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

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> source("/xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Correlate_Clinical_Clusters_onlysig.81.4078/Clusters2ClinicalAnalysis_nozzle_onlysig.R")
> result <- main("/xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Correlate_Clinical_Clusters_onlysig.81.4078/", "-nF=/xchip/tcga/Tools/Nozzle/v1.current", "-iD=/xchip/cga/gdac-prod/tcga-gdac-genepattern/jobResults/404150/SKCM-Regional_LN.mutsig.cluster.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataPicker/SKCM-Regional_LN/3215666/SKCM-Regional_LN.clin.merged.picked.txt", "-fF=ALL", "-fC=3", "-fH=5", "-fW=9", "-fP=OUT", "-cP=1", "-cQ=0.25", "-MF=ONLYSIG", "-oT=", "-nV=Nozzle.R1", "-OP=MUTSIG", "-iT=", "-iX=")
[1] "nver"          "-nV=Nozzle.R1"
[1] "nfn"                                 "/xchip/tcga/Tools/Nozzle/v1.current"
[1] "Nozzle.R1"
[1] "successfully load Nozzle.R1"
[1] "ofn"  "-oT="
[1] "opt"        "-OP=MUTSIG"
[1] "tl"   "-iT="
[1] "dx"   "-iX="
[1] "opt"    "MUTSIG"
[1] "dx" ""  

nPatients in clinical file=116, in cluster file=105, common to both=105
[1]  74 105
[1] "BRAF MUTATION ANALYSIS"
[1] 3
  BRAF MUTATED BRAF WILD-TYPE 
            59             46 
  BRAF MUTATED BRAF WILD-TYPE 
            59             46 
[1] "CDKN2A MUTATION ANALYSIS"
[1] 3
  CDKN2A MUTATED CDKN2A WILD-TYPE 
              16               89 
  CDKN2A MUTATED CDKN2A WILD-TYPE 
              16               89 
[1] "NRAS MUTATION ANALYSIS"
[1] 3
  NRAS MUTATED NRAS WILD-TYPE 
            29             76 
  NRAS MUTATED NRAS WILD-TYPE 
            29             76 
[1] "STK19 MUTATION ANALYSIS"
[1] 3
  STK19 MUTATED STK19 WILD-TYPE 
              7              98 
  STK19 MUTATED STK19 WILD-TYPE 
              7              98 
[1] "TTN MUTATION ANALYSIS"
[1] 3
  TTN MUTATED TTN WILD-TYPE 
           83            22 
  TTN MUTATED TTN WILD-TYPE 
           83            22 
[1] "TP53 MUTATION ANALYSIS"
[1] 3
  TP53 MUTATED TP53 WILD-TYPE 
            18             87 
  TP53 MUTATED TP53 WILD-TYPE 
            18             87 
[1] "PTEN MUTATION ANALYSIS"
[1] 3
  PTEN MUTATED PTEN WILD-TYPE 
            11             94 
  PTEN MUTATED PTEN WILD-TYPE 
            11             94 
[1] "TPTE MUTATION ANALYSIS"
[1] 3
  TPTE MUTATED TPTE WILD-TYPE 
            29             76 
  TPTE MUTATED TPTE WILD-TYPE 
            29             76 
[1] "PRB4 MUTATION ANALYSIS"
[1] 3
  PRB4 MUTATED PRB4 WILD-TYPE 
            15             90 
  PRB4 MUTATED PRB4 WILD-TYPE 
            15             90 
[1] "CDH9 MUTATION ANALYSIS"
[1] 3
  CDH9 MUTATED CDH9 WILD-TYPE 
            22             83 
  CDH9 MUTATED CDH9 WILD-TYPE 
            22             83 
[1] "SERPINB4 MUTATION ANALYSIS"
[1] 3
  SERPINB4 MUTATED SERPINB4 WILD-TYPE 
                17                 88 
  SERPINB4 MUTATED SERPINB4 WILD-TYPE 
                17                 88 
[1] "PRB2 MUTATION ANALYSIS"
[1] 3
  PRB2 MUTATED PRB2 WILD-TYPE 
            19             86 
  PRB2 MUTATED PRB2 WILD-TYPE 
            19             86 
[1] "TCEB3C MUTATION ANALYSIS"
[1] 3
  TCEB3C MUTATED TCEB3C WILD-TYPE 
              14               91 
  TCEB3C MUTATED TCEB3C WILD-TYPE 
              14               91 
[1] "ADH1C MUTATION ANALYSIS"
[1] 3
  ADH1C MUTATED ADH1C WILD-TYPE 
             17              88 
  ADH1C MUTATED ADH1C WILD-TYPE 
             17              88 
[1] "C15ORF23 MUTATION ANALYSIS"
[1] 3
  C15ORF23 MUTATED C15ORF23 WILD-TYPE 
                 7                 98 
  C15ORF23 MUTATED C15ORF23 WILD-TYPE 
                 7                 98 
[1] "CCNE2 MUTATION ANALYSIS"
[1] 3
  CCNE2 MUTATED CCNE2 WILD-TYPE 
             10              95 
  CCNE2 MUTATED CCNE2 WILD-TYPE 
             10              95 
[1] "SDR16C5 MUTATION ANALYSIS"
[1] 3
  SDR16C5 MUTATED SDR16C5 WILD-TYPE 
               16                89 
  SDR16C5 MUTATED SDR16C5 WILD-TYPE 
               16                89 
[1] "PDE1A MUTATION ANALYSIS"
[1] 3
  PDE1A MUTATED PDE1A WILD-TYPE 
             19              86 
  PDE1A MUTATED PDE1A WILD-TYPE 
             19              86 
[1] "TLL1 MUTATION ANALYSIS"
[1] 3
  TLL1 MUTATED TLL1 WILD-TYPE 
            24             81 
  TLL1 MUTATED TLL1 WILD-TYPE 
            24             81 
[1] "RAC1 MUTATION ANALYSIS"
[1] 3
  RAC1 MUTATED RAC1 WILD-TYPE 
             7             98 
  RAC1 MUTATED RAC1 WILD-TYPE 
             7             98 
[1] "RERG MUTATION ANALYSIS"
[1] 3
  RERG MUTATED RERG WILD-TYPE 
             8             97 
  RERG MUTATED RERG WILD-TYPE 
             8             97 
[1] "OR52L1 MUTATION ANALYSIS"
[1] 3
  OR52L1 MUTATED OR52L1 WILD-TYPE 
              12               93 
  OR52L1 MUTATED OR52L1 WILD-TYPE 
              12               93 
[1] "HBD MUTATION ANALYSIS"
[1] 3
  HBD MUTATED HBD WILD-TYPE 
            8            97 
  HBD MUTATED HBD WILD-TYPE 
            8            97 
[1] "VEGFC MUTATION ANALYSIS"
[1] 3
  VEGFC MUTATED VEGFC WILD-TYPE 
             12              93 
  VEGFC MUTATED VEGFC WILD-TYPE 
             12              93 
[1] "BAGE2 MUTATION ANALYSIS"
[1] 3
  BAGE2 MUTATED BAGE2 WILD-TYPE 
              7              98 
  BAGE2 MUTATED BAGE2 WILD-TYPE 
              7              98 
[1] "OR1N2 MUTATION ANALYSIS"
[1] 3
  OR1N2 MUTATED OR1N2 WILD-TYPE 
             13              92 
  OR1N2 MUTATED OR1N2 WILD-TYPE 
             13              92 
[1] "PPP6C MUTATION ANALYSIS"
[1] 3
  PPP6C MUTATED PPP6C WILD-TYPE 
             10              95 
  PPP6C MUTATED PPP6C WILD-TYPE 
             10              95 
[1] "HNF4G MUTATION ANALYSIS"
[1] 3
  HNF4G MUTATED HNF4G WILD-TYPE 
             12              93 
  HNF4G MUTATED HNF4G WILD-TYPE 
             12              93 
[1] "TRAT1 MUTATION ANALYSIS"
[1] 3
  TRAT1 MUTATED TRAT1 WILD-TYPE 
              6              99 
  TRAT1 MUTATED TRAT1 WILD-TYPE 
              6              99 
[1] "AREG MUTATION ANALYSIS"
[1] 3
  AREG MUTATED AREG WILD-TYPE 
             5            100 
  AREG MUTATED AREG WILD-TYPE 
             5            100 
[1] "ST18 MUTATION ANALYSIS"
[1] 3
  ST18 MUTATED ST18 WILD-TYPE 
            24             81 
  ST18 MUTATED ST18 WILD-TYPE 
            24             81 
[1] "TAF1A MUTATION ANALYSIS"
[1] 3
  TAF1A MUTATED TAF1A WILD-TYPE 
              8              97 
  TAF1A MUTATED TAF1A WILD-TYPE 
              8              97 
[1] "GRXCR2 MUTATION ANALYSIS"
[1] 3
  GRXCR2 MUTATED GRXCR2 WILD-TYPE 
               9               96 
  GRXCR2 MUTATED GRXCR2 WILD-TYPE 
               9               96 
[1] "OR9K2 MUTATION ANALYSIS"
[1] 3
  OR9K2 MUTATED OR9K2 WILD-TYPE 
             11              94 
  OR9K2 MUTATED OR9K2 WILD-TYPE 
             11              94 
[1] "OXA1L MUTATION ANALYSIS"
[1] 3
  OXA1L MUTATED OXA1L WILD-TYPE 
              4             101 
  OXA1L MUTATED OXA1L WILD-TYPE 
              4             101 
[1] "A2BP1 MUTATION ANALYSIS"
[1] 3
  A2BP1 MUTATED A2BP1 WILD-TYPE 
             14              91 
  A2BP1 MUTATED A2BP1 WILD-TYPE 
             14              91 
[1] "HIST1H2AA MUTATION ANALYSIS"
[1] 3
  HIST1H2AA MUTATED HIST1H2AA WILD-TYPE 
                  5                 100 
  HIST1H2AA MUTATED HIST1H2AA WILD-TYPE 
                  5                 100 
[1] "LILRA1 MUTATION ANALYSIS"
[1] 3
  LILRA1 MUTATED LILRA1 WILD-TYPE 
              21               84 
  LILRA1 MUTATED LILRA1 WILD-TYPE 
              21               84 
[1] "LIN7A MUTATION ANALYSIS"
[1] 3
  LIN7A MUTATED LIN7A WILD-TYPE 
              8              97 
  LIN7A MUTATED LIN7A WILD-TYPE 
              8              97 
[1] "VGLL1 MUTATION ANALYSIS"
[1] 3
  VGLL1 MUTATED VGLL1 WILD-TYPE 
              3             102 
  VGLL1 MUTATED VGLL1 WILD-TYPE 
              3             102 
[1] "GALNTL5 MUTATION ANALYSIS"
[1] 3
  GALNTL5 MUTATED GALNTL5 WILD-TYPE 
               10                95 
  GALNTL5 MUTATED GALNTL5 WILD-TYPE 
               10                95 
[1] "HSD11B1 MUTATION ANALYSIS"
[1] 3
  HSD11B1 MUTATED HSD11B1 WILD-TYPE 
                6                99 
  HSD11B1 MUTATED HSD11B1 WILD-TYPE 
                6                99 
[1] "ANKRD20A4 MUTATION ANALYSIS"
[1] 3
  ANKRD20A4 MUTATED ANKRD20A4 WILD-TYPE 
                  4                 101 
  ANKRD20A4 MUTATED ANKRD20A4 WILD-TYPE 
                  4                 101 
[1] "GPR141 MUTATION ANALYSIS"
[1] 3
  GPR141 MUTATED GPR141 WILD-TYPE 
               8               97 
  GPR141 MUTATED GPR141 WILD-TYPE 
               8               97 
[1] "NAP1L2 MUTATION ANALYSIS"
[1] 3
  NAP1L2 MUTATED NAP1L2 WILD-TYPE 
              10               95 
  NAP1L2 MUTATED NAP1L2 WILD-TYPE 
              10               95 
[1] "C18ORF26 MUTATION ANALYSIS"
[1] 3
  C18ORF26 MUTATED C18ORF26 WILD-TYPE 
                13                 92 
  C18ORF26 MUTATED C18ORF26 WILD-TYPE 
                13                 92 
[1] "DEFB110 MUTATION ANALYSIS"
[1] 3
  DEFB110 MUTATED DEFB110 WILD-TYPE 
                5               100 
  DEFB110 MUTATED DEFB110 WILD-TYPE 
                5               100 
[1] "IDH1 MUTATION ANALYSIS"
[1] 3
  IDH1 MUTATED IDH1 WILD-TYPE 
             6             99 
  IDH1 MUTATED IDH1 WILD-TYPE 
             6             99 
[1] "SNAP91 MUTATION ANALYSIS"
[1] 3
  SNAP91 MUTATED SNAP91 WILD-TYPE 
              15               90 
  SNAP91 MUTATED SNAP91 WILD-TYPE 
              15               90 
[1] "CA1 MUTATION ANALYSIS"
[1] 3
  CA1 MUTATED CA1 WILD-TYPE 
            6            99 
  CA1 MUTATED CA1 WILD-TYPE 
            6            99 
[1] "SERPINB11 MUTATION ANALYSIS"
[1] 3
  SERPINB11 MUTATED SERPINB11 WILD-TYPE 
                 12                  93 
  SERPINB11 MUTATED SERPINB11 WILD-TYPE 
                 12                  93 
[1] "UGT2B15 MUTATION ANALYSIS"
[1] 3
  UGT2B15 MUTATED UGT2B15 WILD-TYPE 
               13                92 
  UGT2B15 MUTATED UGT2B15 WILD-TYPE 
               13                92 
[1] "ACSM2B MUTATION ANALYSIS"
[1] 3
  ACSM2B MUTATED ACSM2B WILD-TYPE 
              21               84 
  ACSM2B MUTATED ACSM2B WILD-TYPE 
              21               84 
[1] "C16ORF78 MUTATION ANALYSIS"
[1] 3
  C16ORF78 MUTATED C16ORF78 WILD-TYPE 
                 8                 97 
  C16ORF78 MUTATED C16ORF78 WILD-TYPE 
                 8                 97 
[1] "TFEC MUTATION ANALYSIS"
[1] 3
  TFEC MUTATED TFEC WILD-TYPE 
            10             95 
  TFEC MUTATED TFEC WILD-TYPE 
            10             95 
[1] "TRHDE MUTATION ANALYSIS"
[1] 3
  TRHDE MUTATED TRHDE WILD-TYPE 
             24              81 
  TRHDE MUTATED TRHDE WILD-TYPE 
             24              81 
[1] "OR5AC2 MUTATION ANALYSIS"
[1] 3
  OR5AC2 MUTATED OR5AC2 WILD-TYPE 
              13               92 
  OR5AC2 MUTATED OR5AC2 WILD-TYPE 
              13               92 
[1] "CCDC102B MUTATION ANALYSIS"
[1] 3
  CCDC102B MUTATED CCDC102B WILD-TYPE 
                11                 94 
  CCDC102B MUTATED CCDC102B WILD-TYPE 
                11                 94 
[1] "GRXCR1 MUTATION ANALYSIS"
[1] 3
  GRXCR1 MUTATED GRXCR1 WILD-TYPE 
              12               93 
  GRXCR1 MUTATED GRXCR1 WILD-TYPE 
              12               93 
[1] "OR4M2 MUTATION ANALYSIS"
[1] 3
  OR4M2 MUTATED OR4M2 WILD-TYPE 
             13              92 
  OR4M2 MUTATED OR4M2 WILD-TYPE 
             13              92 
[1] "PLAC8L1 MUTATION ANALYSIS"
[1] 3
  PLAC8L1 MUTATED PLAC8L1 WILD-TYPE 
                3               102 
  PLAC8L1 MUTATED PLAC8L1 WILD-TYPE 
                3               102 
[1] "POM121 MUTATION ANALYSIS"
[1] 3
  POM121 MUTATED POM121 WILD-TYPE 
              10               95 
  POM121 MUTATED POM121 WILD-TYPE 
              10               95 
[1] "RBM11 MUTATION ANALYSIS"
[1] 3
  RBM11 MUTATED RBM11 WILD-TYPE 
              9              96 
  RBM11 MUTATED RBM11 WILD-TYPE 
              9              96 
[1] "RUNX1T1 MUTATION ANALYSIS"
[1] 3
  RUNX1T1 MUTATED RUNX1T1 WILD-TYPE 
               16                89 
  RUNX1T1 MUTATED RUNX1T1 WILD-TYPE 
               16                89 
[1] "RGS7 MUTATION ANALYSIS"
[1] 3
  RGS7 MUTATED RGS7 WILD-TYPE 
            17             88 
  RGS7 MUTATED RGS7 WILD-TYPE 
            17             88 
[1] "CLVS2 MUTATION ANALYSIS"
[1] 3
  CLVS2 MUTATED CLVS2 WILD-TYPE 
             11              94 
  CLVS2 MUTATED CLVS2 WILD-TYPE 
             11              94 
[1] "DEFB118 MUTATION ANALYSIS"
[1] 3
  DEFB118 MUTATED DEFB118 WILD-TYPE 
                6                99 
  DEFB118 MUTATED DEFB118 WILD-TYPE 
                6                99 
[1] "OR52A5 MUTATION ANALYSIS"
[1] 3
  OR52A5 MUTATED OR52A5 WILD-TYPE 
              12               93 
  OR52A5 MUTATED OR52A5 WILD-TYPE 
              12               93 
[1] "SPTLC3 MUTATION ANALYSIS"
[1] 3
  SPTLC3 MUTATED SPTLC3 WILD-TYPE 
              13               92 
  SPTLC3 MUTATED SPTLC3 WILD-TYPE 
              13               92 
[1] "ACTL7B MUTATION ANALYSIS"
[1] 3
  ACTL7B MUTATED ACTL7B WILD-TYPE 
               7               98 
  ACTL7B MUTATED ACTL7B WILD-TYPE 
               7               98 
[1] "PHGDH MUTATION ANALYSIS"
[1] 3
  PHGDH MUTATED PHGDH WILD-TYPE 
              7              98 
  PHGDH MUTATED PHGDH WILD-TYPE 
              7              98 
[1] "RGPD3 MUTATION ANALYSIS"
[1] 3
  RGPD3 MUTATED RGPD3 WILD-TYPE 
             18              87 
  RGPD3 MUTATED RGPD3 WILD-TYPE 
             18              87 
[1] "WDR12 MUTATION ANALYSIS"
[1] 3
  WDR12 MUTATED WDR12 WILD-TYPE 
              7              98 
  WDR12 MUTATED WDR12 WILD-TYPE 
              7              98 
[1] "MPP7 MUTATION ANALYSIS"
[1] 3
  MPP7 MUTATED MPP7 WILD-TYPE 
            13             92 
  MPP7 MUTATED MPP7 WILD-TYPE 
            13             92 
[1] "data2feature, selection=ALL"
 [1] "YEARSTOBIRTH"                          
 [2] "DAYSTODEATH"                           
 [3] "DAYSTOLASTFOLLOWUP"                    
 [4] "DAYSTOSUBMITTEDSPECIMENDX"             
 [5] "VITALSTATUS"                           
 [6] "DCCUPLOADDATE"                         
 [7] "PRIMARYSITEOFDESEASE"                  
 [8] "GENDER"                                
 [9] "DATEOFINITIALPATHOLOGICDIAGNOSIS"      
[10] "RADIATIONTHERAPY"                      
[11] "RADIATIONS.RADIATION.REGIMENINDICATION"
[12] "DISTANT.METASTASIS"                    
[13] "LYMPH.NODE.METASTASIS"                 
[14] "TUMOR.STAGECODE"                       
[15] "NEOPLASM.DISEASESTAGE"                 
[16] "BATCHNUMBER"                           

Input Data has 16 rows and 105 columns.

[1] "Batch" "16"   
[1] "Last Follow UP"
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
          NA           NA         3004           NA           NA           NA 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
          NA           NA           NA           NA           NA           NA 
TCGA-D3-A3CF TCGA-D9-A148 TCGA-D9-A1JW TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 
          NA           NA           NA           NA          122           87 
TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I2 TCGA-DA-A1IB TCGA-DA-A3F3 
        1484           NA         1555           NA          680           NA 
TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 
         534          451           NA           NA           NA           NA 
TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H 
          NA          156         1155           NA         1175          134 
TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29X 
          NA           NA          366          269          304           NA 
TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-EE-A2GB TCGA-EE-A2GC 
          NA          769          727          272           NA           NA 
TCGA-EE-A2GE TCGA-EE-A2GH TCGA-EE-A2GI TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL 
          NA           NA           NA           NA           NA           NA 
TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 TCGA-EE-A2M6 TCGA-EE-A2M7 
          NA           NA           NA           NA           NA           NA 
TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MH 
          NA           NA           NA           NA           NA           NA 
TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2MK TCGA-EE-A2ML TCGA-EE-A2MM TCGA-EE-A2MN 
          NA           NA           NA           NA           NA           NA 
TCGA-EE-A2MP TCGA-EE-A2MQ TCGA-EE-A2MR TCGA-EE-A2MS TCGA-EE-A2MT TCGA-EE-A3AA 
          NA           NA           NA           NA           NA           NA 
TCGA-EE-A3AB TCGA-EE-A3AC TCGA-EE-A3AD TCGA-EE-A3AE TCGA-EE-A3AF TCGA-EE-A3AH 
          NA           NA           NA           NA           NA           NA 
TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A19O 
          NA           NA           NA           NA         1303           NA 
TCGA-ER-A1A1 TCGA-FS-A1YW TCGA-FS-A1Z4 TCGA-FS-A1ZD TCGA-FS-A1ZG TCGA-FS-A1ZH 
        2386           NA           NA           NA           NA           NA 
TCGA-FS-A1ZP TCGA-FS-A1ZS TCGA-FS-A1ZW TCGA-FW-A3R5 TCGA-GN-A264 TCGA-GN-A265 
          NA           NA           NA           31           NA         2577 
TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
          NA           NA          447 
Variable 1:'AGE':	nDistinctValues=53,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'DAYSTODEATH':	nDistinctValues=32,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 3:'DAYSTOLASTFOLLOWUP':	nDistinctValues=23,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 4:'DAYSTOSUBMITTEDSPECIMENDX':	nDistinctValues=53,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 5:'VITALSTATUS':	nDistinctValues=2,	numeric=TRUE,	binary=TRUE,	exclude=FALSE.
Variable 6:'DCCUPLOADDAY':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 7:'PRIMARY.SITE.OF.DISEASE':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 8:'GENDER':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 9:'DAYOFINITIALPATHOLOGICDIAGNOSIS':	nDistinctValues=23,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 10:'RADIATION.THERAPY':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 11:'RADIATIONS.RADIATION.REGIMENINDICATION':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 12:'DISTANT.METASTASIS':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 13:'LYMPH.NODE.METASTASIS':	nDistinctValues=10,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 14:'TUMOR.STAGECODE':	nDistinctValues=15,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 15:'NEOPLASM.DISEASESTAGE':	nDistinctValues=13,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 16:'BATCH.NUMBER':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "rownames(nsurv.mat)"
[1] "AGE"                   "GENDER"                "DISTANT.METASTASIS"   
[4] "LYMPH.NODE.METASTASIS" "TUMOR.STAGECODE"       "NEOPLASM.DISEASESTAGE"
[1] "TUMOR.?STAGE" "5"           
[1] "stage2"
vv
 T0  T1 T1A T1B  T2 T2A T2B  T3 T3A T3B  T4 T4A T4B TIS  TX 
  4   3  10   3  11  11   4   3  12   7   1   5  13   1   7 
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T"
[1] "PATHOLOGY.N"
Output Data has 105 columns, 1 survival variables, and 6 non-survival variables.
AGE, nv=53, binary=FALSE, numeric=TRUE
GENDER, nv=2, binary=FALSE, numeric=FALSE
DISTANT.METASTASIS, nv=4, binary=FALSE, numeric=FALSE
LYMPH.NODE.METASTASIS, nv=10, binary=FALSE, numeric=FALSE
TUMOR.STAGECODE, nv=0, binary=FALSE, numeric=TRUE
NEOPLASM.DISEASESTAGE, nv=13, binary=FALSE, numeric=FALSE

Clustering(1) Variable = BRAF MUTATION ANALYSIS
D1V1, survival
                sevent
clus2             0  1
  BRAF MUTATED   14 16
  BRAF WILD-TYPE  9 16
  BRAF MUTATED BRAF WILD-TYPE 
            30             25 
  BRAF MUTATED BRAF WILD-TYPE 
            16             16 
$`BRAF MUTATED`
TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q9 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK 
       32.55        98.76        22.55        21.14        11.41         6.35 
TCGA-D3-A3C6 TCGA-D3-A3CE TCGA-D9-A3Z3 TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I2 
       15.25        13.32         2.86        35.80        51.12        13.68 
TCGA-DA-A1IB TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A20F 
       22.36        17.56        14.83         1.12        12.20         5.13 
TCGA-EE-A29C TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A2A0 
       37.97        38.63         4.41         9.47        12.03        11.31 
TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19M TCGA-FW-A3R5 TCGA-GN-A265 
        8.94        11.11         4.18        28.64         1.02        84.72 

$`BRAF WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q8 TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A3CF TCGA-D9-A3Z1 
       16.47        28.08        10.26         8.38        24.00         4.01 
TCGA-DA-A1HV TCGA-DA-A3F3 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A185 TCGA-EE-A29D 
       48.79         7.00        11.57         6.31         4.27        11.15 
TCGA-EE-A29L TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A1 TCGA-EE-A2A2 
        1.08         8.84         9.99         8.09        25.28        23.90 
TCGA-ER-A19L TCGA-ER-A19N TCGA-ER-A1A1 TCGA-GN-A264 TCGA-GN-A267 TCGA-GN-A268 
       12.99        42.84        78.44        31.33        16.21        15.39 
TCGA-GN-A26D 
       14.70 

  BRAF MUTATED BRAF WILD-TYPE 
          1.02           1.08 
  BRAF MUTATED BRAF WILD-TYPE 
         98.76          78.44 
  BRAF MUTATED BRAF WILD-TYPE 
         13.50          12.99 
[1] "1.0 - 98.8 (13.5)" "1.1 - 78.4 (13.0)"
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"BRAF WILD-TYPE"   "BRAF MUTATED"   "BRAF MUTATED" "BRAF WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
  "BRAF MUTATED" "BRAF WILD-TYPE" "BRAF WILD-TYPE"   "BRAF MUTATED" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
  "BRAF MUTATED"   "BRAF MUTATED"   "BRAF MUTATED"   "BRAF MUTATED" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"BRAF WILD-TYPE" "BRAF WILD-TYPE"   "BRAF MUTATED" "BRAF WILD-TYPE" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
  "BRAF MUTATED"   "BRAF MUTATED"   "BRAF MUTATED"   "BRAF MUTATED" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
"BRAF WILD-TYPE"   "BRAF MUTATED"   "BRAF MUTATED" "BRAF WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"BRAF WILD-TYPE"   "BRAF MUTATED"   "BRAF MUTATED" "BRAF WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
  "BRAF MUTATED"   "BRAF MUTATED" "BRAF WILD-TYPE"   "BRAF MUTATED" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
  "BRAF MUTATED" "BRAF WILD-TYPE"   "BRAF MUTATED"   "BRAF MUTATED" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
"BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE"   "BRAF MUTATED" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"BRAF WILD-TYPE" "BRAF WILD-TYPE"   "BRAF MUTATED"   "BRAF MUTATED" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
  "BRAF MUTATED" "BRAF WILD-TYPE"   "BRAF MUTATED" "BRAF WILD-TYPE" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"BRAF WILD-TYPE"   "BRAF MUTATED" "BRAF WILD-TYPE"   "BRAF MUTATED" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" 
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"BRAF WILD-TYPE"   "BRAF MUTATED"   "BRAF MUTATED" "BRAF WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
  "BRAF MUTATED" "BRAF WILD-TYPE" "BRAF WILD-TYPE"   "BRAF MUTATED" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
  "BRAF MUTATED"   "BRAF MUTATED"   "BRAF MUTATED"   "BRAF MUTATED" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"BRAF WILD-TYPE" "BRAF WILD-TYPE"   "BRAF MUTATED" "BRAF WILD-TYPE" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
  "BRAF MUTATED"   "BRAF MUTATED"   "BRAF MUTATED"   "BRAF MUTATED" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
"BRAF WILD-TYPE"   "BRAF MUTATED"   "BRAF MUTATED" "BRAF WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"BRAF WILD-TYPE"   "BRAF MUTATED"   "BRAF MUTATED" "BRAF WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
  "BRAF MUTATED"   "BRAF MUTATED" "BRAF WILD-TYPE"   "BRAF MUTATED" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
  "BRAF MUTATED" "BRAF WILD-TYPE"   "BRAF MUTATED"   "BRAF MUTATED" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
"BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE"   "BRAF MUTATED" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"BRAF WILD-TYPE" "BRAF WILD-TYPE"   "BRAF MUTATED"   "BRAF MUTATED" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
  "BRAF MUTATED" "BRAF WILD-TYPE"   "BRAF MUTATED" "BRAF WILD-TYPE" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"BRAF WILD-TYPE"   "BRAF MUTATED" "BRAF WILD-TYPE"   "BRAF MUTATED" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" 
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"BRAF WILD-TYPE"   "BRAF MUTATED"   "BRAF MUTATED" "BRAF WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
  "BRAF MUTATED" "BRAF WILD-TYPE" "BRAF WILD-TYPE"   "BRAF MUTATED" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
  "BRAF MUTATED"   "BRAF MUTATED"   "BRAF MUTATED"   "BRAF MUTATED" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"BRAF WILD-TYPE" "BRAF WILD-TYPE"   "BRAF MUTATED" "BRAF WILD-TYPE" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
  "BRAF MUTATED"   "BRAF MUTATED"   "BRAF MUTATED"   "BRAF MUTATED" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
"BRAF WILD-TYPE"   "BRAF MUTATED"   "BRAF MUTATED" "BRAF WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"BRAF WILD-TYPE"   "BRAF MUTATED"   "BRAF MUTATED" "BRAF WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
  "BRAF MUTATED"   "BRAF MUTATED" "BRAF WILD-TYPE"   "BRAF MUTATED" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
  "BRAF MUTATED" "BRAF WILD-TYPE"   "BRAF MUTATED"   "BRAF MUTATED" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
"BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE"   "BRAF MUTATED" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"BRAF WILD-TYPE" "BRAF WILD-TYPE"   "BRAF MUTATED"   "BRAF MUTATED" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
  "BRAF MUTATED" "BRAF WILD-TYPE"   "BRAF MUTATED" "BRAF WILD-TYPE" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"BRAF WILD-TYPE"   "BRAF MUTATED" "BRAF WILD-TYPE"   "BRAF MUTATED" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" 
[1] "hr=" "1.3"
D1V2, continuous
D1V3, binary
                cls
clus              0  1
  BRAF MUTATED   17 42
  BRAF WILD-TYPE 14 32
[1] "tbl2"
                cls
clus             [,1] [,2]
  BRAF MUTATED     17   42
  BRAF WILD-TYPE   14   32
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  FEMALE           17             14
  MALE             42             32
                vv
clus             M0 M1 M1B M1C
  BRAF MUTATED   51  1   1   1
  BRAF WILD-TYPE 40  0   1   0
D1V4, multiclass
     clus
vv    BRAF MUTATED BRAF WILD-TYPE
  M0            51             40
  M1             1              0
  M1B            1              1
  M1C            1              0
                vv
clus             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  BRAF MUTATED   31  1   1   6  1   3   4   1  5  1
  BRAF WILD-TYPE 27  0   2   3  0   0   3   0  7  0
D1V5, multiclass
D1V6, continuous
                vv
clus             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  BRAF MUTATED             1       8        3        5        7         3
  BRAF WILD-TYPE           0       6        4        5        5         2
                vv
clus             STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC
  BRAF MUTATED           1         1         3          2          6          7
  BRAF WILD-TYPE         4         1         0          1          4          9
                vv
clus             STAGE IV
  BRAF MUTATED          2
  BRAF WILD-TYPE        1
D1V7, multiclass

Clustering(2) Variable = CDKN2A MUTATION ANALYSIS
D2V1, survival
                  sevent
clus2               0  1
  CDKN2A MUTATED    5  5
  CDKN2A WILD-TYPE 18 27
  CDKN2A MUTATED CDKN2A WILD-TYPE 
              10               45 
  CDKN2A MUTATED CDKN2A WILD-TYPE 
               5               27 
$`CDKN2A MUTATED`
TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D9-A3Z1 TCGA-DA-A1HV TCGA-DA-A1HY TCGA-EE-A181 
       11.41         6.35         4.01        48.79        51.12         1.12 
TCGA-EE-A185 TCGA-EE-A29E TCGA-EE-A2A6 TCGA-ER-A19L 
        4.27        38.63         8.94        12.99 

$`CDKN2A WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A3C6 TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D9-A3Z3 
        8.38        21.14        15.25        13.32        24.00         2.86 
TCGA-DA-A1HW TCGA-DA-A1I2 TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 
       35.80        13.68        22.36         7.00        17.56        14.83 
TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A183 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D 
       11.57         6.31        12.20         5.13        37.97        11.15 
TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29S 
        4.41         1.08         9.47        12.03         8.84         9.99 
TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-ER-A19F TCGA-ER-A19J 
        8.09        11.31        25.28        23.90        11.11         4.18 
TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-FW-A3R5 TCGA-GN-A264 TCGA-GN-A265 
       28.64        42.84        78.44         1.02        31.33        84.72 
TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
       16.21        15.39        14.70 

  CDKN2A MUTATED CDKN2A WILD-TYPE 
            1.12             1.02 
  CDKN2A MUTATED CDKN2A WILD-TYPE 
           51.12            98.76 
  CDKN2A MUTATED CDKN2A WILD-TYPE 
          10.175           14.700 
[1] "1.1 - 51.1 (10.2)" "1.0 - 98.8 (14.7)"
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
  "CDKN2A MUTATED"   "CDKN2A MUTATED" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"CDKN2A WILD-TYPE"   "CDKN2A MUTATED" "CDKN2A WILD-TYPE"   "CDKN2A MUTATED" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"CDKN2A WILD-TYPE"   "CDKN2A MUTATED" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"CDKN2A WILD-TYPE"   "CDKN2A MUTATED" "CDKN2A WILD-TYPE"   "CDKN2A MUTATED" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
"CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE"   "CDKN2A MUTATED" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
"CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE"   "CDKN2A MUTATED" "CDKN2A WILD-TYPE" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"CDKN2A WILD-TYPE"   "CDKN2A MUTATED" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
"CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
"CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" 
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
  "CDKN2A MUTATED"   "CDKN2A MUTATED" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"CDKN2A WILD-TYPE"   "CDKN2A MUTATED" "CDKN2A WILD-TYPE"   "CDKN2A MUTATED" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"CDKN2A WILD-TYPE"   "CDKN2A MUTATED" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"CDKN2A WILD-TYPE"   "CDKN2A MUTATED" "CDKN2A WILD-TYPE"   "CDKN2A MUTATED" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
"CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE"   "CDKN2A MUTATED" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
"CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE"   "CDKN2A MUTATED" "CDKN2A WILD-TYPE" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"CDKN2A WILD-TYPE"   "CDKN2A MUTATED" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
"CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
"CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" 
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
  "CDKN2A MUTATED"   "CDKN2A MUTATED" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"CDKN2A WILD-TYPE"   "CDKN2A MUTATED" "CDKN2A WILD-TYPE"   "CDKN2A MUTATED" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"CDKN2A WILD-TYPE"   "CDKN2A MUTATED" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"CDKN2A WILD-TYPE"   "CDKN2A MUTATED" "CDKN2A WILD-TYPE"   "CDKN2A MUTATED" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
"CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE"   "CDKN2A MUTATED" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
"CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE"   "CDKN2A MUTATED" "CDKN2A WILD-TYPE" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"CDKN2A WILD-TYPE"   "CDKN2A MUTATED" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
"CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
"CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" 
[1] "hr=" "1.1"
D2V2, continuous
D2V3, binary
                  cls
clus                0  1
  CDKN2A MUTATED    4 12
  CDKN2A WILD-TYPE 27 62
[1] "tbl2"
                  cls
clus               [,1] [,2]
  CDKN2A MUTATED      4   12
  CDKN2A WILD-TYPE   27   62
        clus
vv       CDKN2A MUTATED CDKN2A WILD-TYPE
  FEMALE              4               27
  MALE               12               62
                  vv
clus               M0 M1 M1B M1C
  CDKN2A MUTATED   15  0   0   0
  CDKN2A WILD-TYPE 76  1   2   1
D2V4, multiclass
     clus
vv    CDKN2A MUTATED CDKN2A WILD-TYPE
  M0              15               76
  M1               0                1
  M1B              0                2
  M1C              0                1
                  vv
clus               N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  CDKN2A MUTATED    7  0   1   2  0   0   2   0  3  0
  CDKN2A WILD-TYPE 51  1   2   7  1   3   5   1  9  1
D2V5, multiclass
D2V6, continuous
                  vv
clus               I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  CDKN2A MUTATED             0       1        2        1        2         0
  CDKN2A WILD-TYPE           1      13        5        9       10         5
                  vv
clus               STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  CDKN2A MUTATED           1         0         0          0          3
  CDKN2A WILD-TYPE         4         2         3          3          7
                  vv
clus               STAGE IIIC STAGE IV
  CDKN2A MUTATED            5        0
  CDKN2A WILD-TYPE         11        3
D2V7, multiclass

Clustering(3) Variable = NRAS MUTATION ANALYSIS
D3V1, survival
                sevent
clus2             0  1
  NRAS MUTATED    7 10
  NRAS WILD-TYPE 16 22
  NRAS MUTATED NRAS WILD-TYPE 
            17             38 
  NRAS MUTATED NRAS WILD-TYPE 
            10             22 
$`NRAS MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q8 TCGA-D3-A2J8 TCGA-D9-A3Z1 TCGA-DA-A1HV TCGA-DA-A3F3 
       16.47        28.08         8.38         4.01        48.79         7.00 
TCGA-EE-A17X TCGA-EE-A185 TCGA-EE-A29L TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29X 
       11.57         4.27         1.08         8.84         9.99         8.09 
TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-ER-A19N TCGA-GN-A267 TCGA-GN-A268 
       25.28        23.90        42.84        16.21        15.39 

$`NRAS WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A2J9 TCGA-D3-A2JD 
       32.55        98.76        22.55        10.26        21.14        11.41 
TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D9-A3Z3 TCGA-DA-A1HW 
        6.35        15.25        13.32        24.00         2.86        35.80 
TCGA-DA-A1HY TCGA-DA-A1I2 TCGA-DA-A1IB TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17Z 
       51.12        13.68        22.36        17.56        14.83         6.31 
TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E 
        1.12        12.20         5.13        37.97        11.15        38.63 
TCGA-EE-A29H TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A2A0 TCGA-EE-A2A6 TCGA-ER-A19F 
        4.41         9.47        12.03        11.31         8.94        11.11 
TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A1A1 TCGA-FW-A3R5 TCGA-GN-A264 
        4.18        12.99        28.64        78.44         1.02        31.33 
TCGA-GN-A265 TCGA-GN-A26D 
       84.72        14.70 

  NRAS MUTATED NRAS WILD-TYPE 
          1.08           1.02 
  NRAS MUTATED NRAS WILD-TYPE 
         48.79          98.76 
  NRAS MUTATED NRAS WILD-TYPE 
         11.57          13.50 
[1] "1.1 - 48.8 (11.6)" "1.0 - 98.8 (13.5)"
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
  "NRAS MUTATED" "NRAS WILD-TYPE" "NRAS WILD-TYPE"   "NRAS MUTATED" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"NRAS WILD-TYPE" "NRAS WILD-TYPE"   "NRAS MUTATED" "NRAS WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"NRAS WILD-TYPE"   "NRAS MUTATED" "NRAS WILD-TYPE"   "NRAS MUTATED" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
  "NRAS MUTATED" "NRAS WILD-TYPE" "NRAS WILD-TYPE"   "NRAS MUTATED" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE"   "NRAS MUTATED" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
"NRAS WILD-TYPE"   "NRAS MUTATED" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
  "NRAS MUTATED"   "NRAS MUTATED"   "NRAS MUTATED" "NRAS WILD-TYPE" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
  "NRAS MUTATED"   "NRAS MUTATED" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE"   "NRAS MUTATED" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
  "NRAS MUTATED"   "NRAS MUTATED" "NRAS WILD-TYPE" 
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
  "NRAS MUTATED" "NRAS WILD-TYPE" "NRAS WILD-TYPE"   "NRAS MUTATED" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"NRAS WILD-TYPE" "NRAS WILD-TYPE"   "NRAS MUTATED" "NRAS WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"NRAS WILD-TYPE"   "NRAS MUTATED" "NRAS WILD-TYPE"   "NRAS MUTATED" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
  "NRAS MUTATED" "NRAS WILD-TYPE" "NRAS WILD-TYPE"   "NRAS MUTATED" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE"   "NRAS MUTATED" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
"NRAS WILD-TYPE"   "NRAS MUTATED" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
  "NRAS MUTATED"   "NRAS MUTATED"   "NRAS MUTATED" "NRAS WILD-TYPE" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
  "NRAS MUTATED"   "NRAS MUTATED" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE"   "NRAS MUTATED" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
  "NRAS MUTATED"   "NRAS MUTATED" "NRAS WILD-TYPE" 
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
  "NRAS MUTATED" "NRAS WILD-TYPE" "NRAS WILD-TYPE"   "NRAS MUTATED" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"NRAS WILD-TYPE" "NRAS WILD-TYPE"   "NRAS MUTATED" "NRAS WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"NRAS WILD-TYPE"   "NRAS MUTATED" "NRAS WILD-TYPE"   "NRAS MUTATED" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
  "NRAS MUTATED" "NRAS WILD-TYPE" "NRAS WILD-TYPE"   "NRAS MUTATED" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE"   "NRAS MUTATED" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
"NRAS WILD-TYPE"   "NRAS MUTATED" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
  "NRAS MUTATED"   "NRAS MUTATED"   "NRAS MUTATED" "NRAS WILD-TYPE" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
  "NRAS MUTATED"   "NRAS MUTATED" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE"   "NRAS MUTATED" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
  "NRAS MUTATED"   "NRAS MUTATED" "NRAS WILD-TYPE" 
[1] "hr=" "1.2"
D3V2, continuous
D3V3, binary
                cls
clus              0  1
  NRAS MUTATED    9 20
  NRAS WILD-TYPE 22 54
[1] "tbl2"
                cls
clus             [,1] [,2]
  NRAS MUTATED      9   20
  NRAS WILD-TYPE   22   54
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  FEMALE            9             22
  MALE             20             54
                vv
clus             M0 M1 M1B M1C
  NRAS MUTATED   26  0   1   0
  NRAS WILD-TYPE 65  1   1   1
D3V4, multiclass
     clus
vv    NRAS MUTATED NRAS WILD-TYPE
  M0            26             65
  M1             0              1
  M1B            1              1
  M1C            0              1
                vv
clus             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  NRAS MUTATED   16  0   2   2  0   0   2   0  5  0
  NRAS WILD-TYPE 42  1   1   7  1   3   5   1  7  1
D3V5, multiclass
D3V6, continuous
                vv
clus             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  NRAS MUTATED             0       3        3        4        3         2
  NRAS WILD-TYPE           1      11        4        6        9         3
                vv
clus             STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC
  NRAS MUTATED           1         0         0          1          4          5
  NRAS WILD-TYPE         4         2         3          2          6         11
                vv
clus             STAGE IV
  NRAS MUTATED          1
  NRAS WILD-TYPE        2
D3V7, multiclass

Clustering(4) Variable = STK19 MUTATION ANALYSIS
D4V1, survival
                 sevent
clus2              0  1
  STK19 MUTATED    2  3
  STK19 WILD-TYPE 21 29
  STK19 MUTATED STK19 WILD-TYPE 
              5              50 
  STK19 MUTATED STK19 WILD-TYPE 
              3              29 
$`STK19 MUTATED`
TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 
        2.86        48.79         1.12        12.20         4.27 

$`STK19 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I2 TCGA-DA-A1IB 
       24.00         4.01        35.80        51.12        13.68        22.36 
TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A20F 
        7.00        17.56        14.83        11.57         6.31         5.13 
TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N 
       37.97        11.15        38.63         4.41         1.08         9.47 
TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 
       12.03         8.84         9.99         8.09        11.31        25.28 
TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M 
       23.90         8.94        11.11         4.18        12.99        28.64 
TCGA-ER-A19N TCGA-ER-A1A1 TCGA-FW-A3R5 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 
       42.84        78.44         1.02        31.33        84.72        16.21 
TCGA-GN-A268 TCGA-GN-A26D 
       15.39        14.70 

  STK19 MUTATED STK19 WILD-TYPE 
           1.12            1.02 
  STK19 MUTATED STK19 WILD-TYPE 
          48.79           98.76 
  STK19 MUTATED STK19 WILD-TYPE 
           4.27           14.19 
[1] "1.1 - 48.8 (4.3)"  "1.0 - 98.8 (14.2)"
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"STK19 WILD-TYPE" "STK19 WILD-TYPE"   "STK19 MUTATED"   "STK19 MUTATED" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"STK19 WILD-TYPE"   "STK19 MUTATED"   "STK19 MUTATED"   "STK19 MUTATED" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"STK19 WILD-TYPE" "STK19 WILD-TYPE"   "STK19 MUTATED"   "STK19 MUTATED" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"STK19 WILD-TYPE"   "STK19 MUTATED"   "STK19 MUTATED"   "STK19 MUTATED" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"STK19 WILD-TYPE" "STK19 WILD-TYPE"   "STK19 MUTATED"   "STK19 MUTATED" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"STK19 WILD-TYPE"   "STK19 MUTATED"   "STK19 MUTATED"   "STK19 MUTATED" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"STK19 WILD-TYPE" "STK19 WILD-TYPE" "STK19 WILD-TYPE" 
[1] "hr=" "1.6"
D4V2, continuous
D4V3, binary
                 cls
clus               0  1
  STK19 MUTATED    3  4
  STK19 WILD-TYPE 28 70
[1] "tbl2"
                 cls
clus              [,1] [,2]
  STK19 MUTATED      3    4
  STK19 WILD-TYPE   28   70
        clus
vv       STK19 MUTATED STK19 WILD-TYPE
  FEMALE             3              28
  MALE               4              70
                 vv
clus              M0 M1 M1B M1C
  STK19 MUTATED    7  0   0   0
  STK19 WILD-TYPE 84  1   2   1
D4V4, multiclass
     clus
vv    STK19 MUTATED STK19 WILD-TYPE
  M0              7              84
  M1              0               1
  M1B             0               2
  M1C             0               1
                 vv
clus              N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  STK19 MUTATED    4  0   0   1  0   0   1   0  1  0
  STK19 WILD-TYPE 54  1   3   8  1   3   6   1 11  1
D4V5, multiclass
D4V6, continuous
                 vv
clus              I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  STK19 MUTATED             0       2        1        0        1         0
  STK19 WILD-TYPE           1      12        6       10       11         5
                 vv
clus              STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  STK19 MUTATED           0         0         0          0          2
  STK19 WILD-TYPE         5         2         3          3          8
                 vv
clus              STAGE IIIC STAGE IV
  STK19 MUTATED            1        0
  STK19 WILD-TYPE         15        3
D4V7, multiclass

Clustering(5) Variable = TTN MUTATION ANALYSIS
D5V1, survival
               sevent
clus2            0  1
  TTN MUTATED   21 21
  TTN WILD-TYPE  2 11
  TTN MUTATED TTN WILD-TYPE 
           42            13 
  TTN MUTATED TTN WILD-TYPE 
           21            11 
$`TTN MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q8 TCGA-D3-A2J8 TCGA-D3-A2JD TCGA-D3-A2JK 
       16.47        32.55        28.08         8.38        11.41         6.35 
TCGA-D3-A3CE TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
       13.32         4.01         2.86        48.79        35.80        51.12 
TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 
       17.56        14.83        11.57         1.12        12.20         4.27 
TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L 
        5.13        37.97        11.15        38.63         4.41         1.08 
TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A2A0 TCGA-EE-A2A1 
        9.47        12.03         8.84         9.99        11.31        25.28 
TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19M TCGA-ER-A19N 
       23.90         8.94        11.11         4.18        28.64        42.84 
TCGA-ER-A1A1 TCGA-FW-A3R5 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
       78.44         1.02        84.72        16.21        15.39        14.70 

$`TTN WILD-TYPE`
TCGA-D3-A1Q7 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A2J9 TCGA-D3-A3C6 TCGA-D3-A3CF 
       98.76        22.55        10.26        21.14        15.25        24.00 
TCGA-DA-A1I2 TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-EE-A17Z TCGA-EE-A29X TCGA-ER-A19L 
       13.68        22.36         7.00         6.31         8.09        12.99 
TCGA-GN-A264 
       31.33 

  TTN MUTATED TTN WILD-TYPE 
         1.02          6.31 
  TTN MUTATED TTN WILD-TYPE 
        84.72         98.76 
  TTN MUTATED TTN WILD-TYPE 
       12.115        15.250 
[1] "1.0 - 84.7 (12.1)" "6.3 - 98.8 (15.2)"
   TCGA-D3-A1Q1    TCGA-D3-A1Q5    TCGA-D3-A1Q7    TCGA-D3-A1Q8    TCGA-D3-A1Q9 
  "TTN MUTATED"   "TTN MUTATED" "TTN WILD-TYPE"   "TTN MUTATED" "TTN WILD-TYPE" 
   TCGA-D3-A2J6    TCGA-D3-A2J8    TCGA-D3-A2J9    TCGA-D3-A2JD    TCGA-D3-A2JK 
"TTN WILD-TYPE"   "TTN MUTATED" "TTN WILD-TYPE"   "TTN MUTATED"   "TTN MUTATED" 
   TCGA-D3-A3C6    TCGA-D3-A3CE    TCGA-D3-A3CF    TCGA-D9-A3Z1    TCGA-D9-A3Z3 
"TTN WILD-TYPE"   "TTN MUTATED" "TTN WILD-TYPE"   "TTN MUTATED"   "TTN MUTATED" 
   TCGA-DA-A1HV    TCGA-DA-A1HW    TCGA-DA-A1HY    TCGA-DA-A1I2    TCGA-DA-A1IB 
  "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED" "TTN WILD-TYPE" "TTN WILD-TYPE" 
   TCGA-DA-A3F3    TCGA-DA-A3F5    TCGA-DA-A3F8    TCGA-EE-A17X    TCGA-EE-A17Z 
"TTN WILD-TYPE"   "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED" "TTN WILD-TYPE" 
   TCGA-EE-A181    TCGA-EE-A183    TCGA-EE-A185    TCGA-EE-A20F    TCGA-EE-A29C 
  "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED" 
   TCGA-EE-A29D    TCGA-EE-A29E    TCGA-EE-A29H    TCGA-EE-A29L    TCGA-EE-A29N 
  "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED" 
   TCGA-EE-A29P    TCGA-EE-A29R    TCGA-EE-A29S    TCGA-EE-A29X    TCGA-EE-A2A0 
  "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED" "TTN WILD-TYPE"   "TTN MUTATED" 
   TCGA-EE-A2A1    TCGA-EE-A2A2    TCGA-EE-A2A6    TCGA-ER-A19F    TCGA-ER-A19J 
  "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED" 
   TCGA-ER-A19L    TCGA-ER-A19M    TCGA-ER-A19N    TCGA-ER-A1A1    TCGA-FW-A3R5 
"TTN WILD-TYPE"   "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED" 
   TCGA-GN-A264    TCGA-GN-A265    TCGA-GN-A267    TCGA-GN-A268    TCGA-GN-A26D 
"TTN WILD-TYPE"   "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED" 
   TCGA-D3-A1Q1    TCGA-D3-A1Q5    TCGA-D3-A1Q7    TCGA-D3-A1Q8    TCGA-D3-A1Q9 
  "TTN MUTATED"   "TTN MUTATED" "TTN WILD-TYPE"   "TTN MUTATED" "TTN WILD-TYPE" 
   TCGA-D3-A2J6    TCGA-D3-A2J8    TCGA-D3-A2J9    TCGA-D3-A2JD    TCGA-D3-A2JK 
"TTN WILD-TYPE"   "TTN MUTATED" "TTN WILD-TYPE"   "TTN MUTATED"   "TTN MUTATED" 
   TCGA-D3-A3C6    TCGA-D3-A3CE    TCGA-D3-A3CF    TCGA-D9-A3Z1    TCGA-D9-A3Z3 
"TTN WILD-TYPE"   "TTN MUTATED" "TTN WILD-TYPE"   "TTN MUTATED"   "TTN MUTATED" 
   TCGA-DA-A1HV    TCGA-DA-A1HW    TCGA-DA-A1HY    TCGA-DA-A1I2    TCGA-DA-A1IB 
  "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED" "TTN WILD-TYPE" "TTN WILD-TYPE" 
   TCGA-DA-A3F3    TCGA-DA-A3F5    TCGA-DA-A3F8    TCGA-EE-A17X    TCGA-EE-A17Z 
"TTN WILD-TYPE"   "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED" "TTN WILD-TYPE" 
   TCGA-EE-A181    TCGA-EE-A183    TCGA-EE-A185    TCGA-EE-A20F    TCGA-EE-A29C 
  "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED" 
   TCGA-EE-A29D    TCGA-EE-A29E    TCGA-EE-A29H    TCGA-EE-A29L    TCGA-EE-A29N 
  "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED" 
   TCGA-EE-A29P    TCGA-EE-A29R    TCGA-EE-A29S    TCGA-EE-A29X    TCGA-EE-A2A0 
  "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED" "TTN WILD-TYPE"   "TTN MUTATED" 
   TCGA-EE-A2A1    TCGA-EE-A2A2    TCGA-EE-A2A6    TCGA-ER-A19F    TCGA-ER-A19J 
  "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED" 
   TCGA-ER-A19L    TCGA-ER-A19M    TCGA-ER-A19N    TCGA-ER-A1A1    TCGA-FW-A3R5 
"TTN WILD-TYPE"   "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED" 
   TCGA-GN-A264    TCGA-GN-A265    TCGA-GN-A267    TCGA-GN-A268    TCGA-GN-A26D 
"TTN WILD-TYPE"   "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED" 
   TCGA-D3-A1Q1    TCGA-D3-A1Q5    TCGA-D3-A1Q7    TCGA-D3-A1Q8    TCGA-D3-A1Q9 
  "TTN MUTATED"   "TTN MUTATED" "TTN WILD-TYPE"   "TTN MUTATED" "TTN WILD-TYPE" 
   TCGA-D3-A2J6    TCGA-D3-A2J8    TCGA-D3-A2J9    TCGA-D3-A2JD    TCGA-D3-A2JK 
"TTN WILD-TYPE"   "TTN MUTATED" "TTN WILD-TYPE"   "TTN MUTATED"   "TTN MUTATED" 
   TCGA-D3-A3C6    TCGA-D3-A3CE    TCGA-D3-A3CF    TCGA-D9-A3Z1    TCGA-D9-A3Z3 
"TTN WILD-TYPE"   "TTN MUTATED" "TTN WILD-TYPE"   "TTN MUTATED"   "TTN MUTATED" 
   TCGA-DA-A1HV    TCGA-DA-A1HW    TCGA-DA-A1HY    TCGA-DA-A1I2    TCGA-DA-A1IB 
  "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED" "TTN WILD-TYPE" "TTN WILD-TYPE" 
   TCGA-DA-A3F3    TCGA-DA-A3F5    TCGA-DA-A3F8    TCGA-EE-A17X    TCGA-EE-A17Z 
"TTN WILD-TYPE"   "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED" "TTN WILD-TYPE" 
   TCGA-EE-A181    TCGA-EE-A183    TCGA-EE-A185    TCGA-EE-A20F    TCGA-EE-A29C 
  "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED" 
   TCGA-EE-A29D    TCGA-EE-A29E    TCGA-EE-A29H    TCGA-EE-A29L    TCGA-EE-A29N 
  "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED" 
   TCGA-EE-A29P    TCGA-EE-A29R    TCGA-EE-A29S    TCGA-EE-A29X    TCGA-EE-A2A0 
  "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED" "TTN WILD-TYPE"   "TTN MUTATED" 
   TCGA-EE-A2A1    TCGA-EE-A2A2    TCGA-EE-A2A6    TCGA-ER-A19F    TCGA-ER-A19J 
  "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED" 
   TCGA-ER-A19L    TCGA-ER-A19M    TCGA-ER-A19N    TCGA-ER-A1A1    TCGA-FW-A3R5 
"TTN WILD-TYPE"   "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED" 
   TCGA-GN-A264    TCGA-GN-A265    TCGA-GN-A267    TCGA-GN-A268    TCGA-GN-A26D 
"TTN WILD-TYPE"   "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED"   "TTN MUTATED" 
[1] "hr=" "1.6"
D5V2, continuous
D5V3, binary
               cls
clus             0  1
  TTN MUTATED   23 60
  TTN WILD-TYPE  8 14
[1] "tbl2"
               cls
clus            [,1] [,2]
  TTN MUTATED     23   60
  TTN WILD-TYPE    8   14
        clus
vv       TTN MUTATED TTN WILD-TYPE
  FEMALE          23             8
  MALE            60            14
               vv
clus            M0 M1 M1B M1C
  TTN MUTATED   74  1   1   0
  TTN WILD-TYPE 17  0   1   1
D5V4, multiclass
     clus
vv    TTN MUTATED TTN WILD-TYPE
  M0           74            17
  M1            1             0
  M1B           1             1
  M1C           0             1
               vv
clus            N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  TTN MUTATED   48  1   3   9  1   2   3   0  9  1
  TTN WILD-TYPE 10  0   0   0  0   1   4   1  3  0
D5V5, multiclass
D5V6, continuous
               vv
clus            I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  TTN MUTATED             1      12        7        6       12         3
  TTN WILD-TYPE           0       2        0        4        0         2
               vv
clus            STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC
  TTN MUTATED           3         2         3          3          8         11
  TTN WILD-TYPE         2         0         0          0          2          5
               vv
clus            STAGE IV
  TTN MUTATED          2
  TTN WILD-TYPE        1
D5V7, multiclass

Clustering(6) Variable = TP53 MUTATION ANALYSIS
D6V1, survival
                sevent
clus2             0  1
  TP53 MUTATED    4  4
  TP53 WILD-TYPE 19 28
  TP53 MUTATED TP53 WILD-TYPE 
             8             47 
  TP53 MUTATED TP53 WILD-TYPE 
             4             28 
$`TP53 MUTATED`
TCGA-DA-A1HV TCGA-DA-A1HW TCGA-EE-A181 TCGA-EE-A29E TCGA-EE-A29L TCGA-EE-A29X 
       48.79        35.80         1.12        38.63         1.08         8.09 
TCGA-EE-A2A2 TCGA-FW-A3R5 
       23.90         1.02 

$`TP53 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HY TCGA-DA-A1I2 TCGA-DA-A1IB 
       24.00         4.01         2.86        51.12        13.68        22.36 
TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A183 
        7.00        17.56        14.83        11.57         6.31        12.20 
TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29H TCGA-EE-A29N 
        4.27         5.13        37.97        11.15         4.41         9.47 
TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A6 
       12.03         8.84         9.99        11.31        25.28         8.94 
TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 
       11.11         4.18        12.99        28.64        42.84        78.44 
TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
       31.33        84.72        16.21        15.39        14.70 

  TP53 MUTATED TP53 WILD-TYPE 
          1.02           2.86 
  TP53 MUTATED TP53 WILD-TYPE 
         48.79          98.76 
  TP53 MUTATED TP53 WILD-TYPE 
        15.995         13.320 
[1] "1.0 - 48.8 (16.0)" "2.9 - 98.8 (13.3)"
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE"   "TP53 MUTATED" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
  "TP53 MUTATED" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"TP53 WILD-TYPE"   "TP53 MUTATED" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE"   "TP53 MUTATED" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
"TP53 WILD-TYPE"   "TP53 MUTATED" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
"TP53 WILD-TYPE" "TP53 WILD-TYPE"   "TP53 MUTATED" "TP53 WILD-TYPE" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"TP53 WILD-TYPE"   "TP53 MUTATED" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"TP53 WILD-TYPE"   "TP53 MUTATED" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE"   "TP53 MUTATED" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
  "TP53 MUTATED" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"TP53 WILD-TYPE"   "TP53 MUTATED" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE"   "TP53 MUTATED" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
"TP53 WILD-TYPE"   "TP53 MUTATED" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
"TP53 WILD-TYPE" "TP53 WILD-TYPE"   "TP53 MUTATED" "TP53 WILD-TYPE" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"TP53 WILD-TYPE"   "TP53 MUTATED" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"TP53 WILD-TYPE"   "TP53 MUTATED" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE"   "TP53 MUTATED" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
  "TP53 MUTATED" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"TP53 WILD-TYPE"   "TP53 MUTATED" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE"   "TP53 MUTATED" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
"TP53 WILD-TYPE"   "TP53 MUTATED" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
"TP53 WILD-TYPE" "TP53 WILD-TYPE"   "TP53 MUTATED" "TP53 WILD-TYPE" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"TP53 WILD-TYPE"   "TP53 MUTATED" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"TP53 WILD-TYPE"   "TP53 MUTATED" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
[1] "hr=" "1.3"
D6V2, continuous
D6V3, binary
                cls
clus              0  1
  TP53 MUTATED    7 11
  TP53 WILD-TYPE 24 63
[1] "tbl2"
                cls
clus             [,1] [,2]
  TP53 MUTATED      7   11
  TP53 WILD-TYPE   24   63
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  FEMALE            7             24
  MALE             11             63
                vv
clus             M0 M1 M1B M1C
  TP53 MUTATED   16  0   0   0
  TP53 WILD-TYPE 75  1   2   1
D6V4, multiclass
     clus
vv    TP53 MUTATED TP53 WILD-TYPE
  M0            16             75
  M1             0              1
  M1B            0              2
  M1C            0              1
                vv
clus             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  TP53 MUTATED    8  0   1   3  1   1   1   0  1  0
  TP53 WILD-TYPE 50  1   2   6  0   2   6   1 11  1
D6V5, multiclass
D6V6, continuous
                vv
clus             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  TP53 MUTATED             0       2        2        1        1         1
  TP53 WILD-TYPE           1      12        5        9       11         4
                vv
clus             STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC
  TP53 MUTATED           1         0         1          1          5          1
  TP53 WILD-TYPE         4         2         2          2          5         15
                vv
clus             STAGE IV
  TP53 MUTATED          0
  TP53 WILD-TYPE        3
D6V7, multiclass

Clustering(7) Variable = PTEN MUTATION ANALYSIS
D7V1, survival
                sevent
clus2             0  1
  PTEN MUTATED    2  5
  PTEN WILD-TYPE 21 27
  PTEN MUTATED PTEN WILD-TYPE 
             7             48 
  PTEN MUTATED PTEN WILD-TYPE 
             5             27 
$`PTEN MUTATED`
TCGA-D3-A1Q7 TCGA-D3-A2J8 TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-EE-A17Z TCGA-EE-A29P 
       98.76         8.38         6.35        15.25         6.31        12.03 
TCGA-ER-A19J 
        4.18 

$`PTEN WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A2J9 
       16.47        32.55        28.08        22.55        10.26        21.14 
TCGA-D3-A2JD TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV 
       11.41        13.32        24.00         4.01         2.86        48.79 
TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I2 TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 
       35.80        51.12        13.68        22.36         7.00        17.56 
TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F 
       14.83        11.57         1.12        12.20         4.27         5.13 
TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N 
       37.97        11.15        38.63         4.41         1.08         9.47 
TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 
        8.84         9.99         8.09        11.31        25.28        23.90 
TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 
        8.94        11.11        12.99        28.64        42.84        78.44 
TCGA-FW-A3R5 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
        1.02        31.33        84.72        16.21        15.39        14.70 

  PTEN MUTATED PTEN WILD-TYPE 
          4.18           1.02 
  PTEN MUTATED PTEN WILD-TYPE 
         98.76          84.72 
  PTEN MUTATED PTEN WILD-TYPE 
          8.38          14.19 
[1] "4.2 - 98.8 (8.4)"  "1.0 - 84.7 (14.2)"
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"PTEN WILD-TYPE" "PTEN WILD-TYPE"   "PTEN MUTATED" "PTEN WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"PTEN WILD-TYPE" "PTEN WILD-TYPE"   "PTEN MUTATED" "PTEN WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"PTEN WILD-TYPE"   "PTEN MUTATED"   "PTEN MUTATED" "PTEN WILD-TYPE" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
  "PTEN MUTATED" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE"   "PTEN MUTATED" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
  "PTEN MUTATED" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"PTEN WILD-TYPE" "PTEN WILD-TYPE"   "PTEN MUTATED" "PTEN WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"PTEN WILD-TYPE" "PTEN WILD-TYPE"   "PTEN MUTATED" "PTEN WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"PTEN WILD-TYPE"   "PTEN MUTATED"   "PTEN MUTATED" "PTEN WILD-TYPE" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
  "PTEN MUTATED" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE"   "PTEN MUTATED" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
  "PTEN MUTATED" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"PTEN WILD-TYPE" "PTEN WILD-TYPE"   "PTEN MUTATED" "PTEN WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"PTEN WILD-TYPE" "PTEN WILD-TYPE"   "PTEN MUTATED" "PTEN WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"PTEN WILD-TYPE"   "PTEN MUTATED"   "PTEN MUTATED" "PTEN WILD-TYPE" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
  "PTEN MUTATED" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE"   "PTEN MUTATED" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
  "PTEN MUTATED" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
[1] "hr=" "2"  
D7V2, continuous
D7V3, binary
                cls
clus              0  1
  PTEN MUTATED    5  6
  PTEN WILD-TYPE 26 68
[1] "tbl2"
                cls
clus             [,1] [,2]
  PTEN MUTATED      5    6
  PTEN WILD-TYPE   26   68
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  FEMALE            5             26
  MALE              6             68
                vv
clus             M0 M1 M1B M1C
  PTEN MUTATED   10  1   0   0
  PTEN WILD-TYPE 81  0   2   1
D7V4, multiclass
     clus
vv    PTEN MUTATED PTEN WILD-TYPE
  M0            10             81
  M1             1              0
  M1B            0              2
  M1C            0              1
                vv
clus             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  PTEN MUTATED    9  0   0   0  0   0   1   0  1  0
  PTEN WILD-TYPE 49  1   3   9  1   3   6   1 11  1
D7V5, multiclass
D7V6, continuous
                vv
clus             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  PTEN MUTATED             0       0        1        4        1         1
  PTEN WILD-TYPE           1      14        6        6       11         4
                vv
clus             STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC
  PTEN MUTATED           1         1         0          0          0          1
  PTEN WILD-TYPE         4         1         3          3         10         15
                vv
clus             STAGE IV
  PTEN MUTATED          1
  PTEN WILD-TYPE        2
D7V7, multiclass

Clustering(8) Variable = TPTE MUTATION ANALYSIS
D8V1, survival
                sevent
clus2             0  1
  TPTE MUTATED    5  8
  TPTE WILD-TYPE 18 24
  TPTE MUTATED TPTE WILD-TYPE 
            13             42 
  TPTE MUTATED TPTE WILD-TYPE 
             8             24 
$`TPTE MUTATED`
TCGA-D3-A1Q5 TCGA-D3-A3CE TCGA-D3-A3CF TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
       32.55        13.32        24.00        48.79        35.80        51.12 
TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A2A0 
       37.97        11.15         1.08         9.47        12.03        11.31 
TCGA-FW-A3R5 
        1.02 

$`TPTE WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A2J8 
       16.47        98.76        28.08        22.55        10.26         8.38 
TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D9-A3Z1 TCGA-D9-A3Z3 
       21.14        11.41         6.35        15.25         4.01         2.86 
TCGA-DA-A1I2 TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X 
       13.68        22.36         7.00        17.56        14.83        11.57 
TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29E 
        6.31         1.12        12.20         4.27         5.13        38.63 
TCGA-EE-A29H TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A1 TCGA-EE-A2A2 
        4.41         8.84         9.99         8.09        25.28        23.90 
TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N 
        8.94        11.11         4.18        12.99        28.64        42.84 
TCGA-ER-A1A1 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
       78.44        31.33        84.72        16.21        15.39        14.70 

  TPTE MUTATED TPTE WILD-TYPE 
          1.02           1.12 
  TPTE MUTATED TPTE WILD-TYPE 
         51.12          98.76 
  TPTE MUTATED TPTE WILD-TYPE 
        13.320         13.335 
[1] "1.0 - 51.1 (13.3)" "1.1 - 98.8 (13.3)"
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"TPTE WILD-TYPE"   "TPTE MUTATED" "TPTE WILD-TYPE" "TPTE WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"TPTE WILD-TYPE" "TPTE WILD-TYPE" "TPTE WILD-TYPE" "TPTE WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"TPTE WILD-TYPE" "TPTE WILD-TYPE" "TPTE WILD-TYPE"   "TPTE MUTATED" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
  "TPTE MUTATED" "TPTE WILD-TYPE" "TPTE WILD-TYPE"   "TPTE MUTATED" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
  "TPTE MUTATED"   "TPTE MUTATED" "TPTE WILD-TYPE" "TPTE WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
"TPTE WILD-TYPE" "TPTE WILD-TYPE" "TPTE WILD-TYPE" "TPTE WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"TPTE WILD-TYPE" "TPTE WILD-TYPE" "TPTE WILD-TYPE" "TPTE WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"TPTE WILD-TYPE"   "TPTE MUTATED"   "TPTE MUTATED" "TPTE WILD-TYPE" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
"TPTE WILD-TYPE"   "TPTE MUTATED"   "TPTE MUTATED"   "TPTE MUTATED" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
"TPTE WILD-TYPE" "TPTE WILD-TYPE" "TPTE WILD-TYPE"   "TPTE MUTATED" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"TPTE WILD-TYPE" "TPTE WILD-TYPE" "TPTE WILD-TYPE" "TPTE WILD-TYPE" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
"TPTE WILD-TYPE" "TPTE WILD-TYPE" "TPTE WILD-TYPE" "TPTE WILD-TYPE" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"TPTE WILD-TYPE"   "TPTE MUTATED" "TPTE WILD-TYPE" "TPTE WILD-TYPE" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"TPTE WILD-TYPE" "TPTE WILD-TYPE" "TPTE WILD-TYPE" 
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"TPTE WILD-TYPE"   "TPTE MUTATED" "TPTE WILD-TYPE" "TPTE WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"TPTE WILD-TYPE" "TPTE WILD-TYPE" "TPTE WILD-TYPE" "TPTE WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"TPTE WILD-TYPE" "TPTE WILD-TYPE" "TPTE WILD-TYPE"   "TPTE MUTATED" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
  "TPTE MUTATED" "TPTE WILD-TYPE" "TPTE WILD-TYPE"   "TPTE MUTATED" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
  "TPTE MUTATED"   "TPTE MUTATED" "TPTE WILD-TYPE" "TPTE WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
"TPTE WILD-TYPE" "TPTE WILD-TYPE" "TPTE WILD-TYPE" "TPTE WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"TPTE WILD-TYPE" "TPTE WILD-TYPE" "TPTE WILD-TYPE" "TPTE WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"TPTE WILD-TYPE"   "TPTE MUTATED"   "TPTE MUTATED" "TPTE WILD-TYPE" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
"TPTE WILD-TYPE"   "TPTE MUTATED"   "TPTE MUTATED"   "TPTE MUTATED" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
"TPTE WILD-TYPE" "TPTE WILD-TYPE" "TPTE WILD-TYPE"   "TPTE MUTATED" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"TPTE WILD-TYPE" "TPTE WILD-TYPE" "TPTE WILD-TYPE" "TPTE WILD-TYPE" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
"TPTE WILD-TYPE" "TPTE WILD-TYPE" "TPTE WILD-TYPE" "TPTE WILD-TYPE" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"TPTE WILD-TYPE"   "TPTE MUTATED" "TPTE WILD-TYPE" "TPTE WILD-TYPE" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"TPTE WILD-TYPE" "TPTE WILD-TYPE" "TPTE WILD-TYPE" 
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"TPTE WILD-TYPE"   "TPTE MUTATED" "TPTE WILD-TYPE" "TPTE WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"TPTE WILD-TYPE" "TPTE WILD-TYPE" "TPTE WILD-TYPE" "TPTE WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"TPTE WILD-TYPE" "TPTE WILD-TYPE" "TPTE WILD-TYPE"   "TPTE MUTATED" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
  "TPTE MUTATED" "TPTE WILD-TYPE" "TPTE WILD-TYPE"   "TPTE MUTATED" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
  "TPTE MUTATED"   "TPTE MUTATED" "TPTE WILD-TYPE" "TPTE WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
"TPTE WILD-TYPE" "TPTE WILD-TYPE" "TPTE WILD-TYPE" "TPTE WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"TPTE WILD-TYPE" "TPTE WILD-TYPE" "TPTE WILD-TYPE" "TPTE WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"TPTE WILD-TYPE"   "TPTE MUTATED"   "TPTE MUTATED" "TPTE WILD-TYPE" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
"TPTE WILD-TYPE"   "TPTE MUTATED"   "TPTE MUTATED"   "TPTE MUTATED" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
"TPTE WILD-TYPE" "TPTE WILD-TYPE" "TPTE WILD-TYPE"   "TPTE MUTATED" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"TPTE WILD-TYPE" "TPTE WILD-TYPE" "TPTE WILD-TYPE" "TPTE WILD-TYPE" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
"TPTE WILD-TYPE" "TPTE WILD-TYPE" "TPTE WILD-TYPE" "TPTE WILD-TYPE" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"TPTE WILD-TYPE"   "TPTE MUTATED" "TPTE WILD-TYPE" "TPTE WILD-TYPE" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"TPTE WILD-TYPE" "TPTE WILD-TYPE" "TPTE WILD-TYPE" 
[1] "hr=" "1.2"
D8V2, continuous
D8V3, binary
                cls
clus              0  1
  TPTE MUTATED    9 20
  TPTE WILD-TYPE 22 54
[1] "tbl2"
                cls
clus             [,1] [,2]
  TPTE MUTATED      9   20
  TPTE WILD-TYPE   22   54
        clus
vv       TPTE MUTATED TPTE WILD-TYPE
  FEMALE            9             22
  MALE             20             54
                vv
clus             M0 M1 M1B M1C
  TPTE MUTATED   28  0   0   0
  TPTE WILD-TYPE 63  1   2   1
D8V4, multiclass
     clus
vv    TPTE MUTATED TPTE WILD-TYPE
  M0            28             63
  M1             0              1
  M1B            0              2
  M1C            0              1
                vv
clus             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  TPTE MUTATED   18  0   1   3  1   1   1   0  3  0
  TPTE WILD-TYPE 40  1   2   6  0   2   6   1  9  1
D8V5, multiclass
D8V6, continuous
                vv
clus             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  TPTE MUTATED             1       5        2        2        5         1
  TPTE WILD-TYPE           0       9        5        8        7         4
                vv
clus             STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC
  TPTE MUTATED           0         1         2          0          3          4
  TPTE WILD-TYPE         5         1         1          3          7         12
                vv
clus             STAGE IV
  TPTE MUTATED          0
  TPTE WILD-TYPE        3
D8V7, multiclass

Clustering(9) Variable = PRB4 MUTATION ANALYSIS
D9V1, survival
                sevent
clus2             0  1
  PRB4 MUTATED    6  3
  PRB4 WILD-TYPE 17 29
  PRB4 MUTATED PRB4 WILD-TYPE 
             9             46 
  PRB4 MUTATED PRB4 WILD-TYPE 
             3             29 
$`PRB4 MUTATED`
TCGA-DA-A3F8 TCGA-EE-A181 TCGA-EE-A29D TCGA-EE-A29P TCGA-EE-A2A1 TCGA-ER-A19F 
       14.83         1.12        11.15        12.03        25.28        11.11 
TCGA-ER-A19N TCGA-FW-A3R5 TCGA-GN-A265 
       42.84         1.02        84.72 

$`PRB4 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
       24.00         4.01         2.86        48.79        35.80        51.12 
TCGA-DA-A1I2 TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-EE-A17X TCGA-EE-A17Z 
       13.68        22.36         7.00        17.56        11.57         6.31 
TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29E TCGA-EE-A29H 
       12.20         4.27         5.13        37.97        38.63         4.41 
TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A0 
        1.08         9.47         8.84         9.99         8.09        11.31 
TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A1A1 
       23.90         8.94         4.18        12.99        28.64        78.44 
TCGA-GN-A264 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
       31.33        16.21        15.39        14.70 

  PRB4 MUTATED PRB4 WILD-TYPE 
          1.02           1.08 
  PRB4 MUTATED PRB4 WILD-TYPE 
         84.72          98.76 
  PRB4 MUTATED PRB4 WILD-TYPE 
         12.03          13.50 
[1] "1.0 - 84.7 (12.0)" "1.1 - 98.8 (13.5)"
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
"PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
"PRB4 WILD-TYPE" "PRB4 WILD-TYPE"   "PRB4 MUTATED" "PRB4 WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"PRB4 WILD-TYPE"   "PRB4 MUTATED" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"PRB4 WILD-TYPE" "PRB4 WILD-TYPE"   "PRB4 MUTATED" "PRB4 WILD-TYPE" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
"PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE"   "PRB4 MUTATED" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
"PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
  "PRB4 MUTATED" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE"   "PRB4 MUTATED" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
"PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE"   "PRB4 MUTATED" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"PRB4 WILD-TYPE"   "PRB4 MUTATED" "PRB4 WILD-TYPE"   "PRB4 MUTATED" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE" 
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
"PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
"PRB4 WILD-TYPE" "PRB4 WILD-TYPE"   "PRB4 MUTATED" "PRB4 WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"PRB4 WILD-TYPE"   "PRB4 MUTATED" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"PRB4 WILD-TYPE" "PRB4 WILD-TYPE"   "PRB4 MUTATED" "PRB4 WILD-TYPE" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
"PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE"   "PRB4 MUTATED" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
"PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
  "PRB4 MUTATED" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE"   "PRB4 MUTATED" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
"PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE"   "PRB4 MUTATED" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"PRB4 WILD-TYPE"   "PRB4 MUTATED" "PRB4 WILD-TYPE"   "PRB4 MUTATED" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE" 
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
"PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
"PRB4 WILD-TYPE" "PRB4 WILD-TYPE"   "PRB4 MUTATED" "PRB4 WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"PRB4 WILD-TYPE"   "PRB4 MUTATED" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"PRB4 WILD-TYPE" "PRB4 WILD-TYPE"   "PRB4 MUTATED" "PRB4 WILD-TYPE" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
"PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE"   "PRB4 MUTATED" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
"PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
  "PRB4 MUTATED" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE"   "PRB4 MUTATED" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
"PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE"   "PRB4 MUTATED" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"PRB4 WILD-TYPE"   "PRB4 MUTATED" "PRB4 WILD-TYPE"   "PRB4 MUTATED" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"PRB4 WILD-TYPE" "PRB4 WILD-TYPE" "PRB4 WILD-TYPE" 
[1] "hr=" "1.8"
D9V2, continuous
D9V3, binary
                cls
clus              0  1
  PRB4 MUTATED    2 13
  PRB4 WILD-TYPE 29 61
[1] "tbl2"
                cls
clus             [,1] [,2]
  PRB4 MUTATED      2   13
  PRB4 WILD-TYPE   29   61
        clus
vv       PRB4 MUTATED PRB4 WILD-TYPE
  FEMALE            2             29
  MALE             13             61
                vv
clus             M0 M1 M1B M1C
  PRB4 MUTATED   13  0   0   0
  PRB4 WILD-TYPE 78  1   2   1
D9V4, multiclass
     clus
vv    PRB4 MUTATED PRB4 WILD-TYPE
  M0            13             78
  M1             0              1
  M1B            0              2
  M1C            0              1
                vv
clus             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  PRB4 MUTATED   10  0   0   1  1   0   1   0  0  0
  PRB4 WILD-TYPE 48  1   3   8  0   3   6   1 12  1
D9V5, multiclass
D9V6, continuous
                vv
clus             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  PRB4 MUTATED             0       3        1        1        2         0
  PRB4 WILD-TYPE           1      11        6        9       10         5
                vv
clus             STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC
  PRB4 MUTATED           1         1         1          0          1          1
  PRB4 WILD-TYPE         4         1         2          3          9         15
                vv
clus             STAGE IV
  PRB4 MUTATED          0
  PRB4 WILD-TYPE        3
D9V7, multiclass

Clustering(10) Variable = CDH9 MUTATION ANALYSIS
D10V1, survival
                sevent
clus2             0  1
  CDH9 MUTATED    5  6
  CDH9 WILD-TYPE 18 26
  CDH9 MUTATED CDH9 WILD-TYPE 
            11             44 
  CDH9 MUTATED CDH9 WILD-TYPE 
             6             26 
$`CDH9 MUTATED`
TCGA-DA-A3F5 TCGA-EE-A17X TCGA-EE-A181 TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29L 
       17.56        11.57         1.12        11.15        38.63         1.08 
TCGA-EE-A2A0 TCGA-EE-A2A6 TCGA-ER-A19N TCGA-FW-A3R5 TCGA-GN-A268 
       11.31         8.94        42.84         1.02        15.39 

$`CDH9 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
       24.00         4.01         2.86        48.79        35.80        51.12 
TCGA-DA-A1I2 TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F8 TCGA-EE-A17Z TCGA-EE-A183 
       13.68        22.36         7.00        14.83         6.31        12.20 
TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29H TCGA-EE-A29N TCGA-EE-A29P 
        4.27         5.13        37.97         4.41         9.47        12.03 
TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-ER-A19F 
        8.84         9.99         8.09        25.28        23.90        11.11 
TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A1A1 TCGA-GN-A264 TCGA-GN-A265 
        4.18        12.99        28.64        78.44        31.33        84.72 
TCGA-GN-A267 TCGA-GN-A26D 
       16.21        14.70 

  CDH9 MUTATED CDH9 WILD-TYPE 
          1.02           2.86 
  CDH9 MUTATED CDH9 WILD-TYPE 
         42.84          98.76 
  CDH9 MUTATED CDH9 WILD-TYPE 
         11.31          14.19 
[1] "1.0 - 42.8 (11.3)" "2.9 - 98.8 (14.2)"
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"CDH9 WILD-TYPE" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"CDH9 WILD-TYPE" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"CDH9 WILD-TYPE" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"CDH9 WILD-TYPE" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
"CDH9 WILD-TYPE" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
"CDH9 WILD-TYPE"   "CDH9 MUTATED" "CDH9 WILD-TYPE"   "CDH9 MUTATED" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"CDH9 WILD-TYPE"   "CDH9 MUTATED" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"CDH9 WILD-TYPE" "CDH9 WILD-TYPE"   "CDH9 MUTATED"   "CDH9 MUTATED" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
"CDH9 WILD-TYPE"   "CDH9 MUTATED" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
"CDH9 WILD-TYPE" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE"   "CDH9 MUTATED" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"CDH9 WILD-TYPE" "CDH9 WILD-TYPE"   "CDH9 MUTATED" "CDH9 WILD-TYPE" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
"CDH9 WILD-TYPE" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE"   "CDH9 MUTATED" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"CDH9 WILD-TYPE"   "CDH9 MUTATED" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"CDH9 WILD-TYPE"   "CDH9 MUTATED" "CDH9 WILD-TYPE" 
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"CDH9 WILD-TYPE" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"CDH9 WILD-TYPE" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"CDH9 WILD-TYPE" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"CDH9 WILD-TYPE" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
"CDH9 WILD-TYPE" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
"CDH9 WILD-TYPE"   "CDH9 MUTATED" "CDH9 WILD-TYPE"   "CDH9 MUTATED" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"CDH9 WILD-TYPE"   "CDH9 MUTATED" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"CDH9 WILD-TYPE" "CDH9 WILD-TYPE"   "CDH9 MUTATED"   "CDH9 MUTATED" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
"CDH9 WILD-TYPE"   "CDH9 MUTATED" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
"CDH9 WILD-TYPE" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE"   "CDH9 MUTATED" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"CDH9 WILD-TYPE" "CDH9 WILD-TYPE"   "CDH9 MUTATED" "CDH9 WILD-TYPE" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
"CDH9 WILD-TYPE" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE"   "CDH9 MUTATED" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"CDH9 WILD-TYPE"   "CDH9 MUTATED" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"CDH9 WILD-TYPE"   "CDH9 MUTATED" "CDH9 WILD-TYPE" 
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"CDH9 WILD-TYPE" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"CDH9 WILD-TYPE" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"CDH9 WILD-TYPE" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"CDH9 WILD-TYPE" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
"CDH9 WILD-TYPE" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
"CDH9 WILD-TYPE"   "CDH9 MUTATED" "CDH9 WILD-TYPE"   "CDH9 MUTATED" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"CDH9 WILD-TYPE"   "CDH9 MUTATED" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"CDH9 WILD-TYPE" "CDH9 WILD-TYPE"   "CDH9 MUTATED"   "CDH9 MUTATED" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
"CDH9 WILD-TYPE"   "CDH9 MUTATED" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
"CDH9 WILD-TYPE" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE"   "CDH9 MUTATED" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"CDH9 WILD-TYPE" "CDH9 WILD-TYPE"   "CDH9 MUTATED" "CDH9 WILD-TYPE" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
"CDH9 WILD-TYPE" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE"   "CDH9 MUTATED" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"CDH9 WILD-TYPE"   "CDH9 MUTATED" "CDH9 WILD-TYPE" "CDH9 WILD-TYPE" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"CDH9 WILD-TYPE"   "CDH9 MUTATED" "CDH9 WILD-TYPE" 
[1] "hr=" "1.2"
D10V2, continuous
D10V3, binary
                cls
clus              0  1
  CDH9 MUTATED    6 16
  CDH9 WILD-TYPE 25 58
[1] "tbl2"
                cls
clus             [,1] [,2]
  CDH9 MUTATED      6   16
  CDH9 WILD-TYPE   25   58
        clus
vv       CDH9 MUTATED CDH9 WILD-TYPE
  FEMALE            6             25
  MALE             16             58
                vv
clus             M0 M1 M1B M1C
  CDH9 MUTATED   21  0   0   0
  CDH9 WILD-TYPE 70  1   2   1
D10V4, multiclass
     clus
vv    CDH9 MUTATED CDH9 WILD-TYPE
  M0            21             70
  M1             0              1
  M1B            0              2
  M1C            0              1
                vv
clus             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  CDH9 MUTATED   15  0   0   2  1   1   0   0  2  0
  CDH9 WILD-TYPE 43  1   3   7  0   2   7   1 10  1
D10V5, multiclass
D10V6, continuous
                vv
clus             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  CDH9 MUTATED             0       4        4        0        3         2
  CDH9 WILD-TYPE           1      10        3       10        9         3
                vv
clus             STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC
  CDH9 MUTATED           2         0         1          0          1          3
  CDH9 WILD-TYPE         3         2         2          3          9         13
                vv
clus             STAGE IV
  CDH9 MUTATED          0
  CDH9 WILD-TYPE        3
D10V7, multiclass

Clustering(11) Variable = SERPINB4 MUTATION ANALYSIS
D11V1, survival
                    sevent
clus2                 0  1
  SERPINB4 MUTATED    6  4
  SERPINB4 WILD-TYPE 17 28
  SERPINB4 MUTATED SERPINB4 WILD-TYPE 
                10                 45 
  SERPINB4 MUTATED SERPINB4 WILD-TYPE 
                 4                 28 
$`SERPINB4 MUTATED`
TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A181 TCGA-EE-A29E TCGA-EE-A29R TCGA-EE-A29S 
       14.83        11.57         1.12        38.63         8.84         9.99 
TCGA-ER-A19M TCGA-ER-A1A1 TCGA-FW-A3R5 TCGA-GN-A267 
       28.64        78.44         1.02        16.21 

$`SERPINB4 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
       24.00         4.01         2.86        48.79        35.80        51.12 
TCGA-DA-A1I2 TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-EE-A17Z TCGA-EE-A183 
       13.68        22.36         7.00        17.56         6.31        12.20 
TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29H TCGA-EE-A29L 
        4.27         5.13        37.97        11.15         4.41         1.08 
TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 
        9.47        12.03         8.09        11.31        25.28        23.90 
TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19N TCGA-GN-A264 
        8.94        11.11         4.18        12.99        42.84        31.33 
TCGA-GN-A265 TCGA-GN-A268 TCGA-GN-A26D 
       84.72        15.39        14.70 

  SERPINB4 MUTATED SERPINB4 WILD-TYPE 
              1.02               1.08 
  SERPINB4 MUTATED SERPINB4 WILD-TYPE 
             78.44              98.76 
  SERPINB4 MUTATED SERPINB4 WILD-TYPE 
             13.20              13.32 
[1] "1.0 - 78.4 (13.2)" "1.1 - 98.8 (13.3)"
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q7 
"SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" 
        TCGA-D3-A1Q8         TCGA-D3-A1Q9         TCGA-D3-A2J6 
"SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" 
        TCGA-D3-A2J8         TCGA-D3-A2J9         TCGA-D3-A2JD 
"SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" 
        TCGA-D3-A2JK         TCGA-D3-A3C6         TCGA-D3-A3CE 
"SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" 
        TCGA-D3-A3CF         TCGA-D9-A3Z1         TCGA-D9-A3Z3 
"SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" 
        TCGA-DA-A1HV         TCGA-DA-A1HW         TCGA-DA-A1HY 
"SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" 
        TCGA-DA-A1I2         TCGA-DA-A1IB         TCGA-DA-A3F3 
"SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"SERPINB4 WILD-TYPE"   "SERPINB4 MUTATED"   "SERPINB4 MUTATED" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"SERPINB4 WILD-TYPE"   "SERPINB4 MUTATED" "SERPINB4 WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20F         TCGA-EE-A29C 
"SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" 
        TCGA-EE-A29D         TCGA-EE-A29E         TCGA-EE-A29H 
"SERPINB4 WILD-TYPE"   "SERPINB4 MUTATED" "SERPINB4 WILD-TYPE" 
        TCGA-EE-A29L         TCGA-EE-A29N         TCGA-EE-A29P 
"SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" 
        TCGA-EE-A29R         TCGA-EE-A29S         TCGA-EE-A29X 
  "SERPINB4 MUTATED"   "SERPINB4 MUTATED" "SERPINB4 WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" 
        TCGA-EE-A2A6         TCGA-ER-A19F         TCGA-ER-A19J 
"SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"SERPINB4 WILD-TYPE"   "SERPINB4 MUTATED" "SERPINB4 WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-FW-A3R5         TCGA-GN-A264 
  "SERPINB4 MUTATED"   "SERPINB4 MUTATED" "SERPINB4 WILD-TYPE" 
        TCGA-GN-A265         TCGA-GN-A267         TCGA-GN-A268 
"SERPINB4 WILD-TYPE"   "SERPINB4 MUTATED" "SERPINB4 WILD-TYPE" 
        TCGA-GN-A26D 
"SERPINB4 WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q7 
"SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" 
        TCGA-D3-A1Q8         TCGA-D3-A1Q9         TCGA-D3-A2J6 
"SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" 
        TCGA-D3-A2J8         TCGA-D3-A2J9         TCGA-D3-A2JD 
"SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" 
        TCGA-D3-A2JK         TCGA-D3-A3C6         TCGA-D3-A3CE 
"SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" 
        TCGA-D3-A3CF         TCGA-D9-A3Z1         TCGA-D9-A3Z3 
"SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" 
        TCGA-DA-A1HV         TCGA-DA-A1HW         TCGA-DA-A1HY 
"SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" 
        TCGA-DA-A1I2         TCGA-DA-A1IB         TCGA-DA-A3F3 
"SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"SERPINB4 WILD-TYPE"   "SERPINB4 MUTATED"   "SERPINB4 MUTATED" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"SERPINB4 WILD-TYPE"   "SERPINB4 MUTATED" "SERPINB4 WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20F         TCGA-EE-A29C 
"SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" 
        TCGA-EE-A29D         TCGA-EE-A29E         TCGA-EE-A29H 
"SERPINB4 WILD-TYPE"   "SERPINB4 MUTATED" "SERPINB4 WILD-TYPE" 
        TCGA-EE-A29L         TCGA-EE-A29N         TCGA-EE-A29P 
"SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" 
        TCGA-EE-A29R         TCGA-EE-A29S         TCGA-EE-A29X 
  "SERPINB4 MUTATED"   "SERPINB4 MUTATED" "SERPINB4 WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" 
        TCGA-EE-A2A6         TCGA-ER-A19F         TCGA-ER-A19J 
"SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"SERPINB4 WILD-TYPE"   "SERPINB4 MUTATED" "SERPINB4 WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-FW-A3R5         TCGA-GN-A264 
  "SERPINB4 MUTATED"   "SERPINB4 MUTATED" "SERPINB4 WILD-TYPE" 
        TCGA-GN-A265         TCGA-GN-A267         TCGA-GN-A268 
"SERPINB4 WILD-TYPE"   "SERPINB4 MUTATED" "SERPINB4 WILD-TYPE" 
        TCGA-GN-A26D 
"SERPINB4 WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q7 
"SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" 
        TCGA-D3-A1Q8         TCGA-D3-A1Q9         TCGA-D3-A2J6 
"SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" 
        TCGA-D3-A2J8         TCGA-D3-A2J9         TCGA-D3-A2JD 
"SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" 
        TCGA-D3-A2JK         TCGA-D3-A3C6         TCGA-D3-A3CE 
"SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" 
        TCGA-D3-A3CF         TCGA-D9-A3Z1         TCGA-D9-A3Z3 
"SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" 
        TCGA-DA-A1HV         TCGA-DA-A1HW         TCGA-DA-A1HY 
"SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" 
        TCGA-DA-A1I2         TCGA-DA-A1IB         TCGA-DA-A3F3 
"SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"SERPINB4 WILD-TYPE"   "SERPINB4 MUTATED"   "SERPINB4 MUTATED" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"SERPINB4 WILD-TYPE"   "SERPINB4 MUTATED" "SERPINB4 WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20F         TCGA-EE-A29C 
"SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" 
        TCGA-EE-A29D         TCGA-EE-A29E         TCGA-EE-A29H 
"SERPINB4 WILD-TYPE"   "SERPINB4 MUTATED" "SERPINB4 WILD-TYPE" 
        TCGA-EE-A29L         TCGA-EE-A29N         TCGA-EE-A29P 
"SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" 
        TCGA-EE-A29R         TCGA-EE-A29S         TCGA-EE-A29X 
  "SERPINB4 MUTATED"   "SERPINB4 MUTATED" "SERPINB4 WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" 
        TCGA-EE-A2A6         TCGA-ER-A19F         TCGA-ER-A19J 
"SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" "SERPINB4 WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"SERPINB4 WILD-TYPE"   "SERPINB4 MUTATED" "SERPINB4 WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-FW-A3R5         TCGA-GN-A264 
  "SERPINB4 MUTATED"   "SERPINB4 MUTATED" "SERPINB4 WILD-TYPE" 
        TCGA-GN-A265         TCGA-GN-A267         TCGA-GN-A268 
"SERPINB4 WILD-TYPE"   "SERPINB4 MUTATED" "SERPINB4 WILD-TYPE" 
        TCGA-GN-A26D 
"SERPINB4 WILD-TYPE" 
[1] "hr=" "1.5"
D11V2, continuous
D11V3, binary
                    cls
clus                  0  1
  SERPINB4 MUTATED    2 15
  SERPINB4 WILD-TYPE 29 59
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  SERPINB4 MUTATED      2   15
  SERPINB4 WILD-TYPE   29   59
        clus
vv       SERPINB4 MUTATED SERPINB4 WILD-TYPE
  FEMALE                2                 29
  MALE                 15                 59
                    vv
clus                 M0 M1 M1B M1C
  SERPINB4 MUTATED   17  0   0   0
  SERPINB4 WILD-TYPE 74  1   2   1
D11V4, multiclass
     clus
vv    SERPINB4 MUTATED SERPINB4 WILD-TYPE
  M0                17                 74
  M1                 0                  1
  M1B                0                  2
  M1C                0                  1
                    vv
clus                 N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  SERPINB4 MUTATED   10  0   2   2  1   0   1   0  1  0
  SERPINB4 WILD-TYPE 48  1   1   7  0   3   6   1 11  1
D11V5, multiclass
D11V6, continuous
                    vv
clus                 I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  SERPINB4 MUTATED             0       2        2        1        3         1
  SERPINB4 WILD-TYPE           1      12        5        9        9         4
                    vv
clus                 STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  SERPINB4 MUTATED           1         0         1          2          2
  SERPINB4 WILD-TYPE         4         2         2          1          8
                    vv
clus                 STAGE IIIC STAGE IV
  SERPINB4 MUTATED            2        0
  SERPINB4 WILD-TYPE         14        3
D11V7, multiclass

Clustering(12) Variable = PRB2 MUTATION ANALYSIS
D12V1, survival
                sevent
clus2             0  1
  PRB2 MUTATED    4  5
  PRB2 WILD-TYPE 19 27
  PRB2 MUTATED PRB2 WILD-TYPE 
             9             46 
  PRB2 MUTATED PRB2 WILD-TYPE 
             5             27 
$`PRB2 MUTATED`
TCGA-D9-A3Z1 TCGA-DA-A3F3 TCGA-EE-A181 TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29N 
        4.01         7.00         1.12        11.15        38.63         9.47 
TCGA-EE-A29S TCGA-EE-A2A0 TCGA-FW-A3R5 
        9.99        11.31         1.02 

$`PRB2 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I2 
       24.00         2.86        48.79        35.80        51.12        13.68 
TCGA-DA-A1IB TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A183 
       22.36        17.56        14.83        11.57         6.31        12.20 
TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29P 
        4.27         5.13        37.97         4.41         1.08        12.03 
TCGA-EE-A29R TCGA-EE-A29X TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19F 
        8.84         8.09        25.28        23.90         8.94        11.11 
TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-GN-A264 
        4.18        12.99        28.64        42.84        78.44        31.33 
TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
       84.72        16.21        15.39        14.70 

  PRB2 MUTATED PRB2 WILD-TYPE 
          1.02           1.08 
  PRB2 MUTATED PRB2 WILD-TYPE 
         38.63          98.76 
  PRB2 MUTATED PRB2 WILD-TYPE 
          9.47          15.04 
[1] "1.0 - 38.6 (9.5)"  "1.1 - 98.8 (15.0)"
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"PRB2 WILD-TYPE"   "PRB2 MUTATED" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
  "PRB2 MUTATED" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"PRB2 WILD-TYPE"   "PRB2 MUTATED" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE"   "PRB2 MUTATED"   "PRB2 MUTATED" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE"   "PRB2 MUTATED" "PRB2 WILD-TYPE" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
"PRB2 WILD-TYPE"   "PRB2 MUTATED" "PRB2 WILD-TYPE"   "PRB2 MUTATED" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"PRB2 WILD-TYPE"   "PRB2 MUTATED" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"PRB2 WILD-TYPE"   "PRB2 MUTATED" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
  "PRB2 MUTATED" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"PRB2 WILD-TYPE"   "PRB2 MUTATED" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE"   "PRB2 MUTATED"   "PRB2 MUTATED" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE"   "PRB2 MUTATED" "PRB2 WILD-TYPE" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
"PRB2 WILD-TYPE"   "PRB2 MUTATED" "PRB2 WILD-TYPE"   "PRB2 MUTATED" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"PRB2 WILD-TYPE"   "PRB2 MUTATED" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"PRB2 WILD-TYPE"   "PRB2 MUTATED" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
  "PRB2 MUTATED" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"PRB2 WILD-TYPE"   "PRB2 MUTATED" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE"   "PRB2 MUTATED"   "PRB2 MUTATED" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE"   "PRB2 MUTATED" "PRB2 WILD-TYPE" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
"PRB2 WILD-TYPE"   "PRB2 MUTATED" "PRB2 WILD-TYPE"   "PRB2 MUTATED" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"PRB2 WILD-TYPE"   "PRB2 MUTATED" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
[1] "hr=" "2.1"
D12V2, continuous
D12V3, binary
                cls
clus              0  1
  PRB2 MUTATED    3 16
  PRB2 WILD-TYPE 28 58
[1] "tbl2"
                cls
clus             [,1] [,2]
  PRB2 MUTATED      3   16
  PRB2 WILD-TYPE   28   58
        clus
vv       PRB2 MUTATED PRB2 WILD-TYPE
  FEMALE            3             28
  MALE             16             58
                vv
clus             M0 M1 M1B M1C
  PRB2 MUTATED   17  0   0   0
  PRB2 WILD-TYPE 74  1   2   1
D12V4, multiclass
     clus
vv    PRB2 MUTATED PRB2 WILD-TYPE
  M0            17             74
  M1             0              1
  M1B            0              2
  M1C            0              1
                vv
clus             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  PRB2 MUTATED   11  0   0   2  1   1   1   0  1  0
  PRB2 WILD-TYPE 47  1   3   7  0   2   6   1 11  1
D12V5, multiclass
D12V6, continuous
                vv
clus             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  PRB2 MUTATED             0       1        3        0        3         2
  PRB2 WILD-TYPE           1      13        4       10        9         3
                vv
clus             STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC
  PRB2 MUTATED           1         0         1          0          2          2
  PRB2 WILD-TYPE         4         2         2          3          8         14
                vv
clus             STAGE IV
  PRB2 MUTATED          0
  PRB2 WILD-TYPE        3
D12V7, multiclass

Clustering(13) Variable = TCEB3C MUTATION ANALYSIS
D13V1, survival
                  sevent
clus2               0  1
  TCEB3C MUTATED    3  4
  TCEB3C WILD-TYPE 20 28
  TCEB3C MUTATED TCEB3C WILD-TYPE 
               7               48 
  TCEB3C MUTATED TCEB3C WILD-TYPE 
               4               28 
$`TCEB3C MUTATED`
TCGA-D3-A2JK TCGA-EE-A181 TCGA-EE-A29E TCGA-EE-A29L TCGA-EE-A29S TCGA-EE-A2A2 
        6.35         1.12        38.63         1.08         9.99        23.90 
TCGA-ER-A19F 
       11.11 

$`TCEB3C WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A3C6 TCGA-D3-A3CE TCGA-D3-A3CF 
        8.38        21.14        11.41        15.25        13.32        24.00 
TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I2 
        4.01         2.86        48.79        35.80        51.12        13.68 
TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z 
       22.36         7.00        17.56        14.83        11.57         6.31 
TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29H 
       12.20         4.27         5.13        37.97        11.15         4.41 
TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 
        9.47        12.03         8.84         8.09        11.31        25.28 
TCGA-EE-A2A6 TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 
        8.94         4.18        12.99        28.64        42.84        78.44 
TCGA-FW-A3R5 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
        1.02        31.33        84.72        16.21        15.39        14.70 

  TCEB3C MUTATED TCEB3C WILD-TYPE 
            1.08             1.02 
  TCEB3C MUTATED TCEB3C WILD-TYPE 
           38.63            98.76 
  TCEB3C MUTATED TCEB3C WILD-TYPE 
            9.99            14.19 
[1] "1.1 - 38.6 (10.0)" "1.0 - 98.8 (14.2)"
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
"TCEB3C WILD-TYPE"   "TCEB3C MUTATED" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"TCEB3C WILD-TYPE"   "TCEB3C MUTATED" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
"TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE"   "TCEB3C MUTATED" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"TCEB3C WILD-TYPE"   "TCEB3C MUTATED" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
"TCEB3C WILD-TYPE"   "TCEB3C MUTATED" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"TCEB3C WILD-TYPE"   "TCEB3C MUTATED" "TCEB3C WILD-TYPE"   "TCEB3C MUTATED" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
"TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
"TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" 
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
"TCEB3C WILD-TYPE"   "TCEB3C MUTATED" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"TCEB3C WILD-TYPE"   "TCEB3C MUTATED" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
"TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE"   "TCEB3C MUTATED" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"TCEB3C WILD-TYPE"   "TCEB3C MUTATED" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
"TCEB3C WILD-TYPE"   "TCEB3C MUTATED" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"TCEB3C WILD-TYPE"   "TCEB3C MUTATED" "TCEB3C WILD-TYPE"   "TCEB3C MUTATED" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
"TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
"TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" 
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
"TCEB3C WILD-TYPE"   "TCEB3C MUTATED" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"TCEB3C WILD-TYPE"   "TCEB3C MUTATED" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
"TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE"   "TCEB3C MUTATED" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"TCEB3C WILD-TYPE"   "TCEB3C MUTATED" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
"TCEB3C WILD-TYPE"   "TCEB3C MUTATED" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"TCEB3C WILD-TYPE"   "TCEB3C MUTATED" "TCEB3C WILD-TYPE"   "TCEB3C MUTATED" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
"TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
"TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" "TCEB3C WILD-TYPE" 
[1] "hr=" "1.5"
D13V2, continuous
D13V3, binary
                  cls
clus                0  1
  TCEB3C MUTATED    2 12
  TCEB3C WILD-TYPE 29 62
[1] "tbl2"
                  cls
clus               [,1] [,2]
  TCEB3C MUTATED      2   12
  TCEB3C WILD-TYPE   29   62
        clus
vv       TCEB3C MUTATED TCEB3C WILD-TYPE
  FEMALE              2               29
  MALE               12               62
                  vv
clus               M0 M1 M1B M1C
  TCEB3C MUTATED   14  0   0   0
  TCEB3C WILD-TYPE 77  1   2   1
D13V4, multiclass
     clus
vv    TCEB3C MUTATED TCEB3C WILD-TYPE
  M0              14               77
  M1               0                1
  M1B              0                2
  M1C              0                1
                  vv
clus               N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  TCEB3C MUTATED    8  0   1   2  0   1   1   0  1  0
  TCEB3C WILD-TYPE 50  1   2   7  1   2   6   1 11  1
D13V5, multiclass
D13V6, continuous
                  vv
clus               I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  TCEB3C MUTATED             0       1        0        2        3         1
  TCEB3C WILD-TYPE           1      13        7        8        9         4
                  vv
clus               STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  TCEB3C MUTATED           0         0         0          1          2
  TCEB3C WILD-TYPE         5         2         3          2          8
                  vv
clus               STAGE IIIC STAGE IV
  TCEB3C MUTATED            2        0
  TCEB3C WILD-TYPE         14        3
D13V7, multiclass

Clustering(14) Variable = ADH1C MUTATION ANALYSIS
D14V1, survival
                 sevent
clus2              0  1
  ADH1C MUTATED    4  3
  ADH1C WILD-TYPE 19 29
  ADH1C MUTATED ADH1C WILD-TYPE 
              7              48 
  ADH1C MUTATED ADH1C WILD-TYPE 
              3              29 
$`ADH1C MUTATED`
TCGA-DA-A1HV TCGA-EE-A181 TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A2A2 TCGA-FW-A3R5 
       48.79         1.12        11.15        38.63        23.90         1.02 
TCGA-GN-A267 
       16.21 

$`ADH1C WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I2 
       24.00         4.01         2.86        35.80        51.12        13.68 
TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z 
       22.36         7.00        17.56        14.83        11.57         6.31 
TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29H TCGA-EE-A29L 
       12.20         4.27         5.13        37.97         4.41         1.08 
TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A0 
        9.47        12.03         8.84         9.99         8.09        11.31 
TCGA-EE-A2A1 TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M 
       25.28         8.94        11.11         4.18        12.99        28.64 
TCGA-ER-A19N TCGA-ER-A1A1 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A268 TCGA-GN-A26D 
       42.84        78.44        31.33        84.72        15.39        14.70 

  ADH1C MUTATED ADH1C WILD-TYPE 
           1.02            1.08 
  ADH1C MUTATED ADH1C WILD-TYPE 
          48.79           98.76 
  ADH1C MUTATED ADH1C WILD-TYPE 
         16.210          13.155 
[1] "1.0 - 48.8 (16.2)" "1.1 - 98.8 (13.2)"
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE"   "ADH1C MUTATED" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"ADH1C WILD-TYPE"   "ADH1C MUTATED" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"ADH1C WILD-TYPE" "ADH1C WILD-TYPE"   "ADH1C MUTATED"   "ADH1C MUTATED" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"ADH1C WILD-TYPE"   "ADH1C MUTATED" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"ADH1C WILD-TYPE"   "ADH1C MUTATED" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
  "ADH1C MUTATED" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE"   "ADH1C MUTATED" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"ADH1C WILD-TYPE"   "ADH1C MUTATED" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"ADH1C WILD-TYPE" "ADH1C WILD-TYPE"   "ADH1C MUTATED"   "ADH1C MUTATED" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"ADH1C WILD-TYPE"   "ADH1C MUTATED" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"ADH1C WILD-TYPE"   "ADH1C MUTATED" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
  "ADH1C MUTATED" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE"   "ADH1C MUTATED" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"ADH1C WILD-TYPE"   "ADH1C MUTATED" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"ADH1C WILD-TYPE" "ADH1C WILD-TYPE"   "ADH1C MUTATED"   "ADH1C MUTATED" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"ADH1C WILD-TYPE"   "ADH1C MUTATED" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"ADH1C WILD-TYPE"   "ADH1C MUTATED" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
  "ADH1C MUTATED" "ADH1C WILD-TYPE" "ADH1C WILD-TYPE" 
[1] "hr=" "1.6"
D14V2, continuous
D14V3, binary
                 cls
clus               0  1
  ADH1C MUTATED    4 13
  ADH1C WILD-TYPE 27 61
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ADH1C MUTATED      4   13
  ADH1C WILD-TYPE   27   61
        clus
vv       ADH1C MUTATED ADH1C WILD-TYPE
  FEMALE             4              27
  MALE              13              61
                 vv
clus              M0 M1 M1B M1C
  ADH1C MUTATED   16  0   0   0
  ADH1C WILD-TYPE 75  1   2   1
D14V4, multiclass
     clus
vv    ADH1C MUTATED ADH1C WILD-TYPE
  M0             16              75
  M1              0               1
  M1B             0               2
  M1C             0               1
                 vv
clus              N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  ADH1C MUTATED    8  0   2   3  1   1   1   0  0  0
  ADH1C WILD-TYPE 50  1   1   6  0   2   6   1 12  1
D14V5, multiclass
D14V6, continuous
                 vv
clus              I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  ADH1C MUTATED             0       2        0        1        3         2
  ADH1C WILD-TYPE           1      12        7        9        9         3
                 vv
clus              STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  ADH1C MUTATED           0         0         1          2          3
  ADH1C WILD-TYPE         5         2         2          1          7
                 vv
clus              STAGE IIIC STAGE IV
  ADH1C MUTATED            1        0
  ADH1C WILD-TYPE         15        3
D14V7, multiclass

Clustering(15) Variable = C15ORF23 MUTATION ANALYSIS
D15V1, survival
                    sevent
clus2                 0  1
  C15ORF23 MUTATED    1  2
  C15ORF23 WILD-TYPE 22 30
  C15ORF23 MUTATED C15ORF23 WILD-TYPE 
                 3                 52 
  C15ORF23 MUTATED C15ORF23 WILD-TYPE 
                 2                 30 
$`C15ORF23 MUTATED`
TCGA-D3-A2JD TCGA-EE-A181 TCGA-EE-A2A2 
       11.41         1.12        23.90 

$`C15ORF23 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE TCGA-D3-A3CF 
        8.38        21.14         6.35        15.25        13.32        24.00 
TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I2 
        4.01         2.86        48.79        35.80        51.12        13.68 
TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z 
       22.36         7.00        17.56        14.83        11.57         6.31 
TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E 
       12.20         4.27         5.13        37.97        11.15        38.63 
TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29S 
        4.41         1.08         9.47        12.03         8.84         9.99 
TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J 
        8.09        11.31        25.28         8.94        11.11         4.18 
TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-FW-A3R5 TCGA-GN-A264 
       12.99        28.64        42.84        78.44         1.02        31.33 
TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
       84.72        16.21        15.39        14.70 

  C15ORF23 MUTATED C15ORF23 WILD-TYPE 
              1.12               1.02 
  C15ORF23 MUTATED C15ORF23 WILD-TYPE 
             23.90              98.76 
  C15ORF23 MUTATED C15ORF23 WILD-TYPE 
             11.41              13.50 
[1] "1.1 - 23.9 (11.4)" "1.0 - 98.8 (13.5)"
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q7 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-D3-A1Q8         TCGA-D3-A1Q9         TCGA-D3-A2J6 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-D3-A2J8         TCGA-D3-A2J9         TCGA-D3-A2JD 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE"   "C15ORF23 MUTATED" 
        TCGA-D3-A2JK         TCGA-D3-A3C6         TCGA-D3-A3CE 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-D3-A3CF         TCGA-D9-A3Z1         TCGA-D9-A3Z3 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-DA-A1HV         TCGA-DA-A1HW         TCGA-DA-A1HY 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-DA-A1I2         TCGA-DA-A1IB         TCGA-DA-A3F3 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"C15ORF23 WILD-TYPE"   "C15ORF23 MUTATED" "C15ORF23 WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20F         TCGA-EE-A29C 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-EE-A29D         TCGA-EE-A29E         TCGA-EE-A29H 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-EE-A29L         TCGA-EE-A29N         TCGA-EE-A29P 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-EE-A29R         TCGA-EE-A29S         TCGA-EE-A29X 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE"   "C15ORF23 MUTATED" 
        TCGA-EE-A2A6         TCGA-ER-A19F         TCGA-ER-A19J 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-FW-A3R5         TCGA-GN-A264 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-GN-A265         TCGA-GN-A267         TCGA-GN-A268 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-GN-A26D 
"C15ORF23 WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q7 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-D3-A1Q8         TCGA-D3-A1Q9         TCGA-D3-A2J6 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-D3-A2J8         TCGA-D3-A2J9         TCGA-D3-A2JD 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE"   "C15ORF23 MUTATED" 
        TCGA-D3-A2JK         TCGA-D3-A3C6         TCGA-D3-A3CE 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-D3-A3CF         TCGA-D9-A3Z1         TCGA-D9-A3Z3 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-DA-A1HV         TCGA-DA-A1HW         TCGA-DA-A1HY 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-DA-A1I2         TCGA-DA-A1IB         TCGA-DA-A3F3 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"C15ORF23 WILD-TYPE"   "C15ORF23 MUTATED" "C15ORF23 WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20F         TCGA-EE-A29C 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-EE-A29D         TCGA-EE-A29E         TCGA-EE-A29H 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-EE-A29L         TCGA-EE-A29N         TCGA-EE-A29P 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-EE-A29R         TCGA-EE-A29S         TCGA-EE-A29X 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE"   "C15ORF23 MUTATED" 
        TCGA-EE-A2A6         TCGA-ER-A19F         TCGA-ER-A19J 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-FW-A3R5         TCGA-GN-A264 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-GN-A265         TCGA-GN-A267         TCGA-GN-A268 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-GN-A26D 
"C15ORF23 WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q7 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-D3-A1Q8         TCGA-D3-A1Q9         TCGA-D3-A2J6 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-D3-A2J8         TCGA-D3-A2J9         TCGA-D3-A2JD 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE"   "C15ORF23 MUTATED" 
        TCGA-D3-A2JK         TCGA-D3-A3C6         TCGA-D3-A3CE 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-D3-A3CF         TCGA-D9-A3Z1         TCGA-D9-A3Z3 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-DA-A1HV         TCGA-DA-A1HW         TCGA-DA-A1HY 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-DA-A1I2         TCGA-DA-A1IB         TCGA-DA-A3F3 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"C15ORF23 WILD-TYPE"   "C15ORF23 MUTATED" "C15ORF23 WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20F         TCGA-EE-A29C 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-EE-A29D         TCGA-EE-A29E         TCGA-EE-A29H 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-EE-A29L         TCGA-EE-A29N         TCGA-EE-A29P 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-EE-A29R         TCGA-EE-A29S         TCGA-EE-A29X 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE"   "C15ORF23 MUTATED" 
        TCGA-EE-A2A6         TCGA-ER-A19F         TCGA-ER-A19J 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-FW-A3R5         TCGA-GN-A264 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-GN-A265         TCGA-GN-A267         TCGA-GN-A268 
"C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" "C15ORF23 WILD-TYPE" 
        TCGA-GN-A26D 
"C15ORF23 WILD-TYPE" 
[1] "hr=" "1.7"
D15V2, continuous
D15V3, binary
                    cls
clus                  0  1
  C15ORF23 MUTATED    2  5
  C15ORF23 WILD-TYPE 29 69
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  C15ORF23 MUTATED      2    5
  C15ORF23 WILD-TYPE   29   69
        clus
vv       C15ORF23 MUTATED C15ORF23 WILD-TYPE
  FEMALE                2                 29
  MALE                  5                 69
                    vv
clus                 M0 M1 M1B M1C
  C15ORF23 MUTATED    7  0   0   0
  C15ORF23 WILD-TYPE 84  1   2   1
D15V4, multiclass
     clus
vv    C15ORF23 MUTATED C15ORF23 WILD-TYPE
  M0                 7                 84
  M1                 0                  1
  M1B                0                  2
  M1C                0                  1
                    vv
clus                 N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  C15ORF23 MUTATED    5  0   0   2  0   0   0   0  0  0
  C15ORF23 WILD-TYPE 53  1   3   7  1   3   7   1 12  1
D15V5, multiclass
D15V6, continuous
                    vv
clus                 I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  C15ORF23 MUTATED             0       2        0        0        2         0
  C15ORF23 WILD-TYPE           1      12        7       10       10         5
                    vv
clus                 STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  C15ORF23 MUTATED           1         0         0          0          1
  C15ORF23 WILD-TYPE         4         2         3          3          9
                    vv
clus                 STAGE IIIC STAGE IV
  C15ORF23 MUTATED            1        0
  C15ORF23 WILD-TYPE         15        3
D15V7, multiclass

Clustering(16) Variable = CCNE2 MUTATION ANALYSIS
D16V1, survival
                 sevent
clus2              0  1
  CCNE2 MUTATED    0  7
  CCNE2 WILD-TYPE 23 25
  CCNE2 MUTATED CCNE2 WILD-TYPE 
              7              48 
  CCNE2 MUTATED CCNE2 WILD-TYPE 
              7              25 
$`CCNE2 MUTATED`
TCGA-D3-A2J6 TCGA-D3-A2JD TCGA-D3-A3CE TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 
       10.26        11.41        13.32         6.31         1.12        12.20 
TCGA-EE-A29L 
        1.08 

$`CCNE2 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J8 
       16.47        32.55        98.76        28.08        22.55         8.38 
TCGA-D3-A2J9 TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 
       21.14         6.35        15.25        24.00         4.01         2.86 
TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I2 TCGA-DA-A1IB TCGA-DA-A3F3 
       48.79        35.80        51.12        13.68        22.36         7.00 
TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C 
       17.56        14.83        11.57         4.27         5.13        37.97 
TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R 
       11.15        38.63         4.41         9.47        12.03         8.84 
TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 
        9.99         8.09        11.31        25.28        23.90         8.94 
TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 
       11.11         4.18        12.99        28.64        42.84        78.44 
TCGA-FW-A3R5 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
        1.02        31.33        84.72        16.21        15.39        14.70 

  CCNE2 MUTATED CCNE2 WILD-TYPE 
           1.08            1.02 
  CCNE2 MUTATED CCNE2 WILD-TYPE 
          13.32           98.76 
  CCNE2 MUTATED CCNE2 WILD-TYPE 
          10.26           15.04 
[1] "1.1 - 13.3 (10.3)" "1.0 - 98.8 (15.0)"
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"CCNE2 WILD-TYPE"   "CCNE2 MUTATED" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
  "CCNE2 MUTATED" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE"   "CCNE2 MUTATED" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
  "CCNE2 MUTATED"   "CCNE2 MUTATED"   "CCNE2 MUTATED" "CCNE2 WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"CCNE2 WILD-TYPE"   "CCNE2 MUTATED" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"CCNE2 WILD-TYPE"   "CCNE2 MUTATED" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
  "CCNE2 MUTATED" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE"   "CCNE2 MUTATED" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
  "CCNE2 MUTATED"   "CCNE2 MUTATED"   "CCNE2 MUTATED" "CCNE2 WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"CCNE2 WILD-TYPE"   "CCNE2 MUTATED" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"CCNE2 WILD-TYPE"   "CCNE2 MUTATED" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
  "CCNE2 MUTATED" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE"   "CCNE2 MUTATED" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
  "CCNE2 MUTATED"   "CCNE2 MUTATED"   "CCNE2 MUTATED" "CCNE2 WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"CCNE2 WILD-TYPE"   "CCNE2 MUTATED" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" "CCNE2 WILD-TYPE" 
[1] "hr=" "6.2"
D16V2, continuous
D16V3, binary
                 cls
clus               0  1
  CCNE2 MUTATED    4  6
  CCNE2 WILD-TYPE 27 68
[1] "tbl2"
                 cls
clus              [,1] [,2]
  CCNE2 MUTATED      4    6
  CCNE2 WILD-TYPE   27   68
        clus
vv       CCNE2 MUTATED CCNE2 WILD-TYPE
  FEMALE             4              27
  MALE               6              68
                 vv
clus              M0 M1 M1B M1C
  CCNE2 MUTATED   10  0   0   0
  CCNE2 WILD-TYPE 81  1   2   1
D16V4, multiclass
     clus
vv    CCNE2 MUTATED CCNE2 WILD-TYPE
  M0             10              81
  M1              0               1
  M1B             0               2
  M1C             0               1
                 vv
clus              N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  CCNE2 MUTATED    7  0   0   2  0   0   0   0  1  0
  CCNE2 WILD-TYPE 51  1   3   7  1   3   7   1 11  1
D16V5, multiclass
D16V6, continuous
                 vv
clus              I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  CCNE2 MUTATED             0       1        0        0        3         1
  CCNE2 WILD-TYPE           1      13        7       10        9         4
                 vv
clus              STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  CCNE2 MUTATED           2         0         1          0          0
  CCNE2 WILD-TYPE         3         2         2          3         10
                 vv
clus              STAGE IIIC STAGE IV
  CCNE2 MUTATED            2        0
  CCNE2 WILD-TYPE         14        3
D16V7, multiclass

Clustering(17) Variable = SDR16C5 MUTATION ANALYSIS
D17V1, survival
                   sevent
clus2                0  1
  SDR16C5 MUTATED    2  4
  SDR16C5 WILD-TYPE 21 28
  SDR16C5 MUTATED SDR16C5 WILD-TYPE 
                6                49 
  SDR16C5 MUTATED SDR16C5 WILD-TYPE 
                4                28 
$`SDR16C5 MUTATED`
TCGA-D3-A2J9 TCGA-DA-A3F8 TCGA-EE-A181 TCGA-EE-A29D TCGA-FW-A3R5 TCGA-GN-A268 
       21.14        14.83         1.12        11.15         1.02        15.39 

$`SDR16C5 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE TCGA-D3-A3CF 
        8.38        11.41         6.35        15.25        13.32        24.00 
TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I2 
        4.01         2.86        48.79        35.80        51.12        13.68 
TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A183 
       22.36         7.00        17.56        11.57         6.31        12.20 
TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L 
        4.27         5.13        37.97        38.63         4.41         1.08 
TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A0 
        9.47        12.03         8.84         9.99         8.09        11.31 
TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L 
       25.28        23.90         8.94        11.11         4.18        12.99 
TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 
       28.64        42.84        78.44        31.33        84.72        16.21 
TCGA-GN-A26D 
       14.70 

  SDR16C5 MUTATED SDR16C5 WILD-TYPE 
             1.02              1.08 
  SDR16C5 MUTATED SDR16C5 WILD-TYPE 
            21.14             98.76 
  SDR16C5 MUTATED SDR16C5 WILD-TYPE 
            12.99             13.32 
[1] "1.0 - 21.1 (13.0)" "1.1 - 98.8 (13.3)"
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q7        TCGA-D3-A1Q8 
"SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" 
       TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8        TCGA-D3-A2J9 
"SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE"   "SDR16C5 MUTATED" 
       TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6        TCGA-D3-A3CE 
"SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" 
       TCGA-D3-A3CF        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I2        TCGA-DA-A1IB 
"SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" 
       TCGA-DA-A3F3        TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X 
"SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE"   "SDR16C5 MUTATED" "SDR16C5 WILD-TYPE" 
       TCGA-EE-A17Z        TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185 
"SDR16C5 WILD-TYPE"   "SDR16C5 MUTATED" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE"   "SDR16C5 MUTATED" "SDR16C5 WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" 
       TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29X        TCGA-EE-A2A0 
"SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" 
       TCGA-EE-A2A1        TCGA-EE-A2A2        TCGA-EE-A2A6        TCGA-ER-A19F 
"SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" 
       TCGA-ER-A19J        TCGA-ER-A19L        TCGA-ER-A19M        TCGA-ER-A19N 
"SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" 
       TCGA-ER-A1A1        TCGA-FW-A3R5        TCGA-GN-A264        TCGA-GN-A265 
"SDR16C5 WILD-TYPE"   "SDR16C5 MUTATED" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" 
       TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26D 
"SDR16C5 WILD-TYPE"   "SDR16C5 MUTATED" "SDR16C5 WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q7        TCGA-D3-A1Q8 
"SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" 
       TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8        TCGA-D3-A2J9 
"SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE"   "SDR16C5 MUTATED" 
       TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6        TCGA-D3-A3CE 
"SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" 
       TCGA-D3-A3CF        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I2        TCGA-DA-A1IB 
"SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" 
       TCGA-DA-A3F3        TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X 
"SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE"   "SDR16C5 MUTATED" "SDR16C5 WILD-TYPE" 
       TCGA-EE-A17Z        TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185 
"SDR16C5 WILD-TYPE"   "SDR16C5 MUTATED" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE"   "SDR16C5 MUTATED" "SDR16C5 WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" 
       TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29X        TCGA-EE-A2A0 
"SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" 
       TCGA-EE-A2A1        TCGA-EE-A2A2        TCGA-EE-A2A6        TCGA-ER-A19F 
"SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" 
       TCGA-ER-A19J        TCGA-ER-A19L        TCGA-ER-A19M        TCGA-ER-A19N 
"SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" 
       TCGA-ER-A1A1        TCGA-FW-A3R5        TCGA-GN-A264        TCGA-GN-A265 
"SDR16C5 WILD-TYPE"   "SDR16C5 MUTATED" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" 
       TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26D 
"SDR16C5 WILD-TYPE"   "SDR16C5 MUTATED" "SDR16C5 WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q7        TCGA-D3-A1Q8 
"SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" 
       TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8        TCGA-D3-A2J9 
"SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE"   "SDR16C5 MUTATED" 
       TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6        TCGA-D3-A3CE 
"SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" 
       TCGA-D3-A3CF        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I2        TCGA-DA-A1IB 
"SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" 
       TCGA-DA-A3F3        TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X 
"SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE"   "SDR16C5 MUTATED" "SDR16C5 WILD-TYPE" 
       TCGA-EE-A17Z        TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185 
"SDR16C5 WILD-TYPE"   "SDR16C5 MUTATED" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE"   "SDR16C5 MUTATED" "SDR16C5 WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" 
       TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29X        TCGA-EE-A2A0 
"SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" 
       TCGA-EE-A2A1        TCGA-EE-A2A2        TCGA-EE-A2A6        TCGA-ER-A19F 
"SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" 
       TCGA-ER-A19J        TCGA-ER-A19L        TCGA-ER-A19M        TCGA-ER-A19N 
"SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" 
       TCGA-ER-A1A1        TCGA-FW-A3R5        TCGA-GN-A264        TCGA-GN-A265 
"SDR16C5 WILD-TYPE"   "SDR16C5 MUTATED" "SDR16C5 WILD-TYPE" "SDR16C5 WILD-TYPE" 
       TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26D 
"SDR16C5 WILD-TYPE"   "SDR16C5 MUTATED" "SDR16C5 WILD-TYPE" 
[1] "hr=" "1.9"
D17V2, continuous
D17V3, binary
                   cls
clus                 0  1
  SDR16C5 MUTATED    4 12
  SDR16C5 WILD-TYPE 27 62
[1] "tbl2"
                   cls
clus                [,1] [,2]
  SDR16C5 MUTATED      4   12
  SDR16C5 WILD-TYPE   27   62
        clus
vv       SDR16C5 MUTATED SDR16C5 WILD-TYPE
  FEMALE               4                27
  MALE                12                62
                   vv
clus                M0 M1 M1B M1C
  SDR16C5 MUTATED   14  0   1   0
  SDR16C5 WILD-TYPE 77  1   1   1
D17V4, multiclass
     clus
vv    SDR16C5 MUTATED SDR16C5 WILD-TYPE
  M0               14                77
  M1                0                 1
  M1B               1                 1
  M1C               0                 1
                   vv
clus                N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  SDR16C5 MUTATED    9  0   0   1  1   1   1   0  2  0
  SDR16C5 WILD-TYPE 49  1   3   8  0   2   6   1 10  1
D17V5, multiclass
D17V6, continuous
                   vv
clus                I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  SDR16C5 MUTATED             0       3        3        0        1         0
  SDR16C5 WILD-TYPE           1      11        4       10       11         5
                   vv
clus                STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  SDR16C5 MUTATED           2         0         1          0          1
  SDR16C5 WILD-TYPE         3         2         2          3          9
                   vv
clus                STAGE IIIC STAGE IV
  SDR16C5 MUTATED            2        0
  SDR16C5 WILD-TYPE         14        3
D17V7, multiclass

Clustering(18) Variable = PDE1A MUTATION ANALYSIS
D18V1, survival
                 sevent
clus2              0  1
  PDE1A MUTATED    5  4
  PDE1A WILD-TYPE 18 28
  PDE1A MUTATED PDE1A WILD-TYPE 
              9              46 
  PDE1A MUTATED PDE1A WILD-TYPE 
              4              28 
$`PDE1A MUTATED`
TCGA-D9-A3Z1 TCGA-EE-A181 TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29S TCGA-EE-A2A0 
        4.01         1.12        11.15        38.63         9.99        11.31 
TCGA-EE-A2A2 TCGA-ER-A19F TCGA-FW-A3R5 
       23.90        11.11         1.02 

$`PDE1A WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I2 
       24.00         2.86        48.79        35.80        51.12        13.68 
TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z 
       22.36         7.00        17.56        14.83        11.57         6.31 
TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29H TCGA-EE-A29L 
       12.20         4.27         5.13        37.97         4.41         1.08 
TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29X TCGA-EE-A2A1 TCGA-EE-A2A6 
        9.47        12.03         8.84         8.09        25.28         8.94 
TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-GN-A264 
        4.18        12.99        28.64        42.84        78.44        31.33 
TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
       84.72        16.21        15.39        14.70 

  PDE1A MUTATED PDE1A WILD-TYPE 
           1.02            1.08 
  PDE1A MUTATED PDE1A WILD-TYPE 
          38.63           98.76 
  PDE1A MUTATED PDE1A WILD-TYPE 
         11.110          14.765 
[1] "1.0 - 38.6 (11.1)" "1.1 - 98.8 (14.8)"
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"PDE1A WILD-TYPE"   "PDE1A MUTATED" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"PDE1A WILD-TYPE"   "PDE1A MUTATED" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"PDE1A WILD-TYPE" "PDE1A WILD-TYPE"   "PDE1A MUTATED"   "PDE1A MUTATED" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"PDE1A WILD-TYPE"   "PDE1A MUTATED" "PDE1A WILD-TYPE"   "PDE1A MUTATED" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"PDE1A WILD-TYPE"   "PDE1A MUTATED" "PDE1A WILD-TYPE"   "PDE1A MUTATED" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"PDE1A WILD-TYPE"   "PDE1A MUTATED" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"PDE1A WILD-TYPE"   "PDE1A MUTATED" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"PDE1A WILD-TYPE"   "PDE1A MUTATED" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"PDE1A WILD-TYPE" "PDE1A WILD-TYPE"   "PDE1A MUTATED"   "PDE1A MUTATED" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"PDE1A WILD-TYPE"   "PDE1A MUTATED" "PDE1A WILD-TYPE"   "PDE1A MUTATED" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"PDE1A WILD-TYPE"   "PDE1A MUTATED" "PDE1A WILD-TYPE"   "PDE1A MUTATED" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"PDE1A WILD-TYPE"   "PDE1A MUTATED" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"PDE1A WILD-TYPE"   "PDE1A MUTATED" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"PDE1A WILD-TYPE"   "PDE1A MUTATED" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"PDE1A WILD-TYPE" "PDE1A WILD-TYPE"   "PDE1A MUTATED"   "PDE1A MUTATED" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"PDE1A WILD-TYPE"   "PDE1A MUTATED" "PDE1A WILD-TYPE"   "PDE1A MUTATED" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"PDE1A WILD-TYPE"   "PDE1A MUTATED" "PDE1A WILD-TYPE"   "PDE1A MUTATED" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"PDE1A WILD-TYPE"   "PDE1A MUTATED" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" 
[1] "hr=" "1.2"
D18V2, continuous
D18V3, binary
                 cls
clus               0  1
  PDE1A MUTATED    5 14
  PDE1A WILD-TYPE 26 60
[1] "tbl2"
                 cls
clus              [,1] [,2]
  PDE1A MUTATED      5   14
  PDE1A WILD-TYPE   26   60
        clus
vv       PDE1A MUTATED PDE1A WILD-TYPE
  FEMALE             5              26
  MALE              14              60
                 vv
clus              M0 M1 M1B M1C
  PDE1A MUTATED   18  0   0   0
  PDE1A WILD-TYPE 73  1   2   1
D18V4, multiclass
     clus
vv    PDE1A MUTATED PDE1A WILD-TYPE
  M0             18              73
  M1              0               1
  M1B             0               2
  M1C             0               1
                 vv
clus              N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  PDE1A MUTATED   12  1   0   3  1   0   0   0  1  0
  PDE1A WILD-TYPE 46  0   3   6  0   3   7   1 11  1
D18V5, multiclass
D18V6, continuous
                 vv
clus              I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  PDE1A MUTATED             0       4        0        2        2         2
  PDE1A WILD-TYPE           1      10        7        8       10         3
                 vv
clus              STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  PDE1A MUTATED           1         0         2          0          2
  PDE1A WILD-TYPE         4         2         1          3          8
                 vv
clus              STAGE IIIC STAGE IV
  PDE1A MUTATED            2        0
  PDE1A WILD-TYPE         14        3
D18V7, multiclass

Clustering(19) Variable = TLL1 MUTATION ANALYSIS
D19V1, survival
                sevent
clus2             0  1
  TLL1 MUTATED    7  3
  TLL1 WILD-TYPE 16 29
  TLL1 MUTATED TLL1 WILD-TYPE 
            10             45 
  TLL1 MUTATED TLL1 WILD-TYPE 
             3             29 
$`TLL1 MUTATED`
TCGA-D9-A3Z1 TCGA-DA-A3F8 TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29R 
        4.01        14.83        11.15        38.63         4.41         8.84 
TCGA-EE-A2A6 TCGA-ER-A19F TCGA-FW-A3R5 TCGA-GN-A268 
        8.94        11.11         1.02        15.39 

$`TLL1 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I2 
       24.00         2.86        48.79        35.80        51.12        13.68 
TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 
       22.36         7.00        17.56        11.57         6.31         1.12 
TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29L TCGA-EE-A29N 
       12.20         4.27         5.13        37.97         1.08         9.47 
TCGA-EE-A29P TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 
       12.03         9.99         8.09        11.31        25.28        23.90 
TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-GN-A264 
        4.18        12.99        28.64        42.84        78.44        31.33 
TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A26D 
       84.72        16.21        14.70 

  TLL1 MUTATED TLL1 WILD-TYPE 
          1.02           1.08 
  TLL1 MUTATED TLL1 WILD-TYPE 
         38.63          98.76 
  TLL1 MUTATED TLL1 WILD-TYPE 
        10.025         14.700 
[1] "1.0 - 38.6 (10.0)" "1.1 - 98.8 (14.7)"
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"TLL1 WILD-TYPE" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"TLL1 WILD-TYPE" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"TLL1 WILD-TYPE" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"TLL1 WILD-TYPE"   "TLL1 MUTATED" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
"TLL1 WILD-TYPE" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
"TLL1 WILD-TYPE" "TLL1 WILD-TYPE"   "TLL1 MUTATED" "TLL1 WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"TLL1 WILD-TYPE" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"TLL1 WILD-TYPE" "TLL1 WILD-TYPE"   "TLL1 MUTATED"   "TLL1 MUTATED" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
  "TLL1 MUTATED" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
  "TLL1 MUTATED" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"TLL1 WILD-TYPE" "TLL1 WILD-TYPE"   "TLL1 MUTATED"   "TLL1 MUTATED" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
"TLL1 WILD-TYPE" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"TLL1 WILD-TYPE"   "TLL1 MUTATED" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"TLL1 WILD-TYPE"   "TLL1 MUTATED" "TLL1 WILD-TYPE" 
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"TLL1 WILD-TYPE" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"TLL1 WILD-TYPE" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"TLL1 WILD-TYPE" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"TLL1 WILD-TYPE"   "TLL1 MUTATED" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
"TLL1 WILD-TYPE" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
"TLL1 WILD-TYPE" "TLL1 WILD-TYPE"   "TLL1 MUTATED" "TLL1 WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"TLL1 WILD-TYPE" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"TLL1 WILD-TYPE" "TLL1 WILD-TYPE"   "TLL1 MUTATED"   "TLL1 MUTATED" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
  "TLL1 MUTATED" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
  "TLL1 MUTATED" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"TLL1 WILD-TYPE" "TLL1 WILD-TYPE"   "TLL1 MUTATED"   "TLL1 MUTATED" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
"TLL1 WILD-TYPE" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"TLL1 WILD-TYPE"   "TLL1 MUTATED" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"TLL1 WILD-TYPE"   "TLL1 MUTATED" "TLL1 WILD-TYPE" 
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"TLL1 WILD-TYPE" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"TLL1 WILD-TYPE" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"TLL1 WILD-TYPE" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"TLL1 WILD-TYPE"   "TLL1 MUTATED" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
"TLL1 WILD-TYPE" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
"TLL1 WILD-TYPE" "TLL1 WILD-TYPE"   "TLL1 MUTATED" "TLL1 WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"TLL1 WILD-TYPE" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"TLL1 WILD-TYPE" "TLL1 WILD-TYPE"   "TLL1 MUTATED"   "TLL1 MUTATED" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
  "TLL1 MUTATED" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
  "TLL1 MUTATED" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"TLL1 WILD-TYPE" "TLL1 WILD-TYPE"   "TLL1 MUTATED"   "TLL1 MUTATED" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
"TLL1 WILD-TYPE" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"TLL1 WILD-TYPE"   "TLL1 MUTATED" "TLL1 WILD-TYPE" "TLL1 WILD-TYPE" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"TLL1 WILD-TYPE"   "TLL1 MUTATED" "TLL1 WILD-TYPE" 
[1] "hr=" "1.2"
D19V2, continuous
D19V3, binary
                cls
clus              0  1
  TLL1 MUTATED    6 18
  TLL1 WILD-TYPE 25 56
[1] "tbl2"
                cls
clus             [,1] [,2]
  TLL1 MUTATED      6   18
  TLL1 WILD-TYPE   25   56
        clus
vv       TLL1 MUTATED TLL1 WILD-TYPE
  FEMALE            6             25
  MALE             18             56
                vv
clus             M0 M1 M1B M1C
  TLL1 MUTATED   24  0   0   0
  TLL1 WILD-TYPE 67  1   2   1
D19V4, multiclass
     clus
vv    TLL1 MUTATED TLL1 WILD-TYPE
  M0            24             67
  M1             0              1
  M1B            0              2
  M1C            0              1
                vv
clus             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  TLL1 MUTATED   15  0   1   4  1   0   1   0  1  1
  TLL1 WILD-TYPE 43  1   2   5  0   3   6   1 11  0
D19V5, multiclass
D19V6, continuous
                vv
clus             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  TLL1 MUTATED             0       4        4        0        4         0
  TLL1 WILD-TYPE           1      10        3       10        8         5
                vv
clus             STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC
  TLL1 MUTATED           2         0         1          1          3          3
  TLL1 WILD-TYPE         3         2         2          2          7         13
                vv
clus             STAGE IV
  TLL1 MUTATED          0
  TLL1 WILD-TYPE        3
D19V7, multiclass

Clustering(20) Variable = RAC1 MUTATION ANALYSIS
D20V1, survival
                sevent
clus2             0  1
  RAC1 MUTATED    2  2
  RAC1 WILD-TYPE 21 30
  RAC1 MUTATED RAC1 WILD-TYPE 
             4             51 
  RAC1 MUTATED RAC1 WILD-TYPE 
             2             30 
$`RAC1 MUTATED`
TCGA-D9-A3Z1 TCGA-EE-A181 TCGA-EE-A29D TCGA-ER-A1A1 
        4.01         1.12        11.15        78.44 

$`RAC1 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I2 
       24.00         2.86        48.79        35.80        51.12        13.68 
TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z 
       22.36         7.00        17.56        14.83        11.57         6.31 
TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29E TCGA-EE-A29H 
       12.20         4.27         5.13        37.97        38.63         4.41 
TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29X 
        1.08         9.47        12.03         8.84         9.99         8.09 
TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J 
       11.31        25.28        23.90         8.94        11.11         4.18 
TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-FW-A3R5 TCGA-GN-A264 TCGA-GN-A265 
       12.99        28.64        42.84         1.02        31.33        84.72 
TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
       16.21        15.39        14.70 

  RAC1 MUTATED RAC1 WILD-TYPE 
          1.12           1.02 
  RAC1 MUTATED RAC1 WILD-TYPE 
         78.44          98.76 
  RAC1 MUTATED RAC1 WILD-TYPE 
          7.58          13.68 
[1] "1.1 - 78.4 (7.6)"  "1.0 - 98.8 (13.7)"
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"RAC1 WILD-TYPE"   "RAC1 MUTATED" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
"RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
"RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"RAC1 WILD-TYPE"   "RAC1 MUTATED" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"RAC1 WILD-TYPE" "RAC1 WILD-TYPE"   "RAC1 MUTATED" "RAC1 WILD-TYPE" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
"RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
"RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
"RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
  "RAC1 MUTATED" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" 
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"RAC1 WILD-TYPE"   "RAC1 MUTATED" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
"RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
"RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"RAC1 WILD-TYPE"   "RAC1 MUTATED" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"RAC1 WILD-TYPE" "RAC1 WILD-TYPE"   "RAC1 MUTATED" "RAC1 WILD-TYPE" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
"RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
"RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
"RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
  "RAC1 MUTATED" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" 
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"RAC1 WILD-TYPE"   "RAC1 MUTATED" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
"RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
"RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"RAC1 WILD-TYPE"   "RAC1 MUTATED" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"RAC1 WILD-TYPE" "RAC1 WILD-TYPE"   "RAC1 MUTATED" "RAC1 WILD-TYPE" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
"RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
"RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
"RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
  "RAC1 MUTATED" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"RAC1 WILD-TYPE" "RAC1 WILD-TYPE" "RAC1 WILD-TYPE" 
[1] "hr=" "1.2"
D20V2, continuous
D20V3, binary
                cls
clus              0  1
  RAC1 MUTATED    1  6
  RAC1 WILD-TYPE 30 68
[1] "tbl2"
                cls
clus             [,1] [,2]
  RAC1 MUTATED      1    6
  RAC1 WILD-TYPE   30   68
        clus
vv       RAC1 MUTATED RAC1 WILD-TYPE
  FEMALE            1             30
  MALE              6             68
                vv
clus             M0 M1 M1B M1C
  RAC1 MUTATED    6  0   0   0
  RAC1 WILD-TYPE 85  1   2   1
D20V4, multiclass
     clus
vv    RAC1 MUTATED RAC1 WILD-TYPE
  M0             6             85
  M1             0              1
  M1B            0              2
  M1C            0              1
                vv
clus             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  RAC1 MUTATED    3  0   0   1  0   0   0   0  2  0
  RAC1 WILD-TYPE 55  1   3   8  1   3   7   1 10  1
D20V5, multiclass
D20V6, continuous
                vv
clus             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  RAC1 MUTATED             0       1        0        0        2         0
  RAC1 WILD-TYPE           1      13        7       10       10         5
                vv
clus             STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC
  RAC1 MUTATED           0         0         0          0          0          3
  RAC1 WILD-TYPE         5         2         3          3         10         13
                vv
clus             STAGE IV
  RAC1 MUTATED          0
  RAC1 WILD-TYPE        3
D20V7, multiclass

Clustering(21) Variable = RERG MUTATION ANALYSIS
D21V1, survival
                sevent
clus2             0  1
  RERG MUTATED    2  1
  RERG WILD-TYPE 21 31
  RERG MUTATED RERG WILD-TYPE 
             3             52 
  RERG MUTATED RERG WILD-TYPE 
             1             31 
$`RERG MUTATED`
TCGA-DA-A1HV TCGA-EE-A181 TCGA-FW-A3R5 
       48.79         1.12         1.02 

$`RERG WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I2 
       24.00         4.01         2.86        35.80        51.12        13.68 
TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z 
       22.36         7.00        17.56        14.83        11.57         6.31 
TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E 
       12.20         4.27         5.13        37.97        11.15        38.63 
TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29S 
        4.41         1.08         9.47        12.03         8.84         9.99 
TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19F 
        8.09        11.31        25.28        23.90         8.94        11.11 
TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-GN-A264 
        4.18        12.99        28.64        42.84        78.44        31.33 
TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
       84.72        16.21        15.39        14.70 

  RERG MUTATED RERG WILD-TYPE 
          1.02           1.08 
  RERG MUTATED RERG WILD-TYPE 
         48.79          98.76 
  RERG MUTATED RERG WILD-TYPE 
          1.12          13.50 
[1] "1.0 - 48.8 (1.1)"  "1.1 - 98.8 (13.5)"
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE"   "RERG MUTATED" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
"RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
"RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"RERG WILD-TYPE"   "RERG MUTATED" "RERG WILD-TYPE" "RERG WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
"RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
"RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
"RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"RERG WILD-TYPE"   "RERG MUTATED" "RERG WILD-TYPE" "RERG WILD-TYPE" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" 
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE"   "RERG MUTATED" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
"RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
"RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"RERG WILD-TYPE"   "RERG MUTATED" "RERG WILD-TYPE" "RERG WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
"RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
"RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
"RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"RERG WILD-TYPE"   "RERG MUTATED" "RERG WILD-TYPE" "RERG WILD-TYPE" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" 
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE"   "RERG MUTATED" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
"RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
"RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"RERG WILD-TYPE"   "RERG MUTATED" "RERG WILD-TYPE" "RERG WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
"RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
"RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
"RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"RERG WILD-TYPE"   "RERG MUTATED" "RERG WILD-TYPE" "RERG WILD-TYPE" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"RERG WILD-TYPE" "RERG WILD-TYPE" "RERG WILD-TYPE" 
[1] "hr=" "1.4"
D21V2, continuous
D21V3, binary
                cls
clus              0  1
  RERG MUTATED    2  6
  RERG WILD-TYPE 29 68
[1] "tbl2"
                cls
clus             [,1] [,2]
  RERG MUTATED      2    6
  RERG WILD-TYPE   29   68
        clus
vv       RERG MUTATED RERG WILD-TYPE
  FEMALE            2             29
  MALE              6             68
                vv
clus             M0 M1 M1B M1C
  RERG MUTATED    7  0   0   0
  RERG WILD-TYPE 84  1   2   1
D21V4, multiclass
     clus
vv    RERG MUTATED RERG WILD-TYPE
  M0             7             84
  M1             0              1
  M1B            0              2
  M1C            0              1
                vv
clus             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  RERG MUTATED    4  0   0   0  1   1   1   0  0  0
  RERG WILD-TYPE 54  1   3   9  0   2   6   1 12  1
D21V5, multiclass
D21V6, continuous
                vv
clus             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  RERG MUTATED             0       1        0        0        3         0
  RERG WILD-TYPE           1      13        7       10        9         5
                vv
clus             STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC
  RERG MUTATED           0         0         1          0          1          0
  RERG WILD-TYPE         5         2         2          3          9         16
                vv
clus             STAGE IV
  RERG MUTATED          0
  RERG WILD-TYPE        3
D21V7, multiclass

Clustering(22) Variable = OR52L1 MUTATION ANALYSIS
D22V1, survival
                  sevent
clus2               0  1
  OR52L1 MUTATED    3  3
  OR52L1 WILD-TYPE 20 29
  OR52L1 MUTATED OR52L1 WILD-TYPE 
               6               49 
  OR52L1 MUTATED OR52L1 WILD-TYPE 
               3               29 
$`OR52L1 MUTATED`
TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A2A2 TCGA-ER-A19M TCGA-ER-A1A1 TCGA-FW-A3R5 
        1.12        12.20        23.90        28.64        78.44         1.02 

$`OR52L1 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
       24.00         4.01         2.86        48.79        35.80        51.12 
TCGA-DA-A1I2 TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X 
       13.68        22.36         7.00        17.56        14.83        11.57 
TCGA-EE-A17Z TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E 
        6.31         4.27         5.13        37.97        11.15        38.63 
TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29S 
        4.41         1.08         9.47        12.03         8.84         9.99 
TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J 
        8.09        11.31        25.28         8.94        11.11         4.18 
TCGA-ER-A19L TCGA-ER-A19N TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 
       12.99        42.84        31.33        84.72        16.21        15.39 
TCGA-GN-A26D 
       14.70 

  OR52L1 MUTATED OR52L1 WILD-TYPE 
            1.02             1.08 
  OR52L1 MUTATED OR52L1 WILD-TYPE 
           78.44            98.76 
  OR52L1 MUTATED OR52L1 WILD-TYPE 
           18.05            13.32 
[1] "1.0 - 78.4 (18.0)" "1.1 - 98.8 (13.3)"
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
"OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"OR52L1 WILD-TYPE"   "OR52L1 MUTATED"   "OR52L1 MUTATED" "OR52L1 WILD-TYPE" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
"OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
"OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"OR52L1 WILD-TYPE"   "OR52L1 MUTATED" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE"   "OR52L1 MUTATED" "OR52L1 WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
  "OR52L1 MUTATED"   "OR52L1 MUTATED" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
"OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" 
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
"OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"OR52L1 WILD-TYPE"   "OR52L1 MUTATED"   "OR52L1 MUTATED" "OR52L1 WILD-TYPE" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
"OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
"OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"OR52L1 WILD-TYPE"   "OR52L1 MUTATED" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE"   "OR52L1 MUTATED" "OR52L1 WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
  "OR52L1 MUTATED"   "OR52L1 MUTATED" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
"OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" 
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
"OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"OR52L1 WILD-TYPE"   "OR52L1 MUTATED"   "OR52L1 MUTATED" "OR52L1 WILD-TYPE" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
"OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
"OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"OR52L1 WILD-TYPE"   "OR52L1 MUTATED" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE"   "OR52L1 MUTATED" "OR52L1 WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
  "OR52L1 MUTATED"   "OR52L1 MUTATED" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
"OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" "OR52L1 WILD-TYPE" 
[1] "hr=" "1.3"
D22V2, continuous
D22V3, binary
                  cls
clus                0  1
  OR52L1 MUTATED    3  9
  OR52L1 WILD-TYPE 28 65
[1] "tbl2"
                  cls
clus               [,1] [,2]
  OR52L1 MUTATED      3    9
  OR52L1 WILD-TYPE   28   65
        clus
vv       OR52L1 MUTATED OR52L1 WILD-TYPE
  FEMALE              3               28
  MALE                9               65
                  vv
clus               M0 M1 M1B M1C
  OR52L1 MUTATED   12  0   0   0
  OR52L1 WILD-TYPE 79  1   2   1
D22V4, multiclass
     clus
vv    OR52L1 MUTATED OR52L1 WILD-TYPE
  M0              12               79
  M1               0                1
  M1B              0                2
  M1C              0                1
                  vv
clus               N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  OR52L1 MUTATED    7  0   1   1  1   0   0   0  1  1
  OR52L1 WILD-TYPE 51  1   2   8  0   3   7   1 11  0
D22V5, multiclass
D22V6, continuous
                  vv
clus               I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  OR52L1 MUTATED             0       1        1        2        3         0
  OR52L1 WILD-TYPE           1      13        6        8        9         5
                  vv
clus               STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  OR52L1 MUTATED           0         0         1          0          2
  OR52L1 WILD-TYPE         5         2         2          3          8
                  vv
clus               STAGE IIIC STAGE IV
  OR52L1 MUTATED            1        0
  OR52L1 WILD-TYPE         15        3
D22V7, multiclass

Clustering(23) Variable = HBD MUTATION ANALYSIS
D23V1, survival
               sevent
clus2            0  1
  HBD MUTATED    2  4
  HBD WILD-TYPE 21 28
  HBD MUTATED HBD WILD-TYPE 
            6            49 
  HBD MUTATED HBD WILD-TYPE 
            4            28 
$`HBD MUTATED`
TCGA-EE-A181 TCGA-EE-A185 TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A2A6 TCGA-ER-A19M 
        1.12         4.27        37.97        11.15         8.94        28.64 

$`HBD WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
       24.00         4.01         2.86        48.79        35.80        51.12 
TCGA-DA-A1I2 TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X 
       13.68        22.36         7.00        17.56        14.83        11.57 
TCGA-EE-A17Z TCGA-EE-A183 TCGA-EE-A20F TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L 
        6.31        12.20         5.13        38.63         4.41         1.08 
TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A0 
        9.47        12.03         8.84         9.99         8.09        11.31 
TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19N 
       25.28        23.90        11.11         4.18        12.99        42.84 
TCGA-ER-A1A1 TCGA-FW-A3R5 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 
       78.44         1.02        31.33        84.72        16.21        15.39 
TCGA-GN-A26D 
       14.70 

  HBD MUTATED HBD WILD-TYPE 
         1.12          1.02 
  HBD MUTATED HBD WILD-TYPE 
        37.97         98.76 
  HBD MUTATED HBD WILD-TYPE 
       10.045        13.680 
[1] "1.1 - 38.0 (10.0)" "1.0 - 98.8 (13.7)"
   TCGA-D3-A1Q1    TCGA-D3-A1Q5    TCGA-D3-A1Q7    TCGA-D3-A1Q8    TCGA-D3-A1Q9 
"HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" 
   TCGA-D3-A2J6    TCGA-D3-A2J8    TCGA-D3-A2J9    TCGA-D3-A2JD    TCGA-D3-A2JK 
"HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" 
   TCGA-D3-A3C6    TCGA-D3-A3CE    TCGA-D3-A3CF    TCGA-D9-A3Z1    TCGA-D9-A3Z3 
"HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" 
   TCGA-DA-A1HV    TCGA-DA-A1HW    TCGA-DA-A1HY    TCGA-DA-A1I2    TCGA-DA-A1IB 
"HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" 
   TCGA-DA-A3F3    TCGA-DA-A3F5    TCGA-DA-A3F8    TCGA-EE-A17X    TCGA-EE-A17Z 
"HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" 
   TCGA-EE-A181    TCGA-EE-A183    TCGA-EE-A185    TCGA-EE-A20F    TCGA-EE-A29C 
  "HBD MUTATED" "HBD WILD-TYPE"   "HBD MUTATED" "HBD WILD-TYPE"   "HBD MUTATED" 
   TCGA-EE-A29D    TCGA-EE-A29E    TCGA-EE-A29H    TCGA-EE-A29L    TCGA-EE-A29N 
  "HBD MUTATED" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" 
   TCGA-EE-A29P    TCGA-EE-A29R    TCGA-EE-A29S    TCGA-EE-A29X    TCGA-EE-A2A0 
"HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" 
   TCGA-EE-A2A1    TCGA-EE-A2A2    TCGA-EE-A2A6    TCGA-ER-A19F    TCGA-ER-A19J 
"HBD WILD-TYPE" "HBD WILD-TYPE"   "HBD MUTATED" "HBD WILD-TYPE" "HBD WILD-TYPE" 
   TCGA-ER-A19L    TCGA-ER-A19M    TCGA-ER-A19N    TCGA-ER-A1A1    TCGA-FW-A3R5 
"HBD WILD-TYPE"   "HBD MUTATED" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" 
   TCGA-GN-A264    TCGA-GN-A265    TCGA-GN-A267    TCGA-GN-A268    TCGA-GN-A26D 
"HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" 
   TCGA-D3-A1Q1    TCGA-D3-A1Q5    TCGA-D3-A1Q7    TCGA-D3-A1Q8    TCGA-D3-A1Q9 
"HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" 
   TCGA-D3-A2J6    TCGA-D3-A2J8    TCGA-D3-A2J9    TCGA-D3-A2JD    TCGA-D3-A2JK 
"HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" 
   TCGA-D3-A3C6    TCGA-D3-A3CE    TCGA-D3-A3CF    TCGA-D9-A3Z1    TCGA-D9-A3Z3 
"HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" 
   TCGA-DA-A1HV    TCGA-DA-A1HW    TCGA-DA-A1HY    TCGA-DA-A1I2    TCGA-DA-A1IB 
"HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" 
   TCGA-DA-A3F3    TCGA-DA-A3F5    TCGA-DA-A3F8    TCGA-EE-A17X    TCGA-EE-A17Z 
"HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" 
   TCGA-EE-A181    TCGA-EE-A183    TCGA-EE-A185    TCGA-EE-A20F    TCGA-EE-A29C 
  "HBD MUTATED" "HBD WILD-TYPE"   "HBD MUTATED" "HBD WILD-TYPE"   "HBD MUTATED" 
   TCGA-EE-A29D    TCGA-EE-A29E    TCGA-EE-A29H    TCGA-EE-A29L    TCGA-EE-A29N 
  "HBD MUTATED" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" 
   TCGA-EE-A29P    TCGA-EE-A29R    TCGA-EE-A29S    TCGA-EE-A29X    TCGA-EE-A2A0 
"HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" 
   TCGA-EE-A2A1    TCGA-EE-A2A2    TCGA-EE-A2A6    TCGA-ER-A19F    TCGA-ER-A19J 
"HBD WILD-TYPE" "HBD WILD-TYPE"   "HBD MUTATED" "HBD WILD-TYPE" "HBD WILD-TYPE" 
   TCGA-ER-A19L    TCGA-ER-A19M    TCGA-ER-A19N    TCGA-ER-A1A1    TCGA-FW-A3R5 
"HBD WILD-TYPE"   "HBD MUTATED" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" 
   TCGA-GN-A264    TCGA-GN-A265    TCGA-GN-A267    TCGA-GN-A268    TCGA-GN-A26D 
"HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" 
   TCGA-D3-A1Q1    TCGA-D3-A1Q5    TCGA-D3-A1Q7    TCGA-D3-A1Q8    TCGA-D3-A1Q9 
"HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" 
   TCGA-D3-A2J6    TCGA-D3-A2J8    TCGA-D3-A2J9    TCGA-D3-A2JD    TCGA-D3-A2JK 
"HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" 
   TCGA-D3-A3C6    TCGA-D3-A3CE    TCGA-D3-A3CF    TCGA-D9-A3Z1    TCGA-D9-A3Z3 
"HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" 
   TCGA-DA-A1HV    TCGA-DA-A1HW    TCGA-DA-A1HY    TCGA-DA-A1I2    TCGA-DA-A1IB 
"HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" 
   TCGA-DA-A3F3    TCGA-DA-A3F5    TCGA-DA-A3F8    TCGA-EE-A17X    TCGA-EE-A17Z 
"HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" 
   TCGA-EE-A181    TCGA-EE-A183    TCGA-EE-A185    TCGA-EE-A20F    TCGA-EE-A29C 
  "HBD MUTATED" "HBD WILD-TYPE"   "HBD MUTATED" "HBD WILD-TYPE"   "HBD MUTATED" 
   TCGA-EE-A29D    TCGA-EE-A29E    TCGA-EE-A29H    TCGA-EE-A29L    TCGA-EE-A29N 
  "HBD MUTATED" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" 
   TCGA-EE-A29P    TCGA-EE-A29R    TCGA-EE-A29S    TCGA-EE-A29X    TCGA-EE-A2A0 
"HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" 
   TCGA-EE-A2A1    TCGA-EE-A2A2    TCGA-EE-A2A6    TCGA-ER-A19F    TCGA-ER-A19J 
"HBD WILD-TYPE" "HBD WILD-TYPE"   "HBD MUTATED" "HBD WILD-TYPE" "HBD WILD-TYPE" 
   TCGA-ER-A19L    TCGA-ER-A19M    TCGA-ER-A19N    TCGA-ER-A1A1    TCGA-FW-A3R5 
"HBD WILD-TYPE"   "HBD MUTATED" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" 
   TCGA-GN-A264    TCGA-GN-A265    TCGA-GN-A267    TCGA-GN-A268    TCGA-GN-A26D 
"HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" "HBD WILD-TYPE" 
[1] "hr=" "1.4"
D23V2, continuous
D23V3, binary
               cls
clus             0  1
  HBD MUTATED    3  5
  HBD WILD-TYPE 28 69
[1] "tbl2"
               cls
clus            [,1] [,2]
  HBD MUTATED      3    5
  HBD WILD-TYPE   28   69
        clus
vv       HBD MUTATED HBD WILD-TYPE
  FEMALE           3            28
  MALE             5            69
               vv
clus            M0 M1 M1B M1C
  HBD MUTATED    8  0   0   0
  HBD WILD-TYPE 83  1   2   1
D23V4, multiclass
     clus
vv    HBD MUTATED HBD WILD-TYPE
  M0            8            83
  M1            0             1
  M1B           0             2
  M1C           0             1
               vv
clus            N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  HBD MUTATED    6  0   0   1  0   0   0   0  1  0
  HBD WILD-TYPE 52  1   3   8  1   3   7   1 11  1
D23V5, multiclass
D23V6, continuous
               vv
clus            I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  HBD MUTATED             0       0        2        2        2         0
  HBD WILD-TYPE           1      14        5        8       10         5
               vv
clus            STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC
  HBD MUTATED           0         0         0          0          0          2
  HBD WILD-TYPE         5         2         3          3         10         14
               vv
clus            STAGE IV
  HBD MUTATED          0
  HBD WILD-TYPE        3
D23V7, multiclass

Clustering(24) Variable = VEGFC MUTATION ANALYSIS
D24V1, survival
                 sevent
clus2              0  1
  VEGFC MUTATED    4  2
  VEGFC WILD-TYPE 19 30
  VEGFC MUTATED VEGFC WILD-TYPE 
              6              49 
  VEGFC MUTATED VEGFC WILD-TYPE 
              2              30 
$`VEGFC MUTATED`
TCGA-D3-A1Q7 TCGA-D3-A2JK TCGA-DA-A1HW TCGA-EE-A20F TCGA-EE-A2A6 TCGA-FW-A3R5 
       98.76         6.35        35.80         5.13         8.94         1.02 

$`VEGFC WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A2J8 
       16.47        32.55        28.08        22.55        10.26         8.38 
TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A3C6 TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D9-A3Z1 
       21.14        11.41        15.25        13.32        24.00         4.01 
TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HY TCGA-DA-A1I2 TCGA-DA-A1IB TCGA-DA-A3F3 
        2.86        48.79        51.12        13.68        22.36         7.00 
TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 
       17.56        14.83        11.57         6.31         1.12        12.20 
TCGA-EE-A185 TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L 
        4.27        37.97        11.15        38.63         4.41         1.08 
TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A0 
        9.47        12.03         8.84         9.99         8.09        11.31 
TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M 
       25.28        23.90        11.11         4.18        12.99        28.64 
TCGA-ER-A19N TCGA-ER-A1A1 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 
       42.84        78.44        31.33        84.72        16.21        15.39 
TCGA-GN-A26D 
       14.70 

  VEGFC MUTATED VEGFC WILD-TYPE 
           1.02            1.08 
  VEGFC MUTATED VEGFC WILD-TYPE 
          98.76           84.72 
  VEGFC MUTATED VEGFC WILD-TYPE 
          7.645          13.680 
[1] "1.0 - 98.8 (7.6)"  "1.1 - 84.7 (13.7)"
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"VEGFC WILD-TYPE" "VEGFC WILD-TYPE"   "VEGFC MUTATED" "VEGFC WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"VEGFC WILD-TYPE"   "VEGFC MUTATED" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
  "VEGFC MUTATED" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
  "VEGFC MUTATED" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"VEGFC WILD-TYPE" "VEGFC WILD-TYPE"   "VEGFC MUTATED" "VEGFC WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"VEGFC WILD-TYPE"   "VEGFC MUTATED" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"VEGFC WILD-TYPE" "VEGFC WILD-TYPE"   "VEGFC MUTATED" "VEGFC WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"VEGFC WILD-TYPE"   "VEGFC MUTATED" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
  "VEGFC MUTATED" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
  "VEGFC MUTATED" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"VEGFC WILD-TYPE" "VEGFC WILD-TYPE"   "VEGFC MUTATED" "VEGFC WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"VEGFC WILD-TYPE"   "VEGFC MUTATED" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"VEGFC WILD-TYPE" "VEGFC WILD-TYPE"   "VEGFC MUTATED" "VEGFC WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"VEGFC WILD-TYPE"   "VEGFC MUTATED" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
  "VEGFC MUTATED" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
  "VEGFC MUTATED" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"VEGFC WILD-TYPE" "VEGFC WILD-TYPE"   "VEGFC MUTATED" "VEGFC WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"VEGFC WILD-TYPE"   "VEGFC MUTATED" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"VEGFC WILD-TYPE" "VEGFC WILD-TYPE" "VEGFC WILD-TYPE" 
[1] "hr=" "1.6"
D24V2, continuous
D24V3, binary
                 cls
clus               0  1
  VEGFC MUTATED    3  9
  VEGFC WILD-TYPE 28 65
[1] "tbl2"
                 cls
clus              [,1] [,2]
  VEGFC MUTATED      3    9
  VEGFC WILD-TYPE   28   65
        clus
vv       VEGFC MUTATED VEGFC WILD-TYPE
  FEMALE             3              28
  MALE               9              65
                 vv
clus              M0 M1 M1B M1C
  VEGFC MUTATED   11  0   0   0
  VEGFC WILD-TYPE 80  1   2   1
D24V4, multiclass
     clus
vv    VEGFC MUTATED VEGFC WILD-TYPE
  M0             11              80
  M1              0               1
  M1B             0               2
  M1C             0               1
                 vv
clus              N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  VEGFC MUTATED    7  0   0   1  1   1   1   0  0  0
  VEGFC WILD-TYPE 51  1   3   8  0   2   6   1 12  1
D24V5, multiclass
D24V6, continuous
                 vv
clus              I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  VEGFC MUTATED             0       0        3        1        2         0
  VEGFC WILD-TYPE           1      14        4        9       10         5
                 vv
clus              STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  VEGFC MUTATED           1         0         1          0          1
  VEGFC WILD-TYPE         4         2         2          3          9
                 vv
clus              STAGE IIIC STAGE IV
  VEGFC MUTATED            1        0
  VEGFC WILD-TYPE         15        3
D24V7, multiclass

Clustering(25) Variable = BAGE2 MUTATION ANALYSIS
D25V1, survival
                 sevent
clus2              0  1
  BAGE2 MUTATED    3  1
  BAGE2 WILD-TYPE 20 31
  BAGE2 MUTATED BAGE2 WILD-TYPE 
              4              51 
  BAGE2 MUTATED BAGE2 WILD-TYPE 
              1              31 
$`BAGE2 MUTATED`
TCGA-DA-A1HY TCGA-EE-A185 TCGA-FW-A3R5 TCGA-GN-A26D 
       51.12         4.27         1.02        14.70 

$`BAGE2 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1I2 
       24.00         4.01         2.86        48.79        35.80        13.68 
TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z 
       22.36         7.00        17.56        14.83        11.57         6.31 
TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E 
        1.12        12.20         5.13        37.97        11.15        38.63 
TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29S 
        4.41         1.08         9.47        12.03         8.84         9.99 
TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19F 
        8.09        11.31        25.28        23.90         8.94        11.11 
TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-GN-A264 
        4.18        12.99        28.64        42.84        78.44        31.33 
TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 
       84.72        16.21        15.39 

  BAGE2 MUTATED BAGE2 WILD-TYPE 
           1.02            1.08 
  BAGE2 MUTATED BAGE2 WILD-TYPE 
          51.12           98.76 
  BAGE2 MUTATED BAGE2 WILD-TYPE 
          9.485          13.320 
[1] "1.0 - 51.1 (9.5)"  "1.1 - 98.8 (13.3)"
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"BAGE2 WILD-TYPE"   "BAGE2 MUTATED" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE"   "BAGE2 MUTATED" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"BAGE2 WILD-TYPE"   "BAGE2 MUTATED" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE"   "BAGE2 MUTATED" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"BAGE2 WILD-TYPE"   "BAGE2 MUTATED" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE"   "BAGE2 MUTATED" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"BAGE2 WILD-TYPE"   "BAGE2 MUTATED" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE"   "BAGE2 MUTATED" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"BAGE2 WILD-TYPE"   "BAGE2 MUTATED" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE"   "BAGE2 MUTATED" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"BAGE2 WILD-TYPE"   "BAGE2 MUTATED" "BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"BAGE2 WILD-TYPE" "BAGE2 WILD-TYPE"   "BAGE2 MUTATED" 
[1] "hr=" "2"  
D25V2, continuous
D25V3, binary
                 cls
clus               0  1
  BAGE2 MUTATED    3  4
  BAGE2 WILD-TYPE 28 70
[1] "tbl2"
                 cls
clus              [,1] [,2]
  BAGE2 MUTATED      3    4
  BAGE2 WILD-TYPE   28   70
        clus
vv       BAGE2 MUTATED BAGE2 WILD-TYPE
  FEMALE             3              28
  MALE               4              70
                 vv
clus              M0 M1 M1B M1C
  BAGE2 MUTATED    5  0   0   1
  BAGE2 WILD-TYPE 86  1   2   0
D25V4, multiclass
     clus
vv    BAGE2 MUTATED BAGE2 WILD-TYPE
  M0              5              86
  M1              0               1
  M1B             0               2
  M1C             1               0
                 vv
clus              N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  BAGE2 MUTATED    2  0   1   0  1   0   0   1  2  0
  BAGE2 WILD-TYPE 56  1   2   9  0   3   7   0 10  1
D25V5, multiclass
D25V6, continuous
                 vv
clus              I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  BAGE2 MUTATED             0       0        0        0        0         0
  BAGE2 WILD-TYPE           1      14        7       10       12         5
                 vv
clus              STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  BAGE2 MUTATED           1         1         1          1          0
  BAGE2 WILD-TYPE         4         1         2          2         10
                 vv
clus              STAGE IIIC STAGE IV
  BAGE2 MUTATED            2        1
  BAGE2 WILD-TYPE         14        2
D25V7, multiclass

Clustering(26) Variable = OR1N2 MUTATION ANALYSIS
D26V1, survival
                 sevent
clus2              0  1
  OR1N2 MUTATED    3  2
  OR1N2 WILD-TYPE 20 30
  OR1N2 MUTATED OR1N2 WILD-TYPE 
              5              50 
  OR1N2 MUTATED OR1N2 WILD-TYPE 
              2              30 
$`OR1N2 MUTATED`
TCGA-D3-A2J8 TCGA-DA-A1HY TCGA-EE-A183 TCGA-EE-A29S TCGA-FW-A3R5 
        8.38        51.12        12.20         9.99         1.02 

$`OR1N2 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE TCGA-D3-A3CF 
       21.14        11.41         6.35        15.25        13.32        24.00 
TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1I2 TCGA-DA-A1IB 
        4.01         2.86        48.79        35.80        13.68        22.36 
TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 
        7.00        17.56        14.83        11.57         6.31         1.12 
TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H 
        4.27         5.13        37.97        11.15        38.63         4.41 
TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29X TCGA-EE-A2A0 
        1.08         9.47        12.03         8.84         8.09        11.31 
TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L 
       25.28        23.90         8.94        11.11         4.18        12.99 
TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 
       28.64        42.84        78.44        31.33        84.72        16.21 
TCGA-GN-A268 TCGA-GN-A26D 
       15.39        14.70 

  OR1N2 MUTATED OR1N2 WILD-TYPE 
           1.02            1.08 
  OR1N2 MUTATED OR1N2 WILD-TYPE 
          51.12           98.76 
  OR1N2 MUTATED OR1N2 WILD-TYPE 
           9.99           14.19 
[1] "1.0 - 51.1 (10.0)" "1.1 - 98.8 (14.2)"
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE"   "OR1N2 MUTATED" "OR1N2 WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"OR1N2 WILD-TYPE"   "OR1N2 MUTATED" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE"   "OR1N2 MUTATED" "OR1N2 WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"OR1N2 WILD-TYPE"   "OR1N2 MUTATED" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"OR1N2 WILD-TYPE"   "OR1N2 MUTATED" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE"   "OR1N2 MUTATED" "OR1N2 WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"OR1N2 WILD-TYPE"   "OR1N2 MUTATED" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE"   "OR1N2 MUTATED" "OR1N2 WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"OR1N2 WILD-TYPE"   "OR1N2 MUTATED" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"OR1N2 WILD-TYPE"   "OR1N2 MUTATED" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE"   "OR1N2 MUTATED" "OR1N2 WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"OR1N2 WILD-TYPE"   "OR1N2 MUTATED" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE"   "OR1N2 MUTATED" "OR1N2 WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"OR1N2 WILD-TYPE"   "OR1N2 MUTATED" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"OR1N2 WILD-TYPE"   "OR1N2 MUTATED" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" "OR1N2 WILD-TYPE" 
[1] "hr=" "1.1"
D26V2, continuous
D26V3, binary
                 cls
clus               0  1
  OR1N2 MUTATED    2 11
  OR1N2 WILD-TYPE 29 63
[1] "tbl2"
                 cls
clus              [,1] [,2]
  OR1N2 MUTATED      2   11
  OR1N2 WILD-TYPE   29   63
        clus
vv       OR1N2 MUTATED OR1N2 WILD-TYPE
  FEMALE             2              29
  MALE              11              63
                 vv
clus              M0 M1 M1B M1C
  OR1N2 MUTATED   13  0   0   0
  OR1N2 WILD-TYPE 78  1   2   1
D26V4, multiclass
     clus
vv    OR1N2 MUTATED OR1N2 WILD-TYPE
  M0             13              78
  M1              0               1
  M1B             0               2
  M1C             0               1
                 vv
clus              N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  OR1N2 MUTATED    9  0   1   0  1   1   0   0  1  0
  OR1N2 WILD-TYPE 49  1   2   9  0   2   7   1 11  1
D26V5, multiclass
D26V6, continuous
                 vv
clus              I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  OR1N2 MUTATED             0       2        2        1        3         1
  OR1N2 WILD-TYPE           1      12        5        9        9         4
                 vv
clus              STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  OR1N2 MUTATED           0         0         1          1          0
  OR1N2 WILD-TYPE         5         2         2          2         10
                 vv
clus              STAGE IIIC STAGE IV
  OR1N2 MUTATED            1        0
  OR1N2 WILD-TYPE         15        3
D26V7, multiclass

Clustering(27) Variable = PPP6C MUTATION ANALYSIS
D27V1, survival
                 sevent
clus2              0  1
  PPP6C MUTATED    4  2
  PPP6C WILD-TYPE 19 30
  PPP6C MUTATED PPP6C WILD-TYPE 
              6              49 
  PPP6C MUTATED PPP6C WILD-TYPE 
              2              30 
$`PPP6C MUTATED`
TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A29L TCGA-EE-A29R TCGA-FW-A3R5 TCGA-GN-A267 
       17.56        14.83         1.08         8.84         1.02        16.21 

$`PPP6C WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
       24.00         4.01         2.86        48.79        35.80        51.12 
TCGA-DA-A1I2 TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 
       13.68        22.36         7.00        11.57         6.31         1.12 
TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E 
       12.20         4.27         5.13        37.97        11.15        38.63 
TCGA-EE-A29H TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A0 
        4.41         9.47        12.03         9.99         8.09        11.31 
TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L 
       25.28        23.90         8.94        11.11         4.18        12.99 
TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A268 
       28.64        42.84        78.44        31.33        84.72        15.39 
TCGA-GN-A26D 
       14.70 

  PPP6C MUTATED PPP6C WILD-TYPE 
           1.02            1.12 
  PPP6C MUTATED PPP6C WILD-TYPE 
          17.56           98.76 
  PPP6C MUTATED PPP6C WILD-TYPE 
         11.835          13.320 
[1] "1.0 - 17.6 (11.8)" "1.1 - 98.8 (13.3)"
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"PPP6C WILD-TYPE"   "PPP6C MUTATED"   "PPP6C MUTATED" "PPP6C WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"PPP6C WILD-TYPE"   "PPP6C MUTATED" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
  "PPP6C MUTATED" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"PPP6C WILD-TYPE"   "PPP6C MUTATED" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
  "PPP6C MUTATED" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"PPP6C WILD-TYPE"   "PPP6C MUTATED"   "PPP6C MUTATED" "PPP6C WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"PPP6C WILD-TYPE"   "PPP6C MUTATED" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
  "PPP6C MUTATED" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"PPP6C WILD-TYPE"   "PPP6C MUTATED" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
  "PPP6C MUTATED" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"PPP6C WILD-TYPE"   "PPP6C MUTATED"   "PPP6C MUTATED" "PPP6C WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"PPP6C WILD-TYPE"   "PPP6C MUTATED" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
  "PPP6C MUTATED" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"PPP6C WILD-TYPE"   "PPP6C MUTATED" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
  "PPP6C MUTATED" "PPP6C WILD-TYPE" "PPP6C WILD-TYPE" 
[1] "hr=" "1.1"
D27V2, continuous
D27V3, binary
                 cls
clus               0  1
  PPP6C MUTATED    2  8
  PPP6C WILD-TYPE 29 66
[1] "tbl2"
                 cls
clus              [,1] [,2]
  PPP6C MUTATED      2    8
  PPP6C WILD-TYPE   29   66
        clus
vv       PPP6C MUTATED PPP6C WILD-TYPE
  FEMALE             2              29
  MALE               8              66
                 vv
clus              M0 M1 M1B M1C
  PPP6C MUTATED    9  0   0   1
  PPP6C WILD-TYPE 82  1   2   0
D27V4, multiclass
     clus
vv    PPP6C MUTATED PPP6C WILD-TYPE
  M0              9              82
  M1              0               1
  M1B             0               2
  M1C             1               0
                 vv
clus              N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  PPP6C MUTATED    2  0   2   1  1   0   1   1  2  0
  PPP6C WILD-TYPE 56  1   1   8  0   3   6   0 10  1
D27V5, multiclass
D27V6, continuous
                 vv
clus              I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  PPP6C MUTATED             0       1        0        0        1         0
  PPP6C WILD-TYPE           1      13        7       10       11         5
                 vv
clus              STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  PPP6C MUTATED           0         0         1          1          2
  PPP6C WILD-TYPE         5         2         2          2          8
                 vv
clus              STAGE IIIC STAGE IV
  PPP6C MUTATED            3        1
  PPP6C WILD-TYPE         13        2
D27V7, multiclass

Clustering(28) Variable = HNF4G MUTATION ANALYSIS
D28V1, survival
                 sevent
clus2              0  1
  HNF4G MUTATED    2  0
  HNF4G WILD-TYPE 21 32
  HNF4G MUTATED HNF4G WILD-TYPE 
              2              53 
  HNF4G MUTATED HNF4G WILD-TYPE 
              0              32 
$`HNF4G MUTATED`
TCGA-EE-A29E TCGA-FW-A3R5 
       38.63         1.02 

$`HNF4G WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
       24.00         4.01         2.86        48.79        35.80        51.12 
TCGA-DA-A1I2 TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X 
       13.68        22.36         7.00        17.56        14.83        11.57 
TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C 
        6.31         1.12        12.20         4.27         5.13        37.97 
TCGA-EE-A29D TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R 
       11.15         4.41         1.08         9.47        12.03         8.84 
TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 
        9.99         8.09        11.31        25.28        23.90         8.94 
TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 
       11.11         4.18        12.99        28.64        42.84        78.44 
TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
       31.33        84.72        16.21        15.39        14.70 

  HNF4G MUTATED HNF4G WILD-TYPE 
           1.02            1.08 
  HNF4G MUTATED HNF4G WILD-TYPE 
          38.63           98.76 
  HNF4G MUTATED HNF4G WILD-TYPE 
         19.825          13.320 
[1] "1.0 - 38.6 (19.8)" "1.1 - 98.8 (13.3)"
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE"   "HNF4G MUTATED" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"HNF4G WILD-TYPE"   "HNF4G MUTATED" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE"   "HNF4G MUTATED" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"HNF4G WILD-TYPE"   "HNF4G MUTATED" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE"   "HNF4G MUTATED" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"HNF4G WILD-TYPE"   "HNF4G MUTATED" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
[1] "Remove cluster labels:" "HNF4G MUTATED"         
clus
  HNF4G MUTATED HNF4G WILD-TYPE 
              2              53 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29H 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P      TCGA-EE-A29R 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0      TCGA-EE-A2A1 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F      TCGA-ER-A19J 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N      TCGA-ER-A1A1 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-GN-A264      TCGA-GN-A265      TCGA-GN-A267      TCGA-GN-A268 
"HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" "HNF4G WILD-TYPE" 
     TCGA-GN-A26D 
"HNF4G WILD-TYPE" 
D28V2, continuous
D28V3, binary
                 cls
clus               0  1
  HNF4G MUTATED    1 11
  HNF4G WILD-TYPE 30 63
[1] "tbl2"
                 cls
clus              [,1] [,2]
  HNF4G MUTATED      1   11
  HNF4G WILD-TYPE   30   63
        clus
vv       HNF4G MUTATED HNF4G WILD-TYPE
  FEMALE             1              30
  MALE              11              63
                 vv
clus              M0 M1 M1B M1C
  HNF4G MUTATED   11  0   0   0
  HNF4G WILD-TYPE 80  1   2   1
D28V4, multiclass
     clus
vv    HNF4G MUTATED HNF4G WILD-TYPE
  M0             11              80
  M1              0               1
  M1B             0               2
  M1C             0               1
                 vv
clus              N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  HNF4G MUTATED    8  0   0   1  1   0   0   0  0  1
  HNF4G WILD-TYPE 50  1   3   8  0   3   7   1 12  0
D28V5, multiclass
D28V6, continuous
                 vv
clus              I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  HNF4G MUTATED             0       2        2        1        3         0
  HNF4G WILD-TYPE           1      12        5        9        9         5
                 vv
clus              STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  HNF4G MUTATED           0         0         1          0          1
  HNF4G WILD-TYPE         5         2         2          3          9
                 vv
clus              STAGE IIIC STAGE IV
  HNF4G MUTATED            0        0
  HNF4G WILD-TYPE         16        3
D28V7, multiclass

Clustering(29) Variable = TRAT1 MUTATION ANALYSIS
D29V1, survival
                 sevent
clus2              0  1
  TRAT1 MUTATED    1  3
  TRAT1 WILD-TYPE 22 29
  TRAT1 MUTATED TRAT1 WILD-TYPE 
              4              51 
  TRAT1 MUTATED TRAT1 WILD-TYPE 
              3              29 
$`TRAT1 MUTATED`
TCGA-EE-A181 TCGA-EE-A183 TCGA-ER-A19F TCGA-FW-A3R5 
        1.12        12.20        11.11         1.02 

$`TRAT1 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
       24.00         4.01         2.86        48.79        35.80        51.12 
TCGA-DA-A1I2 TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X 
       13.68        22.36         7.00        17.56        14.83        11.57 
TCGA-EE-A17Z TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E 
        6.31         4.27         5.13        37.97        11.15        38.63 
TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29S 
        4.41         1.08         9.47        12.03         8.84         9.99 
TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19J 
        8.09        11.31        25.28        23.90         8.94         4.18 
TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-GN-A264 TCGA-GN-A265 
       12.99        28.64        42.84        78.44        31.33        84.72 
TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
       16.21        15.39        14.70 

  TRAT1 MUTATED TRAT1 WILD-TYPE 
           1.02            1.08 
  TRAT1 MUTATED TRAT1 WILD-TYPE 
          12.20           98.76 
  TRAT1 MUTATED TRAT1 WILD-TYPE 
          6.115          14.700 
[1] "1.0 - 12.2 (6.1)"  "1.1 - 98.8 (14.7)"
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"TRAT1 WILD-TYPE"   "TRAT1 MUTATED"   "TRAT1 MUTATED" "TRAT1 WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE"   "TRAT1 MUTATED" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"TRAT1 WILD-TYPE"   "TRAT1 MUTATED" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"TRAT1 WILD-TYPE"   "TRAT1 MUTATED"   "TRAT1 MUTATED" "TRAT1 WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE"   "TRAT1 MUTATED" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"TRAT1 WILD-TYPE"   "TRAT1 MUTATED" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"TRAT1 WILD-TYPE"   "TRAT1 MUTATED"   "TRAT1 MUTATED" "TRAT1 WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE"   "TRAT1 MUTATED" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"TRAT1 WILD-TYPE"   "TRAT1 MUTATED" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" "TRAT1 WILD-TYPE" 
[1] "hr=" "4.8"
D29V2, continuous
D29V3, binary
                 cls
clus               0  1
  TRAT1 MUTATED    2  4
  TRAT1 WILD-TYPE 29 70
[1] "tbl2"
                 cls
clus              [,1] [,2]
  TRAT1 MUTATED      2    4
  TRAT1 WILD-TYPE   29   70
        clus
vv       TRAT1 MUTATED TRAT1 WILD-TYPE
  FEMALE             2              29
  MALE               4              70
                 vv
clus              M0 M1 M1B M1C
  TRAT1 MUTATED    6  0   0   0
  TRAT1 WILD-TYPE 85  1   2   1
D29V4, multiclass
     clus
vv    TRAT1 MUTATED TRAT1 WILD-TYPE
  M0              6              85
  M1              0               1
  M1B             0               2
  M1C             0               1
                 vv
clus              N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  TRAT1 MUTATED    5  0   0   0  1   0   0   0  0  0
  TRAT1 WILD-TYPE 53  1   3   9  0   3   7   1 12  1
D29V5, multiclass
D29V6, continuous
                 vv
clus              I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  TRAT1 MUTATED             0       1        1        1        1         0
  TRAT1 WILD-TYPE           1      13        6        9       11         5
                 vv
clus              STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  TRAT1 MUTATED           0         0         1          0          0
  TRAT1 WILD-TYPE         5         2         2          3         10
                 vv
clus              STAGE IIIC STAGE IV
  TRAT1 MUTATED            0        0
  TRAT1 WILD-TYPE         16        3
D29V7, multiclass

Clustering(30) Variable = AREG MUTATION ANALYSIS
D30V1, survival
                sevent
clus2             0  1
  AREG MUTATED    2  0
  AREG WILD-TYPE 21 32
  AREG MUTATED AREG WILD-TYPE 
             2             53 
  AREG MUTATED AREG WILD-TYPE 
             0             32 
$`AREG MUTATED`
TCGA-D9-A3Z1 TCGA-FW-A3R5 
        4.01         1.02 

$`AREG WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I2 
       24.00         2.86        48.79        35.80        51.12        13.68 
TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z 
       22.36         7.00        17.56        14.83        11.57         6.31 
TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D 
        1.12        12.20         4.27         5.13        37.97        11.15 
TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R 
       38.63         4.41         1.08         9.47        12.03         8.84 
TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 
        9.99         8.09        11.31        25.28        23.90         8.94 
TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 
       11.11         4.18        12.99        28.64        42.84        78.44 
TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
       31.33        84.72        16.21        15.39        14.70 

  AREG MUTATED AREG WILD-TYPE 
          1.02           1.08 
  AREG MUTATED AREG WILD-TYPE 
          4.01          98.76 
  AREG MUTATED AREG WILD-TYPE 
         2.515         13.680 
[1] "1.0 - 4.0 (2.5)"   "1.1 - 98.8 (13.7)"
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"AREG WILD-TYPE"   "AREG MUTATED" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"AREG WILD-TYPE"   "AREG MUTATED" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"AREG WILD-TYPE"   "AREG MUTATED" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"AREG WILD-TYPE"   "AREG MUTATED" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"AREG WILD-TYPE"   "AREG MUTATED" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"AREG WILD-TYPE"   "AREG MUTATED" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
[1] "Remove cluster labels:" "AREG MUTATED"          
clus
  AREG MUTATED AREG WILD-TYPE 
             2             53 
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-D3-A3CF     TCGA-D9-A3Z3     TCGA-DA-A1HV     TCGA-DA-A1HW 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB     TCGA-DA-A3F3 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X     TCGA-EE-A17Z 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185     TCGA-EE-A20F 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E     TCGA-EE-A29H 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P     TCGA-EE-A29R 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0     TCGA-EE-A2A1 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F     TCGA-ER-A19J 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N     TCGA-ER-A1A1 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-GN-A264     TCGA-GN-A265     TCGA-GN-A267     TCGA-GN-A268 
"AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" "AREG WILD-TYPE" 
    TCGA-GN-A26D 
"AREG WILD-TYPE" 
D30V2, continuous
D30V3, binary
                cls
clus              0  1
  AREG MUTATED    2  3
  AREG WILD-TYPE 29 71
[1] "tbl2"
                cls
clus             [,1] [,2]
  AREG MUTATED      2    3
  AREG WILD-TYPE   29   71
        clus
vv       AREG MUTATED AREG WILD-TYPE
  FEMALE            2             29
  MALE              3             71
                vv
clus             M0 M1 M1B M1C
  AREG MUTATED    4  0   0   0
  AREG WILD-TYPE 87  1   2   1
D30V4, multiclass
     clus
vv    AREG MUTATED AREG WILD-TYPE
  M0             4             87
  M1             0              1
  M1B            0              2
  M1C            0              1
                vv
clus             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AREG MUTATED    2  0   0   0  1   0   0   0  1  0
  AREG WILD-TYPE 56  1   3   9  0   3   7   1 11  1
D30V5, multiclass
D30V6, continuous
                vv
clus             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AREG MUTATED             0       0        1        1        0         0
  AREG WILD-TYPE           1      14        6        9       12         5
                vv
clus             STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC
  AREG MUTATED           0         0         1          0          0          1
  AREG WILD-TYPE         5         2         2          3         10         15
                vv
clus             STAGE IV
  AREG MUTATED          0
  AREG WILD-TYPE        3
D30V7, multiclass

Clustering(31) Variable = ST18 MUTATION ANALYSIS
D31V1, survival
                sevent
clus2             0  1
  ST18 MUTATED    6  7
  ST18 WILD-TYPE 17 25
  ST18 MUTATED ST18 WILD-TYPE 
            13             42 
  ST18 MUTATED ST18 WILD-TYPE 
             7             25 
$`ST18 MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A2J8 TCGA-D3-A3CE TCGA-DA-A1I2 TCGA-DA-A3F3 TCGA-EE-A181 
       16.47         8.38        13.32        13.68         7.00         1.12 
TCGA-EE-A183 TCGA-EE-A29E TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29S TCGA-ER-A19N 
       12.20        38.63        12.03         8.84         9.99        42.84 
TCGA-FW-A3R5 
        1.02 

$`ST18 WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A2J9 
       32.55        98.76        28.08        22.55        10.26        21.14 
TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 
       11.41         6.35        15.25        24.00         4.01         2.86 
TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1IB TCGA-DA-A3F5 TCGA-DA-A3F8 
       48.79        35.80        51.12        22.36        17.56        14.83 
TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D 
       11.57         6.31         4.27         5.13        37.97        11.15 
TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 
        4.41         1.08         9.47         8.09        11.31        25.28 
TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M 
       23.90         8.94        11.11         4.18        12.99        28.64 
TCGA-ER-A1A1 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
       78.44        31.33        84.72        16.21        15.39        14.70 

  ST18 MUTATED ST18 WILD-TYPE 
          1.02           1.08 
  ST18 MUTATED ST18 WILD-TYPE 
         42.84          98.76 
  ST18 MUTATED ST18 WILD-TYPE 
         12.03          15.04 
[1] "1.0 - 42.8 (12.0)" "1.1 - 98.8 (15.0)"
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
  "ST18 MUTATED" "ST18 WILD-TYPE" "ST18 WILD-TYPE" "ST18 WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"ST18 WILD-TYPE" "ST18 WILD-TYPE"   "ST18 MUTATED" "ST18 WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"ST18 WILD-TYPE" "ST18 WILD-TYPE" "ST18 WILD-TYPE"   "ST18 MUTATED" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"ST18 WILD-TYPE" "ST18 WILD-TYPE" "ST18 WILD-TYPE" "ST18 WILD-TYPE" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
"ST18 WILD-TYPE" "ST18 WILD-TYPE"   "ST18 MUTATED" "ST18 WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
  "ST18 MUTATED" "ST18 WILD-TYPE" "ST18 WILD-TYPE" "ST18 WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"ST18 WILD-TYPE"   "ST18 MUTATED"   "ST18 MUTATED" "ST18 WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"ST18 WILD-TYPE" "ST18 WILD-TYPE" "ST18 WILD-TYPE"   "ST18 MUTATED" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
"ST18 WILD-TYPE" "ST18 WILD-TYPE" "ST18 WILD-TYPE"   "ST18 MUTATED" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
  "ST18 MUTATED"   "ST18 MUTATED" "ST18 WILD-TYPE" "ST18 WILD-TYPE" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"ST18 WILD-TYPE" "ST18 WILD-TYPE" "ST18 WILD-TYPE" "ST18 WILD-TYPE" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
"ST18 WILD-TYPE" "ST18 WILD-TYPE" "ST18 WILD-TYPE"   "ST18 MUTATED" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"ST18 WILD-TYPE"   "ST18 MUTATED" "ST18 WILD-TYPE" "ST18 WILD-TYPE" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"ST18 WILD-TYPE" "ST18 WILD-TYPE" "ST18 WILD-TYPE" 
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
  "ST18 MUTATED" "ST18 WILD-TYPE" "ST18 WILD-TYPE" "ST18 WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"ST18 WILD-TYPE" "ST18 WILD-TYPE"   "ST18 MUTATED" "ST18 WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"ST18 WILD-TYPE" "ST18 WILD-TYPE" "ST18 WILD-TYPE"   "ST18 MUTATED" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"ST18 WILD-TYPE" "ST18 WILD-TYPE" "ST18 WILD-TYPE" "ST18 WILD-TYPE" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
"ST18 WILD-TYPE" "ST18 WILD-TYPE"   "ST18 MUTATED" "ST18 WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
  "ST18 MUTATED" "ST18 WILD-TYPE" "ST18 WILD-TYPE" "ST18 WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"ST18 WILD-TYPE"   "ST18 MUTATED"   "ST18 MUTATED" "ST18 WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"ST18 WILD-TYPE" "ST18 WILD-TYPE" "ST18 WILD-TYPE"   "ST18 MUTATED" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
"ST18 WILD-TYPE" "ST18 WILD-TYPE" "ST18 WILD-TYPE"   "ST18 MUTATED" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
  "ST18 MUTATED"   "ST18 MUTATED" "ST18 WILD-TYPE" "ST18 WILD-TYPE" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"ST18 WILD-TYPE" "ST18 WILD-TYPE" "ST18 WILD-TYPE" "ST18 WILD-TYPE" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
"ST18 WILD-TYPE" "ST18 WILD-TYPE" "ST18 WILD-TYPE"   "ST18 MUTATED" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"ST18 WILD-TYPE"   "ST18 MUTATED" "ST18 WILD-TYPE" "ST18 WILD-TYPE" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"ST18 WILD-TYPE" "ST18 WILD-TYPE" "ST18 WILD-TYPE" 
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
  "ST18 MUTATED" "ST18 WILD-TYPE" "ST18 WILD-TYPE" "ST18 WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"ST18 WILD-TYPE" "ST18 WILD-TYPE"   "ST18 MUTATED" "ST18 WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"ST18 WILD-TYPE" "ST18 WILD-TYPE" "ST18 WILD-TYPE"   "ST18 MUTATED" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"ST18 WILD-TYPE" "ST18 WILD-TYPE" "ST18 WILD-TYPE" "ST18 WILD-TYPE" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
"ST18 WILD-TYPE" "ST18 WILD-TYPE"   "ST18 MUTATED" "ST18 WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
  "ST18 MUTATED" "ST18 WILD-TYPE" "ST18 WILD-TYPE" "ST18 WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"ST18 WILD-TYPE"   "ST18 MUTATED"   "ST18 MUTATED" "ST18 WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"ST18 WILD-TYPE" "ST18 WILD-TYPE" "ST18 WILD-TYPE"   "ST18 MUTATED" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
"ST18 WILD-TYPE" "ST18 WILD-TYPE" "ST18 WILD-TYPE"   "ST18 MUTATED" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
  "ST18 MUTATED"   "ST18 MUTATED" "ST18 WILD-TYPE" "ST18 WILD-TYPE" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"ST18 WILD-TYPE" "ST18 WILD-TYPE" "ST18 WILD-TYPE" "ST18 WILD-TYPE" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
"ST18 WILD-TYPE" "ST18 WILD-TYPE" "ST18 WILD-TYPE"   "ST18 MUTATED" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"ST18 WILD-TYPE"   "ST18 MUTATED" "ST18 WILD-TYPE" "ST18 WILD-TYPE" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"ST18 WILD-TYPE" "ST18 WILD-TYPE" "ST18 WILD-TYPE" 
[1] "hr=" "1.2"
D31V2, continuous
D31V3, binary
                cls
clus              0  1
  ST18 MUTATED    8 16
  ST18 WILD-TYPE 23 58
[1] "tbl2"
                cls
clus             [,1] [,2]
  ST18 MUTATED      8   16
  ST18 WILD-TYPE   23   58
        clus
vv       ST18 MUTATED ST18 WILD-TYPE
  FEMALE            8             23
  MALE             16             58
                vv
clus             M0 M1 M1B M1C
  ST18 MUTATED   22  0   0   0
  ST18 WILD-TYPE 69  1   2   1
D31V4, multiclass
     clus
vv    ST18 MUTATED ST18 WILD-TYPE
  M0            22             69
  M1             0              1
  M1B            0              2
  M1C            0              1
                vv
clus             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  ST18 MUTATED   14  0   0   3  1   1   2   0  1  0
  ST18 WILD-TYPE 44  1   3   6  0   2   5   1 11  1
D31V5, multiclass
D31V6, continuous
                vv
clus             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  ST18 MUTATED             0       3        1        1        5         2
  ST18 WILD-TYPE           1      11        6        9        7         3
                vv
clus             STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC
  ST18 MUTATED           1         1         2          0          2          3
  ST18 WILD-TYPE         4         1         1          3          8         13
                vv
clus             STAGE IV
  ST18 MUTATED          0
  ST18 WILD-TYPE        3
D31V7, multiclass

Clustering(32) Variable = TAF1A MUTATION ANALYSIS
D32V1, survival
                 sevent
clus2              0  1
  TAF1A MUTATED    0  3
  TAF1A WILD-TYPE 23 29
  TAF1A MUTATED TAF1A WILD-TYPE 
              3              52 
  TAF1A MUTATED TAF1A WILD-TYPE 
              3              29 
$`TAF1A MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A2JK TCGA-D3-A3CE 
       16.47         6.35        13.32 

$`TAF1A WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A2J8 
       32.55        98.76        28.08        22.55        10.26         8.38 
TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A3C6 TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 
       21.14        11.41        15.25        24.00         4.01         2.86 
TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I2 TCGA-DA-A1IB TCGA-DA-A3F3 
       48.79        35.80        51.12        13.68        22.36         7.00 
TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 
       17.56        14.83        11.57         6.31         1.12        12.20 
TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H 
        4.27         5.13        37.97        11.15        38.63         4.41 
TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29X 
        1.08         9.47        12.03         8.84         9.99         8.09 
TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J 
       11.31        25.28        23.90         8.94        11.11         4.18 
TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-FW-A3R5 TCGA-GN-A264 
       12.99        28.64        42.84        78.44         1.02        31.33 
TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
       84.72        16.21        15.39        14.70 

  TAF1A MUTATED TAF1A WILD-TYPE 
           6.35            1.02 
  TAF1A MUTATED TAF1A WILD-TYPE 
          16.47           98.76 
  TAF1A MUTATED TAF1A WILD-TYPE 
         13.320          13.335 
[1] "6.3 - 16.5 (13.3)" "1.0 - 98.8 (13.3)"
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
  "TAF1A MUTATED" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"TAF1A WILD-TYPE"   "TAF1A MUTATED" "TAF1A WILD-TYPE"   "TAF1A MUTATED" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
  "TAF1A MUTATED" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"TAF1A WILD-TYPE"   "TAF1A MUTATED" "TAF1A WILD-TYPE"   "TAF1A MUTATED" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
  "TAF1A MUTATED" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"TAF1A WILD-TYPE"   "TAF1A MUTATED" "TAF1A WILD-TYPE"   "TAF1A MUTATED" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"TAF1A WILD-TYPE" "TAF1A WILD-TYPE" "TAF1A WILD-TYPE" 
[1] "hr=" "2.4"
D32V2, continuous
D32V3, binary
                 cls
clus               0  1
  TAF1A MUTATED    3  5
  TAF1A WILD-TYPE 28 69
[1] "tbl2"
                 cls
clus              [,1] [,2]
  TAF1A MUTATED      3    5
  TAF1A WILD-TYPE   28   69
        clus
vv       TAF1A MUTATED TAF1A WILD-TYPE
  FEMALE             3              28
  MALE               5              69
                 vv
clus              M0 M1 M1B M1C
  TAF1A MUTATED    7  0   1   0
  TAF1A WILD-TYPE 84  1   1   1
D32V4, multiclass
     clus
vv    TAF1A MUTATED TAF1A WILD-TYPE
  M0              7              84
  M1              0               1
  M1B             1               1
  M1C             0               1
                 vv
clus              N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  TAF1A MUTATED    3  0   0   1  0   0   2   0  2  0
  TAF1A WILD-TYPE 55  1   3   8  1   3   5   1 10  1
D32V5, multiclass
D32V6, continuous
                 vv
clus              I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  TAF1A MUTATED             0       1        0        1        1         0
  TAF1A WILD-TYPE           1      13        7        9       11         5
                 vv
clus              STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  TAF1A MUTATED           0         0         1          0          0
  TAF1A WILD-TYPE         5         2         2          3         10
                 vv
clus              STAGE IIIC STAGE IV
  TAF1A MUTATED            3        0
  TAF1A WILD-TYPE         13        3
D32V7, multiclass

Clustering(33) Variable = GRXCR2 MUTATION ANALYSIS
D33V1, survival
                  sevent
clus2               0  1
  GRXCR2 MUTATED    4  2
  GRXCR2 WILD-TYPE 19 30
  GRXCR2 MUTATED GRXCR2 WILD-TYPE 
               6               49 
  GRXCR2 MUTATED GRXCR2 WILD-TYPE 
               2               30 
$`GRXCR2 MUTATED`
TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A181 TCGA-EE-A29D TCGA-EE-A29E TCGA-FW-A3R5 
       17.56        14.83         1.12        11.15        38.63         1.02 

$`GRXCR2 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
       24.00         4.01         2.86        48.79        35.80        51.12 
TCGA-DA-A1I2 TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A183 
       13.68        22.36         7.00        11.57         6.31        12.20 
TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N 
        4.27         5.13        37.97         4.41         1.08         9.47 
TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 
       12.03         8.84         9.99         8.09        11.31        25.28 
TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M 
       23.90         8.94        11.11         4.18        12.99        28.64 
TCGA-ER-A19N TCGA-ER-A1A1 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 
       42.84        78.44        31.33        84.72        16.21        15.39 
TCGA-GN-A26D 
       14.70 

  GRXCR2 MUTATED GRXCR2 WILD-TYPE 
            1.02             1.08 
  GRXCR2 MUTATED GRXCR2 WILD-TYPE 
           38.63            98.76 
  GRXCR2 MUTATED GRXCR2 WILD-TYPE 
           12.99            13.32 
[1] "1.0 - 38.6 (13.0)" "1.1 - 98.8 (13.3)"
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
"GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"GRXCR2 WILD-TYPE"   "GRXCR2 MUTATED"   "GRXCR2 MUTATED" "GRXCR2 WILD-TYPE" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"GRXCR2 WILD-TYPE"   "GRXCR2 MUTATED" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
"GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE"   "GRXCR2 MUTATED"   "GRXCR2 MUTATED" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
"GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
"GRXCR2 WILD-TYPE"   "GRXCR2 MUTATED" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
"GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" 
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
"GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"GRXCR2 WILD-TYPE"   "GRXCR2 MUTATED"   "GRXCR2 MUTATED" "GRXCR2 WILD-TYPE" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"GRXCR2 WILD-TYPE"   "GRXCR2 MUTATED" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
"GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE"   "GRXCR2 MUTATED"   "GRXCR2 MUTATED" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
"GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
"GRXCR2 WILD-TYPE"   "GRXCR2 MUTATED" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
"GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" 
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
"GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"GRXCR2 WILD-TYPE"   "GRXCR2 MUTATED"   "GRXCR2 MUTATED" "GRXCR2 WILD-TYPE" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"GRXCR2 WILD-TYPE"   "GRXCR2 MUTATED" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
"GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE"   "GRXCR2 MUTATED"   "GRXCR2 MUTATED" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
"GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
"GRXCR2 WILD-TYPE"   "GRXCR2 MUTATED" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
"GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" "GRXCR2 WILD-TYPE" 
[1] "hr=" "1.5"
D33V2, continuous
D33V3, binary
                  cls
clus                0  1
  GRXCR2 MUTATED    3  6
  GRXCR2 WILD-TYPE 28 68
[1] "tbl2"
                  cls
clus               [,1] [,2]
  GRXCR2 MUTATED      3    6
  GRXCR2 WILD-TYPE   28   68
        clus
vv       GRXCR2 MUTATED GRXCR2 WILD-TYPE
  FEMALE              3               28
  MALE                6               68
                  vv
clus               M0 M1 M1B M1C
  GRXCR2 MUTATED    8  0   0   0
  GRXCR2 WILD-TYPE 83  1   2   1
D33V4, multiclass
     clus
vv    GRXCR2 MUTATED GRXCR2 WILD-TYPE
  M0               8               83
  M1               0                1
  M1B              0                2
  M1C              0                1
                  vv
clus               N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  GRXCR2 MUTATED    3  0   0   2  1   0   1   0  1  0
  GRXCR2 WILD-TYPE 55  1   3   7  0   3   6   1 11  1
D33V5, multiclass
D33V6, continuous
                  vv
clus               I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  GRXCR2 MUTATED             0       0        2        0        1         0
  GRXCR2 WILD-TYPE           1      14        5       10       11         5
                  vv
clus               STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  GRXCR2 MUTATED           0         0         1          0          2
  GRXCR2 WILD-TYPE         5         2         2          3          8
                  vv
clus               STAGE IIIC STAGE IV
  GRXCR2 MUTATED            2        0
  GRXCR2 WILD-TYPE         14        3
D33V7, multiclass

Clustering(34) Variable = OR9K2 MUTATION ANALYSIS
D34V1, survival
                 sevent
clus2              0  1
  OR9K2 MUTATED    4  4
  OR9K2 WILD-TYPE 19 28
  OR9K2 MUTATED OR9K2 WILD-TYPE 
              8              47 
  OR9K2 MUTATED OR9K2 WILD-TYPE 
              4              28 
$`OR9K2 MUTATED`
TCGA-DA-A1I2 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A181 TCGA-EE-A29E TCGA-ER-A1A1 
       13.68        14.83        11.57         1.12        38.63        78.44 
TCGA-FW-A3R5 TCGA-GN-A268 
        1.02        15.39 

$`OR9K2 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
       24.00         4.01         2.86        48.79        35.80        51.12 
TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-EE-A17Z TCGA-EE-A183 TCGA-EE-A185 
       22.36         7.00        17.56         6.31        12.20         4.27 
TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N 
        5.13        37.97        11.15         4.41         1.08         9.47 
TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 
       12.03         8.84         9.99         8.09        11.31        25.28 
TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M 
       23.90         8.94        11.11         4.18        12.99        28.64 
TCGA-ER-A19N TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A26D 
       42.84        31.33        84.72        16.21        14.70 

  OR9K2 MUTATED OR9K2 WILD-TYPE 
           1.02            1.08 
  OR9K2 MUTATED OR9K2 WILD-TYPE 
          78.44           98.76 
  OR9K2 MUTATED OR9K2 WILD-TYPE 
         14.255          12.990 
[1] "1.0 - 78.4 (14.3)" "1.1 - 98.8 (13.0)"
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE"   "OR9K2 MUTATED" "OR9K2 WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE"   "OR9K2 MUTATED"   "OR9K2 MUTATED" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"OR9K2 WILD-TYPE"   "OR9K2 MUTATED" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE"   "OR9K2 MUTATED" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
  "OR9K2 MUTATED"   "OR9K2 MUTATED" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"OR9K2 WILD-TYPE"   "OR9K2 MUTATED" "OR9K2 WILD-TYPE" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE"   "OR9K2 MUTATED" "OR9K2 WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE"   "OR9K2 MUTATED"   "OR9K2 MUTATED" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"OR9K2 WILD-TYPE"   "OR9K2 MUTATED" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE"   "OR9K2 MUTATED" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
  "OR9K2 MUTATED"   "OR9K2 MUTATED" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"OR9K2 WILD-TYPE"   "OR9K2 MUTATED" "OR9K2 WILD-TYPE" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE"   "OR9K2 MUTATED" "OR9K2 WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE"   "OR9K2 MUTATED"   "OR9K2 MUTATED" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"OR9K2 WILD-TYPE"   "OR9K2 MUTATED" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE"   "OR9K2 MUTATED" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
  "OR9K2 MUTATED"   "OR9K2 MUTATED" "OR9K2 WILD-TYPE" "OR9K2 WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"OR9K2 WILD-TYPE"   "OR9K2 MUTATED" "OR9K2 WILD-TYPE" 
[1] "hr=" "1.2"
D34V2, continuous
D34V3, binary
                 cls
clus               0  1
  OR9K2 MUTATED    2  9
  OR9K2 WILD-TYPE 29 65
[1] "tbl2"
                 cls
clus              [,1] [,2]
  OR9K2 MUTATED      2    9
  OR9K2 WILD-TYPE   29   65
        clus
vv       OR9K2 MUTATED OR9K2 WILD-TYPE
  FEMALE             2              29
  MALE               9              65
                 vv
clus              M0 M1 M1B M1C
  OR9K2 MUTATED   11  0   0   0
  OR9K2 WILD-TYPE 80  1   2   1
D34V4, multiclass
     clus
vv    OR9K2 MUTATED OR9K2 WILD-TYPE
  M0             11              80
  M1              0               1
  M1B             0               2
  M1C             0               1
                 vv
clus              N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  OR9K2 MUTATED    5  0   0   1  1   1   2   0  1  0
  OR9K2 WILD-TYPE 53  1   3   8  0   2   5   1 11  1
D34V5, multiclass
D34V6, continuous
                 vv
clus              I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  OR9K2 MUTATED             0       0        1        0        2         0
  OR9K2 WILD-TYPE           1      14        6       10       10         5
                 vv
clus              STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  OR9K2 MUTATED           2         0         1          0          2
  OR9K2 WILD-TYPE         3         2         2          3          8
                 vv
clus              STAGE IIIC STAGE IV
  OR9K2 MUTATED            2        0
  OR9K2 WILD-TYPE         14        3
D34V7, multiclass

Clustering(35) Variable = OXA1L MUTATION ANALYSIS
D35V1, survival
                 sevent
clus2              0  1
  OXA1L MUTATED    1  1
  OXA1L WILD-TYPE 22 31
  OXA1L MUTATED OXA1L WILD-TYPE 
              2              53 
  OXA1L MUTATED OXA1L WILD-TYPE 
              1              31 
$`OXA1L MUTATED`
TCGA-EE-A181 TCGA-FW-A3R5 
        1.12         1.02 

$`OXA1L WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
       24.00         4.01         2.86        48.79        35.80        51.12 
TCGA-DA-A1I2 TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X 
       13.68        22.36         7.00        17.56        14.83        11.57 
TCGA-EE-A17Z TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D 
        6.31        12.20         4.27         5.13        37.97        11.15 
TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R 
       38.63         4.41         1.08         9.47        12.03         8.84 
TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 
        9.99         8.09        11.31        25.28        23.90         8.94 
TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 
       11.11         4.18        12.99        28.64        42.84        78.44 
TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
       31.33        84.72        16.21        15.39        14.70 

  OXA1L MUTATED OXA1L WILD-TYPE 
           1.02            1.08 
  OXA1L MUTATED OXA1L WILD-TYPE 
           1.12           98.76 
  OXA1L MUTATED OXA1L WILD-TYPE 
           1.07           13.68 
[1] "1.0 - 1.1 (1.1)"   "1.1 - 98.8 (13.7)"
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"OXA1L WILD-TYPE"   "OXA1L MUTATED" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"OXA1L WILD-TYPE"   "OXA1L MUTATED" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"OXA1L WILD-TYPE"   "OXA1L MUTATED" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"OXA1L WILD-TYPE"   "OXA1L MUTATED" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"OXA1L WILD-TYPE"   "OXA1L MUTATED" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"OXA1L WILD-TYPE"   "OXA1L MUTATED" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
[1] "Remove cluster labels:" "OXA1L MUTATED"         
clus
  OXA1L MUTATED OXA1L WILD-TYPE 
              2              53 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A183      TCGA-EE-A185      TCGA-EE-A20F 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E      TCGA-EE-A29H 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P      TCGA-EE-A29R 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0      TCGA-EE-A2A1 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F      TCGA-ER-A19J 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N      TCGA-ER-A1A1 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-GN-A264      TCGA-GN-A265      TCGA-GN-A267      TCGA-GN-A268 
"OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" "OXA1L WILD-TYPE" 
     TCGA-GN-A26D 
"OXA1L WILD-TYPE" 
D35V2, continuous
D35V3, binary
                 cls
clus               0  1
  OXA1L MUTATED    1  3
  OXA1L WILD-TYPE 30 71
[1] "tbl2"
                 cls
clus              [,1] [,2]
  OXA1L MUTATED      1    3
  OXA1L WILD-TYPE   30   71
        clus
vv       OXA1L MUTATED OXA1L WILD-TYPE
  FEMALE             1              30
  MALE               3              71
                 vv
clus              M0 M1 M1B M1C
  OXA1L MUTATED    4  0   0   0
  OXA1L WILD-TYPE 87  1   2   1
D35V4, multiclass
     clus
vv    OXA1L MUTATED OXA1L WILD-TYPE
  M0              4              87
  M1              0               1
  M1B             0               2
  M1C             0               1
                 vv
clus              N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  OXA1L MUTATED    2  0   1   0  1   0   0   0  0  0
  OXA1L WILD-TYPE 56  1   2   9  0   3   7   1 12  1
D35V5, multiclass
D35V6, continuous
                 vv
clus              I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  OXA1L MUTATED             0       0        0        0        2         0
  OXA1L WILD-TYPE           1      14        7       10       10         5
                 vv
clus              STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  OXA1L MUTATED           0         0         1          1          0
  OXA1L WILD-TYPE         5         2         2          2         10
                 vv
clus              STAGE IIIC STAGE IV
  OXA1L MUTATED            0        0
  OXA1L WILD-TYPE         16        3
D35V7, multiclass

Clustering(36) Variable = A2BP1 MUTATION ANALYSIS
D36V1, survival
                 sevent
clus2              0  1
  A2BP1 MUTATED    2  3
  A2BP1 WILD-TYPE 21 29
  A2BP1 MUTATED A2BP1 WILD-TYPE 
              5              50 
  A2BP1 MUTATED A2BP1 WILD-TYPE 
              3              29 
$`A2BP1 MUTATED`
TCGA-DA-A1HV TCGA-EE-A181 TCGA-EE-A29D TCGA-FW-A3R5 TCGA-GN-A267 
       48.79         1.12        11.15         1.02        16.21 

$`A2BP1 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I2 
       24.00         4.01         2.86        35.80        51.12        13.68 
TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z 
       22.36         7.00        17.56        14.83        11.57         6.31 
TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29E TCGA-EE-A29H 
       12.20         4.27         5.13        37.97        38.63         4.41 
TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29X 
        1.08         9.47        12.03         8.84         9.99         8.09 
TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J 
       11.31        25.28        23.90         8.94        11.11         4.18 
TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-GN-A264 TCGA-GN-A265 
       12.99        28.64        42.84        78.44        31.33        84.72 
TCGA-GN-A268 TCGA-GN-A26D 
       15.39        14.70 

  A2BP1 MUTATED A2BP1 WILD-TYPE 
           1.02            1.08 
  A2BP1 MUTATED A2BP1 WILD-TYPE 
          48.79           98.76 
  A2BP1 MUTATED A2BP1 WILD-TYPE 
          11.15           13.50 
[1] "1.0 - 48.8 (11.2)" "1.1 - 98.8 (13.5)"
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE"   "A2BP1 MUTATED" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"A2BP1 WILD-TYPE"   "A2BP1 MUTATED" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE"   "A2BP1 MUTATED" "A2BP1 WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"A2BP1 WILD-TYPE"   "A2BP1 MUTATED" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
  "A2BP1 MUTATED" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE"   "A2BP1 MUTATED" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"A2BP1 WILD-TYPE"   "A2BP1 MUTATED" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE"   "A2BP1 MUTATED" "A2BP1 WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"A2BP1 WILD-TYPE"   "A2BP1 MUTATED" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
  "A2BP1 MUTATED" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE"   "A2BP1 MUTATED" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"A2BP1 WILD-TYPE"   "A2BP1 MUTATED" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE"   "A2BP1 MUTATED" "A2BP1 WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"A2BP1 WILD-TYPE"   "A2BP1 MUTATED" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
  "A2BP1 MUTATED" "A2BP1 WILD-TYPE" "A2BP1 WILD-TYPE" 
[1] "hr=" "1.3"
D36V2, continuous
D36V3, binary
                 cls
clus               0  1
  A2BP1 MUTATED    3 11
  A2BP1 WILD-TYPE 28 63
[1] "tbl2"
                 cls
clus              [,1] [,2]
  A2BP1 MUTATED      3   11
  A2BP1 WILD-TYPE   28   63
        clus
vv       A2BP1 MUTATED A2BP1 WILD-TYPE
  FEMALE             3              28
  MALE              11              63
                 vv
clus              M0 M1 M1B M1C
  A2BP1 MUTATED   13  0   0   0
  A2BP1 WILD-TYPE 78  1   2   1
D36V4, multiclass
     clus
vv    A2BP1 MUTATED A2BP1 WILD-TYPE
  M0             13              78
  M1              0               1
  M1B             0               2
  M1C             0               1
                 vv
clus              N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  A2BP1 MUTATED    9  0   1   1  1   0   1   0  0  0
  A2BP1 WILD-TYPE 49  1   2   8  0   3   6   1 12  1
D36V5, multiclass
D36V6, continuous
                 vv
clus              I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  A2BP1 MUTATED             0       3        0        0        5         1
  A2BP1 WILD-TYPE           1      11        7       10        7         4
                 vv
clus              STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  A2BP1 MUTATED           0         0         1          1          1
  A2BP1 WILD-TYPE         5         2         2          2          9
                 vv
clus              STAGE IIIC STAGE IV
  A2BP1 MUTATED            1        0
  A2BP1 WILD-TYPE         15        3
D36V7, multiclass

Clustering(37) Variable = HIST1H2AA MUTATION ANALYSIS
D37V1, survival
                     sevent
clus2                  0  1
  HIST1H2AA MUTATED    0  1
  HIST1H2AA WILD-TYPE 23 31
  HIST1H2AA MUTATED HIST1H2AA WILD-TYPE 
                  1                  54 
  HIST1H2AA MUTATED HIST1H2AA WILD-TYPE 
                  1                  31 
$`HIST1H2AA MUTATED`
TCGA-EE-A29D 
       11.15 

$`HIST1H2AA WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
       24.00         4.01         2.86        48.79        35.80        51.12 
TCGA-DA-A1I2 TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X 
       13.68        22.36         7.00        17.56        14.83        11.57 
TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C 
        6.31         1.12        12.20         4.27         5.13        37.97 
TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R 
       38.63         4.41         1.08         9.47        12.03         8.84 
TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 
        9.99         8.09        11.31        25.28        23.90         8.94 
TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 
       11.11         4.18        12.99        28.64        42.84        78.44 
TCGA-FW-A3R5 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
        1.02        31.33        84.72        16.21        15.39        14.70 

  HIST1H2AA MUTATED HIST1H2AA WILD-TYPE 
              11.15                1.02 
  HIST1H2AA MUTATED HIST1H2AA WILD-TYPE 
              11.15               98.76 
  HIST1H2AA MUTATED HIST1H2AA WILD-TYPE 
              11.15               13.50 
[1] "11.2 - 11.2 (11.2)" "1.0 - 98.8 (13.5)" 
         TCGA-D3-A1Q1          TCGA-D3-A1Q5          TCGA-D3-A1Q7 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-D3-A1Q8          TCGA-D3-A1Q9          TCGA-D3-A2J6 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-D3-A2J8          TCGA-D3-A2J9          TCGA-D3-A2JD 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-D3-A2JK          TCGA-D3-A3C6          TCGA-D3-A3CE 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-D3-A3CF          TCGA-D9-A3Z1          TCGA-D9-A3Z3 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-DA-A1HV          TCGA-DA-A1HW          TCGA-DA-A1HY 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-DA-A1I2          TCGA-DA-A1IB          TCGA-DA-A3F3 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-DA-A3F5          TCGA-DA-A3F8          TCGA-EE-A17X 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-EE-A17Z          TCGA-EE-A181          TCGA-EE-A183 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-EE-A185          TCGA-EE-A20F          TCGA-EE-A29C 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-EE-A29D          TCGA-EE-A29E          TCGA-EE-A29H 
  "HIST1H2AA MUTATED" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-EE-A29L          TCGA-EE-A29N          TCGA-EE-A29P 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-EE-A29R          TCGA-EE-A29S          TCGA-EE-A29X 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-EE-A2A0          TCGA-EE-A2A1          TCGA-EE-A2A2 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-EE-A2A6          TCGA-ER-A19F          TCGA-ER-A19J 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-ER-A19L          TCGA-ER-A19M          TCGA-ER-A19N 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-ER-A1A1          TCGA-FW-A3R5          TCGA-GN-A264 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-GN-A265          TCGA-GN-A267          TCGA-GN-A268 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-GN-A26D 
"HIST1H2AA WILD-TYPE" 
         TCGA-D3-A1Q1          TCGA-D3-A1Q5          TCGA-D3-A1Q7 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-D3-A1Q8          TCGA-D3-A1Q9          TCGA-D3-A2J6 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-D3-A2J8          TCGA-D3-A2J9          TCGA-D3-A2JD 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-D3-A2JK          TCGA-D3-A3C6          TCGA-D3-A3CE 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-D3-A3CF          TCGA-D9-A3Z1          TCGA-D9-A3Z3 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-DA-A1HV          TCGA-DA-A1HW          TCGA-DA-A1HY 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-DA-A1I2          TCGA-DA-A1IB          TCGA-DA-A3F3 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-DA-A3F5          TCGA-DA-A3F8          TCGA-EE-A17X 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-EE-A17Z          TCGA-EE-A181          TCGA-EE-A183 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-EE-A185          TCGA-EE-A20F          TCGA-EE-A29C 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-EE-A29D          TCGA-EE-A29E          TCGA-EE-A29H 
  "HIST1H2AA MUTATED" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-EE-A29L          TCGA-EE-A29N          TCGA-EE-A29P 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-EE-A29R          TCGA-EE-A29S          TCGA-EE-A29X 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-EE-A2A0          TCGA-EE-A2A1          TCGA-EE-A2A2 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-EE-A2A6          TCGA-ER-A19F          TCGA-ER-A19J 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-ER-A19L          TCGA-ER-A19M          TCGA-ER-A19N 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-ER-A1A1          TCGA-FW-A3R5          TCGA-GN-A264 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-GN-A265          TCGA-GN-A267          TCGA-GN-A268 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-GN-A26D 
"HIST1H2AA WILD-TYPE" 
         TCGA-D3-A1Q1          TCGA-D3-A1Q5          TCGA-D3-A1Q7 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-D3-A1Q8          TCGA-D3-A1Q9          TCGA-D3-A2J6 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-D3-A2J8          TCGA-D3-A2J9          TCGA-D3-A2JD 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-D3-A2JK          TCGA-D3-A3C6          TCGA-D3-A3CE 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-D3-A3CF          TCGA-D9-A3Z1          TCGA-D9-A3Z3 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-DA-A1HV          TCGA-DA-A1HW          TCGA-DA-A1HY 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-DA-A1I2          TCGA-DA-A1IB          TCGA-DA-A3F3 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-DA-A3F5          TCGA-DA-A3F8          TCGA-EE-A17X 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-EE-A17Z          TCGA-EE-A181          TCGA-EE-A183 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-EE-A185          TCGA-EE-A20F          TCGA-EE-A29C 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-EE-A29D          TCGA-EE-A29E          TCGA-EE-A29H 
  "HIST1H2AA MUTATED" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-EE-A29L          TCGA-EE-A29N          TCGA-EE-A29P 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-EE-A29R          TCGA-EE-A29S          TCGA-EE-A29X 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-EE-A2A0          TCGA-EE-A2A1          TCGA-EE-A2A2 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-EE-A2A6          TCGA-ER-A19F          TCGA-ER-A19J 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-ER-A19L          TCGA-ER-A19M          TCGA-ER-A19N 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-ER-A1A1          TCGA-FW-A3R5          TCGA-GN-A264 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-GN-A265          TCGA-GN-A267          TCGA-GN-A268 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-GN-A26D 
"HIST1H2AA WILD-TYPE" 
[1] "Remove cluster labels:" "HIST1H2AA MUTATED"     
clus
  HIST1H2AA MUTATED HIST1H2AA WILD-TYPE 
                  1                  54 
         TCGA-D3-A1Q1          TCGA-D3-A1Q5          TCGA-D3-A1Q7 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-D3-A1Q8          TCGA-D3-A1Q9          TCGA-D3-A2J6 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-D3-A2J8          TCGA-D3-A2J9          TCGA-D3-A2JD 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-D3-A2JK          TCGA-D3-A3C6          TCGA-D3-A3CE 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-D3-A3CF          TCGA-D9-A3Z1          TCGA-D9-A3Z3 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-DA-A1HV          TCGA-DA-A1HW          TCGA-DA-A1HY 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-DA-A1I2          TCGA-DA-A1IB          TCGA-DA-A3F3 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-DA-A3F5          TCGA-DA-A3F8          TCGA-EE-A17X 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-EE-A17Z          TCGA-EE-A181          TCGA-EE-A183 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-EE-A185          TCGA-EE-A20F          TCGA-EE-A29C 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-EE-A29E          TCGA-EE-A29H          TCGA-EE-A29L 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-EE-A29N          TCGA-EE-A29P          TCGA-EE-A29R 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-EE-A29S          TCGA-EE-A29X          TCGA-EE-A2A0 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-EE-A2A1          TCGA-EE-A2A2          TCGA-EE-A2A6 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-ER-A19F          TCGA-ER-A19J          TCGA-ER-A19L 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-ER-A19M          TCGA-ER-A19N          TCGA-ER-A1A1 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-FW-A3R5          TCGA-GN-A264          TCGA-GN-A265 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
         TCGA-GN-A267          TCGA-GN-A268          TCGA-GN-A26D 
"HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" "HIST1H2AA WILD-TYPE" 
D37V2, continuous
D37V3, binary
                     cls
clus                   0  1
  HIST1H2AA MUTATED    2  3
  HIST1H2AA WILD-TYPE 29 71
[1] "tbl2"
                     cls
clus                  [,1] [,2]
  HIST1H2AA MUTATED      2    3
  HIST1H2AA WILD-TYPE   29   71
        clus
vv       HIST1H2AA MUTATED HIST1H2AA WILD-TYPE
  FEMALE                 2                  29
  MALE                   3                  71
                     vv
clus                  M0 M1 M1B M1C
  HIST1H2AA MUTATED    5  0   0   0
  HIST1H2AA WILD-TYPE 86  1   2   1
D37V4, multiclass
     clus
vv    HIST1H2AA MUTATED HIST1H2AA WILD-TYPE
  M0                  5                  86
  M1                  0                   1
  M1B                 0                   2
  M1C                 0                   1
                     vv
clus                  N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  HIST1H2AA MUTATED    4  0   0   1  0   0   0   0  0  0
  HIST1H2AA WILD-TYPE 54  1   3   8  1   3   7   1 12  1
D37V5, multiclass
D37V6, continuous
                     vv
clus                  I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  HIST1H2AA MUTATED             0       1        1        1        1         0
  HIST1H2AA WILD-TYPE           1      13        6        9       11         5
                     vv
clus                  STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  HIST1H2AA MUTATED           0         0         0          0          0
  HIST1H2AA WILD-TYPE         5         2         3          3         10
                     vv
clus                  STAGE IIIC STAGE IV
  HIST1H2AA MUTATED            1        0
  HIST1H2AA WILD-TYPE         15        3
D37V7, multiclass

Clustering(38) Variable = LILRA1 MUTATION ANALYSIS
D38V1, survival
                  sevent
clus2               0  1
  LILRA1 MUTATED    5  3
  LILRA1 WILD-TYPE 18 29
  LILRA1 MUTATED LILRA1 WILD-TYPE 
               8               47 
  LILRA1 MUTATED LILRA1 WILD-TYPE 
               3               29 
$`LILRA1 MUTATED`
TCGA-D3-A1Q8 TCGA-D3-A2J8 TCGA-D9-A3Z1 TCGA-DA-A1HY TCGA-DA-A3F8 TCGA-EE-A29E 
       28.08         8.38         4.01        51.12        14.83        38.63 
TCGA-EE-A29N TCGA-FW-A3R5 
        9.47         1.02 

$`LILRA1 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A2J9 
       16.47        32.55        98.76        22.55        10.26        21.14 
TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D9-A3Z3 
       11.41         6.35        15.25        13.32        24.00         2.86 
TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1I2 TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 
       48.79        35.80        13.68        22.36         7.00        17.56 
TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F 
       11.57         6.31         1.12        12.20         4.27         5.13 
TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29P TCGA-EE-A29R 
       37.97        11.15         4.41         1.08        12.03         8.84 
TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 
        9.99         8.09        11.31        25.28        23.90         8.94 
TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 
       11.11         4.18        12.99        28.64        42.84        78.44 
TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
       31.33        84.72        16.21        15.39        14.70 

  LILRA1 MUTATED LILRA1 WILD-TYPE 
            1.02             1.08 
  LILRA1 MUTATED LILRA1 WILD-TYPE 
           51.12            98.76 
  LILRA1 MUTATED LILRA1 WILD-TYPE 
           12.15            13.32 
[1] "1.0 - 51.1 (12.2)" "1.1 - 98.8 (13.3)"
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE"   "LILRA1 MUTATED" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE"   "LILRA1 MUTATED" "LILRA1 WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
"LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"LILRA1 WILD-TYPE"   "LILRA1 MUTATED" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"LILRA1 WILD-TYPE"   "LILRA1 MUTATED" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE"   "LILRA1 MUTATED" "LILRA1 WILD-TYPE" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
"LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE"   "LILRA1 MUTATED" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE"   "LILRA1 MUTATED" "LILRA1 WILD-TYPE" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
"LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
"LILRA1 WILD-TYPE"   "LILRA1 MUTATED" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
"LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" 
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE"   "LILRA1 MUTATED" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE"   "LILRA1 MUTATED" "LILRA1 WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
"LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"LILRA1 WILD-TYPE"   "LILRA1 MUTATED" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"LILRA1 WILD-TYPE"   "LILRA1 MUTATED" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE"   "LILRA1 MUTATED" "LILRA1 WILD-TYPE" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
"LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE"   "LILRA1 MUTATED" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE"   "LILRA1 MUTATED" "LILRA1 WILD-TYPE" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
"LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
"LILRA1 WILD-TYPE"   "LILRA1 MUTATED" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
"LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" 
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE"   "LILRA1 MUTATED" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE"   "LILRA1 MUTATED" "LILRA1 WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
"LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"LILRA1 WILD-TYPE"   "LILRA1 MUTATED" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"LILRA1 WILD-TYPE"   "LILRA1 MUTATED" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE"   "LILRA1 MUTATED" "LILRA1 WILD-TYPE" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
"LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE"   "LILRA1 MUTATED" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE"   "LILRA1 MUTATED" "LILRA1 WILD-TYPE" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
"LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
"LILRA1 WILD-TYPE"   "LILRA1 MUTATED" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
"LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" "LILRA1 WILD-TYPE" 
[1] "hr=" "1.6"
D38V2, continuous
D38V3, binary
                  cls
clus                0  1
  LILRA1 MUTATED    4 17
  LILRA1 WILD-TYPE 27 57
[1] "tbl2"
                  cls
clus               [,1] [,2]
  LILRA1 MUTATED      4   17
  LILRA1 WILD-TYPE   27   57
        clus
vv       LILRA1 MUTATED LILRA1 WILD-TYPE
  FEMALE              4               27
  MALE               17               57
                  vv
clus               M0 M1 M1B M1C
  LILRA1 MUTATED   18  0   1   0
  LILRA1 WILD-TYPE 73  1   1   1
D38V4, multiclass
     clus
vv    LILRA1 MUTATED LILRA1 WILD-TYPE
  M0              18               73
  M1               0                1
  M1B              1                1
  M1C              0                1
                  vv
clus               N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  LILRA1 MUTATED   11  0   0   2  1   0   1   0  3  1
  LILRA1 WILD-TYPE 47  1   3   7  0   3   6   1  9  0
D38V5, multiclass
D38V6, continuous
                  vv
clus               I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  LILRA1 MUTATED             0       3        1        1        3         1
  LILRA1 WILD-TYPE           1      11        6        9        9         4
                  vv
clus               STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  LILRA1 MUTATED           1         0         1          0          3
  LILRA1 WILD-TYPE         4         2         2          3          7
                  vv
clus               STAGE IIIC STAGE IV
  LILRA1 MUTATED            2        1
  LILRA1 WILD-TYPE         14        2
D38V7, multiclass

Clustering(39) Variable = LIN7A MUTATION ANALYSIS
D39V1, survival
                 sevent
clus2              0  1
  LIN7A MUTATED    1  3
  LIN7A WILD-TYPE 22 29
  LIN7A MUTATED LIN7A WILD-TYPE 
              4              51 
  LIN7A MUTATED LIN7A WILD-TYPE 
              3              29 
$`LIN7A MUTATED`
TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A29L TCGA-FW-A3R5 
        1.12        12.20         1.08         1.02 

$`LIN7A WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
       24.00         4.01         2.86        48.79        35.80        51.12 
TCGA-DA-A1I2 TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X 
       13.68        22.36         7.00        17.56        14.83        11.57 
TCGA-EE-A17Z TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E 
        6.31         4.27         5.13        37.97        11.15        38.63 
TCGA-EE-A29H TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29X 
        4.41         9.47        12.03         8.84         9.99         8.09 
TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J 
       11.31        25.28        23.90         8.94        11.11         4.18 
TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-GN-A264 TCGA-GN-A265 
       12.99        28.64        42.84        78.44        31.33        84.72 
TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
       16.21        15.39        14.70 

  LIN7A MUTATED LIN7A WILD-TYPE 
           1.02            2.86 
  LIN7A MUTATED LIN7A WILD-TYPE 
          12.20           98.76 
  LIN7A MUTATED LIN7A WILD-TYPE 
            1.1            14.7 
[1] "1.0 - 12.2 (1.1)"  "2.9 - 98.8 (14.7)"
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"LIN7A WILD-TYPE"   "LIN7A MUTATED"   "LIN7A MUTATED" "LIN7A WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"LIN7A WILD-TYPE"   "LIN7A MUTATED" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"LIN7A WILD-TYPE"   "LIN7A MUTATED" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"LIN7A WILD-TYPE"   "LIN7A MUTATED"   "LIN7A MUTATED" "LIN7A WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"LIN7A WILD-TYPE"   "LIN7A MUTATED" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"LIN7A WILD-TYPE"   "LIN7A MUTATED" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"LIN7A WILD-TYPE"   "LIN7A MUTATED"   "LIN7A MUTATED" "LIN7A WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"LIN7A WILD-TYPE"   "LIN7A MUTATED" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"LIN7A WILD-TYPE"   "LIN7A MUTATED" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"LIN7A WILD-TYPE" "LIN7A WILD-TYPE" "LIN7A WILD-TYPE" 
[1] "hr=" "7.5"
D39V2, continuous
D39V3, binary
                 cls
clus               0  1
  LIN7A MUTATED    2  6
  LIN7A WILD-TYPE 29 68
[1] "tbl2"
                 cls
clus              [,1] [,2]
  LIN7A MUTATED      2    6
  LIN7A WILD-TYPE   29   68
        clus
vv       LIN7A MUTATED LIN7A WILD-TYPE
  FEMALE             2              29
  MALE               6              68
                 vv
clus              M0 M1 M1B M1C
  LIN7A MUTATED    6  0   0   0
  LIN7A WILD-TYPE 85  1   2   1
D39V4, multiclass
     clus
vv    LIN7A MUTATED LIN7A WILD-TYPE
  M0              6              85
  M1              0               1
  M1B             0               2
  M1C             0               1
                 vv
clus              N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  LIN7A MUTATED    4  0   0   0  1   0   0   0  1  0
  LIN7A WILD-TYPE 54  1   3   9  0   3   7   1 11  1
D39V5, multiclass
D39V6, continuous
                 vv
clus              I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  LIN7A MUTATED             0       1        1        0        2         0
  LIN7A WILD-TYPE           1      13        6       10       10         5
                 vv
clus              STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  LIN7A MUTATED           0         0         1          0          0
  LIN7A WILD-TYPE         5         2         2          3         10
                 vv
clus              STAGE IIIC STAGE IV
  LIN7A MUTATED            1        0
  LIN7A WILD-TYPE         15        3
D39V7, multiclass

Clustering(40) Variable = VGLL1 MUTATION ANALYSIS
D40V1, survival
                 sevent
clus2              0  1
  VGLL1 MUTATED    2  0
  VGLL1 WILD-TYPE 21 32
  VGLL1 MUTATED VGLL1 WILD-TYPE 
              2              53 
  VGLL1 MUTATED VGLL1 WILD-TYPE 
              0              32 
$`VGLL1 MUTATED`
TCGA-ER-A1A1 TCGA-FW-A3R5 
       78.44         1.02 

$`VGLL1 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
       24.00         4.01         2.86        48.79        35.80        51.12 
TCGA-DA-A1I2 TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X 
       13.68        22.36         7.00        17.56        14.83        11.57 
TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C 
        6.31         1.12        12.20         4.27         5.13        37.97 
TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P 
       11.15        38.63         4.41         1.08         9.47        12.03 
TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 
        8.84         9.99         8.09        11.31        25.28        23.90 
TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N 
        8.94        11.11         4.18        12.99        28.64        42.84 
TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
       31.33        84.72        16.21        15.39        14.70 

  VGLL1 MUTATED VGLL1 WILD-TYPE 
           1.02            1.08 
  VGLL1 MUTATED VGLL1 WILD-TYPE 
          78.44           98.76 
  VGLL1 MUTATED VGLL1 WILD-TYPE 
          39.73           13.32 
[1] "1.0 - 78.4 (39.7)" "1.1 - 98.8 (13.3)"
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
  "VGLL1 MUTATED"   "VGLL1 MUTATED" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
  "VGLL1 MUTATED"   "VGLL1 MUTATED" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
  "VGLL1 MUTATED"   "VGLL1 MUTATED" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
[1] "Remove cluster labels:" "VGLL1 MUTATED"         
clus
  VGLL1 MUTATED VGLL1 WILD-TYPE 
              2              53 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-GN-A264      TCGA-GN-A265      TCGA-GN-A267      TCGA-GN-A268 
"VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" "VGLL1 WILD-TYPE" 
     TCGA-GN-A26D 
"VGLL1 WILD-TYPE" 
D40V2, continuous
D40V3, binary
                 cls
clus               0  1
  VGLL1 MUTATED    0  3
  VGLL1 WILD-TYPE 31 71
[1] "tbl2"
                 cls
clus              [,1] [,2]
  VGLL1 MUTATED      0    3
  VGLL1 WILD-TYPE   31   71
        clus
vv       VGLL1 MUTATED VGLL1 WILD-TYPE
  FEMALE             0              31
  MALE               3              71
                 vv
clus              M0 M1 M1B M1C
  VGLL1 MUTATED    3  0   0   0
  VGLL1 WILD-TYPE 88  1   2   1
D40V4, multiclass
     clus
vv    VGLL1 MUTATED VGLL1 WILD-TYPE
  M0              3              88
  M1              0               1
  M1B             0               2
  M1C             0               1
                 vv
clus              N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  VGLL1 MUTATED    1  0   0   0  1   0   0   0  1  0
  VGLL1 WILD-TYPE 57  1   3   9  0   3   7   1 11  1
D40V5, multiclass
D40V6, continuous
                 vv
clus              I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  VGLL1 MUTATED             0       0        0        0        1         0
  VGLL1 WILD-TYPE           1      14        7       10       11         5
                 vv
clus              STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  VGLL1 MUTATED           0         0         1          0          0
  VGLL1 WILD-TYPE         5         2         2          3         10
                 vv
clus              STAGE IIIC STAGE IV
  VGLL1 MUTATED            1        0
  VGLL1 WILD-TYPE         15        3
D40V7, multiclass

Clustering(41) Variable = GALNTL5 MUTATION ANALYSIS
D41V1, survival
                   sevent
clus2                0  1
  GALNTL5 MUTATED    5  1
  GALNTL5 WILD-TYPE 18 31
  GALNTL5 MUTATED GALNTL5 WILD-TYPE 
                6                49 
  GALNTL5 MUTATED GALNTL5 WILD-TYPE 
                1                31 
$`GALNTL5 MUTATED`
TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A2A6 TCGA-FW-A3R5 
       11.15        38.63         8.84         9.99         8.94         1.02 

$`GALNTL5 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
       24.00         4.01         2.86        48.79        35.80        51.12 
TCGA-DA-A1I2 TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X 
       13.68        22.36         7.00        17.56        14.83        11.57 
TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C 
        6.31         1.12        12.20         4.27         5.13        37.97 
TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29X TCGA-EE-A2A0 
        4.41         1.08         9.47        12.03         8.09        11.31 
TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M 
       25.28        23.90        11.11         4.18        12.99        28.64 
TCGA-ER-A19N TCGA-ER-A1A1 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 
       42.84        78.44        31.33        84.72        16.21        15.39 
TCGA-GN-A26D 
       14.70 

  GALNTL5 MUTATED GALNTL5 WILD-TYPE 
             1.02              1.08 
  GALNTL5 MUTATED GALNTL5 WILD-TYPE 
            38.63             98.76 
  GALNTL5 MUTATED GALNTL5 WILD-TYPE 
            9.465            14.700 
[1] "1.0 - 38.6 (9.5)"  "1.1 - 98.8 (14.7)"
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q7        TCGA-D3-A1Q8 
"GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" 
       TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8        TCGA-D3-A2J9 
"GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" 
       TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6        TCGA-D3-A3CE 
"GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" 
       TCGA-D3-A3CF        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I2        TCGA-DA-A1IB 
"GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" 
       TCGA-DA-A3F3        TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X 
"GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" 
       TCGA-EE-A17Z        TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185 
"GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE"   "GALNTL5 MUTATED"   "GALNTL5 MUTATED" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" 
       TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29X        TCGA-EE-A2A0 
  "GALNTL5 MUTATED"   "GALNTL5 MUTATED" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" 
       TCGA-EE-A2A1        TCGA-EE-A2A2        TCGA-EE-A2A6        TCGA-ER-A19F 
"GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE"   "GALNTL5 MUTATED" "GALNTL5 WILD-TYPE" 
       TCGA-ER-A19J        TCGA-ER-A19L        TCGA-ER-A19M        TCGA-ER-A19N 
"GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" 
       TCGA-ER-A1A1        TCGA-FW-A3R5        TCGA-GN-A264        TCGA-GN-A265 
"GALNTL5 WILD-TYPE"   "GALNTL5 MUTATED" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" 
       TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26D 
"GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q7        TCGA-D3-A1Q8 
"GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" 
       TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8        TCGA-D3-A2J9 
"GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" 
       TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6        TCGA-D3-A3CE 
"GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" 
       TCGA-D3-A3CF        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I2        TCGA-DA-A1IB 
"GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" 
       TCGA-DA-A3F3        TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X 
"GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" 
       TCGA-EE-A17Z        TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185 
"GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE"   "GALNTL5 MUTATED"   "GALNTL5 MUTATED" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" 
       TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29X        TCGA-EE-A2A0 
  "GALNTL5 MUTATED"   "GALNTL5 MUTATED" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" 
       TCGA-EE-A2A1        TCGA-EE-A2A2        TCGA-EE-A2A6        TCGA-ER-A19F 
"GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE"   "GALNTL5 MUTATED" "GALNTL5 WILD-TYPE" 
       TCGA-ER-A19J        TCGA-ER-A19L        TCGA-ER-A19M        TCGA-ER-A19N 
"GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" 
       TCGA-ER-A1A1        TCGA-FW-A3R5        TCGA-GN-A264        TCGA-GN-A265 
"GALNTL5 WILD-TYPE"   "GALNTL5 MUTATED" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" 
       TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26D 
"GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q7        TCGA-D3-A1Q8 
"GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" 
       TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8        TCGA-D3-A2J9 
"GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" 
       TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6        TCGA-D3-A3CE 
"GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" 
       TCGA-D3-A3CF        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I2        TCGA-DA-A1IB 
"GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" 
       TCGA-DA-A3F3        TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X 
"GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" 
       TCGA-EE-A17Z        TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185 
"GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE"   "GALNTL5 MUTATED"   "GALNTL5 MUTATED" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" 
       TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29X        TCGA-EE-A2A0 
  "GALNTL5 MUTATED"   "GALNTL5 MUTATED" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" 
       TCGA-EE-A2A1        TCGA-EE-A2A2        TCGA-EE-A2A6        TCGA-ER-A19F 
"GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE"   "GALNTL5 MUTATED" "GALNTL5 WILD-TYPE" 
       TCGA-ER-A19J        TCGA-ER-A19L        TCGA-ER-A19M        TCGA-ER-A19N 
"GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" 
       TCGA-ER-A1A1        TCGA-FW-A3R5        TCGA-GN-A264        TCGA-GN-A265 
"GALNTL5 WILD-TYPE"   "GALNTL5 MUTATED" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" 
       TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26D 
"GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" "GALNTL5 WILD-TYPE" 
[1] "hr=" "2.4"
D41V2, continuous
D41V3, binary
                   cls
clus                 0  1
  GALNTL5 MUTATED    1  9
  GALNTL5 WILD-TYPE 30 65
[1] "tbl2"
                   cls
clus                [,1] [,2]
  GALNTL5 MUTATED      1    9
  GALNTL5 WILD-TYPE   30   65
        clus
vv       GALNTL5 MUTATED GALNTL5 WILD-TYPE
  FEMALE               1                30
  MALE                 9                65
                   vv
clus                M0 M1 M1B M1C
  GALNTL5 MUTATED    9  0   0   0
  GALNTL5 WILD-TYPE 82  1   2   1
D41V4, multiclass
     clus
vv    GALNTL5 MUTATED GALNTL5 WILD-TYPE
  M0                9                82
  M1                0                 1
  M1B               0                 2
  M1C               0                 1
                   vv
clus                N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  GALNTL5 MUTATED    5  0   0   3  1   0   0   0  0  0
  GALNTL5 WILD-TYPE 53  1   3   6  0   3   7   1 12  1
D41V5, multiclass
D41V6, continuous
                   vv
clus                I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  GALNTL5 MUTATED             0       1        1        0        0         1
  GALNTL5 WILD-TYPE           1      13        6       10       12         4
                   vv
clus                STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  GALNTL5 MUTATED           2         0         1          0          1
  GALNTL5 WILD-TYPE         3         2         2          3          9
                   vv
clus                STAGE IIIC STAGE IV
  GALNTL5 MUTATED            2        0
  GALNTL5 WILD-TYPE         14        3
D41V7, multiclass

Clustering(42) Variable = HSD11B1 MUTATION ANALYSIS
D42V1, survival
                   sevent
clus2                0  1
  HSD11B1 MUTATED    2  1
  HSD11B1 WILD-TYPE 21 31
  HSD11B1 MUTATED HSD11B1 WILD-TYPE 
                3                52 
  HSD11B1 MUTATED HSD11B1 WILD-TYPE 
                1                31 
$`HSD11B1 MUTATED`
TCGA-EE-A29R TCGA-EE-A2A0 TCGA-FW-A3R5 
        8.84        11.31         1.02 

$`HSD11B1 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
       24.00         4.01         2.86        48.79        35.80        51.12 
TCGA-DA-A1I2 TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X 
       13.68        22.36         7.00        17.56        14.83        11.57 
TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C 
        6.31         1.12        12.20         4.27         5.13        37.97 
TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P 
       11.15        38.63         4.41         1.08         9.47        12.03 
TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19F 
        9.99         8.09        25.28        23.90         8.94        11.11 
TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-GN-A264 
        4.18        12.99        28.64        42.84        78.44        31.33 
TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
       84.72        16.21        15.39        14.70 

  HSD11B1 MUTATED HSD11B1 WILD-TYPE 
             1.02              1.08 
  HSD11B1 MUTATED HSD11B1 WILD-TYPE 
            11.31             98.76 
  HSD11B1 MUTATED HSD11B1 WILD-TYPE 
             8.84             14.19 
[1] "1.0 - 11.3 (8.8)"  "1.1 - 98.8 (14.2)"
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q7        TCGA-D3-A1Q8 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8        TCGA-D3-A2J9 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6        TCGA-D3-A3CE 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-D3-A3CF        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I2        TCGA-DA-A1IB 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-DA-A3F3        TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-EE-A17Z        TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29X        TCGA-EE-A2A0 
  "HSD11B1 MUTATED" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE"   "HSD11B1 MUTATED" 
       TCGA-EE-A2A1        TCGA-EE-A2A2        TCGA-EE-A2A6        TCGA-ER-A19F 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-ER-A19J        TCGA-ER-A19L        TCGA-ER-A19M        TCGA-ER-A19N 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-ER-A1A1        TCGA-FW-A3R5        TCGA-GN-A264        TCGA-GN-A265 
"HSD11B1 WILD-TYPE"   "HSD11B1 MUTATED" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26D 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q7        TCGA-D3-A1Q8 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8        TCGA-D3-A2J9 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6        TCGA-D3-A3CE 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-D3-A3CF        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I2        TCGA-DA-A1IB 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-DA-A3F3        TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-EE-A17Z        TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29X        TCGA-EE-A2A0 
  "HSD11B1 MUTATED" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE"   "HSD11B1 MUTATED" 
       TCGA-EE-A2A1        TCGA-EE-A2A2        TCGA-EE-A2A6        TCGA-ER-A19F 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-ER-A19J        TCGA-ER-A19L        TCGA-ER-A19M        TCGA-ER-A19N 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-ER-A1A1        TCGA-FW-A3R5        TCGA-GN-A264        TCGA-GN-A265 
"HSD11B1 WILD-TYPE"   "HSD11B1 MUTATED" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26D 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q7        TCGA-D3-A1Q8 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8        TCGA-D3-A2J9 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6        TCGA-D3-A3CE 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-D3-A3CF        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I2        TCGA-DA-A1IB 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-DA-A3F3        TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-EE-A17Z        TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29X        TCGA-EE-A2A0 
  "HSD11B1 MUTATED" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE"   "HSD11B1 MUTATED" 
       TCGA-EE-A2A1        TCGA-EE-A2A2        TCGA-EE-A2A6        TCGA-ER-A19F 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-ER-A19J        TCGA-ER-A19L        TCGA-ER-A19M        TCGA-ER-A19N 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-ER-A1A1        TCGA-FW-A3R5        TCGA-GN-A264        TCGA-GN-A265 
"HSD11B1 WILD-TYPE"   "HSD11B1 MUTATED" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26D 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
[1] "hr=" "2"  
D42V2, continuous
D42V3, binary
                   cls
clus                 0  1
  HSD11B1 MUTATED    3  3
  HSD11B1 WILD-TYPE 28 71
[1] "tbl2"
                   cls
clus                [,1] [,2]
  HSD11B1 MUTATED      3    3
  HSD11B1 WILD-TYPE   28   71
        clus
vv       HSD11B1 MUTATED HSD11B1 WILD-TYPE
  FEMALE               3                28
  MALE                 3                71
                   vv
clus                M0 M1 M1B M1C
  HSD11B1 MUTATED    6  0   0   0
  HSD11B1 WILD-TYPE 85  1   2   1
D42V4, multiclass
     clus
vv    HSD11B1 MUTATED HSD11B1 WILD-TYPE
  M0                6                85
  M1                0                 1
  M1B               0                 2
  M1C               0                 1
                   vv
clus                N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  HSD11B1 MUTATED    3  0   0   1  1   1   0   0  0  0
  HSD11B1 WILD-TYPE 55  1   3   8  0   2   7   1 12  1
D42V5, multiclass
D42V6, continuous
                   vv
clus                I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  HSD11B1 MUTATED             0       1        0        0        1         1
  HSD11B1 WILD-TYPE           1      13        7       10       11         4
                   vv
clus                STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  HSD11B1 MUTATED           0         0         1          1          0
  HSD11B1 WILD-TYPE         5         2         2          2         10
                   vv
clus                STAGE IIIC STAGE IV
  HSD11B1 MUTATED            1        0
  HSD11B1 WILD-TYPE         15        3
D42V7, multiclass

Clustering(43) Variable = ANKRD20A4 MUTATION ANALYSIS
D43V1, survival
                     sevent
clus2                  0  1
  ANKRD20A4 MUTATED    3  0
  ANKRD20A4 WILD-TYPE 20 32
  ANKRD20A4 MUTATED ANKRD20A4 WILD-TYPE 
                  3                  52 
  ANKRD20A4 MUTATED ANKRD20A4 WILD-TYPE 
                  0                  32 
$`ANKRD20A4 MUTATED`
TCGA-EE-A20F TCGA-EE-A29E TCGA-FW-A3R5 
        5.13        38.63         1.02 

$`ANKRD20A4 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
       24.00         4.01         2.86        48.79        35.80        51.12 
TCGA-DA-A1I2 TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X 
       13.68        22.36         7.00        17.56        14.83        11.57 
TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A29C TCGA-EE-A29D 
        6.31         1.12        12.20         4.27        37.97        11.15 
TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29S 
        4.41         1.08         9.47        12.03         8.84         9.99 
TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19F 
        8.09        11.31        25.28        23.90         8.94        11.11 
TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-GN-A264 
        4.18        12.99        28.64        42.84        78.44        31.33 
TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
       84.72        16.21        15.39        14.70 

  ANKRD20A4 MUTATED ANKRD20A4 WILD-TYPE 
               1.02                1.08 
  ANKRD20A4 MUTATED ANKRD20A4 WILD-TYPE 
              38.63               98.76 
  ANKRD20A4 MUTATED ANKRD20A4 WILD-TYPE 
               5.13               13.50 
[1] "1.0 - 38.6 (5.1)"  "1.1 - 98.8 (13.5)"
         TCGA-D3-A1Q1          TCGA-D3-A1Q5          TCGA-D3-A1Q7 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-D3-A1Q8          TCGA-D3-A1Q9          TCGA-D3-A2J6 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-D3-A2J8          TCGA-D3-A2J9          TCGA-D3-A2JD 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-D3-A2JK          TCGA-D3-A3C6          TCGA-D3-A3CE 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-D3-A3CF          TCGA-D9-A3Z1          TCGA-D9-A3Z3 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-DA-A1HV          TCGA-DA-A1HW          TCGA-DA-A1HY 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-DA-A1I2          TCGA-DA-A1IB          TCGA-DA-A3F3 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-DA-A3F5          TCGA-DA-A3F8          TCGA-EE-A17X 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-EE-A17Z          TCGA-EE-A181          TCGA-EE-A183 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-EE-A185          TCGA-EE-A20F          TCGA-EE-A29C 
"ANKRD20A4 WILD-TYPE"   "ANKRD20A4 MUTATED" "ANKRD20A4 WILD-TYPE" 
         TCGA-EE-A29D          TCGA-EE-A29E          TCGA-EE-A29H 
"ANKRD20A4 WILD-TYPE"   "ANKRD20A4 MUTATED" "ANKRD20A4 WILD-TYPE" 
         TCGA-EE-A29L          TCGA-EE-A29N          TCGA-EE-A29P 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-EE-A29R          TCGA-EE-A29S          TCGA-EE-A29X 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-EE-A2A0          TCGA-EE-A2A1          TCGA-EE-A2A2 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-EE-A2A6          TCGA-ER-A19F          TCGA-ER-A19J 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-ER-A19L          TCGA-ER-A19M          TCGA-ER-A19N 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-ER-A1A1          TCGA-FW-A3R5          TCGA-GN-A264 
"ANKRD20A4 WILD-TYPE"   "ANKRD20A4 MUTATED" "ANKRD20A4 WILD-TYPE" 
         TCGA-GN-A265          TCGA-GN-A267          TCGA-GN-A268 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-GN-A26D 
"ANKRD20A4 WILD-TYPE" 
         TCGA-D3-A1Q1          TCGA-D3-A1Q5          TCGA-D3-A1Q7 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-D3-A1Q8          TCGA-D3-A1Q9          TCGA-D3-A2J6 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-D3-A2J8          TCGA-D3-A2J9          TCGA-D3-A2JD 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-D3-A2JK          TCGA-D3-A3C6          TCGA-D3-A3CE 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-D3-A3CF          TCGA-D9-A3Z1          TCGA-D9-A3Z3 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-DA-A1HV          TCGA-DA-A1HW          TCGA-DA-A1HY 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-DA-A1I2          TCGA-DA-A1IB          TCGA-DA-A3F3 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-DA-A3F5          TCGA-DA-A3F8          TCGA-EE-A17X 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-EE-A17Z          TCGA-EE-A181          TCGA-EE-A183 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-EE-A185          TCGA-EE-A20F          TCGA-EE-A29C 
"ANKRD20A4 WILD-TYPE"   "ANKRD20A4 MUTATED" "ANKRD20A4 WILD-TYPE" 
         TCGA-EE-A29D          TCGA-EE-A29E          TCGA-EE-A29H 
"ANKRD20A4 WILD-TYPE"   "ANKRD20A4 MUTATED" "ANKRD20A4 WILD-TYPE" 
         TCGA-EE-A29L          TCGA-EE-A29N          TCGA-EE-A29P 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-EE-A29R          TCGA-EE-A29S          TCGA-EE-A29X 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-EE-A2A0          TCGA-EE-A2A1          TCGA-EE-A2A2 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-EE-A2A6          TCGA-ER-A19F          TCGA-ER-A19J 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-ER-A19L          TCGA-ER-A19M          TCGA-ER-A19N 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-ER-A1A1          TCGA-FW-A3R5          TCGA-GN-A264 
"ANKRD20A4 WILD-TYPE"   "ANKRD20A4 MUTATED" "ANKRD20A4 WILD-TYPE" 
         TCGA-GN-A265          TCGA-GN-A267          TCGA-GN-A268 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-GN-A26D 
"ANKRD20A4 WILD-TYPE" 
         TCGA-D3-A1Q1          TCGA-D3-A1Q5          TCGA-D3-A1Q7 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-D3-A1Q8          TCGA-D3-A1Q9          TCGA-D3-A2J6 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-D3-A2J8          TCGA-D3-A2J9          TCGA-D3-A2JD 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-D3-A2JK          TCGA-D3-A3C6          TCGA-D3-A3CE 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-D3-A3CF          TCGA-D9-A3Z1          TCGA-D9-A3Z3 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-DA-A1HV          TCGA-DA-A1HW          TCGA-DA-A1HY 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-DA-A1I2          TCGA-DA-A1IB          TCGA-DA-A3F3 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-DA-A3F5          TCGA-DA-A3F8          TCGA-EE-A17X 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-EE-A17Z          TCGA-EE-A181          TCGA-EE-A183 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-EE-A185          TCGA-EE-A20F          TCGA-EE-A29C 
"ANKRD20A4 WILD-TYPE"   "ANKRD20A4 MUTATED" "ANKRD20A4 WILD-TYPE" 
         TCGA-EE-A29D          TCGA-EE-A29E          TCGA-EE-A29H 
"ANKRD20A4 WILD-TYPE"   "ANKRD20A4 MUTATED" "ANKRD20A4 WILD-TYPE" 
         TCGA-EE-A29L          TCGA-EE-A29N          TCGA-EE-A29P 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-EE-A29R          TCGA-EE-A29S          TCGA-EE-A29X 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-EE-A2A0          TCGA-EE-A2A1          TCGA-EE-A2A2 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-EE-A2A6          TCGA-ER-A19F          TCGA-ER-A19J 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-ER-A19L          TCGA-ER-A19M          TCGA-ER-A19N 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-ER-A1A1          TCGA-FW-A3R5          TCGA-GN-A264 
"ANKRD20A4 WILD-TYPE"   "ANKRD20A4 MUTATED" "ANKRD20A4 WILD-TYPE" 
         TCGA-GN-A265          TCGA-GN-A267          TCGA-GN-A268 
"ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" "ANKRD20A4 WILD-TYPE" 
         TCGA-GN-A26D 
"ANKRD20A4 WILD-TYPE" 
[1] "hr="     "2.7e+07"
D43V2, continuous
D43V3, binary
                     cls
clus                   0  1
  ANKRD20A4 MUTATED    0  4
  ANKRD20A4 WILD-TYPE 31 70
[1] "tbl2"
                     cls
clus                  [,1] [,2]
  ANKRD20A4 MUTATED      0    4
  ANKRD20A4 WILD-TYPE   31   70
        clus
vv       ANKRD20A4 MUTATED ANKRD20A4 WILD-TYPE
  FEMALE                 0                  31
  MALE                   4                  70
                     vv
clus                  M0 M1 M1B M1C
  ANKRD20A4 MUTATED    4  0   0   0
  ANKRD20A4 WILD-TYPE 87  1   2   1
D43V4, multiclass
     clus
vv    ANKRD20A4 MUTATED ANKRD20A4 WILD-TYPE
  M0                  4                  87
  M1                  0                   1
  M1B                 0                   2
  M1C                 0                   1
                     vv
clus                  N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  ANKRD20A4 MUTATED    2  0   0   1  1   0   0   0  0  0
  ANKRD20A4 WILD-TYPE 56  1   3   8  0   3   7   1 12  1
D43V5, multiclass
D43V6, continuous
                     vv
clus                  I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  ANKRD20A4 MUTATED             0       0        0        0        2         0
  ANKRD20A4 WILD-TYPE           1      14        7       10       10         5
                     vv
clus                  STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  ANKRD20A4 MUTATED           0         0         1          0          1
  ANKRD20A4 WILD-TYPE         5         2         2          3          9
                     vv
clus                  STAGE IIIC STAGE IV
  ANKRD20A4 MUTATED            0        0
  ANKRD20A4 WILD-TYPE         16        3
D43V7, multiclass

Clustering(44) Variable = GPR141 MUTATION ANALYSIS
D44V1, survival
                  sevent
clus2               0  1
  GPR141 MUTATED    2  3
  GPR141 WILD-TYPE 21 29
  GPR141 MUTATED GPR141 WILD-TYPE 
               5               50 
  GPR141 MUTATED GPR141 WILD-TYPE 
               3               29 
$`GPR141 MUTATED`
TCGA-D3-A2J8 TCGA-EE-A183 TCGA-EE-A20F TCGA-EE-A2A0 TCGA-FW-A3R5 
        8.38        12.20         5.13        11.31         1.02 

$`GPR141 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE TCGA-D3-A3CF 
       21.14        11.41         6.35        15.25        13.32        24.00 
TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I2 
        4.01         2.86        48.79        35.80        51.12        13.68 
TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z 
       22.36         7.00        17.56        14.83        11.57         6.31 
TCGA-EE-A181 TCGA-EE-A185 TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H 
        1.12         4.27        37.97        11.15        38.63         4.41 
TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29X 
        1.08         9.47        12.03         8.84         9.99         8.09 
TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L 
       25.28        23.90         8.94        11.11         4.18        12.99 
TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 
       28.64        42.84        78.44        31.33        84.72        16.21 
TCGA-GN-A268 TCGA-GN-A26D 
       15.39        14.70 

  GPR141 MUTATED GPR141 WILD-TYPE 
            1.02             1.08 
  GPR141 MUTATED GPR141 WILD-TYPE 
           12.20            98.76 
  GPR141 MUTATED GPR141 WILD-TYPE 
           8.380           14.765 
[1] "1.0 - 12.2 (8.4)"  "1.1 - 98.8 (14.8)"
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"GPR141 WILD-TYPE" "GPR141 WILD-TYPE"   "GPR141 MUTATED" "GPR141 WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
"GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"GPR141 WILD-TYPE" "GPR141 WILD-TYPE"   "GPR141 MUTATED" "GPR141 WILD-TYPE" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
  "GPR141 MUTATED" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
"GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE"   "GPR141 MUTATED" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
"GPR141 WILD-TYPE"   "GPR141 MUTATED" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
"GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" 
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"GPR141 WILD-TYPE" "GPR141 WILD-TYPE"   "GPR141 MUTATED" "GPR141 WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
"GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"GPR141 WILD-TYPE" "GPR141 WILD-TYPE"   "GPR141 MUTATED" "GPR141 WILD-TYPE" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
  "GPR141 MUTATED" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
"GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE"   "GPR141 MUTATED" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
"GPR141 WILD-TYPE"   "GPR141 MUTATED" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
"GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" 
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"GPR141 WILD-TYPE" "GPR141 WILD-TYPE"   "GPR141 MUTATED" "GPR141 WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
"GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"GPR141 WILD-TYPE" "GPR141 WILD-TYPE"   "GPR141 MUTATED" "GPR141 WILD-TYPE" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
  "GPR141 MUTATED" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
"GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE"   "GPR141 MUTATED" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
"GPR141 WILD-TYPE"   "GPR141 MUTATED" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
"GPR141 WILD-TYPE" "GPR141 WILD-TYPE" "GPR141 WILD-TYPE" 
[1] "hr=" "3.4"
D44V2, continuous
D44V3, binary
                  cls
clus                0  1
  GPR141 MUTATED    2  6
  GPR141 WILD-TYPE 29 68
[1] "tbl2"
                  cls
clus               [,1] [,2]
  GPR141 MUTATED      2    6
  GPR141 WILD-TYPE   29   68
        clus
vv       GPR141 MUTATED GPR141 WILD-TYPE
  FEMALE              2               29
  MALE                6               68
                  vv
clus               M0 M1 M1B M1C
  GPR141 MUTATED    8  0   0   0
  GPR141 WILD-TYPE 83  1   2   1
D44V4, multiclass
     clus
vv    GPR141 MUTATED GPR141 WILD-TYPE
  M0               8               83
  M1               0                1
  M1B              0                2
  M1C              0                1
                  vv
clus               N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  GPR141 MUTATED    7  0   0   0  1   0   0   0  0  0
  GPR141 WILD-TYPE 51  1   3   9  0   3   7   1 12  1
D44V5, multiclass
D44V6, continuous
                  vv
clus               I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  GPR141 MUTATED             0       3        0        2        1         1
  GPR141 WILD-TYPE           1      11        7        8       11         4
                  vv
clus               STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  GPR141 MUTATED           0         0         1          0          0
  GPR141 WILD-TYPE         5         2         2          3         10
                  vv
clus               STAGE IIIC STAGE IV
  GPR141 MUTATED            0        0
  GPR141 WILD-TYPE         16        3
D44V7, multiclass

Clustering(45) Variable = NAP1L2 MUTATION ANALYSIS
D45V1, survival
                  sevent
clus2               0  1
  NAP1L2 MUTATED    3  3
  NAP1L2 WILD-TYPE 20 29
  NAP1L2 MUTATED NAP1L2 WILD-TYPE 
               6               49 
  NAP1L2 MUTATED NAP1L2 WILD-TYPE 
               3               29 
$`NAP1L2 MUTATED`
TCGA-D3-A2JD TCGA-D3-A3C6 TCGA-DA-A1HV TCGA-EE-A20F TCGA-EE-A29D TCGA-FW-A3R5 
       11.41        15.25        48.79         5.13        11.15         1.02 

$`NAP1L2 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JK TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D9-A3Z1 
        8.38        21.14         6.35        13.32        24.00         4.01 
TCGA-D9-A3Z3 TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I2 TCGA-DA-A1IB TCGA-DA-A3F3 
        2.86        35.80        51.12        13.68        22.36         7.00 
TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 
       17.56        14.83        11.57         6.31         1.12        12.20 
TCGA-EE-A185 TCGA-EE-A29C TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N 
        4.27        37.97        38.63         4.41         1.08         9.47 
TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 
       12.03         8.84         9.99         8.09        11.31        25.28 
TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M 
       23.90         8.94        11.11         4.18        12.99        28.64 
TCGA-ER-A19N TCGA-ER-A1A1 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 
       42.84        78.44        31.33        84.72        16.21        15.39 
TCGA-GN-A26D 
       14.70 

  NAP1L2 MUTATED NAP1L2 WILD-TYPE 
            1.02             1.08 
  NAP1L2 MUTATED NAP1L2 WILD-TYPE 
           48.79            98.76 
  NAP1L2 MUTATED NAP1L2 WILD-TYPE 
           11.28            13.68 
[1] "1.0 - 48.8 (11.3)" "1.1 - 98.8 (13.7)"
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
  "NAP1L2 MUTATED" "NAP1L2 WILD-TYPE"   "NAP1L2 MUTATED" "NAP1L2 WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE"   "NAP1L2 MUTATED" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
  "NAP1L2 MUTATED" "NAP1L2 WILD-TYPE"   "NAP1L2 MUTATED" "NAP1L2 WILD-TYPE" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
"NAP1L2 WILD-TYPE"   "NAP1L2 MUTATED" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
  "NAP1L2 MUTATED" "NAP1L2 WILD-TYPE"   "NAP1L2 MUTATED" "NAP1L2 WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE"   "NAP1L2 MUTATED" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
  "NAP1L2 MUTATED" "NAP1L2 WILD-TYPE"   "NAP1L2 MUTATED" "NAP1L2 WILD-TYPE" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
"NAP1L2 WILD-TYPE"   "NAP1L2 MUTATED" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
  "NAP1L2 MUTATED" "NAP1L2 WILD-TYPE"   "NAP1L2 MUTATED" "NAP1L2 WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE"   "NAP1L2 MUTATED" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
  "NAP1L2 MUTATED" "NAP1L2 WILD-TYPE"   "NAP1L2 MUTATED" "NAP1L2 WILD-TYPE" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
"NAP1L2 WILD-TYPE"   "NAP1L2 MUTATED" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
"NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" "NAP1L2 WILD-TYPE" 
[1] "hr=" "1.1"
D45V2, continuous
D45V3, binary
                  cls
clus                0  1
  NAP1L2 MUTATED    2  8
  NAP1L2 WILD-TYPE 29 66
[1] "tbl2"
                  cls
clus               [,1] [,2]
  NAP1L2 MUTATED      2    8
  NAP1L2 WILD-TYPE   29   66
        clus
vv       NAP1L2 MUTATED NAP1L2 WILD-TYPE
  FEMALE              2               29
  MALE                8               66
                  vv
clus               M0 M1 M1B M1C
  NAP1L2 MUTATED   10  0   0   0
  NAP1L2 WILD-TYPE 81  1   2   1
D45V4, multiclass
     clus
vv    NAP1L2 MUTATED NAP1L2 WILD-TYPE
  M0              10               81
  M1               0                1
  M1B              0                2
  M1C              0                1
                  vv
clus               N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  NAP1L2 MUTATED    5  0   0   3  1   0   1   0  0  0
  NAP1L2 WILD-TYPE 53  1   3   6  0   3   6   1 12  1
D45V5, multiclass
D45V6, continuous
                  vv
clus               I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  NAP1L2 MUTATED             0       1        0        2        2         0
  NAP1L2 WILD-TYPE           1      13        7        8       10         5
                  vv
clus               STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  NAP1L2 MUTATED           0         0         1          0          2
  NAP1L2 WILD-TYPE         5         2         2          3          8
                  vv
clus               STAGE IIIC STAGE IV
  NAP1L2 MUTATED            2        0
  NAP1L2 WILD-TYPE         14        3
D45V7, multiclass

Clustering(46) Variable = C18ORF26 MUTATION ANALYSIS
D46V1, survival
                    sevent
clus2                 0  1
  C18ORF26 MUTATED    6  3
  C18ORF26 WILD-TYPE 17 29
  C18ORF26 MUTATED C18ORF26 WILD-TYPE 
                 9                 46 
  C18ORF26 MUTATED C18ORF26 WILD-TYPE 
                 3                 29 
$`C18ORF26 MUTATED`
TCGA-D3-A1Q5 TCGA-DA-A1HV TCGA-EE-A29E TCGA-EE-A29R TCGA-EE-A29S TCGA-ER-A19M 
       32.55        48.79        38.63         8.84         9.99        28.64 
TCGA-ER-A19N TCGA-FW-A3R5 TCGA-GN-A267 
       42.84         1.02        16.21 

$`C18ORF26 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A2J8 
       16.47        98.76        28.08        22.55        10.26         8.38 
TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE TCGA-D3-A3CF 
       21.14        11.41         6.35        15.25        13.32        24.00 
TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I2 TCGA-DA-A1IB 
        4.01         2.86        35.80        51.12        13.68        22.36 
TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 
        7.00        17.56        14.83        11.57         6.31         1.12 
TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29H 
       12.20         4.27         5.13        37.97        11.15         4.41 
TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 
        1.08         9.47        12.03         8.09        11.31        25.28 
TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A1A1 
       23.90         8.94        11.11         4.18        12.99        78.44 
TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A268 TCGA-GN-A26D 
       31.33        84.72        15.39        14.70 

  C18ORF26 MUTATED C18ORF26 WILD-TYPE 
              1.02               1.08 
  C18ORF26 MUTATED C18ORF26 WILD-TYPE 
             48.79              98.76 
  C18ORF26 MUTATED C18ORF26 WILD-TYPE 
            28.640             12.595 
[1] "1.0 - 48.8 (28.6)" "1.1 - 98.8 (12.6)"
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q7 
"C18ORF26 WILD-TYPE"   "C18ORF26 MUTATED" "C18ORF26 WILD-TYPE" 
        TCGA-D3-A1Q8         TCGA-D3-A1Q9         TCGA-D3-A2J6 
"C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" 
        TCGA-D3-A2J8         TCGA-D3-A2J9         TCGA-D3-A2JD 
"C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" 
        TCGA-D3-A2JK         TCGA-D3-A3C6         TCGA-D3-A3CE 
"C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" 
        TCGA-D3-A3CF         TCGA-D9-A3Z1         TCGA-D9-A3Z3 
"C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" 
        TCGA-DA-A1HV         TCGA-DA-A1HW         TCGA-DA-A1HY 
  "C18ORF26 MUTATED" "C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" 
        TCGA-DA-A1I2         TCGA-DA-A1IB         TCGA-DA-A3F3 
"C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20F         TCGA-EE-A29C 
"C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" 
        TCGA-EE-A29D         TCGA-EE-A29E         TCGA-EE-A29H 
"C18ORF26 WILD-TYPE"   "C18ORF26 MUTATED" "C18ORF26 WILD-TYPE" 
        TCGA-EE-A29L         TCGA-EE-A29N         TCGA-EE-A29P 
"C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" 
        TCGA-EE-A29R         TCGA-EE-A29S         TCGA-EE-A29X 
  "C18ORF26 MUTATED"   "C18ORF26 MUTATED" "C18ORF26 WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" 
        TCGA-EE-A2A6         TCGA-ER-A19F         TCGA-ER-A19J 
"C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"C18ORF26 WILD-TYPE"   "C18ORF26 MUTATED"   "C18ORF26 MUTATED" 
        TCGA-ER-A1A1         TCGA-FW-A3R5         TCGA-GN-A264 
"C18ORF26 WILD-TYPE"   "C18ORF26 MUTATED" "C18ORF26 WILD-TYPE" 
        TCGA-GN-A265         TCGA-GN-A267         TCGA-GN-A268 
"C18ORF26 WILD-TYPE"   "C18ORF26 MUTATED" "C18ORF26 WILD-TYPE" 
        TCGA-GN-A26D 
"C18ORF26 WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q7 
"C18ORF26 WILD-TYPE"   "C18ORF26 MUTATED" "C18ORF26 WILD-TYPE" 
        TCGA-D3-A1Q8         TCGA-D3-A1Q9         TCGA-D3-A2J6 
"C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" 
        TCGA-D3-A2J8         TCGA-D3-A2J9         TCGA-D3-A2JD 
"C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" 
        TCGA-D3-A2JK         TCGA-D3-A3C6         TCGA-D3-A3CE 
"C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" 
        TCGA-D3-A3CF         TCGA-D9-A3Z1         TCGA-D9-A3Z3 
"C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" 
        TCGA-DA-A1HV         TCGA-DA-A1HW         TCGA-DA-A1HY 
  "C18ORF26 MUTATED" "C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" 
        TCGA-DA-A1I2         TCGA-DA-A1IB         TCGA-DA-A3F3 
"C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20F         TCGA-EE-A29C 
"C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" 
        TCGA-EE-A29D         TCGA-EE-A29E         TCGA-EE-A29H 
"C18ORF26 WILD-TYPE"   "C18ORF26 MUTATED" "C18ORF26 WILD-TYPE" 
        TCGA-EE-A29L         TCGA-EE-A29N         TCGA-EE-A29P 
"C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" 
        TCGA-EE-A29R         TCGA-EE-A29S         TCGA-EE-A29X 
  "C18ORF26 MUTATED"   "C18ORF26 MUTATED" "C18ORF26 WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" 
        TCGA-EE-A2A6         TCGA-ER-A19F         TCGA-ER-A19J 
"C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"C18ORF26 WILD-TYPE"   "C18ORF26 MUTATED"   "C18ORF26 MUTATED" 
        TCGA-ER-A1A1         TCGA-FW-A3R5         TCGA-GN-A264 
"C18ORF26 WILD-TYPE"   "C18ORF26 MUTATED" "C18ORF26 WILD-TYPE" 
        TCGA-GN-A265         TCGA-GN-A267         TCGA-GN-A268 
"C18ORF26 WILD-TYPE"   "C18ORF26 MUTATED" "C18ORF26 WILD-TYPE" 
        TCGA-GN-A26D 
"C18ORF26 WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q7 
"C18ORF26 WILD-TYPE"   "C18ORF26 MUTATED" "C18ORF26 WILD-TYPE" 
        TCGA-D3-A1Q8         TCGA-D3-A1Q9         TCGA-D3-A2J6 
"C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" 
        TCGA-D3-A2J8         TCGA-D3-A2J9         TCGA-D3-A2JD 
"C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" 
        TCGA-D3-A2JK         TCGA-D3-A3C6         TCGA-D3-A3CE 
"C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" 
        TCGA-D3-A3CF         TCGA-D9-A3Z1         TCGA-D9-A3Z3 
"C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" 
        TCGA-DA-A1HV         TCGA-DA-A1HW         TCGA-DA-A1HY 
  "C18ORF26 MUTATED" "C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" 
        TCGA-DA-A1I2         TCGA-DA-A1IB         TCGA-DA-A3F3 
"C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20F         TCGA-EE-A29C 
"C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" 
        TCGA-EE-A29D         TCGA-EE-A29E         TCGA-EE-A29H 
"C18ORF26 WILD-TYPE"   "C18ORF26 MUTATED" "C18ORF26 WILD-TYPE" 
        TCGA-EE-A29L         TCGA-EE-A29N         TCGA-EE-A29P 
"C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" 
        TCGA-EE-A29R         TCGA-EE-A29S         TCGA-EE-A29X 
  "C18ORF26 MUTATED"   "C18ORF26 MUTATED" "C18ORF26 WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" 
        TCGA-EE-A2A6         TCGA-ER-A19F         TCGA-ER-A19J 
"C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" "C18ORF26 WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"C18ORF26 WILD-TYPE"   "C18ORF26 MUTATED"   "C18ORF26 MUTATED" 
        TCGA-ER-A1A1         TCGA-FW-A3R5         TCGA-GN-A264 
"C18ORF26 WILD-TYPE"   "C18ORF26 MUTATED" "C18ORF26 WILD-TYPE" 
        TCGA-GN-A265         TCGA-GN-A267         TCGA-GN-A268 
"C18ORF26 WILD-TYPE"   "C18ORF26 MUTATED" "C18ORF26 WILD-TYPE" 
        TCGA-GN-A26D 
"C18ORF26 WILD-TYPE" 
[1] "hr=" "3"  
D46V2, continuous
D46V3, binary
                    cls
clus                  0  1
  C18ORF26 MUTATED    2 11
  C18ORF26 WILD-TYPE 29 63
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  C18ORF26 MUTATED      2   11
  C18ORF26 WILD-TYPE   29   63
        clus
vv       C18ORF26 MUTATED C18ORF26 WILD-TYPE
  FEMALE                2                 29
  MALE                 11                 63
                    vv
clus                 M0 M1 M1B M1C
  C18ORF26 MUTATED   11  0   0   0
  C18ORF26 WILD-TYPE 80  1   2   1
D46V4, multiclass
     clus
vv    C18ORF26 MUTATED C18ORF26 WILD-TYPE
  M0                11                 80
  M1                 0                  1
  M1B                0                  2
  M1C                0                  1
                    vv
clus                 N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  C18ORF26 MUTATED    6  0   1   2  1   0   1   0  0  0
  C18ORF26 WILD-TYPE 52  1   2   7  0   3   6   1 12  1
D46V5, multiclass
D46V6, continuous
                    vv
clus                 I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  C18ORF26 MUTATED             1       2        0        1        1         1
  C18ORF26 WILD-TYPE           0      12        7        9       11         4
                    vv
clus                 STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  C18ORF26 MUTATED           0         0         1          1          2
  C18ORF26 WILD-TYPE         5         2         2          2          8
                    vv
clus                 STAGE IIIC STAGE IV
  C18ORF26 MUTATED            1        0
  C18ORF26 WILD-TYPE         15        3
D46V7, multiclass

Clustering(47) Variable = DEFB110 MUTATION ANALYSIS
D47V1, survival
                   sevent
clus2                0  1
  DEFB110 MUTATED    1  2
  DEFB110 WILD-TYPE 22 30
  DEFB110 MUTATED DEFB110 WILD-TYPE 
                3                52 
  DEFB110 MUTATED DEFB110 WILD-TYPE 
                2                30 
$`DEFB110 MUTATED`
TCGA-EE-A29D TCGA-FW-A3R5 TCGA-GN-A267 
       11.15         1.02        16.21 

$`DEFB110 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
       24.00         4.01         2.86        48.79        35.80        51.12 
TCGA-DA-A1I2 TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X 
       13.68        22.36         7.00        17.56        14.83        11.57 
TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C 
        6.31         1.12        12.20         4.27         5.13        37.97 
TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R 
       38.63         4.41         1.08         9.47        12.03         8.84 
TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 
        9.99         8.09        11.31        25.28        23.90         8.94 
TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 
       11.11         4.18        12.99        28.64        42.84        78.44 
TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A268 TCGA-GN-A26D 
       31.33        84.72        15.39        14.70 

  DEFB110 MUTATED DEFB110 WILD-TYPE 
             1.02              1.08 
  DEFB110 MUTATED DEFB110 WILD-TYPE 
            16.21             98.76 
  DEFB110 MUTATED DEFB110 WILD-TYPE 
            11.15             13.50 
[1] "1.0 - 16.2 (11.2)" "1.1 - 98.8 (13.5)"
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q7        TCGA-D3-A1Q8 
"DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" 
       TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8        TCGA-D3-A2J9 
"DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" 
       TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6        TCGA-D3-A3CE 
"DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" 
       TCGA-D3-A3CF        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I2        TCGA-DA-A1IB 
"DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" 
       TCGA-DA-A3F3        TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X 
"DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" 
       TCGA-EE-A17Z        TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185 
"DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE"   "DEFB110 MUTATED" "DEFB110 WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" 
       TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29X        TCGA-EE-A2A0 
"DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" 
       TCGA-EE-A2A1        TCGA-EE-A2A2        TCGA-EE-A2A6        TCGA-ER-A19F 
"DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" 
       TCGA-ER-A19J        TCGA-ER-A19L        TCGA-ER-A19M        TCGA-ER-A19N 
"DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" 
       TCGA-ER-A1A1        TCGA-FW-A3R5        TCGA-GN-A264        TCGA-GN-A265 
"DEFB110 WILD-TYPE"   "DEFB110 MUTATED" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" 
       TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26D 
  "DEFB110 MUTATED" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q7        TCGA-D3-A1Q8 
"DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" 
       TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8        TCGA-D3-A2J9 
"DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" 
       TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6        TCGA-D3-A3CE 
"DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" 
       TCGA-D3-A3CF        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I2        TCGA-DA-A1IB 
"DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" 
       TCGA-DA-A3F3        TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X 
"DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" 
       TCGA-EE-A17Z        TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185 
"DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE"   "DEFB110 MUTATED" "DEFB110 WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" 
       TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29X        TCGA-EE-A2A0 
"DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" 
       TCGA-EE-A2A1        TCGA-EE-A2A2        TCGA-EE-A2A6        TCGA-ER-A19F 
"DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" 
       TCGA-ER-A19J        TCGA-ER-A19L        TCGA-ER-A19M        TCGA-ER-A19N 
"DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" 
       TCGA-ER-A1A1        TCGA-FW-A3R5        TCGA-GN-A264        TCGA-GN-A265 
"DEFB110 WILD-TYPE"   "DEFB110 MUTATED" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" 
       TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26D 
  "DEFB110 MUTATED" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q7        TCGA-D3-A1Q8 
"DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" 
       TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8        TCGA-D3-A2J9 
"DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" 
       TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6        TCGA-D3-A3CE 
"DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" 
       TCGA-D3-A3CF        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I2        TCGA-DA-A1IB 
"DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" 
       TCGA-DA-A3F3        TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X 
"DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" 
       TCGA-EE-A17Z        TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185 
"DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE"   "DEFB110 MUTATED" "DEFB110 WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" 
       TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29X        TCGA-EE-A2A0 
"DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" 
       TCGA-EE-A2A1        TCGA-EE-A2A2        TCGA-EE-A2A6        TCGA-ER-A19F 
"DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" 
       TCGA-ER-A19J        TCGA-ER-A19L        TCGA-ER-A19M        TCGA-ER-A19N 
"DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" 
       TCGA-ER-A1A1        TCGA-FW-A3R5        TCGA-GN-A264        TCGA-GN-A265 
"DEFB110 WILD-TYPE"   "DEFB110 MUTATED" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" 
       TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26D 
  "DEFB110 MUTATED" "DEFB110 WILD-TYPE" "DEFB110 WILD-TYPE" 
[1] "hr=" "2.2"
D47V2, continuous
D47V3, binary
                   cls
clus                 0  1
  DEFB110 MUTATED    0  5
  DEFB110 WILD-TYPE 31 69
[1] "tbl2"
                   cls
clus                [,1] [,2]
  DEFB110 MUTATED      0    5
  DEFB110 WILD-TYPE   31   69
        clus
vv       DEFB110 MUTATED DEFB110 WILD-TYPE
  FEMALE               0                31
  MALE                 5                69
                   vv
clus                M0 M1 M1B M1C
  DEFB110 MUTATED    5  0   0   0
  DEFB110 WILD-TYPE 86  1   2   1
D47V4, multiclass
     clus
vv    DEFB110 MUTATED DEFB110 WILD-TYPE
  M0                5                86
  M1                0                 1
  M1B               0                 2
  M1C               0                 1
                   vv
clus                N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEFB110 MUTATED    2  0   1   1  1   0   0   0  0  0
  DEFB110 WILD-TYPE 56  1   2   8  0   3   7   1 12  1
D47V5, multiclass
D47V6, continuous
                   vv
clus                I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEFB110 MUTATED             0       1        1        0        0         0
  DEFB110 WILD-TYPE           1      13        6       10       12         5
                   vv
clus                STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  DEFB110 MUTATED           0         0         1          1          0
  DEFB110 WILD-TYPE         5         2         2          2         10
                   vv
clus                STAGE IIIC STAGE IV
  DEFB110 MUTATED            1        0
  DEFB110 WILD-TYPE         15        3
D47V7, multiclass

Clustering(48) Variable = IDH1 MUTATION ANALYSIS
D48V1, survival
                sevent
clus2             0  1
  IDH1 MUTATED    2  1
  IDH1 WILD-TYPE 21 31
  IDH1 MUTATED IDH1 WILD-TYPE 
             3             52 
  IDH1 MUTATED IDH1 WILD-TYPE 
             1             31 
$`IDH1 MUTATED`
TCGA-D9-A3Z1 TCGA-EE-A29P TCGA-GN-A268 
        4.01        12.03        15.39 

$`IDH1 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I2 
       24.00         2.86        48.79        35.80        51.12        13.68 
TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z 
       22.36         7.00        17.56        14.83        11.57         6.31 
TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D 
        1.12        12.20         4.27         5.13        37.97        11.15 
TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29R TCGA-EE-A29S 
       38.63         4.41         1.08         9.47         8.84         9.99 
TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19F 
        8.09        11.31        25.28        23.90         8.94        11.11 
TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-FW-A3R5 
        4.18        12.99        28.64        42.84        78.44         1.02 
TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A26D 
       31.33        84.72        16.21        14.70 

  IDH1 MUTATED IDH1 WILD-TYPE 
          4.01           1.02 
  IDH1 MUTATED IDH1 WILD-TYPE 
         15.39          98.76 
  IDH1 MUTATED IDH1 WILD-TYPE 
         12.03          13.50 
[1] "4.0 - 15.4 (12.0)" "1.0 - 98.8 (13.5)"
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"IDH1 WILD-TYPE"   "IDH1 MUTATED" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
"IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
"IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
"IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE"   "IDH1 MUTATED" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
"IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
"IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"IDH1 WILD-TYPE"   "IDH1 MUTATED" "IDH1 WILD-TYPE" 
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"IDH1 WILD-TYPE"   "IDH1 MUTATED" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
"IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
"IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
"IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE"   "IDH1 MUTATED" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
"IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
"IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"IDH1 WILD-TYPE"   "IDH1 MUTATED" "IDH1 WILD-TYPE" 
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"IDH1 WILD-TYPE"   "IDH1 MUTATED" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
"IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
"IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
"IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE"   "IDH1 MUTATED" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
"IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
"IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" "IDH1 WILD-TYPE" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"IDH1 WILD-TYPE"   "IDH1 MUTATED" "IDH1 WILD-TYPE" 
[1] "hr=" "1"  
D48V2, continuous
D48V3, binary
                cls
clus              0  1
  IDH1 MUTATED    3  3
  IDH1 WILD-TYPE 28 71
[1] "tbl2"
                cls
clus             [,1] [,2]
  IDH1 MUTATED      3    3
  IDH1 WILD-TYPE   28   71
        clus
vv       IDH1 MUTATED IDH1 WILD-TYPE
  FEMALE            3             28
  MALE              3             71
                vv
clus             M0 M1 M1B M1C
  IDH1 MUTATED    6  0   0   0
  IDH1 WILD-TYPE 85  1   2   1
D48V4, multiclass
     clus
vv    IDH1 MUTATED IDH1 WILD-TYPE
  M0             6             85
  M1             0              1
  M1B            0              2
  M1C            0              1
                vv
clus             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  IDH1 MUTATED    5  0   0   0  0   0   0   0  1  0
  IDH1 WILD-TYPE 53  1   3   9  1   3   7   1 11  1
D48V5, multiclass
D48V6, continuous
                vv
clus             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  IDH1 MUTATED             0       0        1        0        1         1
  IDH1 WILD-TYPE           1      14        6       10       11         4
                vv
clus             STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC
  IDH1 MUTATED           1         1         0          0          0          1
  IDH1 WILD-TYPE         4         1         3          3         10         15
                vv
clus             STAGE IV
  IDH1 MUTATED          0
  IDH1 WILD-TYPE        3
D48V7, multiclass

Clustering(49) Variable = SNAP91 MUTATION ANALYSIS
D49V1, survival
                  sevent
clus2               0  1
  SNAP91 MUTATED    5  3
  SNAP91 WILD-TYPE 18 29
  SNAP91 MUTATED SNAP91 WILD-TYPE 
               8               47 
  SNAP91 MUTATED SNAP91 WILD-TYPE 
               3               29 
$`SNAP91 MUTATED`
TCGA-D3-A1Q8 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A29E TCGA-EE-A29P TCGA-EE-A29S 
       28.08        14.83        11.57        38.63        12.03         9.99 
TCGA-FW-A3R5 TCGA-GN-A268 
        1.02        15.39 

$`SNAP91 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A2J8 
       16.47        32.55        98.76        22.55        10.26         8.38 
TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE TCGA-D3-A3CF 
       21.14        11.41         6.35        15.25        13.32        24.00 
TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I2 
        4.01         2.86        48.79        35.80        51.12        13.68 
TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 
       22.36         7.00        17.56         6.31         1.12        12.20 
TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29H TCGA-EE-A29L 
        4.27         5.13        37.97        11.15         4.41         1.08 
TCGA-EE-A29N TCGA-EE-A29R TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 
        9.47         8.84         8.09        11.31        25.28        23.90 
TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N 
        8.94        11.11         4.18        12.99        28.64        42.84 
TCGA-ER-A1A1 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A26D 
       78.44        31.33        84.72        16.21        14.70 

  SNAP91 MUTATED SNAP91 WILD-TYPE 
            1.02             1.08 
  SNAP91 MUTATED SNAP91 WILD-TYPE 
           38.63            98.76 
  SNAP91 MUTATED SNAP91 WILD-TYPE 
           13.43            13.32 
[1] "1.0 - 38.6 (13.4)" "1.1 - 98.8 (13.3)"
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE"   "SNAP91 MUTATED" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
"SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE"   "SNAP91 MUTATED"   "SNAP91 MUTATED" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
"SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE"   "SNAP91 MUTATED" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE"   "SNAP91 MUTATED" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
"SNAP91 WILD-TYPE"   "SNAP91 MUTATED" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
"SNAP91 WILD-TYPE"   "SNAP91 MUTATED" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
"SNAP91 WILD-TYPE"   "SNAP91 MUTATED" "SNAP91 WILD-TYPE" 
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE"   "SNAP91 MUTATED" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
"SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE"   "SNAP91 MUTATED"   "SNAP91 MUTATED" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
"SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE"   "SNAP91 MUTATED" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE"   "SNAP91 MUTATED" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
"SNAP91 WILD-TYPE"   "SNAP91 MUTATED" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
"SNAP91 WILD-TYPE"   "SNAP91 MUTATED" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
"SNAP91 WILD-TYPE"   "SNAP91 MUTATED" "SNAP91 WILD-TYPE" 
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE"   "SNAP91 MUTATED" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
"SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE"   "SNAP91 MUTATED"   "SNAP91 MUTATED" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
"SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE"   "SNAP91 MUTATED" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE"   "SNAP91 MUTATED" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
"SNAP91 WILD-TYPE"   "SNAP91 MUTATED" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
"SNAP91 WILD-TYPE"   "SNAP91 MUTATED" "SNAP91 WILD-TYPE" "SNAP91 WILD-TYPE" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
"SNAP91 WILD-TYPE"   "SNAP91 MUTATED" "SNAP91 WILD-TYPE" 
[1] "hr=" "1.6"
D49V2, continuous
D49V3, binary
                  cls
clus                0  1
  SNAP91 MUTATED    2 13
  SNAP91 WILD-TYPE 29 61
[1] "tbl2"
                  cls
clus               [,1] [,2]
  SNAP91 MUTATED      2   13
  SNAP91 WILD-TYPE   29   61
        clus
vv       SNAP91 MUTATED SNAP91 WILD-TYPE
  FEMALE              2               29
  MALE               13               61
                  vv
clus               M0 M1 M1B M1C
  SNAP91 MUTATED   14  0   1   0
  SNAP91 WILD-TYPE 77  1   1   1
D49V4, multiclass
     clus
vv    SNAP91 MUTATED SNAP91 WILD-TYPE
  M0              14               77
  M1               0                1
  M1B              1                1
  M1C              0                1
                  vv
clus               N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  SNAP91 MUTATED   11  0   0   1  1   0   1   0  1  0
  SNAP91 WILD-TYPE 47  1   3   8  0   3   6   1 11  1
D49V5, multiclass
D49V6, continuous
                  vv
clus               I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  SNAP91 MUTATED             0       1        2        1        2         1
  SNAP91 WILD-TYPE           1      13        5        9       10         4
                  vv
clus               STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  SNAP91 MUTATED           3         1         1          0          2
  SNAP91 WILD-TYPE         2         1         2          3          8
                  vv
clus               STAGE IIIC STAGE IV
  SNAP91 MUTATED            0        1
  SNAP91 WILD-TYPE         16        2
D49V7, multiclass

Clustering(50) Variable = CA1 MUTATION ANALYSIS
D50V1, survival
               sevent
clus2            0  1
  CA1 MUTATED    0  2
  CA1 WILD-TYPE 23 30
  CA1 MUTATED CA1 WILD-TYPE 
            2            53 
  CA1 MUTATED CA1 WILD-TYPE 
            2            30 
$`CA1 MUTATED`
TCGA-DA-A3F3 TCGA-EE-A29D 
        7.00        11.15 

$`CA1 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
       24.00         4.01         2.86        48.79        35.80        51.12 
TCGA-DA-A1I2 TCGA-DA-A1IB TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z 
       13.68        22.36        17.56        14.83        11.57         6.31 
TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29E 
        1.12        12.20         4.27         5.13        37.97        38.63 
TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29S 
        4.41         1.08         9.47        12.03         8.84         9.99 
TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19F 
        8.09        11.31        25.28        23.90         8.94        11.11 
TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-FW-A3R5 
        4.18        12.99        28.64        42.84        78.44         1.02 
TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
       31.33        84.72        16.21        15.39        14.70 

  CA1 MUTATED CA1 WILD-TYPE 
         7.00          1.02 
  CA1 MUTATED CA1 WILD-TYPE 
        11.15         98.76 
  CA1 MUTATED CA1 WILD-TYPE 
        9.075        13.680 
[1] "7.0 - 11.2 (9.1)"  "1.0 - 98.8 (13.7)"
   TCGA-D3-A1Q1    TCGA-D3-A1Q5    TCGA-D3-A1Q7    TCGA-D3-A1Q8    TCGA-D3-A1Q9 
"CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" 
   TCGA-D3-A2J6    TCGA-D3-A2J8    TCGA-D3-A2J9    TCGA-D3-A2JD    TCGA-D3-A2JK 
"CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" 
   TCGA-D3-A3C6    TCGA-D3-A3CE    TCGA-D3-A3CF    TCGA-D9-A3Z1    TCGA-D9-A3Z3 
"CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" 
   TCGA-DA-A1HV    TCGA-DA-A1HW    TCGA-DA-A1HY    TCGA-DA-A1I2    TCGA-DA-A1IB 
"CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" 
   TCGA-DA-A3F3    TCGA-DA-A3F5    TCGA-DA-A3F8    TCGA-EE-A17X    TCGA-EE-A17Z 
  "CA1 MUTATED" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" 
   TCGA-EE-A181    TCGA-EE-A183    TCGA-EE-A185    TCGA-EE-A20F    TCGA-EE-A29C 
"CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" 
   TCGA-EE-A29D    TCGA-EE-A29E    TCGA-EE-A29H    TCGA-EE-A29L    TCGA-EE-A29N 
  "CA1 MUTATED" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" 
   TCGA-EE-A29P    TCGA-EE-A29R    TCGA-EE-A29S    TCGA-EE-A29X    TCGA-EE-A2A0 
"CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" 
   TCGA-EE-A2A1    TCGA-EE-A2A2    TCGA-EE-A2A6    TCGA-ER-A19F    TCGA-ER-A19J 
"CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" 
   TCGA-ER-A19L    TCGA-ER-A19M    TCGA-ER-A19N    TCGA-ER-A1A1    TCGA-FW-A3R5 
"CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" 
   TCGA-GN-A264    TCGA-GN-A265    TCGA-GN-A267    TCGA-GN-A268    TCGA-GN-A26D 
"CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" 
   TCGA-D3-A1Q1    TCGA-D3-A1Q5    TCGA-D3-A1Q7    TCGA-D3-A1Q8    TCGA-D3-A1Q9 
"CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" 
   TCGA-D3-A2J6    TCGA-D3-A2J8    TCGA-D3-A2J9    TCGA-D3-A2JD    TCGA-D3-A2JK 
"CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" 
   TCGA-D3-A3C6    TCGA-D3-A3CE    TCGA-D3-A3CF    TCGA-D9-A3Z1    TCGA-D9-A3Z3 
"CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" 
   TCGA-DA-A1HV    TCGA-DA-A1HW    TCGA-DA-A1HY    TCGA-DA-A1I2    TCGA-DA-A1IB 
"CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" 
   TCGA-DA-A3F3    TCGA-DA-A3F5    TCGA-DA-A3F8    TCGA-EE-A17X    TCGA-EE-A17Z 
  "CA1 MUTATED" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" 
   TCGA-EE-A181    TCGA-EE-A183    TCGA-EE-A185    TCGA-EE-A20F    TCGA-EE-A29C 
"CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" 
   TCGA-EE-A29D    TCGA-EE-A29E    TCGA-EE-A29H    TCGA-EE-A29L    TCGA-EE-A29N 
  "CA1 MUTATED" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" 
   TCGA-EE-A29P    TCGA-EE-A29R    TCGA-EE-A29S    TCGA-EE-A29X    TCGA-EE-A2A0 
"CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" 
   TCGA-EE-A2A1    TCGA-EE-A2A2    TCGA-EE-A2A6    TCGA-ER-A19F    TCGA-ER-A19J 
"CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" 
   TCGA-ER-A19L    TCGA-ER-A19M    TCGA-ER-A19N    TCGA-ER-A1A1    TCGA-FW-A3R5 
"CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" 
   TCGA-GN-A264    TCGA-GN-A265    TCGA-GN-A267    TCGA-GN-A268    TCGA-GN-A26D 
"CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" 
   TCGA-D3-A1Q1    TCGA-D3-A1Q5    TCGA-D3-A1Q7    TCGA-D3-A1Q8    TCGA-D3-A1Q9 
"CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" 
   TCGA-D3-A2J6    TCGA-D3-A2J8    TCGA-D3-A2J9    TCGA-D3-A2JD    TCGA-D3-A2JK 
"CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" 
   TCGA-D3-A3C6    TCGA-D3-A3CE    TCGA-D3-A3CF    TCGA-D9-A3Z1    TCGA-D9-A3Z3 
"CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" 
   TCGA-DA-A1HV    TCGA-DA-A1HW    TCGA-DA-A1HY    TCGA-DA-A1I2    TCGA-DA-A1IB 
"CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" 
   TCGA-DA-A3F3    TCGA-DA-A3F5    TCGA-DA-A3F8    TCGA-EE-A17X    TCGA-EE-A17Z 
  "CA1 MUTATED" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" 
   TCGA-EE-A181    TCGA-EE-A183    TCGA-EE-A185    TCGA-EE-A20F    TCGA-EE-A29C 
"CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" 
   TCGA-EE-A29D    TCGA-EE-A29E    TCGA-EE-A29H    TCGA-EE-A29L    TCGA-EE-A29N 
  "CA1 MUTATED" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" 
   TCGA-EE-A29P    TCGA-EE-A29R    TCGA-EE-A29S    TCGA-EE-A29X    TCGA-EE-A2A0 
"CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" 
   TCGA-EE-A2A1    TCGA-EE-A2A2    TCGA-EE-A2A6    TCGA-ER-A19F    TCGA-ER-A19J 
"CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" 
   TCGA-ER-A19L    TCGA-ER-A19M    TCGA-ER-A19N    TCGA-ER-A1A1    TCGA-FW-A3R5 
"CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" 
   TCGA-GN-A264    TCGA-GN-A265    TCGA-GN-A267    TCGA-GN-A268    TCGA-GN-A26D 
"CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" 
[1] "Remove cluster labels:" "CA1 MUTATED"           
clus
  CA1 MUTATED CA1 WILD-TYPE 
            2            53 
   TCGA-D3-A1Q1    TCGA-D3-A1Q5    TCGA-D3-A1Q7    TCGA-D3-A1Q8    TCGA-D3-A1Q9 
"CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" 
   TCGA-D3-A2J6    TCGA-D3-A2J8    TCGA-D3-A2J9    TCGA-D3-A2JD    TCGA-D3-A2JK 
"CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" 
   TCGA-D3-A3C6    TCGA-D3-A3CE    TCGA-D3-A3CF    TCGA-D9-A3Z1    TCGA-D9-A3Z3 
"CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" 
   TCGA-DA-A1HV    TCGA-DA-A1HW    TCGA-DA-A1HY    TCGA-DA-A1I2    TCGA-DA-A1IB 
"CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" 
   TCGA-DA-A3F5    TCGA-DA-A3F8    TCGA-EE-A17X    TCGA-EE-A17Z    TCGA-EE-A181 
"CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" 
   TCGA-EE-A183    TCGA-EE-A185    TCGA-EE-A20F    TCGA-EE-A29C    TCGA-EE-A29E 
"CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" 
   TCGA-EE-A29H    TCGA-EE-A29L    TCGA-EE-A29N    TCGA-EE-A29P    TCGA-EE-A29R 
"CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" 
   TCGA-EE-A29S    TCGA-EE-A29X    TCGA-EE-A2A0    TCGA-EE-A2A1    TCGA-EE-A2A2 
"CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" 
   TCGA-EE-A2A6    TCGA-ER-A19F    TCGA-ER-A19J    TCGA-ER-A19L    TCGA-ER-A19M 
"CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" 
   TCGA-ER-A19N    TCGA-ER-A1A1    TCGA-FW-A3R5    TCGA-GN-A264    TCGA-GN-A265 
"CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" 
   TCGA-GN-A267    TCGA-GN-A268    TCGA-GN-A26D 
"CA1 WILD-TYPE" "CA1 WILD-TYPE" "CA1 WILD-TYPE" 
D50V2, continuous
D50V3, binary
               cls
clus             0  1
  CA1 MUTATED    1  5
  CA1 WILD-TYPE 30 69
[1] "tbl2"
               cls
clus            [,1] [,2]
  CA1 MUTATED      1    5
  CA1 WILD-TYPE   30   69
        clus
vv       CA1 MUTATED CA1 WILD-TYPE
  FEMALE           1            30
  MALE             5            69
               vv
clus            M0 M1 M1B M1C
  CA1 MUTATED    6  0   0   0
  CA1 WILD-TYPE 85  1   2   1
D50V4, multiclass
     clus
vv    CA1 MUTATED CA1 WILD-TYPE
  M0            6            85
  M1            0             1
  M1B           0             2
  M1C           0             1
               vv
clus            N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  CA1 MUTATED    3  0   1   1  0   0   1   0  0  0
  CA1 WILD-TYPE 55  1   2   8  1   3   6   1 12  1
D50V5, multiclass
D50V6, continuous
               vv
clus            I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  CA1 MUTATED             0       1        1        0        1         0
  CA1 WILD-TYPE           1      13        6       10       11         5
               vv
clus            STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC
  CA1 MUTATED           0         0         0          1          1          1
  CA1 WILD-TYPE         5         2         3          2          9         15
               vv
clus            STAGE IV
  CA1 MUTATED          0
  CA1 WILD-TYPE        3
D50V7, multiclass

Clustering(51) Variable = SERPINB11 MUTATION ANALYSIS
D51V1, survival
                     sevent
clus2                  0  1
  SERPINB11 MUTATED    3  4
  SERPINB11 WILD-TYPE 20 28
  SERPINB11 MUTATED SERPINB11 WILD-TYPE 
                  7                  48 
  SERPINB11 MUTATED SERPINB11 WILD-TYPE 
                  4                  28 
$`SERPINB11 MUTATED`
TCGA-EE-A20F TCGA-EE-A29D TCGA-ER-A19F TCGA-ER-A19M TCGA-ER-A19N TCGA-FW-A3R5 
        5.13        11.15        11.11        28.64        42.84         1.02 
TCGA-GN-A267 
       16.21 

$`SERPINB11 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
       24.00         4.01         2.86        48.79        35.80        51.12 
TCGA-DA-A1I2 TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X 
       13.68        22.36         7.00        17.56        14.83        11.57 
TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A29C TCGA-EE-A29E 
        6.31         1.12        12.20         4.27        37.97        38.63 
TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29S 
        4.41         1.08         9.47        12.03         8.84         9.99 
TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19J 
        8.09        11.31        25.28        23.90         8.94         4.18 
TCGA-ER-A19L TCGA-ER-A1A1 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A268 TCGA-GN-A26D 
       12.99        78.44        31.33        84.72        15.39        14.70 

  SERPINB11 MUTATED SERPINB11 WILD-TYPE 
               1.02                1.08 
  SERPINB11 MUTATED SERPINB11 WILD-TYPE 
              42.84               98.76 
  SERPINB11 MUTATED SERPINB11 WILD-TYPE 
              11.15               13.50 
[1] "1.0 - 42.8 (11.2)" "1.1 - 98.8 (13.5)"
         TCGA-D3-A1Q1          TCGA-D3-A1Q5          TCGA-D3-A1Q7 
"SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" 
         TCGA-D3-A1Q8          TCGA-D3-A1Q9          TCGA-D3-A2J6 
"SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" 
         TCGA-D3-A2J8          TCGA-D3-A2J9          TCGA-D3-A2JD 
"SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" 
         TCGA-D3-A2JK          TCGA-D3-A3C6          TCGA-D3-A3CE 
"SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" 
         TCGA-D3-A3CF          TCGA-D9-A3Z1          TCGA-D9-A3Z3 
"SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" 
         TCGA-DA-A1HV          TCGA-DA-A1HW          TCGA-DA-A1HY 
"SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" 
         TCGA-DA-A1I2          TCGA-DA-A1IB          TCGA-DA-A3F3 
"SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" 
         TCGA-DA-A3F5          TCGA-DA-A3F8          TCGA-EE-A17X 
"SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" 
         TCGA-EE-A17Z          TCGA-EE-A181          TCGA-EE-A183 
"SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" 
         TCGA-EE-A185          TCGA-EE-A20F          TCGA-EE-A29C 
"SERPINB11 WILD-TYPE"   "SERPINB11 MUTATED" "SERPINB11 WILD-TYPE" 
         TCGA-EE-A29D          TCGA-EE-A29E          TCGA-EE-A29H 
  "SERPINB11 MUTATED" "SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" 
         TCGA-EE-A29L          TCGA-EE-A29N          TCGA-EE-A29P 
"SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" 
         TCGA-EE-A29R          TCGA-EE-A29S          TCGA-EE-A29X 
"SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" 
         TCGA-EE-A2A0          TCGA-EE-A2A1          TCGA-EE-A2A2 
"SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" 
         TCGA-EE-A2A6          TCGA-ER-A19F          TCGA-ER-A19J 
"SERPINB11 WILD-TYPE"   "SERPINB11 MUTATED" "SERPINB11 WILD-TYPE" 
         TCGA-ER-A19L          TCGA-ER-A19M          TCGA-ER-A19N 
"SERPINB11 WILD-TYPE"   "SERPINB11 MUTATED"   "SERPINB11 MUTATED" 
         TCGA-ER-A1A1          TCGA-FW-A3R5          TCGA-GN-A264 
"SERPINB11 WILD-TYPE"   "SERPINB11 MUTATED" "SERPINB11 WILD-TYPE" 
         TCGA-GN-A265          TCGA-GN-A267          TCGA-GN-A268 
"SERPINB11 WILD-TYPE"   "SERPINB11 MUTATED" "SERPINB11 WILD-TYPE" 
         TCGA-GN-A26D 
"SERPINB11 WILD-TYPE" 
         TCGA-D3-A1Q1          TCGA-D3-A1Q5          TCGA-D3-A1Q7 
"SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" 
         TCGA-D3-A1Q8          TCGA-D3-A1Q9          TCGA-D3-A2J6 
"SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" 
         TCGA-D3-A2J8          TCGA-D3-A2J9          TCGA-D3-A2JD 
"SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" 
         TCGA-D3-A2JK          TCGA-D3-A3C6          TCGA-D3-A3CE 
"SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" 
         TCGA-D3-A3CF          TCGA-D9-A3Z1          TCGA-D9-A3Z3 
"SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" 
         TCGA-DA-A1HV          TCGA-DA-A1HW          TCGA-DA-A1HY 
"SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" 
         TCGA-DA-A1I2          TCGA-DA-A1IB          TCGA-DA-A3F3 
"SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" 
         TCGA-DA-A3F5          TCGA-DA-A3F8          TCGA-EE-A17X 
"SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" 
         TCGA-EE-A17Z          TCGA-EE-A181          TCGA-EE-A183 
"SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" 
         TCGA-EE-A185          TCGA-EE-A20F          TCGA-EE-A29C 
"SERPINB11 WILD-TYPE"   "SERPINB11 MUTATED" "SERPINB11 WILD-TYPE" 
         TCGA-EE-A29D          TCGA-EE-A29E          TCGA-EE-A29H 
  "SERPINB11 MUTATED" "SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" 
         TCGA-EE-A29L          TCGA-EE-A29N          TCGA-EE-A29P 
"SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" 
         TCGA-EE-A29R          TCGA-EE-A29S          TCGA-EE-A29X 
"SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" 
         TCGA-EE-A2A0          TCGA-EE-A2A1          TCGA-EE-A2A2 
"SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" 
         TCGA-EE-A2A6          TCGA-ER-A19F          TCGA-ER-A19J 
"SERPINB11 WILD-TYPE"   "SERPINB11 MUTATED" "SERPINB11 WILD-TYPE" 
         TCGA-ER-A19L          TCGA-ER-A19M          TCGA-ER-A19N 
"SERPINB11 WILD-TYPE"   "SERPINB11 MUTATED"   "SERPINB11 MUTATED" 
         TCGA-ER-A1A1          TCGA-FW-A3R5          TCGA-GN-A264 
"SERPINB11 WILD-TYPE"   "SERPINB11 MUTATED" "SERPINB11 WILD-TYPE" 
         TCGA-GN-A265          TCGA-GN-A267          TCGA-GN-A268 
"SERPINB11 WILD-TYPE"   "SERPINB11 MUTATED" "SERPINB11 WILD-TYPE" 
         TCGA-GN-A26D 
"SERPINB11 WILD-TYPE" 
         TCGA-D3-A1Q1          TCGA-D3-A1Q5          TCGA-D3-A1Q7 
"SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" 
         TCGA-D3-A1Q8          TCGA-D3-A1Q9          TCGA-D3-A2J6 
"SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" 
         TCGA-D3-A2J8          TCGA-D3-A2J9          TCGA-D3-A2JD 
"SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" 
         TCGA-D3-A2JK          TCGA-D3-A3C6          TCGA-D3-A3CE 
"SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" 
         TCGA-D3-A3CF          TCGA-D9-A3Z1          TCGA-D9-A3Z3 
"SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" 
         TCGA-DA-A1HV          TCGA-DA-A1HW          TCGA-DA-A1HY 
"SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" 
         TCGA-DA-A1I2          TCGA-DA-A1IB          TCGA-DA-A3F3 
"SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" 
         TCGA-DA-A3F5          TCGA-DA-A3F8          TCGA-EE-A17X 
"SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" 
         TCGA-EE-A17Z          TCGA-EE-A181          TCGA-EE-A183 
"SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" 
         TCGA-EE-A185          TCGA-EE-A20F          TCGA-EE-A29C 
"SERPINB11 WILD-TYPE"   "SERPINB11 MUTATED" "SERPINB11 WILD-TYPE" 
         TCGA-EE-A29D          TCGA-EE-A29E          TCGA-EE-A29H 
  "SERPINB11 MUTATED" "SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" 
         TCGA-EE-A29L          TCGA-EE-A29N          TCGA-EE-A29P 
"SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" 
         TCGA-EE-A29R          TCGA-EE-A29S          TCGA-EE-A29X 
"SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" 
         TCGA-EE-A2A0          TCGA-EE-A2A1          TCGA-EE-A2A2 
"SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" "SERPINB11 WILD-TYPE" 
         TCGA-EE-A2A6          TCGA-ER-A19F          TCGA-ER-A19J 
"SERPINB11 WILD-TYPE"   "SERPINB11 MUTATED" "SERPINB11 WILD-TYPE" 
         TCGA-ER-A19L          TCGA-ER-A19M          TCGA-ER-A19N 
"SERPINB11 WILD-TYPE"   "SERPINB11 MUTATED"   "SERPINB11 MUTATED" 
         TCGA-ER-A1A1          TCGA-FW-A3R5          TCGA-GN-A264 
"SERPINB11 WILD-TYPE"   "SERPINB11 MUTATED" "SERPINB11 WILD-TYPE" 
         TCGA-GN-A265          TCGA-GN-A267          TCGA-GN-A268 
"SERPINB11 WILD-TYPE"   "SERPINB11 MUTATED" "SERPINB11 WILD-TYPE" 
         TCGA-GN-A26D 
"SERPINB11 WILD-TYPE" 
[1] "hr=" "1.1"
D51V2, continuous
D51V3, binary
                     cls
clus                   0  1
  SERPINB11 MUTATED    0 12
  SERPINB11 WILD-TYPE 31 62
[1] "tbl2"
                     cls
clus                  [,1] [,2]
  SERPINB11 MUTATED      0   12
  SERPINB11 WILD-TYPE   31   62
        clus
vv       SERPINB11 MUTATED SERPINB11 WILD-TYPE
  FEMALE                 0                  31
  MALE                  12                  62
                     vv
clus                  M0 M1 M1B M1C
  SERPINB11 MUTATED   11  0   0   0
  SERPINB11 WILD-TYPE 80  1   2   1
D51V4, multiclass
     clus
vv    SERPINB11 MUTATED SERPINB11 WILD-TYPE
  M0                 11                  80
  M1                  0                   1
  M1B                 0                   2
  M1C                 0                   1
                     vv
clus                  N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  SERPINB11 MUTATED    8  0   1   1  1   0   0   0  0  0
  SERPINB11 WILD-TYPE 50  1   2   8  0   3   7   1 12  1
D51V5, multiclass
D51V6, continuous
                     vv
clus                  I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  SERPINB11 MUTATED             0       0        1        2        3         0
  SERPINB11 WILD-TYPE           1      14        6        8        9         5
                     vv
clus                  STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  SERPINB11 MUTATED           1         0         1          1          0
  SERPINB11 WILD-TYPE         4         2         2          2         10
                     vv
clus                  STAGE IIIC STAGE IV
  SERPINB11 MUTATED            1        0
  SERPINB11 WILD-TYPE         15        3
D51V7, multiclass

Clustering(52) Variable = UGT2B15 MUTATION ANALYSIS
D52V1, survival
                   sevent
clus2                0  1
  UGT2B15 MUTATED    2  4
  UGT2B15 WILD-TYPE 21 28
  UGT2B15 MUTATED UGT2B15 WILD-TYPE 
                6                49 
  UGT2B15 MUTATED UGT2B15 WILD-TYPE 
                4                28 
$`UGT2B15 MUTATED`
TCGA-D3-A1Q8 TCGA-DA-A1HY TCGA-EE-A185 TCGA-EE-A29D TCGA-ER-A19M TCGA-FW-A3R5 
       28.08        51.12         4.27        11.15        28.64         1.02 

$`UGT2B15 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A2J8 
       16.47        32.55        98.76        22.55        10.26         8.38 
TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE TCGA-D3-A3CF 
       21.14        11.41         6.35        15.25        13.32        24.00 
TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1I2 TCGA-DA-A1IB 
        4.01         2.86        48.79        35.80        13.68        22.36 
TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 
        7.00        17.56        14.83        11.57         6.31         1.12 
TCGA-EE-A183 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L 
       12.20         5.13        37.97        38.63         4.41         1.08 
TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A0 
        9.47        12.03         8.84         9.99         8.09        11.31 
TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L 
       25.28        23.90         8.94        11.11         4.18        12.99 
TCGA-ER-A19N TCGA-ER-A1A1 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 
       42.84        78.44        31.33        84.72        16.21        15.39 
TCGA-GN-A26D 
       14.70 

  UGT2B15 MUTATED UGT2B15 WILD-TYPE 
             1.02              1.08 
  UGT2B15 MUTATED UGT2B15 WILD-TYPE 
            51.12             98.76 
  UGT2B15 MUTATED UGT2B15 WILD-TYPE 
           19.615            13.320 
[1] "1.0 - 51.1 (19.6)" "1.1 - 98.8 (13.3)"
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q7        TCGA-D3-A1Q8 
"UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE"   "UGT2B15 MUTATED" 
       TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8        TCGA-D3-A2J9 
"UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" 
       TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6        TCGA-D3-A3CE 
"UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" 
       TCGA-D3-A3CF        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I2        TCGA-DA-A1IB 
"UGT2B15 WILD-TYPE"   "UGT2B15 MUTATED" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" 
       TCGA-DA-A3F3        TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X 
"UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" 
       TCGA-EE-A17Z        TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185 
"UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE"   "UGT2B15 MUTATED" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE"   "UGT2B15 MUTATED" "UGT2B15 WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" 
       TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29X        TCGA-EE-A2A0 
"UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" 
       TCGA-EE-A2A1        TCGA-EE-A2A2        TCGA-EE-A2A6        TCGA-ER-A19F 
"UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" 
       TCGA-ER-A19J        TCGA-ER-A19L        TCGA-ER-A19M        TCGA-ER-A19N 
"UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE"   "UGT2B15 MUTATED" "UGT2B15 WILD-TYPE" 
       TCGA-ER-A1A1        TCGA-FW-A3R5        TCGA-GN-A264        TCGA-GN-A265 
"UGT2B15 WILD-TYPE"   "UGT2B15 MUTATED" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" 
       TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26D 
"UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q7        TCGA-D3-A1Q8 
"UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE"   "UGT2B15 MUTATED" 
       TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8        TCGA-D3-A2J9 
"UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" 
       TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6        TCGA-D3-A3CE 
"UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" 
       TCGA-D3-A3CF        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I2        TCGA-DA-A1IB 
"UGT2B15 WILD-TYPE"   "UGT2B15 MUTATED" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" 
       TCGA-DA-A3F3        TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X 
"UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" 
       TCGA-EE-A17Z        TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185 
"UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE"   "UGT2B15 MUTATED" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE"   "UGT2B15 MUTATED" "UGT2B15 WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" 
       TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29X        TCGA-EE-A2A0 
"UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" 
       TCGA-EE-A2A1        TCGA-EE-A2A2        TCGA-EE-A2A6        TCGA-ER-A19F 
"UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" 
       TCGA-ER-A19J        TCGA-ER-A19L        TCGA-ER-A19M        TCGA-ER-A19N 
"UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE"   "UGT2B15 MUTATED" "UGT2B15 WILD-TYPE" 
       TCGA-ER-A1A1        TCGA-FW-A3R5        TCGA-GN-A264        TCGA-GN-A265 
"UGT2B15 WILD-TYPE"   "UGT2B15 MUTATED" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" 
       TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26D 
"UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q7        TCGA-D3-A1Q8 
"UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE"   "UGT2B15 MUTATED" 
       TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8        TCGA-D3-A2J9 
"UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" 
       TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6        TCGA-D3-A3CE 
"UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" 
       TCGA-D3-A3CF        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I2        TCGA-DA-A1IB 
"UGT2B15 WILD-TYPE"   "UGT2B15 MUTATED" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" 
       TCGA-DA-A3F3        TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X 
"UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" 
       TCGA-EE-A17Z        TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185 
"UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE"   "UGT2B15 MUTATED" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE"   "UGT2B15 MUTATED" "UGT2B15 WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" 
       TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29X        TCGA-EE-A2A0 
"UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" 
       TCGA-EE-A2A1        TCGA-EE-A2A2        TCGA-EE-A2A6        TCGA-ER-A19F 
"UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" 
       TCGA-ER-A19J        TCGA-ER-A19L        TCGA-ER-A19M        TCGA-ER-A19N 
"UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE"   "UGT2B15 MUTATED" "UGT2B15 WILD-TYPE" 
       TCGA-ER-A1A1        TCGA-FW-A3R5        TCGA-GN-A264        TCGA-GN-A265 
"UGT2B15 WILD-TYPE"   "UGT2B15 MUTATED" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" 
       TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26D 
"UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" "UGT2B15 WILD-TYPE" 
[1] "hr=" "1.1"
D52V2, continuous
D52V3, binary
                   cls
clus                 0  1
  UGT2B15 MUTATED    1 12
  UGT2B15 WILD-TYPE 30 62
[1] "tbl2"
                   cls
clus                [,1] [,2]
  UGT2B15 MUTATED      1   12
  UGT2B15 WILD-TYPE   30   62
        clus
vv       UGT2B15 MUTATED UGT2B15 WILD-TYPE
  FEMALE               1                30
  MALE                12                62
                   vv
clus                M0 M1 M1B M1C
  UGT2B15 MUTATED   10  0   1   0
  UGT2B15 WILD-TYPE 81  1   1   1
D52V4, multiclass
     clus
vv    UGT2B15 MUTATED UGT2B15 WILD-TYPE
  M0               10                81
  M1                0                 1
  M1B               1                 1
  M1C               0                 1
                   vv
clus                N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  UGT2B15 MUTATED    6  0   0   1  1   0   0   0  3  0
  UGT2B15 WILD-TYPE 52  1   3   8  0   3   7   1  9  1
D52V5, multiclass
D52V6, continuous
                   vv
clus                I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  UGT2B15 MUTATED             0       4        0        1        1         0
  UGT2B15 WILD-TYPE           1      10        7        9       11         5
                   vv
clus                STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  UGT2B15 MUTATED           0         0         1          0          0
  UGT2B15 WILD-TYPE         5         2         2          3         10
                   vv
clus                STAGE IIIC STAGE IV
  UGT2B15 MUTATED            3        1
  UGT2B15 WILD-TYPE         13        2
D52V7, multiclass

Clustering(53) Variable = ACSM2B MUTATION ANALYSIS
D53V1, survival
                  sevent
clus2               0  1
  ACSM2B MUTATED    4  5
  ACSM2B WILD-TYPE 19 27
  ACSM2B MUTATED ACSM2B WILD-TYPE 
               9               46 
  ACSM2B MUTATED ACSM2B WILD-TYPE 
               5               27 
$`ACSM2B MUTATED`
TCGA-EE-A183 TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29L TCGA-ER-A19M 
       12.20        37.97        11.15        38.63         1.08        28.64 
TCGA-ER-A1A1 TCGA-FW-A3R5 TCGA-GN-A267 
       78.44         1.02        16.21 

$`ACSM2B WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
       24.00         4.01         2.86        48.79        35.80        51.12 
TCGA-DA-A1I2 TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X 
       13.68        22.36         7.00        17.56        14.83        11.57 
TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29H TCGA-EE-A29N 
        6.31         1.12         4.27         5.13         4.41         9.47 
TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 
       12.03         8.84         9.99         8.09        11.31        25.28 
TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19N 
       23.90         8.94        11.11         4.18        12.99        42.84 
TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A268 TCGA-GN-A26D 
       31.33        84.72        15.39        14.70 

  ACSM2B MUTATED ACSM2B WILD-TYPE 
            1.02             1.12 
  ACSM2B MUTATED ACSM2B WILD-TYPE 
           78.44            98.76 
  ACSM2B MUTATED ACSM2B WILD-TYPE 
          16.210           13.155 
[1] "1.0 - 78.4 (16.2)" "1.1 - 98.8 (13.2)"
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
"ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE"   "ACSM2B MUTATED" "ACSM2B WILD-TYPE" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
"ACSM2B WILD-TYPE"   "ACSM2B MUTATED"   "ACSM2B MUTATED"   "ACSM2B MUTATED" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"ACSM2B WILD-TYPE"   "ACSM2B MUTATED" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
"ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE"   "ACSM2B MUTATED" "ACSM2B WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
  "ACSM2B MUTATED"   "ACSM2B MUTATED" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
  "ACSM2B MUTATED" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" 
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
"ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE"   "ACSM2B MUTATED" "ACSM2B WILD-TYPE" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
"ACSM2B WILD-TYPE"   "ACSM2B MUTATED"   "ACSM2B MUTATED"   "ACSM2B MUTATED" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"ACSM2B WILD-TYPE"   "ACSM2B MUTATED" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
"ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE"   "ACSM2B MUTATED" "ACSM2B WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
  "ACSM2B MUTATED"   "ACSM2B MUTATED" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
  "ACSM2B MUTATED" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" 
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
"ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE"   "ACSM2B MUTATED" "ACSM2B WILD-TYPE" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
"ACSM2B WILD-TYPE"   "ACSM2B MUTATED"   "ACSM2B MUTATED"   "ACSM2B MUTATED" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"ACSM2B WILD-TYPE"   "ACSM2B MUTATED" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
"ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE"   "ACSM2B MUTATED" "ACSM2B WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
  "ACSM2B MUTATED"   "ACSM2B MUTATED" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
  "ACSM2B MUTATED" "ACSM2B WILD-TYPE" "ACSM2B WILD-TYPE" 
[1] "hr=" "1.4"
D53V2, continuous
D53V3, binary
                  cls
clus                0  1
  ACSM2B MUTATED    1 20
  ACSM2B WILD-TYPE 30 54
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ACSM2B MUTATED      1   20
  ACSM2B WILD-TYPE   30   54
        clus
vv       ACSM2B MUTATED ACSM2B WILD-TYPE
  FEMALE              1               30
  MALE               20               54
                  vv
clus               M0 M1 M1B M1C
  ACSM2B MUTATED   20  0   0   0
  ACSM2B WILD-TYPE 71  1   2   1
D53V4, multiclass
     clus
vv    ACSM2B MUTATED ACSM2B WILD-TYPE
  M0              20               71
  M1               0                1
  M1B              0                2
  M1C              0                1
                  vv
clus               N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  ACSM2B MUTATED   13  0   1   2  1   1   0   0  2  0
  ACSM2B WILD-TYPE 45  1   2   7  0   2   7   1 10  1
D53V5, multiclass
D53V6, continuous
                  vv
clus               I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  ACSM2B MUTATED             0       4        1        3        2         1
  ACSM2B WILD-TYPE           1      10        6        7       10         4
                  vv
clus               STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  ACSM2B MUTATED           2         0         1          1          1
  ACSM2B WILD-TYPE         3         2         2          2          9
                  vv
clus               STAGE IIIC STAGE IV
  ACSM2B MUTATED            3        0
  ACSM2B WILD-TYPE         13        3
D53V7, multiclass

Clustering(54) Variable = C16ORF78 MUTATION ANALYSIS
D54V1, survival
                    sevent
clus2                 0  1
  C16ORF78 MUTATED    2  1
  C16ORF78 WILD-TYPE 21 31
  C16ORF78 MUTATED C16ORF78 WILD-TYPE 
                 3                 52 
  C16ORF78 MUTATED C16ORF78 WILD-TYPE 
                 1                 31 
$`C16ORF78 MUTATED`
TCGA-EE-A2A1 TCGA-FW-A3R5 TCGA-GN-A268 
       25.28         1.02        15.39 

$`C16ORF78 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
       24.00         4.01         2.86        48.79        35.80        51.12 
TCGA-DA-A1I2 TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X 
       13.68        22.36         7.00        17.56        14.83        11.57 
TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C 
        6.31         1.12        12.20         4.27         5.13        37.97 
TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P 
       11.15        38.63         4.41         1.08         9.47        12.03 
TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A2 TCGA-EE-A2A6 
        8.84         9.99         8.09        11.31        23.90         8.94 
TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 
       11.11         4.18        12.99        28.64        42.84        78.44 
TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A26D 
       31.33        84.72        16.21        14.70 

  C16ORF78 MUTATED C16ORF78 WILD-TYPE 
              1.02               1.08 
  C16ORF78 MUTATED C16ORF78 WILD-TYPE 
             25.28              98.76 
  C16ORF78 MUTATED C16ORF78 WILD-TYPE 
            15.390             13.155 
[1] "1.0 - 25.3 (15.4)" "1.1 - 98.8 (13.2)"
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q7 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-D3-A1Q8         TCGA-D3-A1Q9         TCGA-D3-A2J6 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-D3-A2J8         TCGA-D3-A2J9         TCGA-D3-A2JD 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-D3-A2JK         TCGA-D3-A3C6         TCGA-D3-A3CE 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-D3-A3CF         TCGA-D9-A3Z1         TCGA-D9-A3Z3 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-DA-A1HV         TCGA-DA-A1HW         TCGA-DA-A1HY 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-DA-A1I2         TCGA-DA-A1IB         TCGA-DA-A3F3 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20F         TCGA-EE-A29C 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-EE-A29D         TCGA-EE-A29E         TCGA-EE-A29H 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-EE-A29L         TCGA-EE-A29N         TCGA-EE-A29P 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-EE-A29R         TCGA-EE-A29S         TCGA-EE-A29X 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"C16ORF78 WILD-TYPE"   "C16ORF78 MUTATED" "C16ORF78 WILD-TYPE" 
        TCGA-EE-A2A6         TCGA-ER-A19F         TCGA-ER-A19J 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-FW-A3R5         TCGA-GN-A264 
"C16ORF78 WILD-TYPE"   "C16ORF78 MUTATED" "C16ORF78 WILD-TYPE" 
        TCGA-GN-A265         TCGA-GN-A267         TCGA-GN-A268 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE"   "C16ORF78 MUTATED" 
        TCGA-GN-A26D 
"C16ORF78 WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q7 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-D3-A1Q8         TCGA-D3-A1Q9         TCGA-D3-A2J6 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-D3-A2J8         TCGA-D3-A2J9         TCGA-D3-A2JD 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-D3-A2JK         TCGA-D3-A3C6         TCGA-D3-A3CE 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-D3-A3CF         TCGA-D9-A3Z1         TCGA-D9-A3Z3 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-DA-A1HV         TCGA-DA-A1HW         TCGA-DA-A1HY 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-DA-A1I2         TCGA-DA-A1IB         TCGA-DA-A3F3 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20F         TCGA-EE-A29C 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-EE-A29D         TCGA-EE-A29E         TCGA-EE-A29H 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-EE-A29L         TCGA-EE-A29N         TCGA-EE-A29P 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-EE-A29R         TCGA-EE-A29S         TCGA-EE-A29X 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"C16ORF78 WILD-TYPE"   "C16ORF78 MUTATED" "C16ORF78 WILD-TYPE" 
        TCGA-EE-A2A6         TCGA-ER-A19F         TCGA-ER-A19J 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-FW-A3R5         TCGA-GN-A264 
"C16ORF78 WILD-TYPE"   "C16ORF78 MUTATED" "C16ORF78 WILD-TYPE" 
        TCGA-GN-A265         TCGA-GN-A267         TCGA-GN-A268 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE"   "C16ORF78 MUTATED" 
        TCGA-GN-A26D 
"C16ORF78 WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q7 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-D3-A1Q8         TCGA-D3-A1Q9         TCGA-D3-A2J6 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-D3-A2J8         TCGA-D3-A2J9         TCGA-D3-A2JD 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-D3-A2JK         TCGA-D3-A3C6         TCGA-D3-A3CE 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-D3-A3CF         TCGA-D9-A3Z1         TCGA-D9-A3Z3 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-DA-A1HV         TCGA-DA-A1HW         TCGA-DA-A1HY 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-DA-A1I2         TCGA-DA-A1IB         TCGA-DA-A3F3 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20F         TCGA-EE-A29C 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-EE-A29D         TCGA-EE-A29E         TCGA-EE-A29H 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-EE-A29L         TCGA-EE-A29N         TCGA-EE-A29P 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-EE-A29R         TCGA-EE-A29S         TCGA-EE-A29X 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"C16ORF78 WILD-TYPE"   "C16ORF78 MUTATED" "C16ORF78 WILD-TYPE" 
        TCGA-EE-A2A6         TCGA-ER-A19F         TCGA-ER-A19J 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-FW-A3R5         TCGA-GN-A264 
"C16ORF78 WILD-TYPE"   "C16ORF78 MUTATED" "C16ORF78 WILD-TYPE" 
        TCGA-GN-A265         TCGA-GN-A267         TCGA-GN-A268 
"C16ORF78 WILD-TYPE" "C16ORF78 WILD-TYPE"   "C16ORF78 MUTATED" 
        TCGA-GN-A26D 
"C16ORF78 WILD-TYPE" 
[1] "hr=" "1.5"
D54V2, continuous
D54V3, binary
                    cls
clus                  0  1
  C16ORF78 MUTATED    2  6
  C16ORF78 WILD-TYPE 29 68
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  C16ORF78 MUTATED      2    6
  C16ORF78 WILD-TYPE   29   68
        clus
vv       C16ORF78 MUTATED C16ORF78 WILD-TYPE
  FEMALE                2                 29
  MALE                  6                 68
                    vv
clus                 M0 M1 M1B M1C
  C16ORF78 MUTATED    7  0   0   0
  C16ORF78 WILD-TYPE 84  1   2   1
D54V4, multiclass
     clus
vv    C16ORF78 MUTATED C16ORF78 WILD-TYPE
  M0                 7                 84
  M1                 0                  1
  M1B                0                  2
  M1C                0                  1
                    vv
clus                 N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  C16ORF78 MUTATED    6  0   0   0  1   0   0   0  0  0
  C16ORF78 WILD-TYPE 52  1   3   9  0   3   7   1 12  1
D54V5, multiclass
D54V6, continuous
                    vv
clus                 I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  C16ORF78 MUTATED             0       1        0        2        2         0
  C16ORF78 WILD-TYPE           1      13        7        8       10         5
                    vv
clus                 STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  C16ORF78 MUTATED           1         0         1          0          0
  C16ORF78 WILD-TYPE         4         2         2          3         10
                    vv
clus                 STAGE IIIC STAGE IV
  C16ORF78 MUTATED            0        0
  C16ORF78 WILD-TYPE         16        3
D54V7, multiclass

Clustering(55) Variable = TFEC MUTATION ANALYSIS
D55V1, survival
                sevent
clus2             0  1
  TFEC MUTATED    6  2
  TFEC WILD-TYPE 17 30
  TFEC MUTATED TFEC WILD-TYPE 
             8             47 
  TFEC MUTATED TFEC WILD-TYPE 
             2             30 
$`TFEC MUTATED`
TCGA-DA-A1HV TCGA-EE-A20F TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29R TCGA-EE-A2A2 
       48.79         5.13        11.15        38.63         8.84        23.90 
TCGA-ER-A19M TCGA-FW-A3R5 
       28.64         1.02 

$`TFEC WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I2 
       24.00         4.01         2.86        35.80        51.12        13.68 
TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z 
       22.36         7.00        17.56        14.83        11.57         6.31 
TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A29C TCGA-EE-A29H TCGA-EE-A29L 
        1.12        12.20         4.27        37.97         4.41         1.08 
TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 
        9.47        12.03         9.99         8.09        11.31        25.28 
TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19N TCGA-ER-A1A1 
        8.94        11.11         4.18        12.99        42.84        78.44 
TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
       31.33        84.72        16.21        15.39        14.70 

  TFEC MUTATED TFEC WILD-TYPE 
          1.02           1.08 
  TFEC MUTATED TFEC WILD-TYPE 
         48.79          98.76 
  TFEC MUTATED TFEC WILD-TYPE 
        17.525         13.320 
[1] "1.0 - 48.8 (17.5)" "1.1 - 98.8 (13.3)"
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE"   "TFEC MUTATED" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
  "TFEC MUTATED" "TFEC WILD-TYPE"   "TFEC MUTATED"   "TFEC MUTATED" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
  "TFEC MUTATED" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"TFEC WILD-TYPE"   "TFEC MUTATED" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
"TFEC WILD-TYPE" "TFEC WILD-TYPE"   "TFEC MUTATED" "TFEC WILD-TYPE" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"TFEC WILD-TYPE"   "TFEC MUTATED" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE"   "TFEC MUTATED" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
  "TFEC MUTATED" "TFEC WILD-TYPE"   "TFEC MUTATED"   "TFEC MUTATED" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
  "TFEC MUTATED" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"TFEC WILD-TYPE"   "TFEC MUTATED" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
"TFEC WILD-TYPE" "TFEC WILD-TYPE"   "TFEC MUTATED" "TFEC WILD-TYPE" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"TFEC WILD-TYPE"   "TFEC MUTATED" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE"   "TFEC MUTATED" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
  "TFEC MUTATED" "TFEC WILD-TYPE"   "TFEC MUTATED"   "TFEC MUTATED" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
  "TFEC MUTATED" "TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"TFEC WILD-TYPE"   "TFEC MUTATED" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
"TFEC WILD-TYPE" "TFEC WILD-TYPE"   "TFEC MUTATED" "TFEC WILD-TYPE" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"TFEC WILD-TYPE"   "TFEC MUTATED" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"TFEC WILD-TYPE" "TFEC WILD-TYPE" "TFEC WILD-TYPE" 
[1] "hr=" "2.9"
D55V2, continuous
D55V3, binary
                cls
clus              0  1
  TFEC MUTATED    2  8
  TFEC WILD-TYPE 29 66
[1] "tbl2"
                cls
clus             [,1] [,2]
  TFEC MUTATED      2    8
  TFEC WILD-TYPE   29   66
        clus
vv       TFEC MUTATED TFEC WILD-TYPE
  FEMALE            2             29
  MALE              8             66
                vv
clus             M0 M1 M1B M1C
  TFEC MUTATED    9  0   0   0
  TFEC WILD-TYPE 82  1   2   1
D55V4, multiclass
     clus
vv    TFEC MUTATED TFEC WILD-TYPE
  M0             9             82
  M1             0              1
  M1B            0              2
  M1C            0              1
                vv
clus             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  TFEC MUTATED    3  0   0   4  1   0   1   0  0  0
  TFEC WILD-TYPE 55  1   3   5  0   3   6   1 12  1
D55V5, multiclass
D55V6, continuous
                vv
clus             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  TFEC MUTATED             0       0        0        1        1         0
  TFEC WILD-TYPE           1      14        7        9       11         5
                vv
clus             STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC
  TFEC MUTATED           1         0         1          0          3          2
  TFEC WILD-TYPE         4         2         2          3          7         14
                vv
clus             STAGE IV
  TFEC MUTATED          0
  TFEC WILD-TYPE        3
D55V7, multiclass

Clustering(56) Variable = TRHDE MUTATION ANALYSIS
D56V1, survival
                 sevent
clus2              0  1
  TRHDE MUTATED    7  4
  TRHDE WILD-TYPE 16 28
  TRHDE MUTATED TRHDE WILD-TYPE 
             11              44 
  TRHDE MUTATED TRHDE WILD-TYPE 
              4              28 
$`TRHDE MUTATED`
TCGA-D3-A2JD TCGA-DA-A1HY TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A181 
       11.41        51.12        17.56        14.83        11.57         1.12 
TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-ER-A1A1 TCGA-FW-A3R5 
       11.15        38.63         4.41        78.44         1.02 

$`TRHDE WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE TCGA-D3-A3CF 
        8.38        21.14         6.35        15.25        13.32        24.00 
TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1I2 TCGA-DA-A1IB 
        4.01         2.86        48.79        35.80        13.68        22.36 
TCGA-DA-A3F3 TCGA-EE-A17Z TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C 
        7.00         6.31        12.20         4.27         5.13        37.97 
TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29X 
        1.08         9.47        12.03         8.84         9.99         8.09 
TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J 
       11.31        25.28        23.90         8.94        11.11         4.18 
TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 
       12.99        28.64        42.84        31.33        84.72        16.21 
TCGA-GN-A268 TCGA-GN-A26D 
       15.39        14.70 

  TRHDE MUTATED TRHDE WILD-TYPE 
           1.02            1.08 
  TRHDE MUTATED TRHDE WILD-TYPE 
          78.44           98.76 
  TRHDE MUTATED TRHDE WILD-TYPE 
          11.57           13.50 
[1] "1.0 - 78.4 (11.6)" "1.1 - 98.8 (13.5)"
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
  "TRHDE MUTATED" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"TRHDE WILD-TYPE"   "TRHDE MUTATED" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"TRHDE WILD-TYPE"   "TRHDE MUTATED"   "TRHDE MUTATED"   "TRHDE MUTATED" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"TRHDE WILD-TYPE"   "TRHDE MUTATED" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"TRHDE WILD-TYPE" "TRHDE WILD-TYPE"   "TRHDE MUTATED"   "TRHDE MUTATED" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
  "TRHDE MUTATED" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
  "TRHDE MUTATED"   "TRHDE MUTATED" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
  "TRHDE MUTATED" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"TRHDE WILD-TYPE"   "TRHDE MUTATED" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"TRHDE WILD-TYPE"   "TRHDE MUTATED"   "TRHDE MUTATED"   "TRHDE MUTATED" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"TRHDE WILD-TYPE"   "TRHDE MUTATED" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"TRHDE WILD-TYPE" "TRHDE WILD-TYPE"   "TRHDE MUTATED"   "TRHDE MUTATED" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
  "TRHDE MUTATED" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
  "TRHDE MUTATED"   "TRHDE MUTATED" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
  "TRHDE MUTATED" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"TRHDE WILD-TYPE"   "TRHDE MUTATED" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"TRHDE WILD-TYPE"   "TRHDE MUTATED"   "TRHDE MUTATED"   "TRHDE MUTATED" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"TRHDE WILD-TYPE"   "TRHDE MUTATED" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"TRHDE WILD-TYPE" "TRHDE WILD-TYPE"   "TRHDE MUTATED"   "TRHDE MUTATED" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
  "TRHDE MUTATED" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
  "TRHDE MUTATED"   "TRHDE MUTATED" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"TRHDE WILD-TYPE" "TRHDE WILD-TYPE" "TRHDE WILD-TYPE" 
[1] "hr=" "1.8"
D56V2, continuous
D56V3, binary
                 cls
clus               0  1
  TRHDE MUTATED    4 20
  TRHDE WILD-TYPE 27 54
[1] "tbl2"
                 cls
clus              [,1] [,2]
  TRHDE MUTATED      4   20
  TRHDE WILD-TYPE   27   54
        clus
vv       TRHDE MUTATED TRHDE WILD-TYPE
  FEMALE             4              27
  MALE              20              54
                 vv
clus              M0 M1 M1B M1C
  TRHDE MUTATED   23  0   0   0
  TRHDE WILD-TYPE 68  1   2   1
D56V4, multiclass
     clus
vv    TRHDE MUTATED TRHDE WILD-TYPE
  M0             23              68
  M1              0               1
  M1B             0               2
  M1C             0               1
                 vv
clus              N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  TRHDE MUTATED   13  0   0   3  1   2   1   0  3  0
  TRHDE WILD-TYPE 45  1   3   6  0   1   6   1  9  1
D56V5, multiclass
D56V6, continuous
                 vv
clus              I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  TRHDE MUTATED             0       3        3        0        5         0
  TRHDE WILD-TYPE           1      11        4       10        7         5
                 vv
clus              STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  TRHDE MUTATED           2         0         1          1          2
  TRHDE WILD-TYPE         3         2         2          2          8
                 vv
clus              STAGE IIIC STAGE IV
  TRHDE MUTATED            5        0
  TRHDE WILD-TYPE         11        3
D56V7, multiclass

Clustering(57) Variable = OR5AC2 MUTATION ANALYSIS
D57V1, survival
                  sevent
clus2               0  1
  OR5AC2 MUTATED    2  4
  OR5AC2 WILD-TYPE 21 28
  OR5AC2 MUTATED OR5AC2 WILD-TYPE 
               6               49 
  OR5AC2 MUTATED OR5AC2 WILD-TYPE 
               4               28 
$`OR5AC2 MUTATED`
TCGA-DA-A3F8 TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A29R TCGA-ER-A19F TCGA-ER-A19M 
       14.83         1.12        12.20         8.84        11.11        28.64 

$`OR5AC2 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
       24.00         4.01         2.86        48.79        35.80        51.12 
TCGA-DA-A1I2 TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-EE-A17X TCGA-EE-A17Z 
       13.68        22.36         7.00        17.56        11.57         6.31 
TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H 
        4.27         5.13        37.97        11.15        38.63         4.41 
TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A0 
        1.08         9.47        12.03         9.99         8.09        11.31 
TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19N 
       25.28        23.90         8.94         4.18        12.99        42.84 
TCGA-ER-A1A1 TCGA-FW-A3R5 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 
       78.44         1.02        31.33        84.72        16.21        15.39 
TCGA-GN-A26D 
       14.70 

  OR5AC2 MUTATED OR5AC2 WILD-TYPE 
            1.12             1.02 
  OR5AC2 MUTATED OR5AC2 WILD-TYPE 
           28.64            98.76 
  OR5AC2 MUTATED OR5AC2 WILD-TYPE 
          11.655           13.680 
[1] "1.1 - 28.6 (11.7)" "1.0 - 98.8 (13.7)"
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
"OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE"   "OR5AC2 MUTATED" "OR5AC2 WILD-TYPE" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"OR5AC2 WILD-TYPE"   "OR5AC2 MUTATED"   "OR5AC2 MUTATED" "OR5AC2 WILD-TYPE" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
"OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
  "OR5AC2 MUTATED" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE"   "OR5AC2 MUTATED" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE"   "OR5AC2 MUTATED" "OR5AC2 WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
"OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
"OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" 
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
"OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE"   "OR5AC2 MUTATED" "OR5AC2 WILD-TYPE" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"OR5AC2 WILD-TYPE"   "OR5AC2 MUTATED"   "OR5AC2 MUTATED" "OR5AC2 WILD-TYPE" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
"OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
  "OR5AC2 MUTATED" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE"   "OR5AC2 MUTATED" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE"   "OR5AC2 MUTATED" "OR5AC2 WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
"OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
"OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" 
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
"OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE"   "OR5AC2 MUTATED" "OR5AC2 WILD-TYPE" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"OR5AC2 WILD-TYPE"   "OR5AC2 MUTATED"   "OR5AC2 MUTATED" "OR5AC2 WILD-TYPE" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
"OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
  "OR5AC2 MUTATED" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE"   "OR5AC2 MUTATED" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE"   "OR5AC2 MUTATED" "OR5AC2 WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
"OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
"OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" "OR5AC2 WILD-TYPE" 
[1] "hr=" "1.7"
D57V2, continuous
D57V3, binary
                  cls
clus                0  1
  OR5AC2 MUTATED    3 10
  OR5AC2 WILD-TYPE 28 64
[1] "tbl2"
                  cls
clus               [,1] [,2]
  OR5AC2 MUTATED      3   10
  OR5AC2 WILD-TYPE   28   64
        clus
vv       OR5AC2 MUTATED OR5AC2 WILD-TYPE
  FEMALE              3               28
  MALE               10               64
                  vv
clus               M0 M1 M1B M1C
  OR5AC2 MUTATED   13  0   0   0
  OR5AC2 WILD-TYPE 78  1   2   1
D57V4, multiclass
     clus
vv    OR5AC2 MUTATED OR5AC2 WILD-TYPE
  M0              13               78
  M1               0                1
  M1B              0                2
  M1C              0                1
                  vv
clus               N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  OR5AC2 MUTATED   11  0   0   1  0   0   1   0  0  0
  OR5AC2 WILD-TYPE 47  1   3   8  1   3   6   1 12  1
D57V5, multiclass
D57V6, continuous
                  vv
clus               I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  OR5AC2 MUTATED             0       2        0        1        5         1
  OR5AC2 WILD-TYPE           1      12        7        9        7         4
                  vv
clus               STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  OR5AC2 MUTATED           1         0         0          0          1
  OR5AC2 WILD-TYPE         4         2         3          3          9
                  vv
clus               STAGE IIIC STAGE IV
  OR5AC2 MUTATED            1        0
  OR5AC2 WILD-TYPE         15        3
D57V7, multiclass

Clustering(58) Variable = CCDC102B MUTATION ANALYSIS
D58V1, survival
                    sevent
clus2                 0  1
  CCDC102B MUTATED    4  1
  CCDC102B WILD-TYPE 19 31
  CCDC102B MUTATED CCDC102B WILD-TYPE 
                 5                 50 
  CCDC102B MUTATED CCDC102B WILD-TYPE 
                 1                 31 
$`CCDC102B MUTATED`
TCGA-DA-A3F8 TCGA-EE-A181 TCGA-EE-A29E TCGA-EE-A29H TCGA-FW-A3R5 
       14.83         1.12        38.63         4.41         1.02 

$`CCDC102B WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
       24.00         4.01         2.86        48.79        35.80        51.12 
TCGA-DA-A1I2 TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-EE-A17X TCGA-EE-A17Z 
       13.68        22.36         7.00        17.56        11.57         6.31 
TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29L 
       12.20         4.27         5.13        37.97        11.15         1.08 
TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A0 
        9.47        12.03         8.84         9.99         8.09        11.31 
TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L 
       25.28        23.90         8.94        11.11         4.18        12.99 
TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 
       28.64        42.84        78.44        31.33        84.72        16.21 
TCGA-GN-A268 TCGA-GN-A26D 
       15.39        14.70 

  CCDC102B MUTATED CCDC102B WILD-TYPE 
              1.02               1.08 
  CCDC102B MUTATED CCDC102B WILD-TYPE 
             38.63              98.76 
  CCDC102B MUTATED CCDC102B WILD-TYPE 
              4.41              13.50 
[1] "1.0 - 38.6 (4.4)"  "1.1 - 98.8 (13.5)"
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q7 
"CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" 
        TCGA-D3-A1Q8         TCGA-D3-A1Q9         TCGA-D3-A2J6 
"CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" 
        TCGA-D3-A2J8         TCGA-D3-A2J9         TCGA-D3-A2JD 
"CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" 
        TCGA-D3-A2JK         TCGA-D3-A3C6         TCGA-D3-A3CE 
"CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" 
        TCGA-D3-A3CF         TCGA-D9-A3Z1         TCGA-D9-A3Z3 
"CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" 
        TCGA-DA-A1HV         TCGA-DA-A1HW         TCGA-DA-A1HY 
"CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" 
        TCGA-DA-A1I2         TCGA-DA-A1IB         TCGA-DA-A3F3 
"CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"CCDC102B WILD-TYPE"   "CCDC102B MUTATED" "CCDC102B WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"CCDC102B WILD-TYPE"   "CCDC102B MUTATED" "CCDC102B WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20F         TCGA-EE-A29C 
"CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" 
        TCGA-EE-A29D         TCGA-EE-A29E         TCGA-EE-A29H 
"CCDC102B WILD-TYPE"   "CCDC102B MUTATED"   "CCDC102B MUTATED" 
        TCGA-EE-A29L         TCGA-EE-A29N         TCGA-EE-A29P 
"CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" 
        TCGA-EE-A29R         TCGA-EE-A29S         TCGA-EE-A29X 
"CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" 
        TCGA-EE-A2A6         TCGA-ER-A19F         TCGA-ER-A19J 
"CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-FW-A3R5         TCGA-GN-A264 
"CCDC102B WILD-TYPE"   "CCDC102B MUTATED" "CCDC102B WILD-TYPE" 
        TCGA-GN-A265         TCGA-GN-A267         TCGA-GN-A268 
"CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" 
        TCGA-GN-A26D 
"CCDC102B WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q7 
"CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" 
        TCGA-D3-A1Q8         TCGA-D3-A1Q9         TCGA-D3-A2J6 
"CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" 
        TCGA-D3-A2J8         TCGA-D3-A2J9         TCGA-D3-A2JD 
"CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" 
        TCGA-D3-A2JK         TCGA-D3-A3C6         TCGA-D3-A3CE 
"CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" 
        TCGA-D3-A3CF         TCGA-D9-A3Z1         TCGA-D9-A3Z3 
"CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" 
        TCGA-DA-A1HV         TCGA-DA-A1HW         TCGA-DA-A1HY 
"CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" 
        TCGA-DA-A1I2         TCGA-DA-A1IB         TCGA-DA-A3F3 
"CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"CCDC102B WILD-TYPE"   "CCDC102B MUTATED" "CCDC102B WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"CCDC102B WILD-TYPE"   "CCDC102B MUTATED" "CCDC102B WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20F         TCGA-EE-A29C 
"CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" 
        TCGA-EE-A29D         TCGA-EE-A29E         TCGA-EE-A29H 
"CCDC102B WILD-TYPE"   "CCDC102B MUTATED"   "CCDC102B MUTATED" 
        TCGA-EE-A29L         TCGA-EE-A29N         TCGA-EE-A29P 
"CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" 
        TCGA-EE-A29R         TCGA-EE-A29S         TCGA-EE-A29X 
"CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" 
        TCGA-EE-A2A6         TCGA-ER-A19F         TCGA-ER-A19J 
"CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-FW-A3R5         TCGA-GN-A264 
"CCDC102B WILD-TYPE"   "CCDC102B MUTATED" "CCDC102B WILD-TYPE" 
        TCGA-GN-A265         TCGA-GN-A267         TCGA-GN-A268 
"CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" 
        TCGA-GN-A26D 
"CCDC102B WILD-TYPE" 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q7 
"CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" 
        TCGA-D3-A1Q8         TCGA-D3-A1Q9         TCGA-D3-A2J6 
"CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" 
        TCGA-D3-A2J8         TCGA-D3-A2J9         TCGA-D3-A2JD 
"CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" 
        TCGA-D3-A2JK         TCGA-D3-A3C6         TCGA-D3-A3CE 
"CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" 
        TCGA-D3-A3CF         TCGA-D9-A3Z1         TCGA-D9-A3Z3 
"CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" 
        TCGA-DA-A1HV         TCGA-DA-A1HW         TCGA-DA-A1HY 
"CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" 
        TCGA-DA-A1I2         TCGA-DA-A1IB         TCGA-DA-A3F3 
"CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" 
        TCGA-DA-A3F5         TCGA-DA-A3F8         TCGA-EE-A17X 
"CCDC102B WILD-TYPE"   "CCDC102B MUTATED" "CCDC102B WILD-TYPE" 
        TCGA-EE-A17Z         TCGA-EE-A181         TCGA-EE-A183 
"CCDC102B WILD-TYPE"   "CCDC102B MUTATED" "CCDC102B WILD-TYPE" 
        TCGA-EE-A185         TCGA-EE-A20F         TCGA-EE-A29C 
"CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" 
        TCGA-EE-A29D         TCGA-EE-A29E         TCGA-EE-A29H 
"CCDC102B WILD-TYPE"   "CCDC102B MUTATED"   "CCDC102B MUTATED" 
        TCGA-EE-A29L         TCGA-EE-A29N         TCGA-EE-A29P 
"CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" 
        TCGA-EE-A29R         TCGA-EE-A29S         TCGA-EE-A29X 
"CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A1         TCGA-EE-A2A2 
"CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" 
        TCGA-EE-A2A6         TCGA-ER-A19F         TCGA-ER-A19J 
"CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19M         TCGA-ER-A19N 
"CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-FW-A3R5         TCGA-GN-A264 
"CCDC102B WILD-TYPE"   "CCDC102B MUTATED" "CCDC102B WILD-TYPE" 
        TCGA-GN-A265         TCGA-GN-A267         TCGA-GN-A268 
"CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" "CCDC102B WILD-TYPE" 
        TCGA-GN-A26D 
"CCDC102B WILD-TYPE" 
[1] "hr=" "2.1"
D58V2, continuous
D58V3, binary
                    cls
clus                  0  1
  CCDC102B MUTATED    3  8
  CCDC102B WILD-TYPE 28 66
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  CCDC102B MUTATED      3    8
  CCDC102B WILD-TYPE   28   66
        clus
vv       CCDC102B MUTATED CCDC102B WILD-TYPE
  FEMALE                3                 28
  MALE                  8                 66
                    vv
clus                 M0 M1 M1B M1C
  CCDC102B MUTATED   10  0   0   0
  CCDC102B WILD-TYPE 81  1   2   1
D58V4, multiclass
     clus
vv    CCDC102B MUTATED CCDC102B WILD-TYPE
  M0                10                 81
  M1                 0                  1
  M1B                0                  2
  M1C                0                  1
                    vv
clus                 N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  CCDC102B MUTATED    6  0   0   2  1   0   1   0  0  0
  CCDC102B WILD-TYPE 52  1   3   7  0   3   6   1 12  1
D58V5, multiclass
D58V6, continuous
                    vv
clus                 I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  CCDC102B MUTATED             0       2        1        1        2         0
  CCDC102B WILD-TYPE           1      12        6        9       10         5
                    vv
clus                 STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  CCDC102B MUTATED           0         0         1          0          3
  CCDC102B WILD-TYPE         5         2         2          3          7
                    vv
clus                 STAGE IIIC STAGE IV
  CCDC102B MUTATED            0        0
  CCDC102B WILD-TYPE         16        3
D58V7, multiclass

Clustering(59) Variable = GRXCR1 MUTATION ANALYSIS
D59V1, survival
                  sevent
clus2               0  1
  GRXCR1 MUTATED    4  2
  GRXCR1 WILD-TYPE 19 30
  GRXCR1 MUTATED GRXCR1 WILD-TYPE 
               6               49 
  GRXCR1 MUTATED GRXCR1 WILD-TYPE 
               2               30 
$`GRXCR1 MUTATED`
TCGA-DA-A3F8 TCGA-EE-A29L TCGA-EE-A29P TCGA-EE-A29S TCGA-GN-A265 TCGA-GN-A268 
       14.83         1.08        12.03         9.99        84.72        15.39 

$`GRXCR1 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
       24.00         4.01         2.86        48.79        35.80        51.12 
TCGA-DA-A1I2 TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-EE-A17X TCGA-EE-A17Z 
       13.68        22.36         7.00        17.56        11.57         6.31 
TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D 
        1.12        12.20         4.27         5.13        37.97        11.15 
TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29N TCGA-EE-A29R TCGA-EE-A29X TCGA-EE-A2A0 
       38.63         4.41         9.47         8.84         8.09        11.31 
TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L 
       25.28        23.90         8.94        11.11         4.18        12.99 
TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-FW-A3R5 TCGA-GN-A264 TCGA-GN-A267 
       28.64        42.84        78.44         1.02        31.33        16.21 
TCGA-GN-A26D 
       14.70 

  GRXCR1 MUTATED GRXCR1 WILD-TYPE 
            1.08             1.02 
  GRXCR1 MUTATED GRXCR1 WILD-TYPE 
           84.72            98.76 
  GRXCR1 MUTATED GRXCR1 WILD-TYPE 
           13.43            13.32 
[1] "1.1 - 84.7 (13.4)" "1.0 - 98.8 (13.3)"
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
"GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE"   "GRXCR1 MUTATED" "GRXCR1 WILD-TYPE" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
"GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"GRXCR1 WILD-TYPE"   "GRXCR1 MUTATED" "GRXCR1 WILD-TYPE"   "GRXCR1 MUTATED" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
"GRXCR1 WILD-TYPE"   "GRXCR1 MUTATED" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
"GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE"   "GRXCR1 MUTATED" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
"GRXCR1 WILD-TYPE"   "GRXCR1 MUTATED" "GRXCR1 WILD-TYPE" 
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
"GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE"   "GRXCR1 MUTATED" "GRXCR1 WILD-TYPE" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
"GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"GRXCR1 WILD-TYPE"   "GRXCR1 MUTATED" "GRXCR1 WILD-TYPE"   "GRXCR1 MUTATED" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
"GRXCR1 WILD-TYPE"   "GRXCR1 MUTATED" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
"GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE"   "GRXCR1 MUTATED" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
"GRXCR1 WILD-TYPE"   "GRXCR1 MUTATED" "GRXCR1 WILD-TYPE" 
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
"GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE"   "GRXCR1 MUTATED" "GRXCR1 WILD-TYPE" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
"GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"GRXCR1 WILD-TYPE"   "GRXCR1 MUTATED" "GRXCR1 WILD-TYPE"   "GRXCR1 MUTATED" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
"GRXCR1 WILD-TYPE"   "GRXCR1 MUTATED" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
"GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE" "GRXCR1 WILD-TYPE"   "GRXCR1 MUTATED" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
"GRXCR1 WILD-TYPE"   "GRXCR1 MUTATED" "GRXCR1 WILD-TYPE" 
[1] "hr=" "1.6"
D59V2, continuous
D59V3, binary
                  cls
clus                0  1
  GRXCR1 MUTATED    3  9
  GRXCR1 WILD-TYPE 28 65
[1] "tbl2"
                  cls
clus               [,1] [,2]
  GRXCR1 MUTATED      3    9
  GRXCR1 WILD-TYPE   28   65
        clus
vv       GRXCR1 MUTATED GRXCR1 WILD-TYPE
  FEMALE              3               28
  MALE                9               65
                  vv
clus               M0 M1 M1B M1C
  GRXCR1 MUTATED   11  0   0   0
  GRXCR1 WILD-TYPE 80  1   2   1
D59V4, multiclass
     clus
vv    GRXCR1 MUTATED GRXCR1 WILD-TYPE
  M0              11               80
  M1               0                1
  M1B              0                2
  M1C              0                1
                  vv
clus               N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  GRXCR1 MUTATED    9  0   0   0  0   0   1   0  1  0
  GRXCR1 WILD-TYPE 49  1   3   9  1   3   6   1 11  1
D59V5, multiclass
D59V6, continuous
                  vv
clus               I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  GRXCR1 MUTATED             0       1        2        0        2         1
  GRXCR1 WILD-TYPE           1      13        5       10       10         4
                  vv
clus               STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  GRXCR1 MUTATED           2         1         0          0          1
  GRXCR1 WILD-TYPE         3         1         3          3          9
                  vv
clus               STAGE IIIC STAGE IV
  GRXCR1 MUTATED            1        0
  GRXCR1 WILD-TYPE         15        3
D59V7, multiclass

Clustering(60) Variable = OR4M2 MUTATION ANALYSIS
D60V1, survival
                 sevent
clus2              0  1
  OR4M2 MUTATED    4  3
  OR4M2 WILD-TYPE 19 29
  OR4M2 MUTATED OR4M2 WILD-TYPE 
              7              48 
  OR4M2 MUTATED OR4M2 WILD-TYPE 
              3              29 
$`OR4M2 MUTATED`
TCGA-DA-A1HV TCGA-EE-A181 TCGA-EE-A29E TCGA-EE-A29L TCGA-EE-A29S TCGA-EE-A2A0 
       48.79         1.12        38.63         1.08         9.99        11.31 
TCGA-FW-A3R5 
        1.02 

$`OR4M2 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I2 
       24.00         4.01         2.86        35.80        51.12        13.68 
TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z 
       22.36         7.00        17.56        14.83        11.57         6.31 
TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29H 
       12.20         4.27         5.13        37.97        11.15         4.41 
TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29X TCGA-EE-A2A1 TCGA-EE-A2A2 
        9.47        12.03         8.84         8.09        25.28        23.90 
TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N 
        8.94        11.11         4.18        12.99        28.64        42.84 
TCGA-ER-A1A1 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
       78.44        31.33        84.72        16.21        15.39        14.70 

  OR4M2 MUTATED OR4M2 WILD-TYPE 
           1.02            2.86 
  OR4M2 MUTATED OR4M2 WILD-TYPE 
          48.79           98.76 
  OR4M2 MUTATED OR4M2 WILD-TYPE 
           9.99           14.19 
[1] "1.0 - 48.8 (10.0)" "2.9 - 98.8 (14.2)"
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE"   "OR4M2 MUTATED" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"OR4M2 WILD-TYPE"   "OR4M2 MUTATED" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE"   "OR4M2 MUTATED" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"OR4M2 WILD-TYPE"   "OR4M2 MUTATED" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"OR4M2 WILD-TYPE"   "OR4M2 MUTATED" "OR4M2 WILD-TYPE"   "OR4M2 MUTATED" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"OR4M2 WILD-TYPE"   "OR4M2 MUTATED" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE"   "OR4M2 MUTATED" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"OR4M2 WILD-TYPE"   "OR4M2 MUTATED" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE"   "OR4M2 MUTATED" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"OR4M2 WILD-TYPE"   "OR4M2 MUTATED" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"OR4M2 WILD-TYPE"   "OR4M2 MUTATED" "OR4M2 WILD-TYPE"   "OR4M2 MUTATED" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"OR4M2 WILD-TYPE"   "OR4M2 MUTATED" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE"   "OR4M2 MUTATED" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"OR4M2 WILD-TYPE"   "OR4M2 MUTATED" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE"   "OR4M2 MUTATED" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"OR4M2 WILD-TYPE"   "OR4M2 MUTATED" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"OR4M2 WILD-TYPE"   "OR4M2 MUTATED" "OR4M2 WILD-TYPE"   "OR4M2 MUTATED" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"OR4M2 WILD-TYPE"   "OR4M2 MUTATED" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" "OR4M2 WILD-TYPE" 
[1] "hr=" "1.1"
D60V2, continuous
D60V3, binary
                 cls
clus               0  1
  OR4M2 MUTATED    4  9
  OR4M2 WILD-TYPE 27 65
[1] "tbl2"
                 cls
clus              [,1] [,2]
  OR4M2 MUTATED      4    9
  OR4M2 WILD-TYPE   27   65
        clus
vv       OR4M2 MUTATED OR4M2 WILD-TYPE
  FEMALE             4              27
  MALE               9              65
                 vv
clus              M0 M1 M1B M1C
  OR4M2 MUTATED   12  0   0   0
  OR4M2 WILD-TYPE 79  1   2   1
D60V4, multiclass
     clus
vv    OR4M2 MUTATED OR4M2 WILD-TYPE
  M0             12              79
  M1              0               1
  M1B             0               2
  M1C             0               1
                 vv
clus              N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  OR4M2 MUTATED    8  0   0   1  1   0   1   0  1  0
  OR4M2 WILD-TYPE 50  1   3   8  0   3   6   1 11  1
D60V5, multiclass
D60V6, continuous
                 vv
clus              I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  OR4M2 MUTATED             0       2        0        0        3         2
  OR4M2 WILD-TYPE           1      12        7       10        9         3
                 vv
clus              STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  OR4M2 MUTATED           1         0         1          0          2
  OR4M2 WILD-TYPE         4         2         2          3          8
                 vv
clus              STAGE IIIC STAGE IV
  OR4M2 MUTATED            1        0
  OR4M2 WILD-TYPE         15        3
D60V7, multiclass

Clustering(61) Variable = PLAC8L1 MUTATION ANALYSIS
D61V1, survival
                   sevent
clus2                0  1
  PLAC8L1 WILD-TYPE 23 32
PLAC8L1 WILD-TYPE 
               55 
[1] 32
$`PLAC8L1 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
       24.00         4.01         2.86        48.79        35.80        51.12 
TCGA-DA-A1I2 TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X 
       13.68        22.36         7.00        17.56        14.83        11.57 
TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C 
        6.31         1.12        12.20         4.27         5.13        37.97 
TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P 
       11.15        38.63         4.41         1.08         9.47        12.03 
TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 
        8.84         9.99         8.09        11.31        25.28        23.90 
TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N 
        8.94        11.11         4.18        12.99        28.64        42.84 
TCGA-ER-A1A1 TCGA-FW-A3R5 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 
       78.44         1.02        31.33        84.72        16.21        15.39 
TCGA-GN-A26D 
       14.70 

PLAC8L1 WILD-TYPE 
             1.02 
PLAC8L1 WILD-TYPE 
            98.76 
PLAC8L1 WILD-TYPE 
            13.32 
[1] "1.0 - 98.8 (13.3)"
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q7        TCGA-D3-A1Q8 
"PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" 
       TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8        TCGA-D3-A2J9 
"PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" 
       TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6        TCGA-D3-A3CE 
"PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" 
       TCGA-D3-A3CF        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I2        TCGA-DA-A1IB 
"PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" 
       TCGA-DA-A3F3        TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X 
"PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" 
       TCGA-EE-A17Z        TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185 
"PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" 
       TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29X        TCGA-EE-A2A0 
"PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" 
       TCGA-EE-A2A1        TCGA-EE-A2A2        TCGA-EE-A2A6        TCGA-ER-A19F 
"PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" 
       TCGA-ER-A19J        TCGA-ER-A19L        TCGA-ER-A19M        TCGA-ER-A19N 
"PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" 
       TCGA-ER-A1A1        TCGA-FW-A3R5        TCGA-GN-A264        TCGA-GN-A265 
"PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" 
       TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26D 
"PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q7        TCGA-D3-A1Q8 
"PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" 
       TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8        TCGA-D3-A2J9 
"PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" 
       TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6        TCGA-D3-A3CE 
"PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" 
       TCGA-D3-A3CF        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I2        TCGA-DA-A1IB 
"PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" 
       TCGA-DA-A3F3        TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X 
"PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" 
       TCGA-EE-A17Z        TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185 
"PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" 
       TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29X        TCGA-EE-A2A0 
"PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" 
       TCGA-EE-A2A1        TCGA-EE-A2A2        TCGA-EE-A2A6        TCGA-ER-A19F 
"PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" 
       TCGA-ER-A19J        TCGA-ER-A19L        TCGA-ER-A19M        TCGA-ER-A19N 
"PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" 
       TCGA-ER-A1A1        TCGA-FW-A3R5        TCGA-GN-A264        TCGA-GN-A265 
"PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" 
       TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26D 
"PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q7        TCGA-D3-A1Q8 
"PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" 
       TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8        TCGA-D3-A2J9 
"PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" 
       TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6        TCGA-D3-A3CE 
"PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" 
       TCGA-D3-A3CF        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I2        TCGA-DA-A1IB 
"PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" 
       TCGA-DA-A3F3        TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X 
"PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" 
       TCGA-EE-A17Z        TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185 
"PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" 
       TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29X        TCGA-EE-A2A0 
"PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" 
       TCGA-EE-A2A1        TCGA-EE-A2A2        TCGA-EE-A2A6        TCGA-ER-A19F 
"PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" 
       TCGA-ER-A19J        TCGA-ER-A19L        TCGA-ER-A19M        TCGA-ER-A19N 
"PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" 
       TCGA-ER-A1A1        TCGA-FW-A3R5        TCGA-GN-A264        TCGA-GN-A265 
"PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" 
       TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26D 
"PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" "PLAC8L1 WILD-TYPE" 
D61V2, continuous
D61V3, binary
                   cls
clus                 0  1
  PLAC8L1 MUTATED    0  3
  PLAC8L1 WILD-TYPE 31 71
[1] "tbl2"
                   cls
clus                [,1] [,2]
  PLAC8L1 MUTATED      0    3
  PLAC8L1 WILD-TYPE   31   71
        clus
vv       PLAC8L1 MUTATED PLAC8L1 WILD-TYPE
  FEMALE               0                31
  MALE                 3                71
                   vv
clus                M0 M1 M1B M1C
  PLAC8L1 MUTATED    3  0   0   0
  PLAC8L1 WILD-TYPE 88  1   2   1
D61V4, multiclass
     clus
vv    PLAC8L1 MUTATED PLAC8L1 WILD-TYPE
  M0                3                88
  M1                0                 1
  M1B               0                 2
  M1C               0                 1
                   vv
clus                N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  PLAC8L1 MUTATED    3  0   0   0  0   0   0   0  0  0
  PLAC8L1 WILD-TYPE 55  1   3   9  1   3   7   1 12  1
D61V5, multiclass
D61V6, continuous
                   vv
clus                I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  PLAC8L1 MUTATED             0       1        0        0        1         0
  PLAC8L1 WILD-TYPE           1      13        7       10       11         5
                   vv
clus                STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  PLAC8L1 MUTATED           1         0         0          0          0
  PLAC8L1 WILD-TYPE         4         2         3          3         10
                   vv
clus                STAGE IIIC STAGE IV
  PLAC8L1 MUTATED            0        0
  PLAC8L1 WILD-TYPE         16        3
D61V7, multiclass

Clustering(62) Variable = POM121 MUTATION ANALYSIS
D62V1, survival
                  sevent
clus2               0  1
  POM121 MUTATED    1  2
  POM121 WILD-TYPE 22 30
  POM121 MUTATED POM121 WILD-TYPE 
               3               52 
  POM121 MUTATED POM121 WILD-TYPE 
               2               30 
$`POM121 MUTATED`
TCGA-DA-A1I2 TCGA-EE-A181 TCGA-FW-A3R5 
       13.68         1.12         1.02 

$`POM121 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
       24.00         4.01         2.86        48.79        35.80        51.12 
TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z 
       22.36         7.00        17.56        14.83        11.57         6.31 
TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E 
       12.20         4.27         5.13        37.97        11.15        38.63 
TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29S 
        4.41         1.08         9.47        12.03         8.84         9.99 
TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19F 
        8.09        11.31        25.28        23.90         8.94        11.11 
TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-GN-A264 
        4.18        12.99        28.64        42.84        78.44        31.33 
TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
       84.72        16.21        15.39        14.70 

  POM121 MUTATED POM121 WILD-TYPE 
            1.02             1.08 
  POM121 MUTATED POM121 WILD-TYPE 
           13.68            98.76 
  POM121 MUTATED POM121 WILD-TYPE 
            1.12            14.01 
[1] "1.0 - 13.7 (1.1)"  "1.1 - 98.8 (14.0)"
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
"POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"POM121 WILD-TYPE" "POM121 WILD-TYPE"   "POM121 MUTATED" "POM121 WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"POM121 WILD-TYPE"   "POM121 MUTATED" "POM121 WILD-TYPE" "POM121 WILD-TYPE" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
"POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
"POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
"POM121 WILD-TYPE"   "POM121 MUTATED" "POM121 WILD-TYPE" "POM121 WILD-TYPE" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
"POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" 
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
"POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"POM121 WILD-TYPE" "POM121 WILD-TYPE"   "POM121 MUTATED" "POM121 WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"POM121 WILD-TYPE"   "POM121 MUTATED" "POM121 WILD-TYPE" "POM121 WILD-TYPE" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
"POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
"POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
"POM121 WILD-TYPE"   "POM121 MUTATED" "POM121 WILD-TYPE" "POM121 WILD-TYPE" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
"POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" 
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
"POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"POM121 WILD-TYPE" "POM121 WILD-TYPE"   "POM121 MUTATED" "POM121 WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"POM121 WILD-TYPE"   "POM121 MUTATED" "POM121 WILD-TYPE" "POM121 WILD-TYPE" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
"POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
"POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
"POM121 WILD-TYPE"   "POM121 MUTATED" "POM121 WILD-TYPE" "POM121 WILD-TYPE" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
"POM121 WILD-TYPE" "POM121 WILD-TYPE" "POM121 WILD-TYPE" 
[1] "hr=" "3.8"
D62V2, continuous
D62V3, binary
                  cls
clus                0  1
  POM121 MUTATED    2  8
  POM121 WILD-TYPE 29 66
[1] "tbl2"
                  cls
clus               [,1] [,2]
  POM121 MUTATED      2    8
  POM121 WILD-TYPE   29   66
        clus
vv       POM121 MUTATED POM121 WILD-TYPE
  FEMALE              2               29
  MALE                8               66
                  vv
clus               M0 M1 M1B M1C
  POM121 MUTATED    9  0   0   0
  POM121 WILD-TYPE 82  1   2   1
D62V4, multiclass
     clus
vv    POM121 MUTATED POM121 WILD-TYPE
  M0               9               82
  M1               0                1
  M1B              0                2
  M1C              0                1
                  vv
clus               N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  POM121 MUTATED    6  0   1   0  1   0   1   0  0  0
  POM121 WILD-TYPE 52  1   2   9  0   3   6   1 12  1
D62V5, multiclass
D62V6, continuous
                  vv
clus               I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  POM121 MUTATED             0       0        0        0        5         0
  POM121 WILD-TYPE           1      14        7       10        7         5
                  vv
clus               STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  POM121 MUTATED           1         0         1          0          1
  POM121 WILD-TYPE         4         2         2          3          9
                  vv
clus               STAGE IIIC STAGE IV
  POM121 MUTATED            1        0
  POM121 WILD-TYPE         15        3
D62V7, multiclass

Clustering(63) Variable = RBM11 MUTATION ANALYSIS
D63V1, survival
                 sevent
clus2              0  1
  RBM11 MUTATED    3  1
  RBM11 WILD-TYPE 20 31
  RBM11 MUTATED RBM11 WILD-TYPE 
              4              51 
  RBM11 MUTATED RBM11 WILD-TYPE 
              1              31 
$`RBM11 MUTATED`
TCGA-EE-A181 TCGA-EE-A29H TCGA-EE-A29S TCGA-FW-A3R5 
        1.12         4.41         9.99         1.02 

$`RBM11 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
       24.00         4.01         2.86        48.79        35.80        51.12 
TCGA-DA-A1I2 TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X 
       13.68        22.36         7.00        17.56        14.83        11.57 
TCGA-EE-A17Z TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D 
        6.31        12.20         4.27         5.13        37.97        11.15 
TCGA-EE-A29E TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29X 
       38.63         1.08         9.47        12.03         8.84         8.09 
TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J 
       11.31        25.28        23.90         8.94        11.11         4.18 
TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-GN-A264 TCGA-GN-A265 
       12.99        28.64        42.84        78.44        31.33        84.72 
TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
       16.21        15.39        14.70 

  RBM11 MUTATED RBM11 WILD-TYPE 
           1.02            1.08 
  RBM11 MUTATED RBM11 WILD-TYPE 
           9.99           98.76 
  RBM11 MUTATED RBM11 WILD-TYPE 
          2.765          14.700 
[1] "1.0 - 10.0 (2.8)"  "1.1 - 98.8 (14.7)"
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"RBM11 WILD-TYPE"   "RBM11 MUTATED" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
  "RBM11 MUTATED" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"RBM11 WILD-TYPE"   "RBM11 MUTATED" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"RBM11 WILD-TYPE"   "RBM11 MUTATED" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"RBM11 WILD-TYPE"   "RBM11 MUTATED" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
  "RBM11 MUTATED" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"RBM11 WILD-TYPE"   "RBM11 MUTATED" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"RBM11 WILD-TYPE"   "RBM11 MUTATED" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"RBM11 WILD-TYPE"   "RBM11 MUTATED" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
  "RBM11 MUTATED" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"RBM11 WILD-TYPE"   "RBM11 MUTATED" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"RBM11 WILD-TYPE"   "RBM11 MUTATED" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"RBM11 WILD-TYPE" "RBM11 WILD-TYPE" "RBM11 WILD-TYPE" 
[1] "hr=" "3.3"
D63V2, continuous
D63V3, binary
                 cls
clus               0  1
  RBM11 MUTATED    2  7
  RBM11 WILD-TYPE 29 67
[1] "tbl2"
                 cls
clus              [,1] [,2]
  RBM11 MUTATED      2    7
  RBM11 WILD-TYPE   29   67
        clus
vv       RBM11 MUTATED RBM11 WILD-TYPE
  FEMALE             2              29
  MALE               7              67
                 vv
clus              M0 M1 M1B M1C
  RBM11 MUTATED    9  0   0   0
  RBM11 WILD-TYPE 82  1   2   1
D63V4, multiclass
     clus
vv    RBM11 MUTATED RBM11 WILD-TYPE
  M0              9              82
  M1              0               1
  M1B             0               2
  M1C             0               1
                 vv
clus              N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  RBM11 MUTATED    7  0   1   0  1   0   0   0  0  0
  RBM11 WILD-TYPE 51  1   2   9  0   3   7   1 12  1
D63V5, multiclass
D63V6, continuous
                 vv
clus              I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  RBM11 MUTATED             0       3        1        0        2         1
  RBM11 WILD-TYPE           1      11        6       10       10         4
                 vv
clus              STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  RBM11 MUTATED           0         0         1          0          1
  RBM11 WILD-TYPE         5         2         2          3          9
                 vv
clus              STAGE IIIC STAGE IV
  RBM11 MUTATED            0        0
  RBM11 WILD-TYPE         16        3
D63V7, multiclass

Clustering(64) Variable = RUNX1T1 MUTATION ANALYSIS
D64V1, survival
                   sevent
clus2                0  1
  RUNX1T1 MUTATED    4  3
  RUNX1T1 WILD-TYPE 19 29
  RUNX1T1 MUTATED RUNX1T1 WILD-TYPE 
                7                48 
  RUNX1T1 MUTATED RUNX1T1 WILD-TYPE 
                3                29 
$`RUNX1T1 MUTATED`
TCGA-D9-A3Z1 TCGA-EE-A181 TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A2A0 
        4.01         1.12        37.97        11.15        38.63        11.31 
TCGA-FW-A3R5 
        1.02 

$`RUNX1T1 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I2 
       24.00         2.86        48.79        35.80        51.12        13.68 
TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z 
       22.36         7.00        17.56        14.83        11.57         6.31 
TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N 
       12.20         4.27         5.13         4.41         1.08         9.47 
TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A1 TCGA-EE-A2A2 
       12.03         8.84         9.99         8.09        25.28        23.90 
TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N 
        8.94        11.11         4.18        12.99        28.64        42.84 
TCGA-ER-A1A1 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
       78.44        31.33        84.72        16.21        15.39        14.70 

  RUNX1T1 MUTATED RUNX1T1 WILD-TYPE 
             1.02              1.08 
  RUNX1T1 MUTATED RUNX1T1 WILD-TYPE 
            38.63             98.76 
  RUNX1T1 MUTATED RUNX1T1 WILD-TYPE 
            11.15             14.19 
[1] "1.0 - 38.6 (11.2)" "1.1 - 98.8 (14.2)"
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q7        TCGA-D3-A1Q8 
"RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" 
       TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8        TCGA-D3-A2J9 
"RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" 
       TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6        TCGA-D3-A3CE 
"RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" 
       TCGA-D3-A3CF        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"RUNX1T1 WILD-TYPE"   "RUNX1T1 MUTATED" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I2        TCGA-DA-A1IB 
"RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" 
       TCGA-DA-A3F3        TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X 
"RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" 
       TCGA-EE-A17Z        TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185 
"RUNX1T1 WILD-TYPE"   "RUNX1T1 MUTATED" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"RUNX1T1 WILD-TYPE"   "RUNX1T1 MUTATED"   "RUNX1T1 MUTATED"   "RUNX1T1 MUTATED" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" 
       TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29X        TCGA-EE-A2A0 
"RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE"   "RUNX1T1 MUTATED" 
       TCGA-EE-A2A1        TCGA-EE-A2A2        TCGA-EE-A2A6        TCGA-ER-A19F 
"RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" 
       TCGA-ER-A19J        TCGA-ER-A19L        TCGA-ER-A19M        TCGA-ER-A19N 
"RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" 
       TCGA-ER-A1A1        TCGA-FW-A3R5        TCGA-GN-A264        TCGA-GN-A265 
"RUNX1T1 WILD-TYPE"   "RUNX1T1 MUTATED" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" 
       TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26D 
"RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q7        TCGA-D3-A1Q8 
"RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" 
       TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8        TCGA-D3-A2J9 
"RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" 
       TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6        TCGA-D3-A3CE 
"RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" 
       TCGA-D3-A3CF        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"RUNX1T1 WILD-TYPE"   "RUNX1T1 MUTATED" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I2        TCGA-DA-A1IB 
"RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" 
       TCGA-DA-A3F3        TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X 
"RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" 
       TCGA-EE-A17Z        TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185 
"RUNX1T1 WILD-TYPE"   "RUNX1T1 MUTATED" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"RUNX1T1 WILD-TYPE"   "RUNX1T1 MUTATED"   "RUNX1T1 MUTATED"   "RUNX1T1 MUTATED" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" 
       TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29X        TCGA-EE-A2A0 
"RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE"   "RUNX1T1 MUTATED" 
       TCGA-EE-A2A1        TCGA-EE-A2A2        TCGA-EE-A2A6        TCGA-ER-A19F 
"RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" 
       TCGA-ER-A19J        TCGA-ER-A19L        TCGA-ER-A19M        TCGA-ER-A19N 
"RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" 
       TCGA-ER-A1A1        TCGA-FW-A3R5        TCGA-GN-A264        TCGA-GN-A265 
"RUNX1T1 WILD-TYPE"   "RUNX1T1 MUTATED" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" 
       TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26D 
"RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q7        TCGA-D3-A1Q8 
"RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" 
       TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8        TCGA-D3-A2J9 
"RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" 
       TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6        TCGA-D3-A3CE 
"RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" 
       TCGA-D3-A3CF        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"RUNX1T1 WILD-TYPE"   "RUNX1T1 MUTATED" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I2        TCGA-DA-A1IB 
"RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" 
       TCGA-DA-A3F3        TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X 
"RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" 
       TCGA-EE-A17Z        TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185 
"RUNX1T1 WILD-TYPE"   "RUNX1T1 MUTATED" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"RUNX1T1 WILD-TYPE"   "RUNX1T1 MUTATED"   "RUNX1T1 MUTATED"   "RUNX1T1 MUTATED" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" 
       TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29X        TCGA-EE-A2A0 
"RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE"   "RUNX1T1 MUTATED" 
       TCGA-EE-A2A1        TCGA-EE-A2A2        TCGA-EE-A2A6        TCGA-ER-A19F 
"RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" 
       TCGA-ER-A19J        TCGA-ER-A19L        TCGA-ER-A19M        TCGA-ER-A19N 
"RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" 
       TCGA-ER-A1A1        TCGA-FW-A3R5        TCGA-GN-A264        TCGA-GN-A265 
"RUNX1T1 WILD-TYPE"   "RUNX1T1 MUTATED" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" 
       TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26D 
"RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" "RUNX1T1 WILD-TYPE" 
[1] "hr=" "1.2"
D64V2, continuous
D64V3, binary
                   cls
clus                 0  1
  RUNX1T1 MUTATED    2 14
  RUNX1T1 WILD-TYPE 29 60
[1] "tbl2"
                   cls
clus                [,1] [,2]
  RUNX1T1 MUTATED      2   14
  RUNX1T1 WILD-TYPE   29   60
        clus
vv       RUNX1T1 MUTATED RUNX1T1 WILD-TYPE
  FEMALE               2                29
  MALE                14                60
                   vv
clus                M0 M1 M1B M1C
  RUNX1T1 MUTATED   15  0   0   0
  RUNX1T1 WILD-TYPE 76  1   2   1
D64V4, multiclass
     clus
vv    RUNX1T1 MUTATED RUNX1T1 WILD-TYPE
  M0               15                76
  M1                0                 1
  M1B               0                 2
  M1C               0                 1
                   vv
clus                N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  RUNX1T1 MUTATED   10  0   1   2  1   0   0   0  1  0
  RUNX1T1 WILD-TYPE 48  1   2   7  0   3   7   1 11  1
D64V5, multiclass
D64V6, continuous
                   vv
clus                I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  RUNX1T1 MUTATED             0       3        1        1        3         1
  RUNX1T1 WILD-TYPE           1      11        6        9        9         4
                   vv
clus                STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  RUNX1T1 MUTATED           1         0         1          0          2
  RUNX1T1 WILD-TYPE         4         2         2          3          8
                   vv
clus                STAGE IIIC STAGE IV
  RUNX1T1 MUTATED            2        0
  RUNX1T1 WILD-TYPE         14        3
D64V7, multiclass

Clustering(65) Variable = RGS7 MUTATION ANALYSIS
D65V1, survival
                sevent
clus2             0  1
  RGS7 MUTATED    6  4
  RGS7 WILD-TYPE 17 28
  RGS7 MUTATED RGS7 WILD-TYPE 
            10             45 
  RGS7 MUTATED RGS7 WILD-TYPE 
             4             28 
$`RGS7 MUTATED`
TCGA-D3-A2J8 TCGA-DA-A1HV TCGA-EE-A181 TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H 
        8.38        48.79         1.12        11.15        38.63         4.41 
TCGA-ER-A19J TCGA-ER-A19N TCGA-FW-A3R5 TCGA-GN-A265 
        4.18        42.84         1.02        84.72 

$`RGS7 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE TCGA-D3-A3CF 
       21.14        11.41         6.35        15.25        13.32        24.00 
TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I2 TCGA-DA-A1IB 
        4.01         2.86        35.80        51.12        13.68        22.36 
TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A183 
        7.00        17.56        14.83        11.57         6.31        12.20 
TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P 
        4.27         5.13        37.97         1.08         9.47        12.03 
TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 
        8.84         9.99         8.09        11.31        25.28        23.90 
TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A1A1 TCGA-GN-A264 
        8.94        11.11        12.99        28.64        78.44        31.33 
TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
       16.21        15.39        14.70 

  RGS7 MUTATED RGS7 WILD-TYPE 
          1.02           1.08 
  RGS7 MUTATED RGS7 WILD-TYPE 
         84.72          98.76 
  RGS7 MUTATED RGS7 WILD-TYPE 
         9.765         13.680 
[1] "1.0 - 84.7 (9.8)"  "1.1 - 98.8 (13.7)"
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"RGS7 WILD-TYPE" "RGS7 WILD-TYPE"   "RGS7 MUTATED" "RGS7 WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE"   "RGS7 MUTATED" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
"RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
"RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"RGS7 WILD-TYPE"   "RGS7 MUTATED" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"RGS7 WILD-TYPE" "RGS7 WILD-TYPE"   "RGS7 MUTATED"   "RGS7 MUTATED" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
  "RGS7 MUTATED" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
"RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
  "RGS7 MUTATED" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE"   "RGS7 MUTATED" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"RGS7 WILD-TYPE"   "RGS7 MUTATED" "RGS7 WILD-TYPE"   "RGS7 MUTATED" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" 
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"RGS7 WILD-TYPE" "RGS7 WILD-TYPE"   "RGS7 MUTATED" "RGS7 WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE"   "RGS7 MUTATED" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
"RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
"RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"RGS7 WILD-TYPE"   "RGS7 MUTATED" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"RGS7 WILD-TYPE" "RGS7 WILD-TYPE"   "RGS7 MUTATED"   "RGS7 MUTATED" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
  "RGS7 MUTATED" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
"RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
  "RGS7 MUTATED" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE"   "RGS7 MUTATED" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"RGS7 WILD-TYPE"   "RGS7 MUTATED" "RGS7 WILD-TYPE"   "RGS7 MUTATED" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" 
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"RGS7 WILD-TYPE" "RGS7 WILD-TYPE"   "RGS7 MUTATED" "RGS7 WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE"   "RGS7 MUTATED" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
"RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
"RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"RGS7 WILD-TYPE"   "RGS7 MUTATED" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"RGS7 WILD-TYPE" "RGS7 WILD-TYPE"   "RGS7 MUTATED"   "RGS7 MUTATED" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
  "RGS7 MUTATED" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
"RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
  "RGS7 MUTATED" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE"   "RGS7 MUTATED" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"RGS7 WILD-TYPE"   "RGS7 MUTATED" "RGS7 WILD-TYPE"   "RGS7 MUTATED" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"RGS7 WILD-TYPE" "RGS7 WILD-TYPE" "RGS7 WILD-TYPE" 
[1] "hr=" "1.7"
D65V2, continuous
D65V3, binary
                cls
clus              0  1
  RGS7 MUTATED    5 12
  RGS7 WILD-TYPE 26 62
[1] "tbl2"
                cls
clus             [,1] [,2]
  RGS7 MUTATED      5   12
  RGS7 WILD-TYPE   26   62
        clus
vv       RGS7 MUTATED RGS7 WILD-TYPE
  FEMALE            5             26
  MALE             12             62
                vv
clus             M0 M1 M1B M1C
  RGS7 MUTATED   12  1   0   0
  RGS7 WILD-TYPE 79  0   2   1
D65V4, multiclass
     clus
vv    RGS7 MUTATED RGS7 WILD-TYPE
  M0            12             79
  M1             1              0
  M1B            0              2
  M1C            0              1
                vv
clus             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  RGS7 MUTATED    7  0   0   2  1   0   1   0  1  1
  RGS7 WILD-TYPE 51  1   3   7  0   3   6   1 11  0
D65V5, multiclass
D65V6, continuous
                vv
clus             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  RGS7 MUTATED             0       1        2        1        2         0
  RGS7 WILD-TYPE           1      13        5        9       10         5
                vv
clus             STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC
  RGS7 MUTATED           1         0         1          0          2          1
  RGS7 WILD-TYPE         4         2         2          3          8         15
                vv
clus             STAGE IV
  RGS7 MUTATED          1
  RGS7 WILD-TYPE        2
D65V7, multiclass

Clustering(66) Variable = CLVS2 MUTATION ANALYSIS
D66V1, survival
                 sevent
clus2              0  1
  CLVS2 MUTATED    2  2
  CLVS2 WILD-TYPE 21 30
  CLVS2 MUTATED CLVS2 WILD-TYPE 
              4              51 
  CLVS2 MUTATED CLVS2 WILD-TYPE 
              2              30 
$`CLVS2 MUTATED`
TCGA-EE-A181 TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-FW-A3R5 
        1.12        11.31        25.28         1.02 

$`CLVS2 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
       24.00         4.01         2.86        48.79        35.80        51.12 
TCGA-DA-A1I2 TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X 
       13.68        22.36         7.00        17.56        14.83        11.57 
TCGA-EE-A17Z TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D 
        6.31        12.20         4.27         5.13        37.97        11.15 
TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R 
       38.63         4.41         1.08         9.47        12.03         8.84 
TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J 
        9.99         8.09        23.90         8.94        11.11         4.18 
TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-GN-A264 TCGA-GN-A265 
       12.99        28.64        42.84        78.44        31.33        84.72 
TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
       16.21        15.39        14.70 

  CLVS2 MUTATED CLVS2 WILD-TYPE 
           1.02            1.08 
  CLVS2 MUTATED CLVS2 WILD-TYPE 
          25.28           98.76 
  CLVS2 MUTATED CLVS2 WILD-TYPE 
          6.215          13.680 
[1] "1.0 - 25.3 (6.2)"  "1.1 - 98.8 (13.7)"
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"CLVS2 WILD-TYPE"   "CLVS2 MUTATED" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE"   "CLVS2 MUTATED" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
  "CLVS2 MUTATED" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"CLVS2 WILD-TYPE"   "CLVS2 MUTATED" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"CLVS2 WILD-TYPE"   "CLVS2 MUTATED" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE"   "CLVS2 MUTATED" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
  "CLVS2 MUTATED" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"CLVS2 WILD-TYPE"   "CLVS2 MUTATED" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"CLVS2 WILD-TYPE"   "CLVS2 MUTATED" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE"   "CLVS2 MUTATED" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
  "CLVS2 MUTATED" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"CLVS2 WILD-TYPE"   "CLVS2 MUTATED" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" "CLVS2 WILD-TYPE" 
[1] "hr=" "1.6"
D66V2, continuous
D66V3, binary
                 cls
clus               0  1
  CLVS2 MUTATED    2  9
  CLVS2 WILD-TYPE 29 65
[1] "tbl2"
                 cls
clus              [,1] [,2]
  CLVS2 MUTATED      2    9
  CLVS2 WILD-TYPE   29   65
        clus
vv       CLVS2 MUTATED CLVS2 WILD-TYPE
  FEMALE             2              29
  MALE               9              65
                 vv
clus              M0 M1 M1B M1C
  CLVS2 MUTATED   10  0   0   0
  CLVS2 WILD-TYPE 81  1   2   1
D66V4, multiclass
     clus
vv    CLVS2 MUTATED CLVS2 WILD-TYPE
  M0             10              81
  M1              0               1
  M1B             0               2
  M1C             0               1
                 vv
clus              N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  CLVS2 MUTATED    7  0   0   1  1   1   0   0  0  0
  CLVS2 WILD-TYPE 51  1   3   8  0   2   7   1 12  1
D66V5, multiclass
D66V6, continuous
                 vv
clus              I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  CLVS2 MUTATED             0       1        1        2        1         1
  CLVS2 WILD-TYPE           1      13        6        8       11         4
                 vv
clus              STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  CLVS2 MUTATED           1         0         1          0          1
  CLVS2 WILD-TYPE         4         2         2          3          9
                 vv
clus              STAGE IIIC STAGE IV
  CLVS2 MUTATED            0        0
  CLVS2 WILD-TYPE         16        3
D66V7, multiclass

Clustering(67) Variable = DEFB118 MUTATION ANALYSIS
D67V1, survival
                   sevent
clus2                0  1
  DEFB118 MUTATED    3  1
  DEFB118 WILD-TYPE 20 31
  DEFB118 MUTATED DEFB118 WILD-TYPE 
                4                51 
  DEFB118 MUTATED DEFB118 WILD-TYPE 
                1                31 
$`DEFB118 MUTATED`
TCGA-EE-A29R TCGA-EE-A2A6 TCGA-ER-A19F TCGA-FW-A3R5 
        8.84         8.94        11.11         1.02 

$`DEFB118 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
       24.00         4.01         2.86        48.79        35.80        51.12 
TCGA-DA-A1I2 TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X 
       13.68        22.36         7.00        17.56        14.83        11.57 
TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C 
        6.31         1.12        12.20         4.27         5.13        37.97 
TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P 
       11.15        38.63         4.41         1.08         9.47        12.03 
TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-ER-A19J 
        9.99         8.09        11.31        25.28        23.90         4.18 
TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-GN-A264 TCGA-GN-A265 
       12.99        28.64        42.84        78.44        31.33        84.72 
TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
       16.21        15.39        14.70 

  DEFB118 MUTATED DEFB118 WILD-TYPE 
             1.02              1.08 
  DEFB118 MUTATED DEFB118 WILD-TYPE 
            11.11             98.76 
  DEFB118 MUTATED DEFB118 WILD-TYPE 
             8.89             14.70 
[1] "1.0 - 11.1 (8.9)"  "1.1 - 98.8 (14.7)"
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q7        TCGA-D3-A1Q8 
"DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" 
       TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8        TCGA-D3-A2J9 
"DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" 
       TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6        TCGA-D3-A3CE 
"DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" 
       TCGA-D3-A3CF        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I2        TCGA-DA-A1IB 
"DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" 
       TCGA-DA-A3F3        TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X 
"DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" 
       TCGA-EE-A17Z        TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185 
"DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" 
       TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29X        TCGA-EE-A2A0 
  "DEFB118 MUTATED" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" 
       TCGA-EE-A2A1        TCGA-EE-A2A2        TCGA-EE-A2A6        TCGA-ER-A19F 
"DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE"   "DEFB118 MUTATED"   "DEFB118 MUTATED" 
       TCGA-ER-A19J        TCGA-ER-A19L        TCGA-ER-A19M        TCGA-ER-A19N 
"DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" 
       TCGA-ER-A1A1        TCGA-FW-A3R5        TCGA-GN-A264        TCGA-GN-A265 
"DEFB118 WILD-TYPE"   "DEFB118 MUTATED" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" 
       TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26D 
"DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q7        TCGA-D3-A1Q8 
"DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" 
       TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8        TCGA-D3-A2J9 
"DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" 
       TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6        TCGA-D3-A3CE 
"DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" 
       TCGA-D3-A3CF        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I2        TCGA-DA-A1IB 
"DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" 
       TCGA-DA-A3F3        TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X 
"DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" 
       TCGA-EE-A17Z        TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185 
"DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" 
       TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29X        TCGA-EE-A2A0 
  "DEFB118 MUTATED" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" 
       TCGA-EE-A2A1        TCGA-EE-A2A2        TCGA-EE-A2A6        TCGA-ER-A19F 
"DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE"   "DEFB118 MUTATED"   "DEFB118 MUTATED" 
       TCGA-ER-A19J        TCGA-ER-A19L        TCGA-ER-A19M        TCGA-ER-A19N 
"DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" 
       TCGA-ER-A1A1        TCGA-FW-A3R5        TCGA-GN-A264        TCGA-GN-A265 
"DEFB118 WILD-TYPE"   "DEFB118 MUTATED" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" 
       TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26D 
"DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q7        TCGA-D3-A1Q8 
"DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" 
       TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8        TCGA-D3-A2J9 
"DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" 
       TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6        TCGA-D3-A3CE 
"DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" 
       TCGA-D3-A3CF        TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV 
"DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" 
       TCGA-DA-A1HW        TCGA-DA-A1HY        TCGA-DA-A1I2        TCGA-DA-A1IB 
"DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" 
       TCGA-DA-A3F3        TCGA-DA-A3F5        TCGA-DA-A3F8        TCGA-EE-A17X 
"DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" 
       TCGA-EE-A17Z        TCGA-EE-A181        TCGA-EE-A183        TCGA-EE-A185 
"DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E 
"DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" 
       TCGA-EE-A29H        TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P 
"DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" 
       TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29X        TCGA-EE-A2A0 
  "DEFB118 MUTATED" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" 
       TCGA-EE-A2A1        TCGA-EE-A2A2        TCGA-EE-A2A6        TCGA-ER-A19F 
"DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE"   "DEFB118 MUTATED"   "DEFB118 MUTATED" 
       TCGA-ER-A19J        TCGA-ER-A19L        TCGA-ER-A19M        TCGA-ER-A19N 
"DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" 
       TCGA-ER-A1A1        TCGA-FW-A3R5        TCGA-GN-A264        TCGA-GN-A265 
"DEFB118 WILD-TYPE"   "DEFB118 MUTATED" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" 
       TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26D 
"DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" "DEFB118 WILD-TYPE" 
[1] "hr=" "1.6"
D67V2, continuous
D67V3, binary
                   cls
clus                 0  1
  DEFB118 MUTATED    2  4
  DEFB118 WILD-TYPE 29 70
[1] "tbl2"
                   cls
clus                [,1] [,2]
  DEFB118 MUTATED      2    4
  DEFB118 WILD-TYPE   29   70
        clus
vv       DEFB118 MUTATED DEFB118 WILD-TYPE
  FEMALE               2                29
  MALE                 4                70
                   vv
clus                M0 M1 M1B M1C
  DEFB118 MUTATED    6  0   0   0
  DEFB118 WILD-TYPE 85  1   2   1
D67V4, multiclass
     clus
vv    DEFB118 MUTATED DEFB118 WILD-TYPE
  M0                6                85
  M1                0                 1
  M1B               0                 2
  M1C               0                 1
                   vv
clus                N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEFB118 MUTATED    4  0   0   1  1   0   0   0  0  0
  DEFB118 WILD-TYPE 54  1   3   8  0   3   7   1 12  1
D67V5, multiclass
D67V6, continuous
                   vv
clus                I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEFB118 MUTATED             0       1        1        0        0         0
  DEFB118 WILD-TYPE           1      13        6       10       12         5
                   vv
clus                STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  DEFB118 MUTATED           1         0         1          0          0
  DEFB118 WILD-TYPE         4         2         2          3         10
                   vv
clus                STAGE IIIC STAGE IV
  DEFB118 MUTATED            1        0
  DEFB118 WILD-TYPE         15        3
D67V7, multiclass

Clustering(68) Variable = OR52A5 MUTATION ANALYSIS
D68V1, survival
                  sevent
clus2               0  1
  OR52A5 MUTATED    5  2
  OR52A5 WILD-TYPE 18 30
  OR52A5 MUTATED OR52A5 WILD-TYPE 
               7               48 
  OR52A5 MUTATED OR52A5 WILD-TYPE 
               2               30 
$`OR52A5 MUTATED`
TCGA-DA-A3F8 TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29S TCGA-FW-A3R5 
       14.83        37.97        11.15        38.63         9.99         1.02 
TCGA-GN-A268 
       15.39 

$`OR52A5 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
       24.00         4.01         2.86        48.79        35.80        51.12 
TCGA-DA-A1I2 TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-EE-A17X TCGA-EE-A17Z 
       13.68        22.36         7.00        17.56        11.57         6.31 
TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29H TCGA-EE-A29L 
        1.12        12.20         4.27         5.13         4.41         1.08 
TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 
        9.47        12.03         8.84         8.09        11.31        25.28 
TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M 
       23.90         8.94        11.11         4.18        12.99        28.64 
TCGA-ER-A19N TCGA-ER-A1A1 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A26D 
       42.84        78.44        31.33        84.72        16.21        14.70 

  OR52A5 MUTATED OR52A5 WILD-TYPE 
            1.02             1.08 
  OR52A5 MUTATED OR52A5 WILD-TYPE 
           38.63            98.76 
  OR52A5 MUTATED OR52A5 WILD-TYPE 
          14.830           13.155 
[1] "1.0 - 38.6 (14.8)" "1.1 - 98.8 (13.2)"
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
"OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE"   "OR52A5 MUTATED" "OR52A5 WILD-TYPE" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
"OR52A5 WILD-TYPE"   "OR52A5 MUTATED"   "OR52A5 MUTATED"   "OR52A5 MUTATED" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
"OR52A5 WILD-TYPE"   "OR52A5 MUTATED" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
"OR52A5 WILD-TYPE"   "OR52A5 MUTATED" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
"OR52A5 WILD-TYPE"   "OR52A5 MUTATED" "OR52A5 WILD-TYPE" 
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
"OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE"   "OR52A5 MUTATED" "OR52A5 WILD-TYPE" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
"OR52A5 WILD-TYPE"   "OR52A5 MUTATED"   "OR52A5 MUTATED"   "OR52A5 MUTATED" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
"OR52A5 WILD-TYPE"   "OR52A5 MUTATED" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
"OR52A5 WILD-TYPE"   "OR52A5 MUTATED" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
"OR52A5 WILD-TYPE"   "OR52A5 MUTATED" "OR52A5 WILD-TYPE" 
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
"OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE"   "OR52A5 MUTATED" "OR52A5 WILD-TYPE" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
"OR52A5 WILD-TYPE"   "OR52A5 MUTATED"   "OR52A5 MUTATED"   "OR52A5 MUTATED" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
"OR52A5 WILD-TYPE"   "OR52A5 MUTATED" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
"OR52A5 WILD-TYPE"   "OR52A5 MUTATED" "OR52A5 WILD-TYPE" "OR52A5 WILD-TYPE" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
"OR52A5 WILD-TYPE"   "OR52A5 MUTATED" "OR52A5 WILD-TYPE" 
[1] "hr=" "2.4"
D68V2, continuous
D68V3, binary
                  cls
clus                0  1
  OR52A5 MUTATED    3  9
  OR52A5 WILD-TYPE 28 65
[1] "tbl2"
                  cls
clus               [,1] [,2]
  OR52A5 MUTATED      3    9
  OR52A5 WILD-TYPE   28   65
        clus
vv       OR52A5 MUTATED OR52A5 WILD-TYPE
  FEMALE              3               28
  MALE                9               65
                  vv
clus               M0 M1 M1B M1C
  OR52A5 MUTATED   11  0   0   0
  OR52A5 WILD-TYPE 80  1   2   1
D68V4, multiclass
     clus
vv    OR52A5 MUTATED OR52A5 WILD-TYPE
  M0              11               80
  M1               0                1
  M1B              0                2
  M1C              0                1
                  vv
clus               N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  OR52A5 MUTATED    6  0   0   2  1   1   1   0  0  0
  OR52A5 WILD-TYPE 52  1   3   7  0   2   6   1 12  1
D68V5, multiclass
D68V6, continuous
                  vv
clus               I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  OR52A5 MUTATED             0       1        0        1        1         1
  OR52A5 WILD-TYPE           1      13        7        9       11         4
                  vv
clus               STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  OR52A5 MUTATED           2         0         1          1          2
  OR52A5 WILD-TYPE         3         2         2          2          8
                  vv
clus               STAGE IIIC STAGE IV
  OR52A5 MUTATED            1        0
  OR52A5 WILD-TYPE         15        3
D68V7, multiclass

Clustering(69) Variable = SPTLC3 MUTATION ANALYSIS
D69V1, survival
                  sevent
clus2               0  1
  SPTLC3 MUTATED    4  2
  SPTLC3 WILD-TYPE 19 30
  SPTLC3 MUTATED SPTLC3 WILD-TYPE 
               6               49 
  SPTLC3 MUTATED SPTLC3 WILD-TYPE 
               2               30 
$`SPTLC3 MUTATED`
TCGA-D3-A2J8 TCGA-DA-A1HV TCGA-EE-A181 TCGA-EE-A29S TCGA-EE-A2A2 TCGA-FW-A3R5 
        8.38        48.79         1.12         9.99        23.90         1.02 

$`SPTLC3 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE TCGA-D3-A3CF 
       21.14        11.41         6.35        15.25        13.32        24.00 
TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I2 TCGA-DA-A1IB 
        4.01         2.86        35.80        51.12        13.68        22.36 
TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A183 
        7.00        17.56        14.83        11.57         6.31        12.20 
TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H 
        4.27         5.13        37.97        11.15        38.63         4.41 
TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29X TCGA-EE-A2A0 
        1.08         9.47        12.03         8.84         8.09        11.31 
TCGA-EE-A2A1 TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M 
       25.28         8.94        11.11         4.18        12.99        28.64 
TCGA-ER-A19N TCGA-ER-A1A1 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 
       42.84        78.44        31.33        84.72        16.21        15.39 
TCGA-GN-A26D 
       14.70 

  SPTLC3 MUTATED SPTLC3 WILD-TYPE 
            1.02             1.08 
  SPTLC3 MUTATED SPTLC3 WILD-TYPE 
           48.79            98.76 
  SPTLC3 MUTATED SPTLC3 WILD-TYPE 
           9.185           13.680 
[1] "1.0 - 48.8 (9.2)"  "1.1 - 98.8 (13.7)"
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE"   "SPTLC3 MUTATED" "SPTLC3 WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
"SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE"   "SPTLC3 MUTATED" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"SPTLC3 WILD-TYPE"   "SPTLC3 MUTATED" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
"SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
"SPTLC3 WILD-TYPE"   "SPTLC3 MUTATED" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"SPTLC3 WILD-TYPE"   "SPTLC3 MUTATED" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
"SPTLC3 WILD-TYPE"   "SPTLC3 MUTATED" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
"SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" 
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE"   "SPTLC3 MUTATED" "SPTLC3 WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
"SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE"   "SPTLC3 MUTATED" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"SPTLC3 WILD-TYPE"   "SPTLC3 MUTATED" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
"SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
"SPTLC3 WILD-TYPE"   "SPTLC3 MUTATED" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"SPTLC3 WILD-TYPE"   "SPTLC3 MUTATED" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
"SPTLC3 WILD-TYPE"   "SPTLC3 MUTATED" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
"SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" 
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE"   "SPTLC3 MUTATED" "SPTLC3 WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
"SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE"   "SPTLC3 MUTATED" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"SPTLC3 WILD-TYPE"   "SPTLC3 MUTATED" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
"SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
"SPTLC3 WILD-TYPE"   "SPTLC3 MUTATED" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"SPTLC3 WILD-TYPE"   "SPTLC3 MUTATED" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
"SPTLC3 WILD-TYPE"   "SPTLC3 MUTATED" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
"SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" "SPTLC3 WILD-TYPE" 
[1] "hr=" "1.3"
D69V2, continuous
D69V3, binary
                  cls
clus                0  1
  SPTLC3 MUTATED    4  9
  SPTLC3 WILD-TYPE 27 65
[1] "tbl2"
                  cls
clus               [,1] [,2]
  SPTLC3 MUTATED      4    9
  SPTLC3 WILD-TYPE   27   65
        clus
vv       SPTLC3 MUTATED SPTLC3 WILD-TYPE
  FEMALE              4               27
  MALE                9               65
                  vv
clus               M0 M1 M1B M1C
  SPTLC3 MUTATED   13  0   0   0
  SPTLC3 WILD-TYPE 78  1   2   1
D69V4, multiclass
     clus
vv    SPTLC3 MUTATED SPTLC3 WILD-TYPE
  M0              13               78
  M1               0                1
  M1B              0                2
  M1C              0                1
                  vv
clus               N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  SPTLC3 MUTATED   10  0   0   1  1   0   1   0  0  0
  SPTLC3 WILD-TYPE 48  1   3   8  0   3   6   1 12  1
D69V5, multiclass
D69V6, continuous
                  vv
clus               I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  SPTLC3 MUTATED             0       0        1        2        4         2
  SPTLC3 WILD-TYPE           1      14        6        8        8         3
                  vv
clus               STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  SPTLC3 MUTATED           1         0         1          0          2
  SPTLC3 WILD-TYPE         4         2         2          3          8
                  vv
clus               STAGE IIIC STAGE IV
  SPTLC3 MUTATED            0        0
  SPTLC3 WILD-TYPE         16        3
D69V7, multiclass

Clustering(70) Variable = ACTL7B MUTATION ANALYSIS
D70V1, survival
                  sevent
clus2               0  1
  ACTL7B MUTATED    1  0
  ACTL7B WILD-TYPE 22 32
  ACTL7B MUTATED ACTL7B WILD-TYPE 
               1               54 
  ACTL7B MUTATED ACTL7B WILD-TYPE 
               0               32 
$`ACTL7B MUTATED`
TCGA-FW-A3R5 
        1.02 

$`ACTL7B WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
        8.38        21.14        11.41         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
       24.00         4.01         2.86        48.79        35.80        51.12 
TCGA-DA-A1I2 TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X 
       13.68        22.36         7.00        17.56        14.83        11.57 
TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C 
        6.31         1.12        12.20         4.27         5.13        37.97 
TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P 
       11.15        38.63         4.41         1.08         9.47        12.03 
TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 
        8.84         9.99         8.09        11.31        25.28        23.90 
TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N 
        8.94        11.11         4.18        12.99        28.64        42.84 
TCGA-ER-A1A1 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
       78.44        31.33        84.72        16.21        15.39        14.70 

  ACTL7B MUTATED ACTL7B WILD-TYPE 
            1.02             1.08 
  ACTL7B MUTATED ACTL7B WILD-TYPE 
            1.02            98.76 
  ACTL7B MUTATED ACTL7B WILD-TYPE 
            1.02            13.50 
[1] "1.0 - 1.0 (1.0)"   "1.1 - 98.8 (13.5)"
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
"ACTL7B WILD-TYPE"   "ACTL7B MUTATED" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
"ACTL7B WILD-TYPE"   "ACTL7B MUTATED" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-FW-A3R5       TCGA-GN-A264       TCGA-GN-A265 
"ACTL7B WILD-TYPE"   "ACTL7B MUTATED" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-GN-A267       TCGA-GN-A268       TCGA-GN-A26D 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
[1] "Remove cluster labels:" "ACTL7B MUTATED"        
clus
  ACTL7B MUTATED ACTL7B WILD-TYPE 
               1               54 
      TCGA-D3-A1Q1       TCGA-D3-A1Q5       TCGA-D3-A1Q7       TCGA-D3-A1Q8 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-D3-A1Q9       TCGA-D3-A2J6       TCGA-D3-A2J8       TCGA-D3-A2J9 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-D3-A2JD       TCGA-D3-A2JK       TCGA-D3-A3C6       TCGA-D3-A3CE 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-D3-A3CF       TCGA-D9-A3Z1       TCGA-D9-A3Z3       TCGA-DA-A1HV 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-DA-A1HW       TCGA-DA-A1HY       TCGA-DA-A1I2       TCGA-DA-A1IB 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-DA-A3F3       TCGA-DA-A3F5       TCGA-DA-A3F8       TCGA-EE-A17X 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-EE-A17Z       TCGA-EE-A181       TCGA-EE-A183       TCGA-EE-A185 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-EE-A20F       TCGA-EE-A29C       TCGA-EE-A29D       TCGA-EE-A29E 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-EE-A29H       TCGA-EE-A29L       TCGA-EE-A29N       TCGA-EE-A29P 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-EE-A29R       TCGA-EE-A29S       TCGA-EE-A29X       TCGA-EE-A2A0 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-EE-A2A1       TCGA-EE-A2A2       TCGA-EE-A2A6       TCGA-ER-A19F 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-ER-A19J       TCGA-ER-A19L       TCGA-ER-A19M       TCGA-ER-A19N 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-ER-A1A1       TCGA-GN-A264       TCGA-GN-A265       TCGA-GN-A267 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
      TCGA-GN-A268       TCGA-GN-A26D 
"ACTL7B WILD-TYPE" "ACTL7B WILD-TYPE" 
D70V2, continuous
D70V3, binary
                  cls
clus                0  1
  ACTL7B MUTATED    3  4
  ACTL7B WILD-TYPE 28 70
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ACTL7B MUTATED      3    4
  ACTL7B WILD-TYPE   28   70
        clus
vv       ACTL7B MUTATED ACTL7B WILD-TYPE
  FEMALE              3               28
  MALE                4               70
                  vv
clus               M0 M1 M1B M1C
  ACTL7B MUTATED    5  0   0   0
  ACTL7B WILD-TYPE 86  1   2   1
D70V4, multiclass
     clus
vv    ACTL7B MUTATED ACTL7B WILD-TYPE
  M0               5               86
  M1               0                1
  M1B              0                2
  M1C              0                1
                  vv
clus               N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  ACTL7B MUTATED    3  0   0   0  1   0   0   0  0  1
  ACTL7B WILD-TYPE 55  1   3   9  0   3   7   1 12  0
D70V5, multiclass
D70V6, continuous
                  vv
clus               I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  ACTL7B MUTATED             0       3        0        0        0         0
  ACTL7B WILD-TYPE           1      11        7       10       12         5
                  vv
clus               STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  ACTL7B MUTATED           0         0         1          0          0
  ACTL7B WILD-TYPE         5         2         2          3         10
                  vv
clus               STAGE IIIC STAGE IV
  ACTL7B MUTATED            0        0
  ACTL7B WILD-TYPE         16        3
D70V7, multiclass

Clustering(71) Variable = PHGDH MUTATION ANALYSIS
D71V1, survival
                 sevent
clus2              0  1
  PHGDH MUTATED    2  3
  PHGDH WILD-TYPE 21 29
  PHGDH MUTATED PHGDH WILD-TYPE 
              5              50 
  PHGDH MUTATED PHGDH WILD-TYPE 
              3              29 
$`PHGDH MUTATED`
TCGA-D3-A2J6 TCGA-D3-A2JD TCGA-ER-A19F TCGA-FW-A3R5 TCGA-GN-A265 
       10.26        11.41        11.11         1.02        84.72 

$`PHGDH WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J8 
       16.47        32.55        98.76        28.08        22.55         8.38 
TCGA-D3-A2J9 TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D9-A3Z1 
       21.14         6.35        15.25        13.32        24.00         4.01 
TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I2 TCGA-DA-A1IB 
        2.86        48.79        35.80        51.12        13.68        22.36 
TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 
        7.00        17.56        14.83        11.57         6.31         1.12 
TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E 
       12.20         4.27         5.13        37.97        11.15        38.63 
TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29S 
        4.41         1.08         9.47        12.03         8.84         9.99 
TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19J 
        8.09        11.31        25.28        23.90         8.94         4.18 
TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-GN-A264 TCGA-GN-A267 
       12.99        28.64        42.84        78.44        31.33        16.21 
TCGA-GN-A268 TCGA-GN-A26D 
       15.39        14.70 

  PHGDH MUTATED PHGDH WILD-TYPE 
           1.02            1.08 
  PHGDH MUTATED PHGDH WILD-TYPE 
          84.72           98.76 
  PHGDH MUTATED PHGDH WILD-TYPE 
          11.11           14.19 
[1] "1.0 - 84.7 (11.1)" "1.1 - 98.8 (14.2)"
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"PHGDH WILD-TYPE"   "PHGDH MUTATED" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
  "PHGDH MUTATED" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE"   "PHGDH MUTATED" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"PHGDH WILD-TYPE"   "PHGDH MUTATED" "PHGDH WILD-TYPE"   "PHGDH MUTATED" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"PHGDH WILD-TYPE"   "PHGDH MUTATED" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
  "PHGDH MUTATED" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE"   "PHGDH MUTATED" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"PHGDH WILD-TYPE"   "PHGDH MUTATED" "PHGDH WILD-TYPE"   "PHGDH MUTATED" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"PHGDH WILD-TYPE"   "PHGDH MUTATED" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
  "PHGDH MUTATED" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE"   "PHGDH MUTATED" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"PHGDH WILD-TYPE"   "PHGDH MUTATED" "PHGDH WILD-TYPE"   "PHGDH MUTATED" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"PHGDH WILD-TYPE" "PHGDH WILD-TYPE" "PHGDH WILD-TYPE" 
[1] "hr=" "1.4"
D71V2, continuous
D71V3, binary
                 cls
clus               0  1
  PHGDH MUTATED    0  7
  PHGDH WILD-TYPE 31 67
[1] "tbl2"
                 cls
clus              [,1] [,2]
  PHGDH MUTATED      0    7
  PHGDH WILD-TYPE   31   67
        clus
vv       PHGDH MUTATED PHGDH WILD-TYPE
  FEMALE             0              31
  MALE               7              67
                 vv
clus              M0 M1 M1B M1C
  PHGDH MUTATED    6  0   0   0
  PHGDH WILD-TYPE 85  1   2   1
D71V4, multiclass
     clus
vv    PHGDH MUTATED PHGDH WILD-TYPE
  M0              6              85
  M1              0               1
  M1B             0               2
  M1C             0               1
                 vv
clus              N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  PHGDH MUTATED    4  0   0   1  1   0   0   0  0  0
  PHGDH WILD-TYPE 54  1   3   8  0   3   7   1 12  1
D71V5, multiclass
D71V6, continuous
                 vv
clus              I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  PHGDH MUTATED             0       0        0        0        0         1
  PHGDH WILD-TYPE           1      14        7       10       12         4
                 vv
clus              STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  PHGDH MUTATED           2         0         1          0          0
  PHGDH WILD-TYPE         3         2         2          3         10
                 vv
clus              STAGE IIIC STAGE IV
  PHGDH MUTATED            1        0
  PHGDH WILD-TYPE         15        3
D71V7, multiclass

Clustering(72) Variable = RGPD3 MUTATION ANALYSIS
D72V1, survival
                 sevent
clus2              0  1
  RGPD3 MUTATED    4  5
  RGPD3 WILD-TYPE 19 27
  RGPD3 MUTATED RGPD3 WILD-TYPE 
              9              46 
  RGPD3 MUTATED RGPD3 WILD-TYPE 
              5              27 
$`RGPD3 MUTATED`
TCGA-D3-A1Q8 TCGA-D3-A2J6 TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29L TCGA-EE-A29P 
       28.08        10.26        11.15        38.63         1.08        12.03 
TCGA-EE-A29S TCGA-ER-A19F TCGA-FW-A3R5 
        9.99        11.11         1.02 

$`RGPD3 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q9 TCGA-D3-A2J8 TCGA-D3-A2J9 
       16.47        32.55        98.76        22.55         8.38        21.14 
TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D9-A3Z1 
       11.41         6.35        15.25        13.32        24.00         4.01 
TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I2 TCGA-DA-A1IB 
        2.86        48.79        35.80        51.12        13.68        22.36 
TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 
        7.00        17.56        14.83        11.57         6.31         1.12 
TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29H TCGA-EE-A29N 
       12.20         4.27         5.13        37.97         4.41         9.47 
TCGA-EE-A29R TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 
        8.84         8.09        11.31        25.28        23.90         8.94 
TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-GN-A264 
        4.18        12.99        28.64        42.84        78.44        31.33 
TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
       84.72        16.21        15.39        14.70 

  RGPD3 MUTATED RGPD3 WILD-TYPE 
           1.02            1.12 
  RGPD3 MUTATED RGPD3 WILD-TYPE 
          38.63           98.76 
  RGPD3 MUTATED RGPD3 WILD-TYPE 
         11.110          14.765 
[1] "1.0 - 38.6 (11.1)" "1.1 - 98.8 (14.8)"
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE"   "RGPD3 MUTATED" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"RGPD3 WILD-TYPE"   "RGPD3 MUTATED" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE"   "RGPD3 MUTATED"   "RGPD3 MUTATED" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"RGPD3 WILD-TYPE"   "RGPD3 MUTATED" "RGPD3 WILD-TYPE"   "RGPD3 MUTATED" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"RGPD3 WILD-TYPE"   "RGPD3 MUTATED" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE"   "RGPD3 MUTATED" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"RGPD3 WILD-TYPE"   "RGPD3 MUTATED" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE"   "RGPD3 MUTATED" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"RGPD3 WILD-TYPE"   "RGPD3 MUTATED" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE"   "RGPD3 MUTATED"   "RGPD3 MUTATED" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"RGPD3 WILD-TYPE"   "RGPD3 MUTATED" "RGPD3 WILD-TYPE"   "RGPD3 MUTATED" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"RGPD3 WILD-TYPE"   "RGPD3 MUTATED" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE"   "RGPD3 MUTATED" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"RGPD3 WILD-TYPE"   "RGPD3 MUTATED" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE"   "RGPD3 MUTATED" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"RGPD3 WILD-TYPE"   "RGPD3 MUTATED" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
"RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE"   "RGPD3 MUTATED"   "RGPD3 MUTATED" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"RGPD3 WILD-TYPE"   "RGPD3 MUTATED" "RGPD3 WILD-TYPE"   "RGPD3 MUTATED" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"RGPD3 WILD-TYPE"   "RGPD3 MUTATED" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE"   "RGPD3 MUTATED" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"RGPD3 WILD-TYPE"   "RGPD3 MUTATED" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" "RGPD3 WILD-TYPE" 
[1] "hr=" "1.4"
D72V2, continuous
D72V3, binary
                 cls
clus               0  1
  RGPD3 MUTATED    1 17
  RGPD3 WILD-TYPE 30 57
[1] "tbl2"
                 cls
clus              [,1] [,2]
  RGPD3 MUTATED      1   17
  RGPD3 WILD-TYPE   30   57
        clus
vv       RGPD3 MUTATED RGPD3 WILD-TYPE
  FEMALE             1              30
  MALE              17              57
                 vv
clus              M0 M1 M1B M1C
  RGPD3 MUTATED   17  0   1   0
  RGPD3 WILD-TYPE 74  1   1   1
D72V4, multiclass
     clus
vv    RGPD3 MUTATED RGPD3 WILD-TYPE
  M0             17              74
  M1              0               1
  M1B             1               1
  M1C             0               1
                 vv
clus              N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  RGPD3 MUTATED   10  0   2   3  1   0   0   0  2  0
  RGPD3 WILD-TYPE 48  1   1   6  0   3   7   1 10  1
D72V5, multiclass
D72V6, continuous
                 vv
clus              I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  RGPD3 MUTATED             0       2        1        0        2         2
  RGPD3 WILD-TYPE           1      12        6       10       10         3
                 vv
clus              STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  RGPD3 MUTATED           1         1         1          1          3
  RGPD3 WILD-TYPE         4         1         2          2          7
                 vv
clus              STAGE IIIC STAGE IV
  RGPD3 MUTATED            2        1
  RGPD3 WILD-TYPE         14        2
D72V7, multiclass

Clustering(73) Variable = WDR12 MUTATION ANALYSIS
D73V1, survival
                 sevent
clus2              0  1
  WDR12 MUTATED    0  3
  WDR12 WILD-TYPE 23 29
  WDR12 MUTATED WDR12 WILD-TYPE 
              3              52 
  WDR12 MUTATED WDR12 WILD-TYPE 
              3              29 
$`WDR12 MUTATED`
TCGA-D3-A2J8 TCGA-D3-A2JD TCGA-ER-A19F 
        8.38        11.41        11.11 

$`WDR12 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J9 TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D9-A3Z1 
       21.14         6.35        15.25        13.32        24.00         4.01 
TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I2 TCGA-DA-A1IB 
        2.86        48.79        35.80        51.12        13.68        22.36 
TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 
        7.00        17.56        14.83        11.57         6.31         1.12 
TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E 
       12.20         4.27         5.13        37.97        11.15        38.63 
TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29S 
        4.41         1.08         9.47        12.03         8.84         9.99 
TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19J 
        8.09        11.31        25.28        23.90         8.94         4.18 
TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-FW-A3R5 TCGA-GN-A264 
       12.99        28.64        42.84        78.44         1.02        31.33 
TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
       84.72        16.21        15.39        14.70 

  WDR12 MUTATED WDR12 WILD-TYPE 
           8.38            1.02 
  WDR12 MUTATED WDR12 WILD-TYPE 
          11.41           98.76 
  WDR12 MUTATED WDR12 WILD-TYPE 
          11.11           14.19 
[1] "8.4 - 11.4 (11.1)" "1.0 - 98.8 (14.2)"
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"WDR12 WILD-TYPE" "WDR12 WILD-TYPE"   "WDR12 MUTATED" "WDR12 WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
  "WDR12 MUTATED" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE"   "WDR12 MUTATED" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"WDR12 WILD-TYPE" "WDR12 WILD-TYPE"   "WDR12 MUTATED" "WDR12 WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
  "WDR12 MUTATED" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE"   "WDR12 MUTATED" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" 
     TCGA-D3-A1Q1      TCGA-D3-A1Q5      TCGA-D3-A1Q7      TCGA-D3-A1Q8 
"WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" 
     TCGA-D3-A1Q9      TCGA-D3-A2J6      TCGA-D3-A2J8      TCGA-D3-A2J9 
"WDR12 WILD-TYPE" "WDR12 WILD-TYPE"   "WDR12 MUTATED" "WDR12 WILD-TYPE" 
     TCGA-D3-A2JD      TCGA-D3-A2JK      TCGA-D3-A3C6      TCGA-D3-A3CE 
  "WDR12 MUTATED" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" 
     TCGA-D3-A3CF      TCGA-D9-A3Z1      TCGA-D9-A3Z3      TCGA-DA-A1HV 
"WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" 
     TCGA-DA-A1HW      TCGA-DA-A1HY      TCGA-DA-A1I2      TCGA-DA-A1IB 
"WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" 
     TCGA-DA-A3F3      TCGA-DA-A3F5      TCGA-DA-A3F8      TCGA-EE-A17X 
"WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" 
     TCGA-EE-A17Z      TCGA-EE-A181      TCGA-EE-A183      TCGA-EE-A185 
"WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" 
     TCGA-EE-A20F      TCGA-EE-A29C      TCGA-EE-A29D      TCGA-EE-A29E 
"WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" 
     TCGA-EE-A29H      TCGA-EE-A29L      TCGA-EE-A29N      TCGA-EE-A29P 
"WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" 
     TCGA-EE-A29R      TCGA-EE-A29S      TCGA-EE-A29X      TCGA-EE-A2A0 
"WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" 
     TCGA-EE-A2A1      TCGA-EE-A2A2      TCGA-EE-A2A6      TCGA-ER-A19F 
"WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE"   "WDR12 MUTATED" 
     TCGA-ER-A19J      TCGA-ER-A19L      TCGA-ER-A19M      TCGA-ER-A19N 
"WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" 
     TCGA-ER-A1A1      TCGA-FW-A3R5      TCGA-GN-A264      TCGA-GN-A265 
"WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" 
     TCGA-GN-A267      TCGA-GN-A268      TCGA-GN-A26D 
"WDR12 WILD-TYPE" "WDR12 WILD-TYPE" "WDR12 WILD-TYPE" 
[1] "hr=" "4.4"
D73V2, continuous
D73V3, binary
                 cls
clus               0  1
  WDR12 MUTATED    0  7
  WDR12 WILD-TYPE 31 67
[1] "tbl2"
                 cls
clus              [,1] [,2]
  WDR12 MUTATED      0    7
  WDR12 WILD-TYPE   31   67
        clus
vv       WDR12 MUTATED WDR12 WILD-TYPE
  FEMALE             0              31
  MALE               7              67
                 vv
clus              M0 M1 M1B M1C
  WDR12 MUTATED    6  0   0   0
  WDR12 WILD-TYPE 85  1   2   1
D73V4, multiclass
     clus
vv    WDR12 MUTATED WDR12 WILD-TYPE
  M0              6              85
  M1              0               1
  M1B             0               2
  M1C             0               1
                 vv
clus              N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  WDR12 MUTATED    5  0   0   1  0   0   0   0  0  0
  WDR12 WILD-TYPE 53  1   3   8  1   3   7   1 12  1
D73V5, multiclass
D73V6, continuous
                 vv
clus              I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  WDR12 MUTATED             0       1        0        1        1         0
  WDR12 WILD-TYPE           1      13        7        9       11         5
                 vv
clus              STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB
  WDR12 MUTATED           1         0         0          0          0
  WDR12 WILD-TYPE         4         2         3          3         10
                 vv
clus              STAGE IIIC STAGE IV
  WDR12 MUTATED            1        0
  WDR12 WILD-TYPE         15        3
D73V7, multiclass

Clustering(74) Variable = MPP7 MUTATION ANALYSIS
D74V1, survival
                sevent
clus2             0  1
  MPP7 MUTATED    4  5
  MPP7 WILD-TYPE 19 27
  MPP7 MUTATED MPP7 WILD-TYPE 
             9             46 
  MPP7 MUTATED MPP7 WILD-TYPE 
             5             27 
$`MPP7 MUTATED`
TCGA-D3-A2J8 TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-ER-A19F TCGA-ER-A19J 
        8.38        37.97        11.15        38.63        11.11         4.18 
TCGA-ER-A19N TCGA-FW-A3R5 TCGA-GN-A268 
       42.84         1.02        15.39 

$`MPP7 WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        98.76        28.08        22.55        10.26 
TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE TCGA-D3-A3CF 
       21.14        11.41         6.35        15.25        13.32        24.00 
TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I2 
        4.01         2.86        48.79        35.80        51.12        13.68 
TCGA-DA-A1IB TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z 
       22.36         7.00        17.56        14.83        11.57         6.31 
TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29H TCGA-EE-A29L 
        1.12        12.20         4.27         5.13         4.41         1.08 
TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A0 
        9.47        12.03         8.84         9.99         8.09        11.31 
TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A1A1 
       25.28        23.90         8.94        12.99        28.64        78.44 
TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A26D 
       31.33        84.72        16.21        14.70 

  MPP7 MUTATED MPP7 WILD-TYPE 
          1.02           1.08 
  MPP7 MUTATED MPP7 WILD-TYPE 
         42.84          98.76 
  MPP7 MUTATED MPP7 WILD-TYPE 
         11.15          13.50 
[1] "1.0 - 42.8 (11.2)" "1.1 - 98.8 (13.5)"
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE"   "MPP7 MUTATED" "MPP7 WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"MPP7 WILD-TYPE"   "MPP7 MUTATED"   "MPP7 MUTATED"   "MPP7 MUTATED" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE"   "MPP7 MUTATED" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
  "MPP7 MUTATED" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE"   "MPP7 MUTATED" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"MPP7 WILD-TYPE"   "MPP7 MUTATED" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"MPP7 WILD-TYPE"   "MPP7 MUTATED" "MPP7 WILD-TYPE" 
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE"   "MPP7 MUTATED" "MPP7 WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"MPP7 WILD-TYPE"   "MPP7 MUTATED"   "MPP7 MUTATED"   "MPP7 MUTATED" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE"   "MPP7 MUTATED" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
  "MPP7 MUTATED" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE"   "MPP7 MUTATED" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"MPP7 WILD-TYPE"   "MPP7 MUTATED" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"MPP7 WILD-TYPE"   "MPP7 MUTATED" "MPP7 WILD-TYPE" 
    TCGA-D3-A1Q1     TCGA-D3-A1Q5     TCGA-D3-A1Q7     TCGA-D3-A1Q8 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-D3-A1Q9     TCGA-D3-A2J6     TCGA-D3-A2J8     TCGA-D3-A2J9 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE"   "MPP7 MUTATED" "MPP7 WILD-TYPE" 
    TCGA-D3-A2JD     TCGA-D3-A2JK     TCGA-D3-A3C6     TCGA-D3-A3CE 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-D3-A3CF     TCGA-D9-A3Z1     TCGA-D9-A3Z3     TCGA-DA-A1HV 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-DA-A1HW     TCGA-DA-A1HY     TCGA-DA-A1I2     TCGA-DA-A1IB 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-DA-A3F3     TCGA-DA-A3F5     TCGA-DA-A3F8     TCGA-EE-A17X 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-EE-A17Z     TCGA-EE-A181     TCGA-EE-A183     TCGA-EE-A185 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-EE-A20F     TCGA-EE-A29C     TCGA-EE-A29D     TCGA-EE-A29E 
"MPP7 WILD-TYPE"   "MPP7 MUTATED"   "MPP7 MUTATED"   "MPP7 MUTATED" 
    TCGA-EE-A29H     TCGA-EE-A29L     TCGA-EE-A29N     TCGA-EE-A29P 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-EE-A29R     TCGA-EE-A29S     TCGA-EE-A29X     TCGA-EE-A2A0 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-EE-A2A1     TCGA-EE-A2A2     TCGA-EE-A2A6     TCGA-ER-A19F 
"MPP7 WILD-TYPE" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE"   "MPP7 MUTATED" 
    TCGA-ER-A19J     TCGA-ER-A19L     TCGA-ER-A19M     TCGA-ER-A19N 
  "MPP7 MUTATED" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE"   "MPP7 MUTATED" 
    TCGA-ER-A1A1     TCGA-FW-A3R5     TCGA-GN-A264     TCGA-GN-A265 
"MPP7 WILD-TYPE"   "MPP7 MUTATED" "MPP7 WILD-TYPE" "MPP7 WILD-TYPE" 
    TCGA-GN-A267     TCGA-GN-A268     TCGA-GN-A26D 
"MPP7 WILD-TYPE"   "MPP7 MUTATED" "MPP7 WILD-TYPE" 
[1] "hr=" "1.1"
D74V2, continuous
D74V3, binary
                cls
clus              0  1
  MPP7 MUTATED    2 11
  MPP7 WILD-TYPE 29 63
[1] "tbl2"
                cls
clus             [,1] [,2]
  MPP7 MUTATED      2   11
  MPP7 WILD-TYPE   29   63
        clus
vv       MPP7 MUTATED MPP7 WILD-TYPE
  FEMALE            2             29
  MALE             11             63
                vv
clus             M0 M1 M1B M1C
  MPP7 MUTATED   11  1   0   0
  MPP7 WILD-TYPE 80  0   2   1
D74V4, multiclass
     clus
vv    MPP7 MUTATED MPP7 WILD-TYPE
  M0            11             80
  M1             1              0
  M1B            0              2
  M1C            0              1
                vv
clus             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  MPP7 MUTATED    8  0   0   2  1   0   0   0  1  0
  MPP7 WILD-TYPE 50  1   3   7  0   3   7   1 11  1
D74V5, multiclass
D74V6, continuous
                vv
clus             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  MPP7 MUTATED             0       1        1        2        1         0
  MPP7 WILD-TYPE           1      13        6        8       11         5
                vv
clus             STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC
  MPP7 MUTATED           2         0         1          0          1          1
  MPP7 WILD-TYPE         3         2         2          3          9         15
                vv
clus             STAGE IV
  MPP7 MUTATED          1
  MPP7 WILD-TYPE        2
D74V7, multiclass
                   V1.D                      V2                      V3 
        "Time to Death"                   "AGE"                "GENDER" 
                     V4                      V5                      V6 
   "DISTANT.METASTASIS" "LYMPH.NODE.METASTASIS"       "TUMOR.STAGECODE" 
                     V7 
"NEOPLASM.DISEASESTAGE" 
> q(save="no")
