5K0 
       12.59        16.04        50.66        31.23         6.94        33.83 
TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5K9 
       32.68        93.44        17.36         8.32        37.15        11.31 
TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
       73.05        23.31       106.52        10.09        27.29        42.51 

  PLIN5 MUTATED PLIN5 WILD-TYPE 
          18.15            6.94 
  PLIN5 MUTATED PLIN5 WILD-TYPE 
          89.52          121.25 
  PLIN5 MUTATED PLIN5 WILD-TYPE 
          52.32           28.26 
[1] "18.1 - 89.5 (52.3)" "6.9 - 121.2 (28.3)"
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE"   "PLIN5 MUTATED" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
  "PLIN5 MUTATED" "PLIN5 WILD-TYPE"   "PLIN5 MUTATED" "PLIN5 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"PLIN5 WILD-TYPE"   "PLIN5 MUTATED" "PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE"   "PLIN5 MUTATED" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
  "PLIN5 MUTATED" "PLIN5 WILD-TYPE"   "PLIN5 MUTATED" "PLIN5 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"PLIN5 WILD-TYPE"   "PLIN5 MUTATED" "PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE"   "PLIN5 MUTATED" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
  "PLIN5 MUTATED" "PLIN5 WILD-TYPE"   "PLIN5 MUTATED" "PLIN5 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"PLIN5 WILD-TYPE"   "PLIN5 MUTATED" "PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"PLIN5 WILD-TYPE" "PLIN5 WILD-TYPE" 
[1] "hr=" "1.5"
D82V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV
  PLIN5 MUTATED         0        3         0        1
  PLIN5 WILD-TYPE       4       10         4        7
D82V3, multiclass
           clus
vv          PLIN5 MUTATED PLIN5 WILD-TYPE
  STAGE I               0               4
  STAGE II              3              10
  STAGE III             0               4
  STAGE IV              1               7
                 vv
clus              T1 T2+T3 T4
  PLIN5 MUTATED    0     3  1
  PLIN5 WILD-TYPE  4    13  8
D82V4, multiclass
       clus
vv      PLIN5 MUTATED PLIN5 WILD-TYPE
  T1                0               4
  T2+T3             3              13
  T4                1               8
D82V5, binary
                 cls
clus               0  1
  PLIN5 MUTATED    3  1
  PLIN5 WILD-TYPE 23  3
[1] "tbl2"
                 cls
clus              [,1] [,2]
  PLIN5 MUTATED      3    1
  PLIN5 WILD-TYPE   23    3
   clus
vv  PLIN5 MUTATED PLIN5 WILD-TYPE
  0             3              23
  1             1               3
D82V6, binary
                 cls
clus               0  1
  PLIN5 MUTATED    2  2
  PLIN5 WILD-TYPE 15 15
[1] "tbl2"
                 cls
clus              [,1] [,2]
  PLIN5 MUTATED      2    2
  PLIN5 WILD-TYPE   15   15
        clus
vv       PLIN5 MUTATED PLIN5 WILD-TYPE
  FEMALE             2              15
  MALE               2              15

Clustering(83) Variable = ASB16 MUTATION ANALYSIS
D83V1, survival
                 sevent
clus2              0  1
  ASB16 MUTATED    3  1
  ASB16 WILD-TYPE 23  7
  ASB16 MUTATED ASB16 WILD-TYPE 
              4              30 
  ASB16 MUTATED ASB16 WILD-TYPE 
              1               7 
$`ASB16 MUTATED`
TCGA-OR-A5JK TCGA-OR-A5JQ TCGA-OR-A5K0 TCGA-OR-A5K2 
       41.26        22.16        33.83        32.68 

$`ASB16 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI 
       30.31        18.12        57.53        41.39        17.79        46.82 
TCGA-OR-A5JJ TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JR TCGA-OR-A5JS 
       10.16        22.03        18.48        29.23       121.25        12.59 
TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ 
       16.04        50.66        63.25        31.23        18.15         6.94 
TCGA-OR-A5K1 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5K9 
       89.52        93.44        17.36         8.32        37.15        11.31 
TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
       73.05        23.31       106.52        10.09        27.29        42.51 

  ASB16 MUTATED ASB16 WILD-TYPE 
          22.16            6.94 
  ASB16 MUTATED ASB16 WILD-TYPE 
          41.26          121.25 
  ASB16 MUTATED ASB16 WILD-TYPE 
         33.255          28.260 
[1] "22.2 - 41.3 (33.3)" "6.9 - 121.2 (28.3)"
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"ASB16 WILD-TYPE" "ASB16 WILD-TYPE" "ASB16 WILD-TYPE" "ASB16 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"ASB16 WILD-TYPE" "ASB16 WILD-TYPE" "ASB16 WILD-TYPE"   "ASB16 MUTATED" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"ASB16 WILD-TYPE" "ASB16 WILD-TYPE" "ASB16 WILD-TYPE"   "ASB16 MUTATED" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"ASB16 WILD-TYPE" "ASB16 WILD-TYPE" "ASB16 WILD-TYPE" "ASB16 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"ASB16 WILD-TYPE" "ASB16 WILD-TYPE" "ASB16 WILD-TYPE" "ASB16 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
  "ASB16 MUTATED" "ASB16 WILD-TYPE"   "ASB16 MUTATED" "ASB16 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"ASB16 WILD-TYPE" "ASB16 WILD-TYPE" "ASB16 WILD-TYPE" "ASB16 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"ASB16 WILD-TYPE" "ASB16 WILD-TYPE" "ASB16 WILD-TYPE" "ASB16 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"ASB16 WILD-TYPE" "ASB16 WILD-TYPE" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"ASB16 WILD-TYPE" "ASB16 WILD-TYPE" "ASB16 WILD-TYPE" "ASB16 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"ASB16 WILD-TYPE" "ASB16 WILD-TYPE" "ASB16 WILD-TYPE"   "ASB16 MUTATED" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"ASB16 WILD-TYPE" "ASB16 WILD-TYPE" "ASB16 WILD-TYPE"   "ASB16 MUTATED" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"ASB16 WILD-TYPE" "ASB16 WILD-TYPE" "ASB16 WILD-TYPE" "ASB16 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"ASB16 WILD-TYPE" "ASB16 WILD-TYPE" "ASB16 WILD-TYPE" "ASB16 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
  "ASB16 MUTATED" "ASB16 WILD-TYPE"   "ASB16 MUTATED" "ASB16 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"ASB16 WILD-TYPE" "ASB16 WILD-TYPE" "ASB16 WILD-TYPE" "ASB16 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"ASB16 WILD-TYPE" "ASB16 WILD-TYPE" "ASB16 WILD-TYPE" "ASB16 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"ASB16 WILD-TYPE" "ASB16 WILD-TYPE" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"ASB16 WILD-TYPE" "ASB16 WILD-TYPE" "ASB16 WILD-TYPE" "ASB16 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"ASB16 WILD-TYPE" "ASB16 WILD-TYPE" "ASB16 WILD-TYPE"   "ASB16 MUTATED" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"ASB16 WILD-TYPE" "ASB16 WILD-TYPE" "ASB16 WILD-TYPE"   "ASB16 MUTATED" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"ASB16 WILD-TYPE" "ASB16 WILD-TYPE" "ASB16 WILD-TYPE" "ASB16 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"ASB16 WILD-TYPE" "ASB16 WILD-TYPE" "ASB16 WILD-TYPE" "ASB16 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
  "ASB16 MUTATED" "ASB16 WILD-TYPE"   "ASB16 MUTATED" "ASB16 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"ASB16 WILD-TYPE" "ASB16 WILD-TYPE" "ASB16 WILD-TYPE" "ASB16 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"ASB16 WILD-TYPE" "ASB16 WILD-TYPE" "ASB16 WILD-TYPE" "ASB16 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"ASB16 WILD-TYPE" "ASB16 WILD-TYPE" 
[1] "hr=" "1.2"
D83V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV
  ASB16 MUTATED         0        2         1        1
  ASB16 WILD-TYPE       4       11         3        7
D83V3, multiclass
           clus
vv          ASB16 MUTATED ASB16 WILD-TYPE
  STAGE I               0               4
  STAGE II              2              11
  STAGE III             1               3
  STAGE IV              1               7
                 vv
clus              T1 T2+T3 T4
  ASB16 MUTATED    0     2  2
  ASB16 WILD-TYPE  4    14  7
D83V4, multiclass
       clus
vv      ASB16 MUTATED ASB16 WILD-TYPE
  T1                0               4
  T2+T3             2              14
  T4                2               7
D83V5, binary
                 cls
clus               0  1
  ASB16 MUTATED    4  0
  ASB16 WILD-TYPE 22  4
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ASB16 MUTATED      4    0
  ASB16 WILD-TYPE   22    4
   clus
vv  ASB16 MUTATED ASB16 WILD-TYPE
  0             4              22
  1             0               4
D83V6, binary
                 cls
clus               0  1
  ASB16 MUTATED    3  1
  ASB16 WILD-TYPE 14 16
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ASB16 MUTATED      3    1
  ASB16 WILD-TYPE   14   16
        clus
vv       ASB16 MUTATED ASB16 WILD-TYPE
  FEMALE             3              14
  MALE               1              16

Clustering(84) Variable = SCRT1 MUTATION ANALYSIS
D84V1, survival
                 sevent
clus2              0  1
  SCRT1 MUTATED    2  2
  SCRT1 WILD-TYPE 24  6
  SCRT1 MUTATED SCRT1 WILD-TYPE 
              4              30 
  SCRT1 MUTATED SCRT1 WILD-TYPE 
              2               6 
$`SCRT1 MUTATED`
TCGA-OR-A5JJ TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K9 
       10.16        18.15         6.94        11.31 

$`SCRT1 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI 
       30.31        18.12        57.53        41.39        17.79        46.82 
TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR 
       41.26        22.03        18.48        29.23        22.16       121.25 
TCGA-OR-A5JS TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5K0 
       12.59        16.04        50.66        63.25        31.23        33.83 
TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 
       89.52        32.68        93.44        17.36         8.32        37.15 
TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
       73.05        23.31       106.52        10.09        27.29        42.51 

  SCRT1 MUTATED SCRT1 WILD-TYPE 
           6.94            8.32 
  SCRT1 MUTATED SCRT1 WILD-TYPE 
          18.15          121.25 
  SCRT1 MUTATED SCRT1 WILD-TYPE 
         10.735          31.955 
[1] "6.9 - 18.1 (10.7)"  "8.3 - 121.2 (32.0)"
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE"   "SCRT1 MUTATED" "SCRT1 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE"   "SCRT1 MUTATED"   "SCRT1 MUTATED" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE"   "SCRT1 MUTATED" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE"   "SCRT1 MUTATED" "SCRT1 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE"   "SCRT1 MUTATED"   "SCRT1 MUTATED" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE"   "SCRT1 MUTATED" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE"   "SCRT1 MUTATED" "SCRT1 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE"   "SCRT1 MUTATED"   "SCRT1 MUTATED" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE"   "SCRT1 MUTATED" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"SCRT1 WILD-TYPE" "SCRT1 WILD-TYPE" 
[1] "hr=" "21" 
D84V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV
  SCRT1 MUTATED         0        2         0        2
  SCRT1 WILD-TYPE       4       11         4        6
D84V3, multiclass
           clus
vv          SCRT1 MUTATED SCRT1 WILD-TYPE
  STAGE I               0               4
  STAGE II              2              11
  STAGE III             0               4
  STAGE IV              2               6
                 vv
clus              T1 T2+T3 T4
  SCRT1 MUTATED    0     2  2
  SCRT1 WILD-TYPE  4    14  7
D84V4, multiclass
       clus
vv      SCRT1 MUTATED SCRT1 WILD-TYPE
  T1                0               4
  T2+T3             2              14
  T4                2               7
D84V5, binary
                 cls
clus               0  1
  SCRT1 MUTATED    2  2
  SCRT1 WILD-TYPE 24  2
[1] "tbl2"
                 cls
clus              [,1] [,2]
  SCRT1 MUTATED      2    2
  SCRT1 WILD-TYPE   24    2
   clus
vv  SCRT1 MUTATED SCRT1 WILD-TYPE
  0             2              24
  1             2               2
D84V6, binary
                 cls
clus               0  1
  SCRT1 MUTATED    2  2
  SCRT1 WILD-TYPE 15 15
[1] "tbl2"
                 cls
clus              [,1] [,2]
  SCRT1 MUTATED      2    2
  SCRT1 WILD-TYPE   15   15
        clus
vv       SCRT1 MUTATED SCRT1 WILD-TYPE
  FEMALE             2              15
  MALE               2              15

Clustering(85) Variable = NPTX1 MUTATION ANALYSIS
D85V1, survival
                 sevent
clus2              0  1
  NPTX1 MUTATED    5  0
  NPTX1 WILD-TYPE 21  8
  NPTX1 MUTATED NPTX1 WILD-TYPE 
              5              29 
  NPTX1 MUTATED NPTX1 WILD-TYPE 
              0               8 
$`NPTX1 MUTATED`
TCGA-OR-A5JI TCGA-OR-A5JO TCGA-OR-A5JV TCGA-OR-A5K6 TCGA-PK-A5H9 
       46.82        29.23        50.66        37.15        10.09 

$`NPTX1 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JJ 
       30.31        18.12        57.53        41.39        17.79        10.16 
TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JS 
       41.26        22.03        18.48        22.16       121.25        12.59 
TCGA-OR-A5JT TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K0 
       16.04        63.25        31.23        18.15         6.94        33.83 
TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K9 
       89.52        32.68        93.44        17.36         8.32        11.31 
TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5HA TCGA-PK-A5HB 
       73.05        23.31       106.52        27.29        42.51 

  NPTX1 MUTATED NPTX1 WILD-TYPE 
          10.09            6.94 
  NPTX1 MUTATED NPTX1 WILD-TYPE 
          50.66          121.25 
  NPTX1 MUTATED NPTX1 WILD-TYPE 
          37.15           27.29 
[1] "10.1 - 50.7 (37.1)" "6.9 - 121.2 (27.3)"
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"NPTX1 WILD-TYPE"   "NPTX1 MUTATED" "NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE"   "NPTX1 MUTATED" "NPTX1 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE"   "NPTX1 MUTATED" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE"   "NPTX1 MUTATED" "NPTX1 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE"   "NPTX1 MUTATED" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"NPTX1 WILD-TYPE"   "NPTX1 MUTATED" "NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE"   "NPTX1 MUTATED" "NPTX1 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE"   "NPTX1 MUTATED" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE"   "NPTX1 MUTATED" "NPTX1 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE"   "NPTX1 MUTATED" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"NPTX1 WILD-TYPE"   "NPTX1 MUTATED" "NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE"   "NPTX1 MUTATED" "NPTX1 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE"   "NPTX1 MUTATED" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE"   "NPTX1 MUTATED" "NPTX1 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE"   "NPTX1 MUTATED" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"NPTX1 WILD-TYPE" "NPTX1 WILD-TYPE" 
[1] "hr="     "2.4e+08"
D85V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV
  NPTX1 MUTATED         2        2         0        0
  NPTX1 WILD-TYPE       2       11         4        8
D85V3, multiclass
           clus
vv          NPTX1 MUTATED NPTX1 WILD-TYPE
  STAGE I               2               2
  STAGE II              2              11
  STAGE III             0               4
  STAGE IV              0               8
                 vv
clus              T1 T2+T3 T4
  NPTX1 MUTATED    2     2  0
  NPTX1 WILD-TYPE  2    14  9
D85V4, multiclass
       clus
vv      NPTX1 MUTATED NPTX1 WILD-TYPE
  T1                2               2
  T2+T3             2              14
  T4                0               9
D85V5, binary
                 cls
clus               0  1
  NPTX1 MUTATED    4  0
  NPTX1 WILD-TYPE 22  4
[1] "tbl2"
                 cls
clus              [,1] [,2]
  NPTX1 MUTATED      4    0
  NPTX1 WILD-TYPE   22    4
   clus
vv  NPTX1 MUTATED NPTX1 WILD-TYPE
  0             4              22
  1             0               4
D85V6, binary
                 cls
clus               0  1
  NPTX1 MUTATED    3  2
  NPTX1 WILD-TYPE 14 15
[1] "tbl2"
                 cls
clus              [,1] [,2]
  NPTX1 MUTATED      3    2
  NPTX1 WILD-TYPE   14   15
        clus
vv       NPTX1 MUTATED NPTX1 WILD-TYPE
  FEMALE             3              14
  MALE               2              15

Clustering(86) Variable = LRRN4 MUTATION ANALYSIS
D86V1, survival
                 sevent
clus2              0  1
  LRRN4 MUTATED    3  0
  LRRN4 WILD-TYPE 23  8
  LRRN4 MUTATED LRRN4 WILD-TYPE 
              3              31 
  LRRN4 MUTATED LRRN4 WILD-TYPE 
              0               8 
$`LRRN4 MUTATED`
TCGA-OR-A5JK TCGA-OR-A5JS TCGA-OU-A5PI 
       41.26        12.59        23.31 

$`LRRN4 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI 
       30.31        18.12        57.53        41.39        17.79        46.82 
TCGA-OR-A5JJ TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR 
       10.16        22.03        18.48        29.23        22.16       121.25 
TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ 
       16.04        50.66        63.25        31.23        18.15         6.94 
TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 
       33.83        89.52        32.68        93.44        17.36         8.32 
TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA 
       37.15        11.31        73.05       106.52        10.09        27.29 
TCGA-PK-A5HB 
       42.51 

  LRRN4 MUTATED LRRN4 WILD-TYPE 
          12.59            6.94 
  LRRN4 MUTATED LRRN4 WILD-TYPE 
          41.26          121.25 
  LRRN4 MUTATED LRRN4 WILD-TYPE 
          23.31           30.31 
[1] "12.6 - 41.3 (23.3)" "6.9 - 121.2 (30.3)"
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE"   "LRRN4 MUTATED" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"LRRN4 WILD-TYPE"   "LRRN4 MUTATED" "LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"LRRN4 WILD-TYPE"   "LRRN4 MUTATED" "LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE"   "LRRN4 MUTATED" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"LRRN4 WILD-TYPE"   "LRRN4 MUTATED" "LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"LRRN4 WILD-TYPE"   "LRRN4 MUTATED" "LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE"   "LRRN4 MUTATED" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
"LRRN4 WILD-TYPE"   "LRRN4 MUTATED" "LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"LRRN4 WILD-TYPE"   "LRRN4 MUTATED" "LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"LRRN4 WILD-TYPE" "LRRN4 WILD-TYPE" 
[1] "hr="     "7.5e+07"
D86V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV
  LRRN4 MUTATED         0        1         0        2
  LRRN4 WILD-TYPE       4       12         4        6
D86V3, multiclass
           clus
vv          LRRN4 MUTATED LRRN4 WILD-TYPE
  STAGE I               0               4
  STAGE II              1              12
  STAGE III             0               4
  STAGE IV              2               6
                 vv
clus              T1 T2+T3 T4
  LRRN4 MUTATED    0     2  1
  LRRN4 WILD-TYPE  4    14  8
D86V4, multiclass
       clus
vv      LRRN4 MUTATED LRRN4 WILD-TYPE
  T1                0               4
  T2+T3             2              14
  T4                1               8
D86V5, binary
                 cls
clus               0  1
  LRRN4 MUTATED    2  1
  LRRN4 WILD-TYPE 24  3
[1] "tbl2"
                 cls
clus              [,1] [,2]
  LRRN4 MUTATED      2    1
  LRRN4 WILD-TYPE   24    3
   clus
vv  LRRN4 MUTATED LRRN4 WILD-TYPE
  0             2              24
  1             1               3
D86V6, binary
                 cls
clus               0  1
  LRRN4 MUTATED    2  1
  LRRN4 WILD-TYPE 15 16
[1] "tbl2"
                 cls
clus              [,1] [,2]
  LRRN4 MUTATED      2    1
  LRRN4 WILD-TYPE   15   16
        clus
vv       LRRN4 MUTATED LRRN4 WILD-TYPE
  FEMALE             2              15
  MALE               1              16

Clustering(87) Variable = CCDC96 MUTATION ANALYSIS
D87V1, survival
                  sevent
clus2               0  1
  CCDC96 MUTATED    4  0
  CCDC96 WILD-TYPE 22  8
  CCDC96 MUTATED CCDC96 WILD-TYPE 
               4               30 
  CCDC96 MUTATED CCDC96 WILD-TYPE 
               0                8 
$`CCDC96 MUTATED`
TCGA-OR-A5JJ TCGA-OR-A5JR TCGA-OR-A5JS TCGA-PK-A5HB 
       10.16       121.25        12.59        42.51 

$`CCDC96 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI 
       30.31        18.12        57.53        41.39        17.79        46.82 
TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JT 
       41.26        22.03        18.48        29.23        22.16        16.04 
TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ TCGA-OR-A5K0 
       50.66        63.25        31.23        18.15         6.94        33.83 
TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 
       89.52        32.68        93.44        17.36         8.32        37.15 
TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA 
       11.31        73.05        23.31       106.52        10.09        27.29 

  CCDC96 MUTATED CCDC96 WILD-TYPE 
           10.16             6.94 
  CCDC96 MUTATED CCDC96 WILD-TYPE 
          121.25           106.52 
  CCDC96 MUTATED CCDC96 WILD-TYPE 
           27.55            29.77 
[1] "10.2 - 121.2 (27.5)" "6.9 - 106.5 (29.8)" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE"   "CCDC96 MUTATED" "CCDC96 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
  "CCDC96 MUTATED"   "CCDC96 MUTATED" "CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
"CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"CCDC96 WILD-TYPE"   "CCDC96 MUTATED" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE"   "CCDC96 MUTATED" "CCDC96 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
  "CCDC96 MUTATED"   "CCDC96 MUTATED" "CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
"CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"CCDC96 WILD-TYPE"   "CCDC96 MUTATED" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE"   "CCDC96 MUTATED" "CCDC96 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
  "CCDC96 MUTATED"   "CCDC96 MUTATED" "CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
"CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" "CCDC96 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"CCDC96 WILD-TYPE"   "CCDC96 MUTATED" 
[1] "hr="     "7.9e+07"
D87V2, continuous
                  vv
clus               STAGE I STAGE II STAGE III STAGE IV
  CCDC96 MUTATED         1        1         0        1
  CCDC96 WILD-TYPE       3       12         4        7
D87V3, multiclass
           clus
vv          CCDC96 MUTATED CCDC96 WILD-TYPE
  STAGE I                1                3
  STAGE II               1               12
  STAGE III              0                4
  STAGE IV               1                7
                  vv
clus               T1 T2+T3 T4
  CCDC96 MUTATED    1     1  1
  CCDC96 WILD-TYPE  3    15  8
D87V4, multiclass
       clus
vv      CCDC96 MUTATED CCDC96 WILD-TYPE
  T1                 1                3
  T2+T3              1               15
  T4                 1                8
D87V5, binary
                  cls
clus                0  1
  CCDC96 MUTATED    2  1
  CCDC96 WILD-TYPE 24  3
[1] "tbl2"
                  cls
clus               [,1] [,2]
  CCDC96 MUTATED      2    1
  CCDC96 WILD-TYPE   24    3
   clus
vv  CCDC96 MUTATED CCDC96 WILD-TYPE
  0              2               24
  1              1                3
D87V6, binary
                  cls
clus                0  1
  CCDC96 MUTATED    1  3
  CCDC96 WILD-TYPE 16 14
[1] "tbl2"
                  cls
clus               [,1] [,2]
  CCDC96 MUTATED      1    3
  CCDC96 WILD-TYPE   16   14
        clus
vv       CCDC96 MUTATED CCDC96 WILD-TYPE
  FEMALE              1               16
  MALE                3               14

Clustering(88) Variable = PCMTD1 MUTATION ANALYSIS
D88V1, survival
                  sevent
clus2               0  1
  PCMTD1 MUTATED    2  1
  PCMTD1 WILD-TYPE 24  7
  PCMTD1 MUTATED PCMTD1 WILD-TYPE 
               3               31 
  PCMTD1 MUTATED PCMTD1 WILD-TYPE 
               1                7 
$`PCMTD1 MUTATED`
TCGA-OR-A5JA TCGA-OR-A5K1 TCGA-PK-A5H8 
       30.31        89.52       106.52 

$`PCMTD1 WILD-TYPE`
TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JJ 
       18.12        57.53        41.39        17.79        46.82        10.16 
TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR 
       41.26        22.03        18.48        29.23        22.16       121.25 
TCGA-OR-A5JS TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY 
       12.59        16.04        50.66        63.25        31.23        18.15 
TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 
        6.94        33.83        32.68        93.44        17.36         8.32 
TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H9 TCGA-PK-A5HA 
       37.15        11.31        73.05        23.31        10.09        27.29 
TCGA-PK-A5HB 
       42.51 

  PCMTD1 MUTATED PCMTD1 WILD-TYPE 
           30.31             6.94 
  PCMTD1 MUTATED PCMTD1 WILD-TYPE 
          106.52           121.25 
  PCMTD1 MUTATED PCMTD1 WILD-TYPE 
           89.52            27.29 
[1] "30.3 - 106.5 (89.5)" "6.9 - 121.2 (27.3)" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
  "PCMTD1 MUTATED" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
"PCMTD1 WILD-TYPE"   "PCMTD1 MUTATED" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE"   "PCMTD1 MUTATED" "PCMTD1 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
  "PCMTD1 MUTATED" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
"PCMTD1 WILD-TYPE"   "PCMTD1 MUTATED" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE"   "PCMTD1 MUTATED" "PCMTD1 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
  "PCMTD1 MUTATED" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
"PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
"PCMTD1 WILD-TYPE"   "PCMTD1 MUTATED" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE"   "PCMTD1 MUTATED" "PCMTD1 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" 
[1] "hr=" "1.2"
D88V2, continuous
                  vv
clus               STAGE I STAGE II STAGE III STAGE IV
  PCMTD1 MUTATED         0        1         0        1
  PCMTD1 WILD-TYPE       4       12         4        7
D88V3, multiclass
[1] "Remove cluster labels:" "PCMTD1 MUTATED"        
clus
  PCMTD1 MUTATED PCMTD1 WILD-TYPE 
               2               27 
      TCGA-OR-A5JB       TCGA-OR-A5JF       TCGA-OR-A5JG       TCGA-OR-A5JI 
"PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" 
      TCGA-OR-A5JJ       TCGA-OR-A5JK       TCGA-OR-A5JL       TCGA-OR-A5JM 
"PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" 
      TCGA-OR-A5JO       TCGA-OR-A5JQ       TCGA-OR-A5JR       TCGA-OR-A5JS 
"PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" 
      TCGA-OR-A5JT       TCGA-OR-A5JV       TCGA-OR-A5JW       TCGA-OR-A5JX 
"PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" 
      TCGA-OR-A5JY       TCGA-OR-A5JZ       TCGA-OR-A5K0       TCGA-OR-A5K2 
"PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" 
      TCGA-OR-A5K3       TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6 
"PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" 
      TCGA-OR-A5K9       TCGA-OR-A5LK       TCGA-OU-A5PI 
"PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" 
                  vv
clus               T1 T2+T3 T4
  PCMTD1 MUTATED    0     1  1
  PCMTD1 WILD-TYPE  4    15  8
D88V4, multiclass
[1] "Remove cluster labels:" "PCMTD1 MUTATED"        
clus
  PCMTD1 MUTATED PCMTD1 WILD-TYPE 
               2               27 
      TCGA-OR-A5JB       TCGA-OR-A5JF       TCGA-OR-A5JG       TCGA-OR-A5JI 
"PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" 
      TCGA-OR-A5JJ       TCGA-OR-A5JK       TCGA-OR-A5JL       TCGA-OR-A5JM 
"PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" 
      TCGA-OR-A5JO       TCGA-OR-A5JQ       TCGA-OR-A5JR       TCGA-OR-A5JS 
"PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" 
      TCGA-OR-A5JT       TCGA-OR-A5JV       TCGA-OR-A5JW       TCGA-OR-A5JX 
"PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" 
      TCGA-OR-A5JY       TCGA-OR-A5JZ       TCGA-OR-A5K0       TCGA-OR-A5K2 
"PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" 
      TCGA-OR-A5K3       TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6 
"PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" 
      TCGA-OR-A5K9       TCGA-OR-A5LK       TCGA-OU-A5PI 
"PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" "PCMTD1 WILD-TYPE" 
D88V5, binary
                  cls
clus                0  1
  PCMTD1 MUTATED    2  0
  PCMTD1 WILD-TYPE 24  4
[1] "tbl2"
                  cls
clus               [,1] [,2]
  PCMTD1 MUTATED      2    0
  PCMTD1 WILD-TYPE   24    4
   clus
vv  PCMTD1 MUTATED PCMTD1 WILD-TYPE
  0              2               24
  1              0                4
D88V6, binary
                  cls
clus                0  1
  PCMTD1 MUTATED    1  2
  PCMTD1 WILD-TYPE 16 15
[1] "tbl2"
                  cls
clus               [,1] [,2]
  PCMTD1 MUTATED      1    2
  PCMTD1 WILD-TYPE   16   15
        clus
vv       PCMTD1 MUTATED PCMTD1 WILD-TYPE
  FEMALE              1               16
  MALE                2               15

Clustering(89) Variable = GLI3 MUTATION ANALYSIS
D89V1, survival
                sevent
clus2             0  1
  GLI3 MUTATED    4  1
  GLI3 WILD-TYPE 22  7
  GLI3 MUTATED GLI3 WILD-TYPE 
             5             29 
  GLI3 MUTATED GLI3 WILD-TYPE 
             1              7 
$`GLI3 MUTATED`
TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-PK-A5H9 
       41.26        22.03        89.52        32.68        10.09 

$`GLI3 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI 
       30.31        18.12        57.53        41.39        17.79        46.82 
TCGA-OR-A5JJ TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JS 
       10.16        18.48        29.23        22.16       121.25        12.59 
TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ 
       16.04        50.66        63.25        31.23        18.15         6.94 
TCGA-OR-A5K0 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5K9 
       33.83        93.44        17.36         8.32        37.15        11.31 
TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5HA TCGA-PK-A5HB 
       73.05        23.31       106.52        27.29        42.51 

  GLI3 MUTATED GLI3 WILD-TYPE 
         10.09           6.94 
  GLI3 MUTATED GLI3 WILD-TYPE 
         89.52         121.25 
  GLI3 MUTATED GLI3 WILD-TYPE 
         32.68          29.23 
[1] "10.1 - 89.5 (32.7)" "6.9 - 121.2 (29.2)"
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"GLI3 WILD-TYPE" "GLI3 WILD-TYPE" "GLI3 WILD-TYPE" "GLI3 WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"GLI3 WILD-TYPE" "GLI3 WILD-TYPE" "GLI3 WILD-TYPE"   "GLI3 MUTATED" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
  "GLI3 MUTATED" "GLI3 WILD-TYPE" "GLI3 WILD-TYPE" "GLI3 WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"GLI3 WILD-TYPE" "GLI3 WILD-TYPE" "GLI3 WILD-TYPE" "GLI3 WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"GLI3 WILD-TYPE" "GLI3 WILD-TYPE" "GLI3 WILD-TYPE" "GLI3 WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"GLI3 WILD-TYPE"   "GLI3 MUTATED"   "GLI3 MUTATED" "GLI3 WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"GLI3 WILD-TYPE" "GLI3 WILD-TYPE" "GLI3 WILD-TYPE" "GLI3 WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"GLI3 WILD-TYPE" "GLI3 WILD-TYPE" "GLI3 WILD-TYPE"   "GLI3 MUTATED" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"GLI3 WILD-TYPE" "GLI3 WILD-TYPE" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"GLI3 WILD-TYPE" "GLI3 WILD-TYPE" "GLI3 WILD-TYPE" "GLI3 WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"GLI3 WILD-TYPE" "GLI3 WILD-TYPE" "GLI3 WILD-TYPE"   "GLI3 MUTATED" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
  "GLI3 MUTATED" "GLI3 WILD-TYPE" "GLI3 WILD-TYPE" "GLI3 WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"GLI3 WILD-TYPE" "GLI3 WILD-TYPE" "GLI3 WILD-TYPE" "GLI3 WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"GLI3 WILD-TYPE" "GLI3 WILD-TYPE" "GLI3 WILD-TYPE" "GLI3 WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"GLI3 WILD-TYPE"   "GLI3 MUTATED"   "GLI3 MUTATED" "GLI3 WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"GLI3 WILD-TYPE" "GLI3 WILD-TYPE" "GLI3 WILD-TYPE" "GLI3 WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"GLI3 WILD-TYPE" "GLI3 WILD-TYPE" "GLI3 WILD-TYPE"   "GLI3 MUTATED" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"GLI3 WILD-TYPE" "GLI3 WILD-TYPE" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"GLI3 WILD-TYPE" "GLI3 WILD-TYPE" "GLI3 WILD-TYPE" "GLI3 WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"GLI3 WILD-TYPE" "GLI3 WILD-TYPE" "GLI3 WILD-TYPE"   "GLI3 MUTATED" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
  "GLI3 MUTATED" "GLI3 WILD-TYPE" "GLI3 WILD-TYPE" "GLI3 WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"GLI3 WILD-TYPE" "GLI3 WILD-TYPE" "GLI3 WILD-TYPE" "GLI3 WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"GLI3 WILD-TYPE" "GLI3 WILD-TYPE" "GLI3 WILD-TYPE" "GLI3 WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
"GLI3 WILD-TYPE"   "GLI3 MUTATED"   "GLI3 MUTATED" "GLI3 WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"GLI3 WILD-TYPE" "GLI3 WILD-TYPE" "GLI3 WILD-TYPE" "GLI3 WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"GLI3 WILD-TYPE" "GLI3 WILD-TYPE" "GLI3 WILD-TYPE"   "GLI3 MUTATED" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"GLI3 WILD-TYPE" "GLI3 WILD-TYPE" 
[1] "hr=" "1.4"
D89V2, continuous
                vv
clus             STAGE I STAGE II STAGE III STAGE IV
  GLI3 MUTATED         1        1         1        1
  GLI3 WILD-TYPE       3       12         3        7
D89V3, multiclass
           clus
vv          GLI3 MUTATED GLI3 WILD-TYPE
  STAGE I              1              3
  STAGE II             1             12
  STAGE III            1              3
  STAGE IV             1              7
                vv
clus             T1 T2+T3 T4
  GLI3 MUTATED    1     1  2
  GLI3 WILD-TYPE  3    15  7
D89V4, multiclass
       clus
vv      GLI3 MUTATED GLI3 WILD-TYPE
  T1               1              3
  T2+T3            1             15
  T4               2              7
D89V5, binary
                cls
clus              0  1
  GLI3 MUTATED    4  0
  GLI3 WILD-TYPE 22  4
[1] "tbl2"
                cls
clus             [,1] [,2]
  GLI3 MUTATED      4    0
  GLI3 WILD-TYPE   22    4
   clus
vv  GLI3 MUTATED GLI3 WILD-TYPE
  0            4             22
  1            0              4
D89V6, binary
                cls
clus              0  1
  GLI3 MUTATED    3  2
  GLI3 WILD-TYPE 14 15
[1] "tbl2"
                cls
clus             [,1] [,2]
  GLI3 MUTATED      3    2
  GLI3 WILD-TYPE   14   15
        clus
vv       GLI3 MUTATED GLI3 WILD-TYPE
  FEMALE            3             14
  MALE              2             15

Clustering(90) Variable = MN1 MUTATION ANALYSIS
D90V1, survival
               sevent
clus2            0  1
  MN1 MUTATED    2  1
  MN1 WILD-TYPE 24  7
  MN1 MUTATED MN1 WILD-TYPE 
            3            31 
  MN1 MUTATED MN1 WILD-TYPE 
            1             7 
$`MN1 MUTATED`
TCGA-OR-A5JS TCGA-OR-A5K9 TCGA-OU-A5PI 
       12.59        11.31        23.31 

$`MN1 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI 
       30.31        18.12        57.53        41.39        17.79        46.82 
TCGA-OR-A5JJ TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ 
       10.16        41.26        22.03        18.48        29.23        22.16 
TCGA-OR-A5JR TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY 
      121.25        16.04        50.66        63.25        31.23        18.15 
TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 
        6.94        33.83        89.52        32.68        93.44        17.36 
TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5LK TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA 
        8.32        37.15        73.05       106.52        10.09        27.29 
TCGA-PK-A5HB 
       42.51 

  MN1 MUTATED MN1 WILD-TYPE 
        11.31          6.94 
  MN1 MUTATED MN1 WILD-TYPE 
        23.31        121.25 
  MN1 MUTATED MN1 WILD-TYPE 
        12.59         31.23 
[1] "11.3 - 23.3 (12.6)" "6.9 - 121.2 (31.2)"
   TCGA-OR-A5JA    TCGA-OR-A5JB    TCGA-OR-A5JC    TCGA-OR-A5JF    TCGA-OR-A5JG 
"MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE" 
   TCGA-OR-A5JI    TCGA-OR-A5JJ    TCGA-OR-A5JK    TCGA-OR-A5JL    TCGA-OR-A5JM 
"MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE" 
   TCGA-OR-A5JO    TCGA-OR-A5JQ    TCGA-OR-A5JR    TCGA-OR-A5JS    TCGA-OR-A5JT 
"MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE"   "MN1 MUTATED" "MN1 WILD-TYPE" 
   TCGA-OR-A5JV    TCGA-OR-A5JW    TCGA-OR-A5JX    TCGA-OR-A5JY    TCGA-OR-A5JZ 
"MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE" 
   TCGA-OR-A5K0    TCGA-OR-A5K1    TCGA-OR-A5K2    TCGA-OR-A5K3    TCGA-OR-A5K4 
"MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE" 
   TCGA-OR-A5K5    TCGA-OR-A5K6    TCGA-OR-A5K9    TCGA-OR-A5LK    TCGA-OU-A5PI 
"MN1 WILD-TYPE" "MN1 WILD-TYPE"   "MN1 MUTATED" "MN1 WILD-TYPE"   "MN1 MUTATED" 
   TCGA-PK-A5H8    TCGA-PK-A5H9    TCGA-PK-A5HA    TCGA-PK-A5HB 
"MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE" 
   TCGA-OR-A5JA    TCGA-OR-A5JB    TCGA-OR-A5JC    TCGA-OR-A5JF    TCGA-OR-A5JG 
"MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE" 
   TCGA-OR-A5JI    TCGA-OR-A5JJ    TCGA-OR-A5JK    TCGA-OR-A5JL    TCGA-OR-A5JM 
"MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE" 
   TCGA-OR-A5JO    TCGA-OR-A5JQ    TCGA-OR-A5JR    TCGA-OR-A5JS    TCGA-OR-A5JT 
"MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE"   "MN1 MUTATED" "MN1 WILD-TYPE" 
   TCGA-OR-A5JV    TCGA-OR-A5JW    TCGA-OR-A5JX    TCGA-OR-A5JY    TCGA-OR-A5JZ 
"MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE" 
   TCGA-OR-A5K0    TCGA-OR-A5K1    TCGA-OR-A5K2    TCGA-OR-A5K3    TCGA-OR-A5K4 
"MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE" 
   TCGA-OR-A5K5    TCGA-OR-A5K6    TCGA-OR-A5K9    TCGA-OR-A5LK    TCGA-OU-A5PI 
"MN1 WILD-TYPE" "MN1 WILD-TYPE"   "MN1 MUTATED" "MN1 WILD-TYPE"   "MN1 MUTATED" 
   TCGA-PK-A5H8    TCGA-PK-A5H9    TCGA-PK-A5HA    TCGA-PK-A5HB 
"MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE" 
   TCGA-OR-A5JA    TCGA-OR-A5JB    TCGA-OR-A5JC    TCGA-OR-A5JF    TCGA-OR-A5JG 
"MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE" 
   TCGA-OR-A5JI    TCGA-OR-A5JJ    TCGA-OR-A5JK    TCGA-OR-A5JL    TCGA-OR-A5JM 
"MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE" 
   TCGA-OR-A5JO    TCGA-OR-A5JQ    TCGA-OR-A5JR    TCGA-OR-A5JS    TCGA-OR-A5JT 
"MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE"   "MN1 MUTATED" "MN1 WILD-TYPE" 
   TCGA-OR-A5JV    TCGA-OR-A5JW    TCGA-OR-A5JX    TCGA-OR-A5JY    TCGA-OR-A5JZ 
"MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE" 
   TCGA-OR-A5K0    TCGA-OR-A5K1    TCGA-OR-A5K2    TCGA-OR-A5K3    TCGA-OR-A5K4 
"MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE" 
   TCGA-OR-A5K5    TCGA-OR-A5K6    TCGA-OR-A5K9    TCGA-OR-A5LK    TCGA-OU-A5PI 
"MN1 WILD-TYPE" "MN1 WILD-TYPE"   "MN1 MUTATED" "MN1 WILD-TYPE"   "MN1 MUTATED" 
   TCGA-PK-A5H8    TCGA-PK-A5H9    TCGA-PK-A5HA    TCGA-PK-A5HB 
"MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE" "MN1 WILD-TYPE" 
[1] "hr=" "4.6"
D90V2, continuous
               vv
clus            STAGE I STAGE II STAGE III STAGE IV
  MN1 MUTATED         0        2         0        1
  MN1 WILD-TYPE       4       11         4        7
D90V3, multiclass
           clus
vv          MN1 MUTATED MN1 WILD-TYPE
  STAGE I             0             4
  STAGE II            2            11
  STAGE III           0             4
  STAGE IV            1             7
               vv
clus            T1 T2+T3 T4
  MN1 MUTATED    0     3  0
  MN1 WILD-TYPE  4    13  9
D90V4, multiclass
       clus
vv      MN1 MUTATED MN1 WILD-TYPE
  T1              0             4
  T2+T3           3            13
  T4              0             9
D90V5, binary
               cls
clus             0  1
  MN1 MUTATED    2  1
  MN1 WILD-TYPE 24  3
[1] "tbl2"
               cls
clus            [,1] [,2]
  MN1 MUTATED      2    1
  MN1 WILD-TYPE   24    3
   clus
vv  MN1 MUTATED MN1 WILD-TYPE
  0           2            24
  1           1             3
D90V6, binary
               cls
clus             0  1
  MN1 MUTATED    3  0
  MN1 WILD-TYPE 14 17
[1] "tbl2"
               cls
clus            [,1] [,2]
  MN1 MUTATED      3    0
  MN1 WILD-TYPE   14   17
        clus
vv       MN1 MUTATED MN1 WILD-TYPE
  FEMALE           3            14
  MALE             0            17

Clustering(91) Variable = C9ORF66 MUTATION ANALYSIS
D91V1, survival
                   sevent
clus2                0  1
  C9ORF66 MUTATED    2  1
  C9ORF66 WILD-TYPE 24  7
  C9ORF66 MUTATED C9ORF66 WILD-TYPE 
                3                31 
  C9ORF66 MUTATED C9ORF66 WILD-TYPE 
                1                 7 
$`C9ORF66 MUTATED`
TCGA-OR-A5JF TCGA-OR-A5JR TCGA-OR-A5K9 
       41.39       121.25        11.31 

$`C9ORF66 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JG TCGA-OR-A5JI TCGA-OR-A5JJ 
       30.31        18.12        57.53        17.79        46.82        10.16 
TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JS 
       41.26        22.03        18.48        29.23        22.16        12.59 
TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ 
       16.04        50.66        63.25        31.23        18.15         6.94 
TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 
       33.83        89.52        32.68        93.44        17.36         8.32 
TCGA-OR-A5K6 TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA 
       37.15        73.05        23.31       106.52        10.09        27.29 
TCGA-PK-A5HB 
       42.51 

  C9ORF66 MUTATED C9ORF66 WILD-TYPE 
            11.31              6.94 
  C9ORF66 MUTATED C9ORF66 WILD-TYPE 
           121.25            106.52 
  C9ORF66 MUTATED C9ORF66 WILD-TYPE 
            41.39             29.23 
[1] "11.3 - 121.2 (41.4)" "6.9 - 106.5 (29.2)" 
       TCGA-OR-A5JA        TCGA-OR-A5JB        TCGA-OR-A5JC        TCGA-OR-A5JF 
"C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE"   "C9ORF66 MUTATED" 
       TCGA-OR-A5JG        TCGA-OR-A5JI        TCGA-OR-A5JJ        TCGA-OR-A5JK 
"C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" 
       TCGA-OR-A5JL        TCGA-OR-A5JM        TCGA-OR-A5JO        TCGA-OR-A5JQ 
"C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" 
       TCGA-OR-A5JR        TCGA-OR-A5JS        TCGA-OR-A5JT        TCGA-OR-A5JV 
  "C9ORF66 MUTATED" "C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" 
       TCGA-OR-A5JW        TCGA-OR-A5JX        TCGA-OR-A5JY        TCGA-OR-A5JZ 
"C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" 
       TCGA-OR-A5K0        TCGA-OR-A5K1        TCGA-OR-A5K2        TCGA-OR-A5K3 
"C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" 
       TCGA-OR-A5K4        TCGA-OR-A5K5        TCGA-OR-A5K6        TCGA-OR-A5K9 
"C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE"   "C9ORF66 MUTATED" 
       TCGA-OR-A5LK        TCGA-OU-A5PI        TCGA-PK-A5H8        TCGA-PK-A5H9 
"C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" 
       TCGA-PK-A5HA        TCGA-PK-A5HB 
"C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" 
       TCGA-OR-A5JA        TCGA-OR-A5JB        TCGA-OR-A5JC        TCGA-OR-A5JF 
"C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE"   "C9ORF66 MUTATED" 
       TCGA-OR-A5JG        TCGA-OR-A5JI        TCGA-OR-A5JJ        TCGA-OR-A5JK 
"C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" 
       TCGA-OR-A5JL        TCGA-OR-A5JM        TCGA-OR-A5JO        TCGA-OR-A5JQ 
"C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" 
       TCGA-OR-A5JR        TCGA-OR-A5JS        TCGA-OR-A5JT        TCGA-OR-A5JV 
  "C9ORF66 MUTATED" "C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" 
       TCGA-OR-A5JW        TCGA-OR-A5JX        TCGA-OR-A5JY        TCGA-OR-A5JZ 
"C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" 
       TCGA-OR-A5K0        TCGA-OR-A5K1        TCGA-OR-A5K2        TCGA-OR-A5K3 
"C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" 
       TCGA-OR-A5K4        TCGA-OR-A5K5        TCGA-OR-A5K6        TCGA-OR-A5K9 
"C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE"   "C9ORF66 MUTATED" 
       TCGA-OR-A5LK        TCGA-OU-A5PI        TCGA-PK-A5H8        TCGA-PK-A5H9 
"C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" 
       TCGA-PK-A5HA        TCGA-PK-A5HB 
"C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" 
       TCGA-OR-A5JA        TCGA-OR-A5JB        TCGA-OR-A5JC        TCGA-OR-A5JF 
"C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE"   "C9ORF66 MUTATED" 
       TCGA-OR-A5JG        TCGA-OR-A5JI        TCGA-OR-A5JJ        TCGA-OR-A5JK 
"C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" 
       TCGA-OR-A5JL        TCGA-OR-A5JM        TCGA-OR-A5JO        TCGA-OR-A5JQ 
"C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" 
       TCGA-OR-A5JR        TCGA-OR-A5JS        TCGA-OR-A5JT        TCGA-OR-A5JV 
  "C9ORF66 MUTATED" "C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" 
       TCGA-OR-A5JW        TCGA-OR-A5JX        TCGA-OR-A5JY        TCGA-OR-A5JZ 
"C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" 
       TCGA-OR-A5K0        TCGA-OR-A5K1        TCGA-OR-A5K2        TCGA-OR-A5K3 
"C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" 
       TCGA-OR-A5K4        TCGA-OR-A5K5        TCGA-OR-A5K6        TCGA-OR-A5K9 
"C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE"   "C9ORF66 MUTATED" 
       TCGA-OR-A5LK        TCGA-OU-A5PI        TCGA-PK-A5H8        TCGA-PK-A5H9 
"C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" 
       TCGA-PK-A5HA        TCGA-PK-A5HB 
"C9ORF66 WILD-TYPE" "C9ORF66 WILD-TYPE" 
[1] "hr=" "1.3"
D91V2, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV
  C9ORF66 MUTATED         1        2         0        0
  C9ORF66 WILD-TYPE       3       11         4        8
D91V3, multiclass
           clus
vv          C9ORF66 MUTATED C9ORF66 WILD-TYPE
  STAGE I                 1                 3
  STAGE II                2                11
  STAGE III               0                 4
  STAGE IV                0                 8
                   vv
clus                T1 T2+T3 T4
  C9ORF66 MUTATED    1     2  0
  C9ORF66 WILD-TYPE  3    14  9
D91V4, multiclass
       clus
vv      C9ORF66 MUTATED C9ORF66 WILD-TYPE
  T1                  1                 3
  T2+T3               2                14
  T4                  0                 9
D91V5, binary
                   cls
clus                 0  1
  C9ORF66 MUTATED    3  0
  C9ORF66 WILD-TYPE 23  4
[1] "tbl2"
                   cls
clus                [,1] [,2]
  C9ORF66 MUTATED      3    0
  C9ORF66 WILD-TYPE   23    4
   clus
vv  C9ORF66 MUTATED C9ORF66 WILD-TYPE
  0               3                23
  1               0                 4
D91V6, binary
                   cls
clus                 0  1
  C9ORF66 MUTATED    2  1
  C9ORF66 WILD-TYPE 15 16
[1] "tbl2"
                   cls
clus                [,1] [,2]
  C9ORF66 MUTATED      2    1
  C9ORF66 WILD-TYPE   15   16
        clus
vv       C9ORF66 MUTATED C9ORF66 WILD-TYPE
  FEMALE               2                15
  MALE                 1                16

Clustering(92) Variable = MADCAM1 MUTATION ANALYSIS
D92V1, survival
                   sevent
clus2                0  1
  MADCAM1 MUTATED    2  1
  MADCAM1 WILD-TYPE 24  7
  MADCAM1 MUTATED MADCAM1 WILD-TYPE 
                3                31 
  MADCAM1 MUTATED MADCAM1 WILD-TYPE 
                1                 7 
$`MADCAM1 MUTATED`
TCGA-OR-A5JG TCGA-OR-A5JJ TCGA-OR-A5K4 
       17.79        10.16        17.36 

$`MADCAM1 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JI TCGA-OR-A5JK 
       30.31        18.12        57.53        41.39        46.82        41.26 
TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JS 
       22.03        18.48        29.23        22.16       121.25        12.59 
TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ 
       16.04        50.66        63.25        31.23        18.15         6.94 
TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K5 TCGA-OR-A5K6 
       33.83        89.52        32.68        93.44         8.32        37.15 
TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA 
       11.31        73.05        23.31       106.52        10.09        27.29 
TCGA-PK-A5HB 
       42.51 

  MADCAM1 MUTATED MADCAM1 WILD-TYPE 
            10.16              6.94 
  MADCAM1 MUTATED MADCAM1 WILD-TYPE 
            17.79            121.25 
  MADCAM1 MUTATED MADCAM1 WILD-TYPE 
            17.36             31.23 
[1] "10.2 - 17.8 (17.4)" "6.9 - 121.2 (31.2)"
       TCGA-OR-A5JA        TCGA-OR-A5JB        TCGA-OR-A5JC        TCGA-OR-A5JF 
"MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" 
       TCGA-OR-A5JG        TCGA-OR-A5JI        TCGA-OR-A5JJ        TCGA-OR-A5JK 
  "MADCAM1 MUTATED" "MADCAM1 WILD-TYPE"   "MADCAM1 MUTATED" "MADCAM1 WILD-TYPE" 
       TCGA-OR-A5JL        TCGA-OR-A5JM        TCGA-OR-A5JO        TCGA-OR-A5JQ 
"MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" 
       TCGA-OR-A5JR        TCGA-OR-A5JS        TCGA-OR-A5JT        TCGA-OR-A5JV 
"MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" 
       TCGA-OR-A5JW        TCGA-OR-A5JX        TCGA-OR-A5JY        TCGA-OR-A5JZ 
"MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" 
       TCGA-OR-A5K0        TCGA-OR-A5K1        TCGA-OR-A5K2        TCGA-OR-A5K3 
"MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" 
       TCGA-OR-A5K4        TCGA-OR-A5K5        TCGA-OR-A5K6        TCGA-OR-A5K9 
  "MADCAM1 MUTATED" "MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" 
       TCGA-OR-A5LK        TCGA-OU-A5PI        TCGA-PK-A5H8        TCGA-PK-A5H9 
"MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" 
       TCGA-PK-A5HA        TCGA-PK-A5HB 
"MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" 
       TCGA-OR-A5JA        TCGA-OR-A5JB        TCGA-OR-A5JC        TCGA-OR-A5JF 
"MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" 
       TCGA-OR-A5JG        TCGA-OR-A5JI        TCGA-OR-A5JJ        TCGA-OR-A5JK 
  "MADCAM1 MUTATED" "MADCAM1 WILD-TYPE"   "MADCAM1 MUTATED" "MADCAM1 WILD-TYPE" 
       TCGA-OR-A5JL        TCGA-OR-A5JM        TCGA-OR-A5JO        TCGA-OR-A5JQ 
"MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" 
       TCGA-OR-A5JR        TCGA-OR-A5JS        TCGA-OR-A5JT        TCGA-OR-A5JV 
"MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" 
       TCGA-OR-A5JW        TCGA-OR-A5JX        TCGA-OR-A5JY        TCGA-OR-A5JZ 
"MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" 
       TCGA-OR-A5K0        TCGA-OR-A5K1        TCGA-OR-A5K2        TCGA-OR-A5K3 
"MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" 
       TCGA-OR-A5K4        TCGA-OR-A5K5        TCGA-OR-A5K6        TCGA-OR-A5K9 
  "MADCAM1 MUTATED" "MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" 
       TCGA-OR-A5LK        TCGA-OU-A5PI        TCGA-PK-A5H8        TCGA-PK-A5H9 
"MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" 
       TCGA-PK-A5HA        TCGA-PK-A5HB 
"MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" 
       TCGA-OR-A5JA        TCGA-OR-A5JB        TCGA-OR-A5JC        TCGA-OR-A5JF 
"MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" 
       TCGA-OR-A5JG        TCGA-OR-A5JI        TCGA-OR-A5JJ        TCGA-OR-A5JK 
  "MADCAM1 MUTATED" "MADCAM1 WILD-TYPE"   "MADCAM1 MUTATED" "MADCAM1 WILD-TYPE" 
       TCGA-OR-A5JL        TCGA-OR-A5JM        TCGA-OR-A5JO        TCGA-OR-A5JQ 
"MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" 
       TCGA-OR-A5JR        TCGA-OR-A5JS        TCGA-OR-A5JT        TCGA-OR-A5JV 
"MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" 
       TCGA-OR-A5JW        TCGA-OR-A5JX        TCGA-OR-A5JY        TCGA-OR-A5JZ 
"MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" 
       TCGA-OR-A5K0        TCGA-OR-A5K1        TCGA-OR-A5K2        TCGA-OR-A5K3 
"MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" 
       TCGA-OR-A5K4        TCGA-OR-A5K5        TCGA-OR-A5K6        TCGA-OR-A5K9 
  "MADCAM1 MUTATED" "MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" 
       TCGA-OR-A5LK        TCGA-OU-A5PI        TCGA-PK-A5H8        TCGA-PK-A5H9 
"MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" 
       TCGA-PK-A5HA        TCGA-PK-A5HB 
"MADCAM1 WILD-TYPE" "MADCAM1 WILD-TYPE" 
[1] "hr=" "19" 
D92V2, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV
  MADCAM1 MUTATED         0        0         1        2
  MADCAM1 WILD-TYPE       4       13         3        6
D92V3, multiclass
           clus
vv          MADCAM1 MUTATED MADCAM1 WILD-TYPE
  STAGE I                 0                 4
  STAGE II                0                13
  STAGE III               1                 3
  STAGE IV                2                 6
                   vv
clus                T1 T2+T3 T4
  MADCAM1 MUTATED    0     0  3
  MADCAM1 WILD-TYPE  4    16  6
D92V4, multiclass
       clus
vv      MADCAM1 MUTATED MADCAM1 WILD-TYPE
  T1                  0                 4
  T2+T3               0                16
  T4                  3                 6
D92V5, binary
                   cls
clus                 0  1
  MADCAM1 MUTATED    1  2
  MADCAM1 WILD-TYPE 25  2
[1] "tbl2"
                   cls
clus                [,1] [,2]
  MADCAM1 MUTATED      1    2
  MADCAM1 WILD-TYPE   25    2
   clus
vv  MADCAM1 MUTATED MADCAM1 WILD-TYPE
  0               1                25
  1               2                 2
D92V6, binary
                   cls
clus                 0  1
  MADCAM1 MUTATED    1  2
  MADCAM1 WILD-TYPE 16 15
[1] "tbl2"
                   cls
clus                [,1] [,2]
  MADCAM1 MUTATED      1    2
  MADCAM1 WILD-TYPE   16   15
        clus
vv       MADCAM1 MUTATED MADCAM1 WILD-TYPE
  FEMALE               1                16
  MALE                 2                15

Clustering(93) Variable = KRTAP10-7 MUTATION ANALYSIS
D93V1, survival
                     sevent
clus2                  0  1
  KRTAP10-7 MUTATED    3  0
  KRTAP10-7 WILD-TYPE 23  8
  KRTAP10-7 MUTATED KRTAP10-7 WILD-TYPE 
                  3                  31 
  KRTAP10-7 MUTATED KRTAP10-7 WILD-TYPE 
                  0                   8 
$`KRTAP10-7 MUTATED`
TCGA-OR-A5JO TCGA-OR-A5K3 TCGA-PK-A5HB 
       29.23        93.44        42.51 

$`KRTAP10-7 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI 
       30.31        18.12        57.53        41.39        17.79        46.82 
TCGA-OR-A5JJ TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JQ TCGA-OR-A5JR 
       10.16        41.26        22.03        18.48        22.16       121.25 
TCGA-OR-A5JS TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY 
       12.59        16.04        50.66        63.25        31.23        18.15 
TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K4 TCGA-OR-A5K5 
        6.94        33.83        89.52        32.68        17.36         8.32 
TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 
       37.15        11.31        73.05        23.31       106.52        10.09 
TCGA-PK-A5HA 
       27.29 

  KRTAP10-7 MUTATED KRTAP10-7 WILD-TYPE 
              29.23                6.94 
  KRTAP10-7 MUTATED KRTAP10-7 WILD-TYPE 
              93.44              121.25 
  KRTAP10-7 MUTATED KRTAP10-7 WILD-TYPE 
              42.51               27.29 
[1] "29.2 - 93.4 (42.5)" "6.9 - 121.2 (27.3)"
         TCGA-OR-A5JA          TCGA-OR-A5JB          TCGA-OR-A5JC 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
         TCGA-OR-A5JF          TCGA-OR-A5JG          TCGA-OR-A5JI 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
         TCGA-OR-A5JJ          TCGA-OR-A5JK          TCGA-OR-A5JL 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
         TCGA-OR-A5JM          TCGA-OR-A5JO          TCGA-OR-A5JQ 
"KRTAP10-7 WILD-TYPE"   "KRTAP10-7 MUTATED" "KRTAP10-7 WILD-TYPE" 
         TCGA-OR-A5JR          TCGA-OR-A5JS          TCGA-OR-A5JT 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
         TCGA-OR-A5JV          TCGA-OR-A5JW          TCGA-OR-A5JX 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
         TCGA-OR-A5JY          TCGA-OR-A5JZ          TCGA-OR-A5K0 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
         TCGA-OR-A5K1          TCGA-OR-A5K2          TCGA-OR-A5K3 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE"   "KRTAP10-7 MUTATED" 
         TCGA-OR-A5K4          TCGA-OR-A5K5          TCGA-OR-A5K6 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
         TCGA-OR-A5K9          TCGA-OR-A5LK          TCGA-OU-A5PI 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
         TCGA-PK-A5H8          TCGA-PK-A5H9          TCGA-PK-A5HA 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
         TCGA-PK-A5HB 
  "KRTAP10-7 MUTATED" 
         TCGA-OR-A5JA          TCGA-OR-A5JB          TCGA-OR-A5JC 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
         TCGA-OR-A5JF          TCGA-OR-A5JG          TCGA-OR-A5JI 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
         TCGA-OR-A5JJ          TCGA-OR-A5JK          TCGA-OR-A5JL 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
         TCGA-OR-A5JM          TCGA-OR-A5JO          TCGA-OR-A5JQ 
"KRTAP10-7 WILD-TYPE"   "KRTAP10-7 MUTATED" "KRTAP10-7 WILD-TYPE" 
         TCGA-OR-A5JR          TCGA-OR-A5JS          TCGA-OR-A5JT 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
         TCGA-OR-A5JV          TCGA-OR-A5JW          TCGA-OR-A5JX 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
         TCGA-OR-A5JY          TCGA-OR-A5JZ          TCGA-OR-A5K0 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
         TCGA-OR-A5K1          TCGA-OR-A5K2          TCGA-OR-A5K3 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE"   "KRTAP10-7 MUTATED" 
         TCGA-OR-A5K4          TCGA-OR-A5K5          TCGA-OR-A5K6 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
         TCGA-OR-A5K9          TCGA-OR-A5LK          TCGA-OU-A5PI 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
         TCGA-PK-A5H8          TCGA-PK-A5H9          TCGA-PK-A5HA 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
         TCGA-PK-A5HB 
  "KRTAP10-7 MUTATED" 
         TCGA-OR-A5JA          TCGA-OR-A5JB          TCGA-OR-A5JC 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
         TCGA-OR-A5JF          TCGA-OR-A5JG          TCGA-OR-A5JI 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
         TCGA-OR-A5JJ          TCGA-OR-A5JK          TCGA-OR-A5JL 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
         TCGA-OR-A5JM          TCGA-OR-A5JO          TCGA-OR-A5JQ 
"KRTAP10-7 WILD-TYPE"   "KRTAP10-7 MUTATED" "KRTAP10-7 WILD-TYPE" 
         TCGA-OR-A5JR          TCGA-OR-A5JS          TCGA-OR-A5JT 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
         TCGA-OR-A5JV          TCGA-OR-A5JW          TCGA-OR-A5JX 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
         TCGA-OR-A5JY          TCGA-OR-A5JZ          TCGA-OR-A5K0 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
         TCGA-OR-A5K1          TCGA-OR-A5K2          TCGA-OR-A5K3 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE"   "KRTAP10-7 MUTATED" 
         TCGA-OR-A5K4          TCGA-OR-A5K5          TCGA-OR-A5K6 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
         TCGA-OR-A5K9          TCGA-OR-A5LK          TCGA-OU-A5PI 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
         TCGA-PK-A5H8          TCGA-PK-A5H9          TCGA-PK-A5HA 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
         TCGA-PK-A5HB 
  "KRTAP10-7 MUTATED" 
[1] "hr="     "2.2e+08"
D93V2, continuous
                     vv
clus                  STAGE I STAGE II STAGE III STAGE IV
  KRTAP10-7 MUTATED         1        1         0        0
  KRTAP10-7 WILD-TYPE       3       12         4        8
D93V3, multiclass
[1] "Remove cluster labels:" "KRTAP10-7 MUTATED"     
clus
  KRTAP10-7 MUTATED KRTAP10-7 WILD-TYPE 
                  2                  27 
         TCGA-OR-A5JA          TCGA-OR-A5JB          TCGA-OR-A5JF 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
         TCGA-OR-A5JG          TCGA-OR-A5JI          TCGA-OR-A5JJ 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
         TCGA-OR-A5JK          TCGA-OR-A5JL          TCGA-OR-A5JM 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
         TCGA-OR-A5JQ          TCGA-OR-A5JR          TCGA-OR-A5JS 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
         TCGA-OR-A5JT          TCGA-OR-A5JV          TCGA-OR-A5JW 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
         TCGA-OR-A5JX          TCGA-OR-A5JY          TCGA-OR-A5JZ 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
         TCGA-OR-A5K0          TCGA-OR-A5K1          TCGA-OR-A5K2 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
         TCGA-OR-A5K4          TCGA-OR-A5K5          TCGA-OR-A5K6 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
         TCGA-OR-A5K9          TCGA-OR-A5LK          TCGA-OU-A5PI 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
                     vv
clus                  T1 T2+T3 T4
  KRTAP10-7 MUTATED    1     1  0
  KRTAP10-7 WILD-TYPE  3    15  9
D93V4, multiclass
[1] "Remove cluster labels:" "KRTAP10-7 MUTATED"     
clus
  KRTAP10-7 MUTATED KRTAP10-7 WILD-TYPE 
                  2                  27 
         TCGA-OR-A5JA          TCGA-OR-A5JB          TCGA-OR-A5JF 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
         TCGA-OR-A5JG          TCGA-OR-A5JI          TCGA-OR-A5JJ 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
         TCGA-OR-A5JK          TCGA-OR-A5JL          TCGA-OR-A5JM 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
         TCGA-OR-A5JQ          TCGA-OR-A5JR          TCGA-OR-A5JS 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
         TCGA-OR-A5JT          TCGA-OR-A5JV          TCGA-OR-A5JW 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
         TCGA-OR-A5JX          TCGA-OR-A5JY          TCGA-OR-A5JZ 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
         TCGA-OR-A5K0          TCGA-OR-A5K1          TCGA-OR-A5K2 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
         TCGA-OR-A5K4          TCGA-OR-A5K5          TCGA-OR-A5K6 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
         TCGA-OR-A5K9          TCGA-OR-A5LK          TCGA-OU-A5PI 
"KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" "KRTAP10-7 WILD-TYPE" 
D93V5, binary
                     cls
clus                   0  1
  KRTAP10-7 MUTATED    2  0
  KRTAP10-7 WILD-TYPE 24  4
[1] "tbl2"
                     cls
clus                  [,1] [,2]
  KRTAP10-7 MUTATED      2    0
  KRTAP10-7 WILD-TYPE   24    4
   clus
vv  KRTAP10-7 MUTATED KRTAP10-7 WILD-TYPE
  0                 2                  24
  1                 0                   4
D93V6, binary
                     cls
clus                   0  1
  KRTAP10-7 MUTATED    1  2
  KRTAP10-7 WILD-TYPE 16 15
[1] "tbl2"
                     cls
clus                  [,1] [,2]
  KRTAP10-7 MUTATED      1    2
  KRTAP10-7 WILD-TYPE   16   15
        clus
vv       KRTAP10-7 MUTATED KRTAP10-7 WILD-TYPE
  FEMALE                 1                  16
  MALE                   2                  15

Clustering(94) Variable = ARRDC4 MUTATION ANALYSIS
D94V1, survival
                  sevent
clus2               0  1
  ARRDC4 MUTATED    3  2
  ARRDC4 WILD-TYPE 23  6
  ARRDC4 MUTATED ARRDC4 WILD-TYPE 
               5               29 
  ARRDC4 MUTATED ARRDC4 WILD-TYPE 
               2                6 
$`ARRDC4 MUTATED`
TCGA-OR-A5JG TCGA-OR-A5K0 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K6 
       17.79        33.83        32.68        93.44        37.15 

$`ARRDC4 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JI TCGA-OR-A5JJ 
       30.31        18.12        57.53        41.39        46.82        10.16 
TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR 
       41.26        22.03        18.48        29.23        22.16       121.25 
TCGA-OR-A5JS TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY 
       12.59        16.04        50.66        63.25        31.23        18.15 
TCGA-OR-A5JZ TCGA-OR-A5K1 TCGA-OR-A5K4 TCGA-OR-A5K5 TCGA-OR-A5K9 TCGA-OR-A5LK 
        6.94        89.52        17.36         8.32        11.31        73.05 
TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
       23.31       106.52        10.09        27.29        42.51 

  ARRDC4 MUTATED ARRDC4 WILD-TYPE 
           17.79             6.94 
  ARRDC4 MUTATED ARRDC4 WILD-TYPE 
           93.44           121.25 
  ARRDC4 MUTATED ARRDC4 WILD-TYPE 
           33.83            27.29 
[1] "17.8 - 93.4 (33.8)" "6.9 - 121.2 (27.3)"
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
  "ARRDC4 MUTATED" "ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
  "ARRDC4 MUTATED" "ARRDC4 WILD-TYPE"   "ARRDC4 MUTATED"   "ARRDC4 MUTATED" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE"   "ARRDC4 MUTATED" "ARRDC4 WILD-TYPE" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
  "ARRDC4 MUTATED" "ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
  "ARRDC4 MUTATED" "ARRDC4 WILD-TYPE"   "ARRDC4 MUTATED"   "ARRDC4 MUTATED" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE"   "ARRDC4 MUTATED" "ARRDC4 WILD-TYPE" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" 
      TCGA-OR-A5JA       TCGA-OR-A5JB       TCGA-OR-A5JC       TCGA-OR-A5JF 
"ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" 
      TCGA-OR-A5JG       TCGA-OR-A5JI       TCGA-OR-A5JJ       TCGA-OR-A5JK 
  "ARRDC4 MUTATED" "ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" 
      TCGA-OR-A5JL       TCGA-OR-A5JM       TCGA-OR-A5JO       TCGA-OR-A5JQ 
"ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" 
      TCGA-OR-A5JR       TCGA-OR-A5JS       TCGA-OR-A5JT       TCGA-OR-A5JV 
"ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" 
      TCGA-OR-A5JW       TCGA-OR-A5JX       TCGA-OR-A5JY       TCGA-OR-A5JZ 
"ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" 
      TCGA-OR-A5K0       TCGA-OR-A5K1       TCGA-OR-A5K2       TCGA-OR-A5K3 
  "ARRDC4 MUTATED" "ARRDC4 WILD-TYPE"   "ARRDC4 MUTATED"   "ARRDC4 MUTATED" 
      TCGA-OR-A5K4       TCGA-OR-A5K5       TCGA-OR-A5K6       TCGA-OR-A5K9 
"ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE"   "ARRDC4 MUTATED" "ARRDC4 WILD-TYPE" 
      TCGA-OR-A5LK       TCGA-OU-A5PI       TCGA-PK-A5H8       TCGA-PK-A5H9 
"ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" 
      TCGA-PK-A5HA       TCGA-PK-A5HB 
"ARRDC4 WILD-TYPE" "ARRDC4 WILD-TYPE" 
[1] "hr=" "1.4"
D94V2, continuous
                  vv
clus               STAGE I STAGE II STAGE III STAGE IV
  ARRDC4 MUTATED         0        3         1        1
  ARRDC4 WILD-TYPE       4       10         3        7
D94V3, multiclass
           clus
vv          ARRDC4 MUTATED ARRDC4 WILD-TYPE
  STAGE I                0                4
  STAGE II               3               10
  STAGE III              1                3
  STAGE IV               1                7
                  vv
clus               T1 T2+T3 T4
  ARRDC4 MUTATED    0     3  2
  ARRDC4 WILD-TYPE  4    13  7
D94V4, multiclass
       clus
vv      ARRDC4 MUTATED ARRDC4 WILD-TYPE
  T1                 0                4
  T2+T3              3               13
  T4                 2                7
D94V5, binary
                  cls
clus                0  1
  ARRDC4 MUTATED    4  1
  ARRDC4 WILD-TYPE 22  3
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ARRDC4 MUTATED      4    1
  ARRDC4 WILD-TYPE   22    3
   clus
vv  ARRDC4 MUTATED ARRDC4 WILD-TYPE
  0              4               22
  1              1                3
D94V6, binary
                  cls
clus                0  1
  ARRDC4 MUTATED    3  2
  ARRDC4 WILD-TYPE 14 15
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ARRDC4 MUTATED      3    2
  ARRDC4 WILD-TYPE   14   15
        clus
vv       ARRDC4 MUTATED ARRDC4 WILD-TYPE
  FEMALE              3               14
  MALE                2               15

Clustering(95) Variable = VARS MUTATION ANALYSIS
D95V1, survival
                sevent
clus2             0  1
  VARS MUTATED    3  0
  VARS WILD-TYPE 23  8
  VARS MUTATED VARS WILD-TYPE 
             3             31 
  VARS MUTATED VARS WILD-TYPE 
             0              8 
$`VARS MUTATED`
TCGA-OR-A5JW TCGA-OR-A5K0 TCGA-PK-A5HB 
       63.25        33.83        42.51 

$`VARS WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI 
       30.31        18.12        57.53        41.39        17.79        46.82 
TCGA-OR-A5JJ TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ 
       10.16        41.26        22.03        18.48        29.23        22.16 
TCGA-OR-A5JR TCGA-OR-A5JS TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JX TCGA-OR-A5JY 
      121.25        12.59        16.04        50.66        31.23        18.15 
TCGA-OR-A5JZ TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 
        6.94        89.52        32.68        93.44        17.36         8.32 
TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 TCGA-PK-A5H9 
       37.15        11.31        73.05        23.31       106.52        10.09 
TCGA-PK-A5HA 
       27.29 

  VARS MUTATED VARS WILD-TYPE 
         33.83           6.94 
  VARS MUTATED VARS WILD-TYPE 
         63.25         121.25 
  VARS MUTATED VARS WILD-TYPE 
         42.51          27.29 
[1] "33.8 - 63.2 (42.5)" "6.9 - 121.2 (27.3)"
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
  "VARS MUTATED" "VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
  "VARS MUTATED" "VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"VARS WILD-TYPE"   "VARS MUTATED" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
  "VARS MUTATED" "VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
  "VARS MUTATED" "VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"VARS WILD-TYPE"   "VARS MUTATED" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
"VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
  "VARS MUTATED" "VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
  "VARS MUTATED" "VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
"VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"VARS WILD-TYPE"   "VARS MUTATED" 
[1] "hr="     "2.3e+08"
D95V2, continuous
                vv
clus             STAGE I STAGE II STAGE III STAGE IV
  VARS MUTATED         0        2         0        0
  VARS WILD-TYPE       4       11         4        8
D95V3, multiclass
[1] "Remove cluster labels:" "VARS MUTATED"          
clus
  VARS MUTATED VARS WILD-TYPE 
             2             27 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JF     TCGA-OR-A5JG 
"VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" 
    TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK     TCGA-OR-A5JL 
"VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" 
    TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ     TCGA-OR-A5JR 
"VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" 
    TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV     TCGA-OR-A5JX 
"VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" 
    TCGA-OR-A5JY     TCGA-OR-A5JZ     TCGA-OR-A5K1     TCGA-OR-A5K2 
"VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" 
    TCGA-OR-A5K3     TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6 
"VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" 
    TCGA-OR-A5K9     TCGA-OR-A5LK     TCGA-OU-A5PI 
"VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" 
                vv
clus             T1 T2+T3 T4
  VARS MUTATED    0     2  0
  VARS WILD-TYPE  4    14  9
D95V4, multiclass
[1] "Remove cluster labels:" "VARS MUTATED"          
clus
  VARS MUTATED VARS WILD-TYPE 
             2             27 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JF     TCGA-OR-A5JG 
"VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" 
    TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK     TCGA-OR-A5JL 
"VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" 
    TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ     TCGA-OR-A5JR 
"VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" 
    TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV     TCGA-OR-A5JX 
"VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" 
    TCGA-OR-A5JY     TCGA-OR-A5JZ     TCGA-OR-A5K1     TCGA-OR-A5K2 
"VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" 
    TCGA-OR-A5K3     TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6 
"VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" 
    TCGA-OR-A5K9     TCGA-OR-A5LK     TCGA-OU-A5PI 
"VARS WILD-TYPE" "VARS WILD-TYPE" "VARS WILD-TYPE" 
D95V5, binary
                cls
clus              0  1
  VARS MUTATED    2  0
  VARS WILD-TYPE 24  4
[1] "tbl2"
                cls
clus             [,1] [,2]
  VARS MUTATED      2    0
  VARS WILD-TYPE   24    4
   clus
vv  VARS MUTATED VARS WILD-TYPE
  0            2             24
  1            0              4
D95V6, binary
                cls
clus              0  1
  VARS MUTATED    1  2
  VARS WILD-TYPE 16 15
[1] "tbl2"
                cls
clus             [,1] [,2]
  VARS MUTATED      1    2
  VARS WILD-TYPE   16   15
        clus
vv       VARS MUTATED VARS WILD-TYPE
  FEMALE            1             16
  MALE              2             15

Clustering(96) Variable = PLEC MUTATION ANALYSIS
D96V1, survival
                sevent
clus2             0  1
  PLEC MUTATED    6  0
  PLEC WILD-TYPE 20  8
  PLEC MUTATED PLEC WILD-TYPE 
             6             28 
  PLEC MUTATED PLEC WILD-TYPE 
             0              8 
$`PLEC MUTATED`
TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5K0 TCGA-OR-A5K3 TCGA-OR-A5K4 TCGA-OR-A5K5 
       41.26        22.03        33.83        93.44        17.36         8.32 

$`PLEC WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI 
       30.31        18.12        57.53        41.39        17.79        46.82 
TCGA-OR-A5JJ TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ TCGA-OR-A5JR TCGA-OR-A5JS 
       10.16        18.48        29.23        22.16       121.25        12.59 
TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY TCGA-OR-A5JZ 
       16.04        50.66        63.25        31.23        18.15         6.94 
TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-OU-A5PI 
       89.52        32.68        37.15        11.31        73.05        23.31 
TCGA-PK-A5H8 TCGA-PK-A5H9 TCGA-PK-A5HA TCGA-PK-A5HB 
      106.52        10.09        27.29        42.51 

  PLEC MUTATED PLEC WILD-TYPE 
          8.32           6.94 
  PLEC MUTATED PLEC WILD-TYPE 
         93.44         121.25 
  PLEC MUTATED PLEC WILD-TYPE 
         27.93          29.77 
[1] "8.3 - 93.4 (27.9)"  "6.9 - 121.2 (29.8)"
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"PLEC WILD-TYPE" "PLEC WILD-TYPE" "PLEC WILD-TYPE" "PLEC WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"PLEC WILD-TYPE" "PLEC WILD-TYPE" "PLEC WILD-TYPE"   "PLEC MUTATED" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
  "PLEC MUTATED" "PLEC WILD-TYPE" "PLEC WILD-TYPE" "PLEC WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"PLEC WILD-TYPE" "PLEC WILD-TYPE" "PLEC WILD-TYPE" "PLEC WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"PLEC WILD-TYPE" "PLEC WILD-TYPE" "PLEC WILD-TYPE" "PLEC WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
  "PLEC MUTATED" "PLEC WILD-TYPE" "PLEC WILD-TYPE"   "PLEC MUTATED" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
  "PLEC MUTATED"   "PLEC MUTATED" "PLEC WILD-TYPE" "PLEC WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"PLEC WILD-TYPE" "PLEC WILD-TYPE" "PLEC WILD-TYPE" "PLEC WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"PLEC WILD-TYPE" "PLEC WILD-TYPE" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"PLEC WILD-TYPE" "PLEC WILD-TYPE" "PLEC WILD-TYPE" "PLEC WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"PLEC WILD-TYPE" "PLEC WILD-TYPE" "PLEC WILD-TYPE"   "PLEC MUTATED" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
  "PLEC MUTATED" "PLEC WILD-TYPE" "PLEC WILD-TYPE" "PLEC WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"PLEC WILD-TYPE" "PLEC WILD-TYPE" "PLEC WILD-TYPE" "PLEC WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"PLEC WILD-TYPE" "PLEC WILD-TYPE" "PLEC WILD-TYPE" "PLEC WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
  "PLEC MUTATED" "PLEC WILD-TYPE" "PLEC WILD-TYPE"   "PLEC MUTATED" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
  "PLEC MUTATED"   "PLEC MUTATED" "PLEC WILD-TYPE" "PLEC WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"PLEC WILD-TYPE" "PLEC WILD-TYPE" "PLEC WILD-TYPE" "PLEC WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"PLEC WILD-TYPE" "PLEC WILD-TYPE" 
    TCGA-OR-A5JA     TCGA-OR-A5JB     TCGA-OR-A5JC     TCGA-OR-A5JF 
"PLEC WILD-TYPE" "PLEC WILD-TYPE" "PLEC WILD-TYPE" "PLEC WILD-TYPE" 
    TCGA-OR-A5JG     TCGA-OR-A5JI     TCGA-OR-A5JJ     TCGA-OR-A5JK 
"PLEC WILD-TYPE" "PLEC WILD-TYPE" "PLEC WILD-TYPE"   "PLEC MUTATED" 
    TCGA-OR-A5JL     TCGA-OR-A5JM     TCGA-OR-A5JO     TCGA-OR-A5JQ 
  "PLEC MUTATED" "PLEC WILD-TYPE" "PLEC WILD-TYPE" "PLEC WILD-TYPE" 
    TCGA-OR-A5JR     TCGA-OR-A5JS     TCGA-OR-A5JT     TCGA-OR-A5JV 
"PLEC WILD-TYPE" "PLEC WILD-TYPE" "PLEC WILD-TYPE" "PLEC WILD-TYPE" 
    TCGA-OR-A5JW     TCGA-OR-A5JX     TCGA-OR-A5JY     TCGA-OR-A5JZ 
"PLEC WILD-TYPE" "PLEC WILD-TYPE" "PLEC WILD-TYPE" "PLEC WILD-TYPE" 
    TCGA-OR-A5K0     TCGA-OR-A5K1     TCGA-OR-A5K2     TCGA-OR-A5K3 
  "PLEC MUTATED" "PLEC WILD-TYPE" "PLEC WILD-TYPE"   "PLEC MUTATED" 
    TCGA-OR-A5K4     TCGA-OR-A5K5     TCGA-OR-A5K6     TCGA-OR-A5K9 
  "PLEC MUTATED"   "PLEC MUTATED" "PLEC WILD-TYPE" "PLEC WILD-TYPE" 
    TCGA-OR-A5LK     TCGA-OU-A5PI     TCGA-PK-A5H8     TCGA-PK-A5H9 
"PLEC WILD-TYPE" "PLEC WILD-TYPE" "PLEC WILD-TYPE" "PLEC WILD-TYPE" 
    TCGA-PK-A5HA     TCGA-PK-A5HB 
"PLEC WILD-TYPE" "PLEC WILD-TYPE" 
[1] "hr="     "2.4e+08"
D96V2, continuous
                vv
clus             STAGE I STAGE II STAGE III STAGE IV
  PLEC MUTATED         1        2         2        1
  PLEC WILD-TYPE       3       11         2        7
D96V3, multiclass
           clus
vv          PLEC MUTATED PLEC WILD-TYPE
  STAGE I              1              3
  STAGE II             2             11
  STAGE III            2              2
  STAGE IV             1              7
                vv
clus             T1 T2+T3 T4
  PLEC MUTATED    1     3  2
  PLEC WILD-TYPE  3    13  7
D96V4, multiclass
       clus
vv      PLEC MUTATED PLEC WILD-TYPE
  T1               1              3
  T2+T3            3             13
  T4               2              7
D96V5, binary
                cls
clus              0  1
  PLEC MUTATED    6  0
  PLEC WILD-TYPE 20  4
[1] "tbl2"
                cls
clus             [,1] [,2]
  PLEC MUTATED      6    0
  PLEC WILD-TYPE   20    4
   clus
vv  PLEC MUTATED PLEC WILD-TYPE
  0            6             20
  1            0              4
D96V6, binary
                cls
clus              0  1
  PLEC MUTATED    4  2
  PLEC WILD-TYPE 13 15
[1] "tbl2"
                cls
clus             [,1] [,2]
  PLEC MUTATED      4    2
  PLEC WILD-TYPE   13   15
        clus
vv       PLEC MUTATED PLEC WILD-TYPE
  FEMALE            4             13
  MALE              2             15

Clustering(97) Variable = RCCD1 MUTATION ANALYSIS
D97V1, survival
                 sevent
clus2              0  1
  RCCD1 MUTATED    3  0
  RCCD1 WILD-TYPE 23  8
  RCCD1 MUTATED RCCD1 WILD-TYPE 
              3              31 
  RCCD1 MUTATED RCCD1 WILD-TYPE 
              0               8 
$`RCCD1 MUTATED`
TCGA-OR-A5JR TCGA-PK-A5H9 TCGA-PK-A5HB 
      121.25        10.09        42.51 

$`RCCD1 WILD-TYPE`
TCGA-OR-A5JA TCGA-OR-A5JB TCGA-OR-A5JC TCGA-OR-A5JF TCGA-OR-A5JG TCGA-OR-A5JI 
       30.31        18.12        57.53        41.39        17.79        46.82 
TCGA-OR-A5JJ TCGA-OR-A5JK TCGA-OR-A5JL TCGA-OR-A5JM TCGA-OR-A5JO TCGA-OR-A5JQ 
       10.16        41.26        22.03        18.48        29.23        22.16 
TCGA-OR-A5JS TCGA-OR-A5JT TCGA-OR-A5JV TCGA-OR-A5JW TCGA-OR-A5JX TCGA-OR-A5JY 
       12.59        16.04        50.66        63.25        31.23        18.15 
TCGA-OR-A5JZ TCGA-OR-A5K0 TCGA-OR-A5K1 TCGA-OR-A5K2 TCGA-OR-A5K3 TCGA-OR-A5K4 
        6.94        33.83        89.52        32.68        93.44        17.36 
TCGA-OR-A5K5 TCGA-OR-A5K6 TCGA-OR-A5K9 TCGA-OR-A5LK TCGA-OU-A5PI TCGA-PK-A5H8 
        8.32        37.15        11.31        73.05        23.31       106.52 
TCGA-PK-A5HA 
       27.29 

  RCCD1 MUTATED RCCD1 WILD-TYPE 
          10.09            6.94 
  RCCD1 MUTATED RCCD1 WILD-TYPE 
         121.25          106.52 
  RCCD1 MUTATED RCCD1 WILD-TYPE 
          42.51           29.23 
[1] "10.1 - 121.2 (42.5)" "6.9 - 106.5 (29.2)" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
  "RCCD1 MUTATED" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE"   "RCCD1 MUTATED" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"RCCD1 WILD-TYPE"   "RCCD1 MUTATED" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
  "RCCD1 MUTATED" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE"   "RCCD1 MUTATED" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"RCCD1 WILD-TYPE"   "RCCD1 MUTATED" 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JC      TCGA-OR-A5JF 
"RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" 
     TCGA-OR-A5JG      TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK 
"RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" 
     TCGA-OR-A5JL      TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ 
"RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" 
     TCGA-OR-A5JR      TCGA-OR-A5JS      TCGA-OR-A5JT      TCGA-OR-A5JV 
  "RCCD1 MUTATED" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" 
     TCGA-OR-A5JW      TCGA-OR-A5JX      TCGA-OR-A5JY      TCGA-OR-A5JZ 
"RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" 
     TCGA-OR-A5K0      TCGA-OR-A5K1      TCGA-OR-A5K2      TCGA-OR-A5K3 
"RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" 
     TCGA-OR-A5K4      TCGA-OR-A5K5      TCGA-OR-A5K6      TCGA-OR-A5K9 
"RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" 
     TCGA-OR-A5LK      TCGA-OU-A5PI      TCGA-PK-A5H8      TCGA-PK-A5H9 
"RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE"   "RCCD1 MUTATED" 
     TCGA-PK-A5HA      TCGA-PK-A5HB 
"RCCD1 WILD-TYPE"   "RCCD1 MUTATED" 
[1] "hr="     "7.9e+07"
D97V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV
  RCCD1 MUTATED         1        0         0        0
  RCCD1 WILD-TYPE       3       13         4        8
D97V3, multiclass
[1] "Remove cluster labels:" "RCCD1 MUTATED"         
clus
  RCCD1 MUTATED RCCD1 WILD-TYPE 
              1              28 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JF      TCGA-OR-A5JG 
"RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" 
     TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK      TCGA-OR-A5JL 
"RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" 
     TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ      TCGA-OR-A5JS 
"RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" 
     TCGA-OR-A5JT      TCGA-OR-A5JV      TCGA-OR-A5JW      TCGA-OR-A5JX 
"RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" 
     TCGA-OR-A5JY      TCGA-OR-A5JZ      TCGA-OR-A5K0      TCGA-OR-A5K1 
"RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" 
     TCGA-OR-A5K2      TCGA-OR-A5K3      TCGA-OR-A5K4      TCGA-OR-A5K5 
"RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" 
     TCGA-OR-A5K6      TCGA-OR-A5K9      TCGA-OR-A5LK      TCGA-OU-A5PI 
"RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" 
                 vv
clus              T1 T2+T3 T4
  RCCD1 MUTATED    1     0  0
  RCCD1 WILD-TYPE  3    16  9
D97V4, multiclass
[1] "Remove cluster labels:" "RCCD1 MUTATED"         
clus
  RCCD1 MUTATED RCCD1 WILD-TYPE 
              1              28 
     TCGA-OR-A5JA      TCGA-OR-A5JB      TCGA-OR-A5JF      TCGA-OR-A5JG 
"RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" 
     TCGA-OR-A5JI      TCGA-OR-A5JJ      TCGA-OR-A5JK      TCGA-OR-A5JL 
"RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" 
     TCGA-OR-A5JM      TCGA-OR-A5JO      TCGA-OR-A5JQ      TCGA-OR-A5JS 
"RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" 
     TCGA-OR-A5JT      TCGA-OR-A5JV      TCGA-OR-A5JW      TCGA-OR-A5JX 
"RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" 
     TCGA-OR-A5JY      TCGA-OR-A5JZ      TCGA-OR-A5K0      TCGA-OR-A5K1 
"RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" 
     TCGA-OR-A5K2      TCGA-OR-A5K3      TCGA-OR-A5K4      TCGA-OR-A5K5 
"RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" 
     TCGA-OR-A5K6      TCGA-OR-A5K9      TCGA-OR-A5LK      TCGA-OU-A5PI 
"RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" "RCCD1 WILD-TYPE" 
D97V5, binary
                 cls
clus               0  1
  RCCD1 MUTATED    1  0
  RCCD1 WILD-TYPE 25  4
[1] "tbl2"
                 cls
clus              [,1] [,2]
  RCCD1 MUTATED      1    0
  RCCD1 WILD-TYPE   25    4
   clus
vv  RCCD1 MUTATED RCCD1 WILD-TYPE
  0             1              25
  1             0               4
D97V6, binary
                 cls
clus               0  1
  RCCD1 MUTATED    1  2
  RCCD1 WILD-TYPE 16 15
[1] "tbl2"
                 cls
clus              [,1] [,2]
  RCCD1 MUTATED      1    2
  RCCD1 WILD-TYPE   16   15
        clus
vv       RCCD1 MUTATED RCCD1 WILD-TYPE
  FEMALE             1              16
  MALE               2              15
> q(save="no")
