
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/376897/THCA-TP.mutsig.cluster.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataPickerPipeline/THCA-TP/2844384/1.GDAC_clinicalDataPicker.Finished/THCA-TP.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=318, in cluster file=323, common to both=241
[1] "Reduce the number of clustering variables from 46 to 27."
[1]  27 241
[1] "BRAF MUTATION ANALYSIS"
[1] 3
  BRAF MUTATED BRAF WILD-TYPE 
           135            106 
  BRAF MUTATED BRAF WILD-TYPE 
           135            106 
[1] "EMG1 MUTATION ANALYSIS"
[1] 3
  EMG1 MUTATED EMG1 WILD-TYPE 
             5            236 
  EMG1 MUTATED EMG1 WILD-TYPE 
             5            236 
[1] "HRAS MUTATION ANALYSIS"
[1] 3
  HRAS MUTATED HRAS WILD-TYPE 
            10            231 
  HRAS MUTATED HRAS WILD-TYPE 
            10            231 
[1] "NRAS MUTATION ANALYSIS"
[1] 3
  NRAS MUTATED NRAS WILD-TYPE 
            21            220 
  NRAS MUTATED NRAS WILD-TYPE 
            21            220 
[1] "RPTN MUTATION ANALYSIS"
[1] 3
  RPTN MUTATED RPTN WILD-TYPE 
             7            234 
  RPTN MUTATED RPTN WILD-TYPE 
             7            234 
[1] "EIF1AX MUTATION ANALYSIS"
[1] 3
  EIF1AX MUTATED EIF1AX WILD-TYPE 
               3              238 
  EIF1AX MUTATED EIF1AX WILD-TYPE 
               3              238 
[1] "CCDC15 MUTATION ANALYSIS"
[1] 3
  CCDC15 MUTATED CCDC15 WILD-TYPE 
               5              236 
  CCDC15 MUTATED CCDC15 WILD-TYPE 
               5              236 
[1] "ZNF845 MUTATION ANALYSIS"
[1] 3
  ZNF845 MUTATED ZNF845 WILD-TYPE 
               5              236 
  ZNF845 MUTATED ZNF845 WILD-TYPE 
               5              236 
[1] "TG MUTATION ANALYSIS"
[1] 3
  TG MUTATED TG WILD-TYPE 
          12          229 
  TG MUTATED TG WILD-TYPE 
          12          229 
[1] "PRB2 MUTATION ANALYSIS"
[1] 3
  PRB2 MUTATED PRB2 WILD-TYPE 
             3            238 
  PRB2 MUTATED PRB2 WILD-TYPE 
             3            238 
[1] "R3HDM2 MUTATION ANALYSIS"
[1] 3
  R3HDM2 MUTATED R3HDM2 WILD-TYPE 
               4              237 
  R3HDM2 MUTATED R3HDM2 WILD-TYPE 
               4              237 
[1] "PPTC7 MUTATION ANALYSIS"
[1] 3
  PPTC7 MUTATED PPTC7 WILD-TYPE 
              3             238 
  PPTC7 MUTATED PPTC7 WILD-TYPE 
              3             238 
[1] "LYPD3 MUTATION ANALYSIS"
[1] 3
  LYPD3 MUTATED LYPD3 WILD-TYPE 
              3             238 
  LYPD3 MUTATED LYPD3 WILD-TYPE 
              3             238 
[1] "TMEM90B MUTATION ANALYSIS"
[1] 3
  TMEM90B MUTATED TMEM90B WILD-TYPE 
                3               238 
  TMEM90B MUTATED TMEM90B WILD-TYPE 
                3               238 
[1] "ZNF799 MUTATION ANALYSIS"
[1] 3
  ZNF799 MUTATED ZNF799 WILD-TYPE 
               4              237 
  ZNF799 MUTATED ZNF799 WILD-TYPE 
               4              237 
[1] "PPM1D MUTATION ANALYSIS"
[1] 3
  PPM1D MUTATED PPM1D WILD-TYPE 
              5             236 
  PPM1D MUTATED PPM1D WILD-TYPE 
              5             236 
[1] "ATAD2 MUTATION ANALYSIS"
[1] 3
  ATAD2 MUTATED ATAD2 WILD-TYPE 
              3             238 
  ATAD2 MUTATED ATAD2 WILD-TYPE 
              3             238 
[1] "KRAS MUTATION ANALYSIS"
[1] 3
  KRAS MUTATED KRAS WILD-TYPE 
             3            238 
  KRAS MUTATED KRAS WILD-TYPE 
             3            238 
[1] "SLC5A11 MUTATION ANALYSIS"
[1] 3
  SLC5A11 MUTATED SLC5A11 WILD-TYPE 
                3               238 
  SLC5A11 MUTATED SLC5A11 WILD-TYPE 
                3               238 
[1] "PRG4 MUTATION ANALYSIS"
[1] 3
  PRG4 MUTATED PRG4 WILD-TYPE 
             3            238 
  PRG4 MUTATED PRG4 WILD-TYPE 
             3            238 
[1] "SLC26A11 MUTATION ANALYSIS"
[1] 3
  SLC26A11 MUTATED SLC26A11 WILD-TYPE 
                 3                238 
  SLC26A11 MUTATED SLC26A11 WILD-TYPE 
                 3                238 
[1] "ANKRD30A MUTATION ANALYSIS"
[1] 3
  ANKRD30A MUTATED ANKRD30A WILD-TYPE 
                 3                238 
  ANKRD30A MUTATED ANKRD30A WILD-TYPE 
                 3                238 
[1] "FAM155A MUTATION ANALYSIS"
[1] 3
  FAM155A MUTATED FAM155A WILD-TYPE 
                3               238 
  FAM155A MUTATED FAM155A WILD-TYPE 
                3               238 
[1] "ZFHX3 MUTATION ANALYSIS"
[1] 3
  ZFHX3 MUTATED ZFHX3 WILD-TYPE 
              5             236 
  ZFHX3 MUTATED ZFHX3 WILD-TYPE 
              5             236 
[1] "ARMCX3 MUTATION ANALYSIS"
[1] 3
  ARMCX3 MUTATED ARMCX3 WILD-TYPE 
               3              238 
  ARMCX3 MUTATED ARMCX3 WILD-TYPE 
               3              238 
[1] "COL5A3 MUTATION ANALYSIS"
[1] 3
  COL5A3 MUTATED COL5A3 WILD-TYPE 
               5              236 
  COL5A3 MUTATED COL5A3 WILD-TYPE 
               5              236 
[1] "CDC27 MUTATION ANALYSIS"
[1] 3
  CDC27 MUTATED CDC27 WILD-TYPE 
              3             238 
  CDC27 MUTATED CDC27 WILD-TYPE 
              3             238 
[1] "data2feature, selection=ALL"
 [1] "YEARSTOBIRTH"                          
 [2] "DAYSTODEATH"                           
 [3] "DAYSTOLASTFOLLOWUP"                    
 [4] "VITALSTATUS"                           
 [5] "DCCUPLOADDATE"                         
 [6] "PRIMARYSITEOFDESEASE"                  
 [7] "GENDER"                                
 [8] "DATEOFINITIALPATHOLOGICDIAGNOSIS"      
 [9] "RADIATIONTHERAPY"                      
[10] "HISTOLOGICALTYPE"                      
[11] "RADIATIONS.RADIATION.REGIMENINDICATION"
[12] "RADIATIONEXPOSURE"                     
[13] "DISTANT.METASTASIS"                    
[14] "EXTRATHYROIDAL.EXTENSION"              
[15] "LYMPH.NODE.METASTASIS"                 
[16] "COMPLETENESS.OF.RESECTION"             
[17] "NUMBER.OF.LYMPH.NODES"                 
[18] "TUMOR.STAGECODE"                       
[19] "NEOPLASM.DISEASESTAGE"                 
[20] "MULTIFOCALITY"                         
[21] "TUMOR.SIZE"                            
[22] "BATCHNUMBER"                           

Input Data has 22 rows and 241 columns.

[1] "Batch" "22"   
[1] "Last Follow UP"
TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0Z3 TCGA-BJ-A0Z5 TCGA-BJ-A0Z9 
         479          356          232          182          197          251 
TCGA-BJ-A0ZA TCGA-BJ-A0ZB TCGA-BJ-A0ZC TCGA-BJ-A0ZE TCGA-BJ-A0ZF TCGA-BJ-A0ZG 
         264          122          183          237          210          230 
TCGA-BJ-A0ZH TCGA-BJ-A0ZJ TCGA-BJ-A18Y TCGA-BJ-A190 TCGA-BJ-A191 TCGA-BJ-A192 
          22          152           85           13          235          246 
TCGA-BJ-A28R TCGA-BJ-A28T TCGA-BJ-A28V TCGA-BJ-A28X TCGA-BJ-A290 TCGA-BJ-A3PR 
         148           84          155          532          626          244 
TCGA-BJ-A3PT TCGA-CE-A13K TCGA-CE-A27D TCGA-CE-A3MD TCGA-CE-A3ME TCGA-DE-A0XZ 
         367           16            3            6            7          402 
TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DE-A2OL TCGA-DE-A3KN TCGA-DJ-A13M TCGA-DJ-A13O 
         231          952          161          286          274          215 
TCGA-DJ-A13P TCGA-DJ-A13R TCGA-DJ-A13S TCGA-DJ-A13T TCGA-DJ-A13U TCGA-DJ-A13V 
        4199           92          265          758          393          362 
TCGA-DJ-A13W TCGA-DJ-A13X TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QG 
         454          243          334         3041          549          212 
TCGA-DJ-A1QH TCGA-DJ-A1QI TCGA-DJ-A1QL TCGA-DJ-A1QM TCGA-DJ-A1QN TCGA-DJ-A1QO 
         243          151          212           30          273           31 
TCGA-DJ-A1QQ TCGA-DJ-A2PN TCGA-DJ-A2PO TCGA-DJ-A2PP TCGA-DJ-A2PQ TCGA-DJ-A2PR 
         181          304          242          152          623          318 
TCGA-DJ-A2PS TCGA-DJ-A2PT TCGA-DJ-A2PU TCGA-DJ-A2PV TCGA-DJ-A2PW TCGA-DJ-A2PX 
          59          292          312          242          234          153 
TCGA-DJ-A2PY TCGA-DJ-A2PZ TCGA-DJ-A2Q0 TCGA-DJ-A2Q1 TCGA-DJ-A2Q2 TCGA-DJ-A2Q3 
         267          256          247          284          206          280 
TCGA-DJ-A2Q4 TCGA-DJ-A2Q5 TCGA-DJ-A2Q6 TCGA-DJ-A2Q7 TCGA-DJ-A2Q8 TCGA-DJ-A2Q9 
         287          301          262          291          215          315 
TCGA-DJ-A2QA TCGA-DJ-A2QB TCGA-DJ-A2QC TCGA-DJ-A3UK TCGA-DJ-A3UM TCGA-DJ-A3UN 
         378          330          304          251          524          380 
TCGA-DJ-A3UO TCGA-DJ-A3UP TCGA-DJ-A3UQ TCGA-DJ-A3UR TCGA-DJ-A3US TCGA-DJ-A3UT 
         480          167          277          721          630          469 
TCGA-DJ-A3UU TCGA-DJ-A3UV TCGA-DJ-A3UW TCGA-DJ-A3UX TCGA-DJ-A3UY TCGA-DO-A1JZ 
         538          590         1308          345          405         1225 
TCGA-DO-A1K0 TCGA-DO-A2HM TCGA-E3-A3DY TCGA-E3-A3DZ TCGA-E3-A3E0 TCGA-E3-A3E1 
          93           70          945          365         1544         1222 
TCGA-E3-A3E2 TCGA-E3-A3E3 TCGA-E3-A3E5 TCGA-E8-A242 TCGA-E8-A2EA TCGA-EM-A1CS 
        1421          635          427           34           11          580 
TCGA-EM-A1CT TCGA-EM-A1CU TCGA-EM-A1CV TCGA-EM-A1CW TCGA-EM-A1YA TCGA-EM-A1YB 
         153          214           NA          245          217          284 
TCGA-EM-A1YC TCGA-EM-A1YD TCGA-EM-A1YE TCGA-EM-A22I TCGA-EM-A22J TCGA-EM-A22K 
        1421         1209          650           81          207          202 
TCGA-EM-A22L TCGA-EM-A22M TCGA-EM-A22N TCGA-EM-A22O TCGA-EM-A22P TCGA-EM-A22Q 
         138          106          209          189          174          192 
TCGA-EM-A2CJ TCGA-EM-A2CK TCGA-EM-A2CL TCGA-EM-A2CM TCGA-EM-A2CN TCGA-EM-A2CO 
         348          249          209          357          344          183 
TCGA-EM-A2CP TCGA-EM-A2CQ TCGA-EM-A2CR TCGA-EM-A2CT TCGA-EM-A2CU TCGA-EM-A2OV 
          90          199          218          319          176          353 
TCGA-EM-A2OW TCGA-EM-A2OX TCGA-EM-A2OY TCGA-EM-A2P0 TCGA-EM-A2P1 TCGA-EM-A2P2 
         219           88          347          191          194          224 
TCGA-EM-A2P3 TCGA-EM-A3AI TCGA-EM-A3AJ TCGA-EM-A3AK TCGA-EM-A3AN TCGA-EM-A3AO 
          10          201          397          282          341          336 
TCGA-EM-A3AP TCGA-EM-A3AQ TCGA-EM-A3AR TCGA-EM-A3O8 TCGA-EM-A3OB TCGA-ET-A25G 
         161          262          207           15           71         1088 
TCGA-ET-A25I TCGA-ET-A25J TCGA-ET-A25K TCGA-ET-A25O TCGA-ET-A25R TCGA-ET-A2MY 
          10          903          589          135          621          579 
TCGA-ET-A2MZ TCGA-ET-A2N0 TCGA-ET-A2N1 TCGA-ET-A2N4 TCGA-ET-A2N5 TCGA-ET-A39I 
         373         1049          449           43         1182            9 
TCGA-ET-A39J TCGA-ET-A39K TCGA-ET-A39L TCGA-ET-A39M TCGA-ET-A39N TCGA-ET-A39O 
         362         2058           59         2266         2535         1309 
TCGA-ET-A39P TCGA-ET-A39R TCGA-ET-A39S TCGA-ET-A39T TCGA-ET-A3BN TCGA-ET-A3BO 
         406         1413           20          237           51          177 
TCGA-ET-A3BP TCGA-ET-A3BQ TCGA-ET-A3BS TCGA-ET-A3BT TCGA-ET-A3BU TCGA-ET-A3BV 
         127           74          168          752           39           56 
TCGA-ET-A3BW TCGA-ET-A3BX TCGA-ET-A3DO TCGA-ET-A3DP TCGA-ET-A3DQ TCGA-ET-A3DR 
          72          137         2095         1536         1366           65 
TCGA-ET-A3DS TCGA-ET-A3DT TCGA-ET-A3DU TCGA-ET-A3DV TCGA-ET-A3DW TCGA-FE-A22Z 
           9          145          138         3424          751         1565 
TCGA-FE-A230 TCGA-FE-A231 TCGA-FE-A232 TCGA-FE-A233 TCGA-FE-A234 TCGA-FE-A235 
        1442          374         1346          751         1333         3130 
TCGA-FE-A236 TCGA-FE-A237 TCGA-FE-A23A TCGA-FE-A3PB TCGA-FE-A3PC TCGA-FE-A3PD 
        2031         2292         1907         2589         1868         1913 
TCGA-FK-A3S3 TCGA-FK-A3SE TCGA-FK-A3SG TCGA-FK-A3SH TCGA-FY-A2QD TCGA-FY-A3BL 
        1401          669           28         1463           38           35 
TCGA-FY-A3I4 TCGA-FY-A3I5 TCGA-FY-A3NM TCGA-FY-A3NN TCGA-FY-A3NP TCGA-FY-A3ON 
          34           50           30           NA           18           46 
TCGA-FY-A3R6 TCGA-FY-A3R7 TCGA-FY-A3R8 TCGA-FY-A3R9 TCGA-FY-A3RA TCGA-FY-A3W9 
          23            1          141           66          278           23 
TCGA-FY-A3WA TCGA-GE-A2C6 TCGA-H2-A26U TCGA-H2-A2K9 TCGA-H2-A3RH TCGA-H2-A3RI 
          29          206          106          145          148           90 
TCGA-IM-A3EB TCGA-IM-A3ED TCGA-IM-A3U2 TCGA-IM-A3U3 TCGA-J8-A3NZ TCGA-J8-A3O0 
        1070          939           80           99           68          392 
TCGA-J8-A3O1 
         415 
Variable 1:'AGE':	nDistinctValues=64,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'DAYSTODEATH':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 3:'DAYSTOLASTFOLLOWUP':	nDistinctValues=210,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 4:'VITALSTATUS':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 5:'DCCUPLOADDAY':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 6:'PRIMARY.SITE.OF.DISEASE':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 7:'GENDER':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'DAYOFINITIALPATHOLOGICDIAGNOSIS':	nDistinctValues=13,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 9:'RADIATION.THERAPY':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 10:'HISTOLOGICAL.TYPE':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 11:'RADIATIONS.RADIATION.REGIMENINDICATION':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 12:'RADIATIONEXPOSURE':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 13:'DISTANT.METASTASIS':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 14:'EXTRATHYROIDAL.EXTENSION':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 15:'LYMPH.NODE.METASTASIS':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 16:'COMPLETENESS.OF.RESECTION':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 17:'NUMBER.OF.LYMPH.NODES':	nDistinctValues=24,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 18:'TUMOR.STAGECODE':	nDistinctValues=6,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 19:'NEOPLASM.DISEASESTAGE':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 20:'MULTIFOCALITY':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 21:'TUMOR.SIZE':	nDistinctValues=57,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 22:'BATCH.NUMBER':	nDistinctValues=22,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "rownames(nsurv.mat)"
 [1] "AGE"                                   
 [2] "GENDER"                                
 [3] "HISTOLOGICAL.TYPE"                     
 [4] "RADIATIONS.RADIATION.REGIMENINDICATION"
 [5] "RADIATIONEXPOSURE"                     
 [6] "DISTANT.METASTASIS"                    
 [7] "EXTRATHYROIDAL.EXTENSION"              
 [8] "LYMPH.NODE.METASTASIS"                 
 [9] "COMPLETENESS.OF.RESECTION"             
[10] "NUMBER.OF.LYMPH.NODES"                 
[11] "TUMOR.STAGECODE"                       
[12] "NEOPLASM.DISEASESTAGE"                 
[13] "MULTIFOCALITY"                         
[14] "TUMOR.SIZE"                            
[1] "TUMOR.?STAGE" "11"          
[1] "stage2"
vv
 T1 T1A T1B  T2  T3 T4A 
 24   7  45  86  75   4 
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T"
[1] "PATHOLOGY.N"
Output Data has 241 columns, 0 survival variables, and 14 non-survival variables.
AGE, nv=64, binary=FALSE, numeric=TRUE
GENDER, nv=2, binary=FALSE, numeric=FALSE
HISTOLOGICAL.TYPE, nv=4, binary=FALSE, numeric=FALSE
RADIATIONS.RADIATION.REGIMENINDICATION, nv=2, binary=FALSE, numeric=FALSE
RADIATIONEXPOSURE, nv=2, binary=FALSE, numeric=FALSE
DISTANT.METASTASIS, nv=3, binary=FALSE, numeric=FALSE
EXTRATHYROIDAL.EXTENSION, nv=3, binary=FALSE, numeric=FALSE
LYMPH.NODE.METASTASIS, nv=5, binary=FALSE, numeric=FALSE
COMPLETENESS.OF.RESECTION, nv=3, binary=FALSE, numeric=FALSE
NUMBER.OF.LYMPH.NODES, nv=24, binary=FALSE, numeric=TRUE
TUMOR.STAGECODE, nv=0, binary=FALSE, numeric=TRUE
NEOPLASM.DISEASESTAGE, nv=5, binary=FALSE, numeric=FALSE
MULTIFOCALITY, nv=2, binary=FALSE, numeric=FALSE
TUMOR.SIZE, nv=57, binary=FALSE, numeric=TRUE

Clustering(1) Variable = BRAF MUTATION ANALYSIS
D1V1, continuous
D1V2, binary
                cls
clus              0  1
  BRAF MUTATED   97 38
  BRAF WILD-TYPE 82 24
[1] "tbl2"
                cls
clus             [,1] [,2]
  BRAF MUTATED     97   38
  BRAF WILD-TYPE   82   24
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  FEMALE           97             82
  MALE             38             24
                vv
clus             OTHER THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  BRAF MUTATED       4                                            98
  BRAF WILD-TYPE    15                                            30
                vv
clus             THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  BRAF MUTATED                                                                       12
  BRAF WILD-TYPE                                                                     59
                vv
clus             THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  BRAF MUTATED                                                                    21
  BRAF WILD-TYPE                                                                   2
D1V3, multiclass
                                                                        clus
vv                                                                       BRAF MUTATED
  OTHER                                                                             4
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                    98
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)           12
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)              21
                                                                        clus
vv                                                                       BRAF WILD-TYPE
  OTHER                                                                              15
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                      30
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)             59
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                 2
D1V4, binary
                cls
clus               0   1
  BRAF MUTATED    11 124
  BRAF WILD-TYPE   1 105
[1] "tbl2"
                cls
clus             [,1] [,2]
  BRAF MUTATED     11  124
  BRAF WILD-TYPE    1  105
     clus
vv    BRAF MUTATED BRAF WILD-TYPE
  NO            11              1
  YES          124            105
D1V5, binary
                cls
clus               0   1
  BRAF MUTATED   114   6
  BRAF WILD-TYPE  87   4
[1] "tbl2"
                cls
clus             [,1] [,2]
  BRAF MUTATED    114    6
  BRAF WILD-TYPE   87    4
     clus
vv    BRAF MUTATED BRAF WILD-TYPE
  NO           114             87
  YES            6              4
                vv
clus             M0 M1 MX
  BRAF MUTATED   60  1 74
  BRAF WILD-TYPE 39  2 64
D1V6, multiclass
    clus
vv   BRAF MUTATED BRAF WILD-TYPE
  M0           60             39
  M1            1              2
  MX           74             64
                vv
clus             MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  BRAF MUTATED             46                       3   82
  BRAF WILD-TYPE            8                       0   91
D1V7, multiclass
                         clus
vv                        BRAF MUTATED BRAF WILD-TYPE
  MINIMAL (T3)                      46              8
  MODERATE/ADVANCED (T4A)            3              0
  NONE                              82             91
                vv
clus             N0 N1 N1A N1B NX
  BRAF MUTATED   55  8  41  18 13
  BRAF WILD-TYPE 64  3  10  13 16
D1V8, multiclass
                vv
clus              R0  R1  RX
  BRAF MUTATED   105  13   7
  BRAF WILD-TYPE  85   6   7
D1V9, multiclass
    clus
vv   BRAF MUTATED BRAF WILD-TYPE
  R0          105             85
  R1           13              6
  RX            7              7
D1V10, continuous
D1V11, continuous
                vv
clus             STAGE I STAGE II STAGE III STAGE IVA STAGE IVC
  BRAF MUTATED        74       11        37        12         1
  BRAF WILD-TYPE      61       19        17         6         2
D1V12, multiclass
D1V13, binary
                cls
clus              0  1
  BRAF MUTATED   70 62
  BRAF WILD-TYPE 53 47
[1] "tbl2"
                cls
clus             [,1] [,2]
  BRAF MUTATED     70   62
  BRAF WILD-TYPE   53   47
            clus
vv           BRAF MUTATED BRAF WILD-TYPE
  MULTIFOCAL           70             53
  UNIFOCAL             62             47
D1V14, continuous

Clustering(2) Variable = EMG1 MUTATION ANALYSIS
D2V1, continuous
D2V2, binary
                cls
clus               0   1
  EMG1 MUTATED     5   0
  EMG1 WILD-TYPE 174  62
[1] "tbl2"
                cls
clus             [,1] [,2]
  EMG1 MUTATED      5    0
  EMG1 WILD-TYPE  174   62
        clus
vv       EMG1 MUTATED EMG1 WILD-TYPE
  FEMALE            5            174
  MALE              0             62
                vv
clus             OTHER THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  EMG1 MUTATED       1                                             2
  EMG1 WILD-TYPE    18                                           126
                vv
clus             THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  EMG1 MUTATED                                                                        1
  EMG1 WILD-TYPE                                                                     70
                vv
clus             THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  EMG1 MUTATED                                                                     1
  EMG1 WILD-TYPE                                                                  22
D2V3, multiclass
                                                                        clus
vv                                                                       EMG1 MUTATED
  OTHER                                                                             1
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                     2
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)            1
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)               1
                                                                        clus
vv                                                                       EMG1 WILD-TYPE
  OTHER                                                                              18
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                     126
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)             70
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                22
D2V4, binary
                cls
clus               0   1
  EMG1 MUTATED     0   5
  EMG1 WILD-TYPE  12 224
[1] "tbl2"
                cls
clus             [,1] [,2]
  EMG1 MUTATED      0    5
  EMG1 WILD-TYPE   12  224
     clus
vv    EMG1 MUTATED EMG1 WILD-TYPE
  NO             0             12
  YES            5            224
D2V5, binary
                cls
clus               0   1
  EMG1 MUTATED     5   0
  EMG1 WILD-TYPE 196  10
[1] "tbl2"
                cls
clus             [,1] [,2]
  EMG1 MUTATED      5    0
  EMG1 WILD-TYPE  196   10
     clus
vv    EMG1 MUTATED EMG1 WILD-TYPE
  NO             5            196
  YES            0             10
                vv
clus              M0  M1  MX
  EMG1 MUTATED     1   0   4
  EMG1 WILD-TYPE  98   3 134
D2V6, multiclass
    clus
vv   EMG1 MUTATED EMG1 WILD-TYPE
  M0            1             98
  M1            0              3
  MX            4            134
                vv
clus             MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  EMG1 MUTATED              1                       0    4
  EMG1 WILD-TYPE           53                       3  169
D2V7, multiclass
                         clus
vv                        EMG1 MUTATED EMG1 WILD-TYPE
  MINIMAL (T3)                       1             53
  MODERATE/ADVANCED (T4A)            0              3
  NONE                               4            169
                vv
clus              N0  N1 N1A N1B  NX
  EMG1 MUTATED     3   0   1   0   1
  EMG1 WILD-TYPE 116  11  50  31  28
D2V8, multiclass
                vv
clus              R0  R1  RX
  EMG1 MUTATED     3   1   1
  EMG1 WILD-TYPE 187  18  13
D2V9, multiclass
    clus
vv   EMG1 MUTATED EMG1 WILD-TYPE
  R0            3            187
  R1            1             18
  RX            1             13
D2V10, continuous
D2V11, continuous
                vv
clus             STAGE I STAGE II STAGE III STAGE IVA STAGE IVC
  EMG1 MUTATED         3        2         0         0         0
  EMG1 WILD-TYPE     132       28        54        18         3
D2V12, multiclass
D2V13, binary
                cls
clus               0   1
  EMG1 MUTATED     2   3
  EMG1 WILD-TYPE 121 106
[1] "tbl2"
                cls
clus             [,1] [,2]
  EMG1 MUTATED      2    3
  EMG1 WILD-TYPE  121  106
            clus
vv           EMG1 MUTATED EMG1 WILD-TYPE
  MULTIFOCAL            2            121
  UNIFOCAL              3            106
D2V14, continuous

Clustering(3) Variable = HRAS MUTATION ANALYSIS
D3V1, continuous
D3V2, binary
                cls
clus               0   1
  HRAS MUTATED     7   3
  HRAS WILD-TYPE 172  59
[1] "tbl2"
                cls
clus             [,1] [,2]
  HRAS MUTATED      7    3
  HRAS WILD-TYPE  172   59
        clus
vv       HRAS MUTATED HRAS WILD-TYPE
  FEMALE            7            172
  MALE              3             59
                vv
clus             OTHER THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  HRAS MUTATED       2                                             0
  HRAS WILD-TYPE    17                                           128
                vv
clus             THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  HRAS MUTATED                                                                        8
  HRAS WILD-TYPE                                                                     63
                vv
clus             THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  HRAS MUTATED                                                                     0
  HRAS WILD-TYPE                                                                  23
D3V3, multiclass
                                                                        clus
vv                                                                       HRAS MUTATED
  OTHER                                                                             2
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                     0
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)            8
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)               0
                                                                        clus
vv                                                                       HRAS WILD-TYPE
  OTHER                                                                              17
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                     128
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)             63
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                23
D3V4, binary
                cls
clus               0   1
  HRAS MUTATED     0  10
  HRAS WILD-TYPE  12 219
[1] "tbl2"
                cls
clus             [,1] [,2]
  HRAS MUTATED      0   10
  HRAS WILD-TYPE   12  219
     clus
vv    HRAS MUTATED HRAS WILD-TYPE
  NO             0             12
  YES           10            219
D3V5, binary
                cls
clus               0   1
  HRAS MUTATED    10   0
  HRAS WILD-TYPE 191  10
[1] "tbl2"
                cls
clus             [,1] [,2]
  HRAS MUTATED     10    0
  HRAS WILD-TYPE  191   10
     clus
vv    HRAS MUTATED HRAS WILD-TYPE
  NO            10            191
  YES            0             10
                vv
clus              M0  M1  MX
  HRAS MUTATED     3   1   6
  HRAS WILD-TYPE  96   2 132
D3V6, multiclass
    clus
vv   HRAS MUTATED HRAS WILD-TYPE
  M0            3             96
  M1            1              2
  MX            6            132
                vv
clus             MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  HRAS MUTATED              2                       0    8
  HRAS WILD-TYPE           52                       3  165
D3V7, multiclass
                         clus
vv                        HRAS MUTATED HRAS WILD-TYPE
  MINIMAL (T3)                       2             52
  MODERATE/ADVANCED (T4A)            0              3
  NONE                               8            165
                vv
clus              N0  N1 N1A N1B  NX
  HRAS MUTATED     5   0   0   3   2
  HRAS WILD-TYPE 114  11  51  28  27
D3V8, multiclass
                vv
clus              R0  R1  RX
  HRAS MUTATED     7   1   2
  HRAS WILD-TYPE 183  18  12
D3V9, multiclass
    clus
vv   HRAS MUTATED HRAS WILD-TYPE
  R0            7            183
  R1            1             18
  RX            2             12
D3V10, continuous
D3V11, continuous
                vv
clus             STAGE I STAGE II STAGE III STAGE IVA STAGE IVC
  HRAS MUTATED         4        0         3         2         1
  HRAS WILD-TYPE     131       30        51        16         2
D3V12, multiclass
D3V13, binary
                cls
clus               0   1
  HRAS MUTATED     7   3
  HRAS WILD-TYPE 116 106
[1] "tbl2"
                cls
clus             [,1] [,2]
  HRAS MUTATED      7    3
  HRAS WILD-TYPE  116  106
            clus
vv           HRAS MUTATED HRAS WILD-TYPE
  MULTIFOCAL            7            116
  UNIFOCAL              3            106
D3V14, continuous

Clustering(4) Variable = NRAS MUTATION ANALYSIS
D4V1, continuous
D4V2, binary
                cls
clus               0   1
  NRAS MUTATED    14   7
  NRAS WILD-TYPE 165  55
[1] "tbl2"
                cls
clus             [,1] [,2]
  NRAS MUTATED     14    7
  NRAS WILD-TYPE  165   55
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  FEMALE           14            165
  MALE              7             55
                vv
clus             OTHER THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  NRAS MUTATED       2                                             1
  NRAS WILD-TYPE    17                                           127
                vv
clus             THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  NRAS MUTATED                                                                       18
  NRAS WILD-TYPE                                                                     53
                vv
clus             THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  NRAS MUTATED                                                                     0
  NRAS WILD-TYPE                                                                  23
D4V3, multiclass
                                                                        clus
vv                                                                       NRAS MUTATED
  OTHER                                                                             2
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                     1
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)           18
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)               0
                                                                        clus
vv                                                                       NRAS WILD-TYPE
  OTHER                                                                              17
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                     127
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)             53
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                23
D4V4, binary
                cls
clus               0   1
  NRAS MUTATED     0  21
  NRAS WILD-TYPE  12 208
[1] "tbl2"
                cls
clus             [,1] [,2]
  NRAS MUTATED      0   21
  NRAS WILD-TYPE   12  208
     clus
vv    NRAS MUTATED NRAS WILD-TYPE
  NO             0             12
  YES           21            208
D4V5, binary
                cls
clus               0   1
  NRAS MUTATED    18   1
  NRAS WILD-TYPE 183   9
[1] "tbl2"
                cls
clus             [,1] [,2]
  NRAS MUTATED     18    1
  NRAS WILD-TYPE  183    9
     clus
vv    NRAS MUTATED NRAS WILD-TYPE
  NO            18            183
  YES            1              9
                vv
clus              M0  M1  MX
  NRAS MUTATED     9   1  11
  NRAS WILD-TYPE  90   2 127
D4V6, multiclass
    clus
vv   NRAS MUTATED NRAS WILD-TYPE
  M0            9             90
  M1            1              2
  MX           11            127
                vv
clus             MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  NRAS MUTATED              0                       0   19
  NRAS WILD-TYPE           54                       3  154
D4V7, multiclass
                         clus
vv                        NRAS MUTATED NRAS WILD-TYPE
  MINIMAL (T3)                       0             54
  MODERATE/ADVANCED (T4A)            0              3
  NONE                              19            154
                vv
clus              N0  N1 N1A N1B  NX
  NRAS MUTATED    19   0   0   1   1
  NRAS WILD-TYPE 100  11  51  30  28
D4V8, multiclass
                vv
clus              R0  R1  RX
  NRAS MUTATED    17   1   1
  NRAS WILD-TYPE 173  18  13
D4V9, multiclass
    clus
vv   NRAS MUTATED NRAS WILD-TYPE
  R0           17            173
  R1            1             18
  RX            1             13
D4V10, continuous
D4V11, continuous
                vv
clus             STAGE I STAGE II STAGE III STAGE IVA STAGE IVC
  NRAS MUTATED        14        5         1         0         1
  NRAS WILD-TYPE     121       25        53        18         2
D4V12, multiclass
D4V13, binary
                cls
clus               0   1
  NRAS MUTATED     9  12
  NRAS WILD-TYPE 114  97
[1] "tbl2"
                cls
clus             [,1] [,2]
  NRAS MUTATED      9   12
  NRAS WILD-TYPE  114   97
            clus
vv           NRAS MUTATED NRAS WILD-TYPE
  MULTIFOCAL            9            114
  UNIFOCAL             12             97
D4V14, continuous

Clustering(5) Variable = RPTN MUTATION ANALYSIS
D5V1, continuous
D5V2, binary
                cls
clus               0   1
  RPTN MUTATED     5   2
  RPTN WILD-TYPE 174  60
[1] "tbl2"
                cls
clus             [,1] [,2]
  RPTN MUTATED      5    2
  RPTN WILD-TYPE  174   60
        clus
vv       RPTN MUTATED RPTN WILD-TYPE
  FEMALE            5            174
  MALE              2             60
                vv
clus             OTHER THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  RPTN MUTATED       1                                             2
  RPTN WILD-TYPE    18                                           126
                vv
clus             THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  RPTN MUTATED                                                                        3
  RPTN WILD-TYPE                                                                     68
                vv
clus             THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  RPTN MUTATED                                                                     1
  RPTN WILD-TYPE                                                                  22
D5V3, multiclass
                                                                        clus
vv                                                                       RPTN MUTATED
  OTHER                                                                             1
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                     2
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)            3
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)               1
                                                                        clus
vv                                                                       RPTN WILD-TYPE
  OTHER                                                                              18
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                     126
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)             68
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                22
D5V4, binary
                cls
clus               0   1
  RPTN MUTATED     0   7
  RPTN WILD-TYPE  12 222
[1] "tbl2"
                cls
clus             [,1] [,2]
  RPTN MUTATED      0    7
  RPTN WILD-TYPE   12  222
     clus
vv    RPTN MUTATED RPTN WILD-TYPE
  NO             0             12
  YES            7            222
D5V5, binary
                cls
clus               0   1
  RPTN MUTATED     6   0
  RPTN WILD-TYPE 195  10
[1] "tbl2"
                cls
clus             [,1] [,2]
  RPTN MUTATED      6    0
  RPTN WILD-TYPE  195   10
     clus
vv    RPTN MUTATED RPTN WILD-TYPE
  NO             6            195
  YES            0             10
                vv
clus              M0  M1  MX
  RPTN MUTATED     4   0   3
  RPTN WILD-TYPE  95   3 135
D5V6, multiclass
    clus
vv   RPTN MUTATED RPTN WILD-TYPE
  M0            4             95
  M1            0              3
  MX            3            135
                vv
clus             MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  RPTN MUTATED              2                       0    5
  RPTN WILD-TYPE           52                       3  168
D5V7, multiclass
                         clus
vv                        RPTN MUTATED RPTN WILD-TYPE
  MINIMAL (T3)                       2             52
  MODERATE/ADVANCED (T4A)            0              3
  NONE                               5            168
                vv
clus              N0  N1 N1A N1B  NX
  RPTN MUTATED     1   0   5   0   1
  RPTN WILD-TYPE 118  11  46  31  28
D5V8, multiclass
                vv
clus              R0  R1  RX
  RPTN MUTATED     6   0   0
  RPTN WILD-TYPE 184  19  14
D5V9, multiclass
    clus
vv   RPTN MUTATED RPTN WILD-TYPE
  R0            6            184
  R1            0             19
  RX            0             14
D5V10, continuous
D5V11, continuous
                vv
clus             STAGE I STAGE II STAGE III STAGE IVA STAGE IVC
  RPTN MUTATED         4        0         3         0         0
  RPTN WILD-TYPE     131       30        51        18         3
D5V12, multiclass
D5V13, binary
                cls
clus               0   1
  RPTN MUTATED     4   3
  RPTN WILD-TYPE 119 106
[1] "tbl2"
                cls
clus             [,1] [,2]
  RPTN MUTATED      4    3
  RPTN WILD-TYPE  119  106
            clus
vv           RPTN MUTATED RPTN WILD-TYPE
  MULTIFOCAL            4            119
  UNIFOCAL              3            106
D5V14, continuous

Clustering(6) Variable = EIF1AX MUTATION ANALYSIS
D6V1, continuous
D6V2, binary
                  cls
clus                 0   1
  EIF1AX MUTATED     1   2
  EIF1AX WILD-TYPE 178  60
[1] "tbl2"
                  cls
clus               [,1] [,2]
  EIF1AX MUTATED      1    2
  EIF1AX WILD-TYPE  178   60
        clus
vv       EIF1AX MUTATED EIF1AX WILD-TYPE
  FEMALE              1              178
  MALE                2               60
                  vv
clus               OTHER THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  EIF1AX MUTATED       1                                             0
  EIF1AX WILD-TYPE    18                                           128
                  vv
clus               THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  EIF1AX MUTATED                                                                        2
  EIF1AX WILD-TYPE                                                                     69
                  vv
clus               THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  EIF1AX MUTATED                                                                     0
  EIF1AX WILD-TYPE                                                                  23
D6V3, multiclass
                                                                        clus
vv                                                                       EIF1AX MUTATED
  OTHER                                                                               1
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                       0
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)              2
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                 0
                                                                        clus
vv                                                                       EIF1AX WILD-TYPE
  OTHER                                                                                18
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                       128
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)               69
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                  23
D6V4, binary
                  cls
clus                 0   1
  EIF1AX MUTATED     0   3
  EIF1AX WILD-TYPE  12 226
[1] "tbl2"
                  cls
clus               [,1] [,2]
  EIF1AX MUTATED      0    3
  EIF1AX WILD-TYPE   12  226
     clus
vv    EIF1AX MUTATED EIF1AX WILD-TYPE
  NO               0               12
  YES              3              226
D6V5, binary
                  cls
clus                 0   1
  EIF1AX MUTATED     3   0
  EIF1AX WILD-TYPE 198  10
[1] "tbl2"
                  cls
clus               [,1] [,2]
  EIF1AX MUTATED      3    0
  EIF1AX WILD-TYPE  198   10
     clus
vv    EIF1AX MUTATED EIF1AX WILD-TYPE
  NO               3              198
  YES              0               10
                  vv
clus                M0  M1  MX
  EIF1AX MUTATED     1   0   2
  EIF1AX WILD-TYPE  98   3 136
D6V6, multiclass
    clus
vv   EIF1AX MUTATED EIF1AX WILD-TYPE
  M0              1               98
  M1              0                3
  MX              2              136
                  vv
clus               MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  EIF1AX MUTATED              0                       0    3
  EIF1AX WILD-TYPE           54                       3  170
D6V7, multiclass
                         clus
vv                        EIF1AX MUTATED EIF1AX WILD-TYPE
  MINIMAL (T3)                         0               54
  MODERATE/ADVANCED (T4A)              0                3
  NONE                                 3              170
                  vv
clus                N0  N1 N1A N1B  NX
  EIF1AX MUTATED     1   0   0   0   2
  EIF1AX WILD-TYPE 118  11  51  31  27
D6V8, multiclass
                  vv
clus                R0  R1  RX
  EIF1AX MUTATED     2   0   1
  EIF1AX WILD-TYPE 188  19  13
D6V9, multiclass
    clus
vv   EIF1AX MUTATED EIF1AX WILD-TYPE
  R0              2              188
  R1              0               19
  RX              1               13
D6V10, continuous
[1] "Remove cluster labels:" "EIF1AX MUTATED"        
clus
  EIF1AX MUTATED EIF1AX WILD-TYPE 
               1              190 
      TCGA-BJ-A0Z0       TCGA-BJ-A0Z3       TCGA-BJ-A0Z9       TCGA-BJ-A0ZA 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-BJ-A0ZB       TCGA-BJ-A0ZH       TCGA-BJ-A0ZJ       TCGA-BJ-A18Y 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-BJ-A190       TCGA-BJ-A191       TCGA-BJ-A28R       TCGA-BJ-A28T 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-BJ-A28X       TCGA-BJ-A290       TCGA-BJ-A3PR       TCGA-CE-A3MD 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-DE-A0XZ       TCGA-DE-A0Y2       TCGA-DE-A0Y3       TCGA-DE-A3KN 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-DJ-A13M       TCGA-DJ-A13O       TCGA-DJ-A13P       TCGA-DJ-A13R 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-DJ-A13T       TCGA-DJ-A13U       TCGA-DJ-A13V       TCGA-DJ-A13W 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-DJ-A13X       TCGA-DJ-A1QG       TCGA-DJ-A1QH       TCGA-DJ-A1QM 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-DJ-A2PO       TCGA-DJ-A2PP       TCGA-DJ-A2PQ       TCGA-DJ-A2PR 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-DJ-A2PS       TCGA-DJ-A2PT       TCGA-DJ-A2PU       TCGA-DJ-A2PV 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-DJ-A2PW       TCGA-DJ-A2PX       TCGA-DJ-A2PY       TCGA-DJ-A2PZ 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-DJ-A2Q0       TCGA-DJ-A2Q1       TCGA-DJ-A2Q2       TCGA-DJ-A2Q3 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-DJ-A2Q4       TCGA-DJ-A2Q5       TCGA-DJ-A2Q6       TCGA-DJ-A2Q7 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-DJ-A2Q8       TCGA-DJ-A2Q9       TCGA-DJ-A2QA       TCGA-DJ-A2QB 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-DJ-A3UK       TCGA-DJ-A3UM       TCGA-DJ-A3UN       TCGA-DJ-A3UO 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-DJ-A3UP       TCGA-DJ-A3UQ       TCGA-DJ-A3UR       TCGA-DJ-A3UU 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-DJ-A3UV       TCGA-DJ-A3UW       TCGA-DJ-A3UX       TCGA-DO-A1K0 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-DO-A2HM       TCGA-E3-A3DY       TCGA-E3-A3DZ       TCGA-E3-A3E0 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-E3-A3E1       TCGA-E3-A3E2       TCGA-E3-A3E3       TCGA-E3-A3E5 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-E8-A242       TCGA-E8-A2EA       TCGA-EM-A1CS       TCGA-EM-A1CT 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-EM-A1CU       TCGA-EM-A1CV       TCGA-EM-A1CW       TCGA-EM-A1YB 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-EM-A1YC       TCGA-EM-A1YD       TCGA-EM-A1YE       TCGA-EM-A22I 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-EM-A22J       TCGA-EM-A22K       TCGA-EM-A22L       TCGA-EM-A22M 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-EM-A22N       TCGA-EM-A22O       TCGA-EM-A22P       TCGA-EM-A22Q 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-EM-A2CK       TCGA-EM-A2CM       TCGA-EM-A2CN       TCGA-EM-A2CP 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-EM-A2CQ       TCGA-EM-A2CR       TCGA-EM-A2CT       TCGA-EM-A2CU 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-EM-A2OV       TCGA-EM-A2OW       TCGA-EM-A2OX       TCGA-EM-A2OY 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-EM-A2P0       TCGA-EM-A2P1       TCGA-EM-A2P2       TCGA-EM-A2P3 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-EM-A3AJ       TCGA-EM-A3AK       TCGA-EM-A3AN       TCGA-EM-A3AO 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-EM-A3AQ       TCGA-EM-A3AR       TCGA-EM-A3O8       TCGA-EM-A3OB 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-ET-A25G       TCGA-ET-A25I       TCGA-ET-A25J       TCGA-ET-A25K 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-ET-A25O       TCGA-ET-A2MZ       TCGA-ET-A2N0       TCGA-ET-A2N1 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-ET-A2N4       TCGA-ET-A39K       TCGA-ET-A39L       TCGA-ET-A39O 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-ET-A39P       TCGA-ET-A39R       TCGA-ET-A39S       TCGA-ET-A39T 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-ET-A3BO       TCGA-ET-A3BP       TCGA-ET-A3BQ       TCGA-ET-A3BS 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-ET-A3BT       TCGA-ET-A3BU       TCGA-ET-A3BV       TCGA-ET-A3BX 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-ET-A3DQ       TCGA-ET-A3DR       TCGA-ET-A3DS       TCGA-ET-A3DT 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-ET-A3DU       TCGA-ET-A3DV       TCGA-ET-A3DW       TCGA-FE-A22Z 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-FE-A230       TCGA-FE-A231       TCGA-FE-A232       TCGA-FE-A233 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-FE-A234       TCGA-FE-A235       TCGA-FE-A236       TCGA-FE-A237 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-FE-A23A       TCGA-FE-A3PB       TCGA-FE-A3PC       TCGA-FE-A3PD 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-FK-A3S3       TCGA-FK-A3SE       TCGA-FK-A3SG       TCGA-FK-A3SH 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-FY-A2QD       TCGA-FY-A3I4       TCGA-FY-A3I5       TCGA-FY-A3NM 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-FY-A3NN       TCGA-FY-A3ON       TCGA-FY-A3R6       TCGA-FY-A3R7 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-FY-A3R9       TCGA-FY-A3W9       TCGA-GE-A2C6       TCGA-H2-A26U 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-H2-A2K9       TCGA-H2-A3RH       TCGA-H2-A3RI       TCGA-IM-A3EB 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-IM-A3ED       TCGA-IM-A3U2       TCGA-IM-A3U3       TCGA-J8-A3NZ 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-J8-A3O0       TCGA-J8-A3O1 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
D6V11, continuous
                  vv
clus               STAGE I STAGE II STAGE III STAGE IVA STAGE IVC
  EIF1AX MUTATED         2        1         0         0         0
  EIF1AX WILD-TYPE     133       29        54        18         3
D6V12, multiclass
D6V13, binary
                  cls
clus                 0   1
  EIF1AX MUTATED     1   1
  EIF1AX WILD-TYPE 122 108
[1] "tbl2"
                  cls
clus               [,1] [,2]
  EIF1AX MUTATED      1    1
  EIF1AX WILD-TYPE  122  108
            clus
vv           EIF1AX MUTATED EIF1AX WILD-TYPE
  MULTIFOCAL              1              122
  UNIFOCAL                1              108
D6V14, continuous

Clustering(7) Variable = CCDC15 MUTATION ANALYSIS
D7V1, continuous
D7V2, binary
                  cls
clus                 0   1
  CCDC15 MUTATED     4   1
  CCDC15 WILD-TYPE 175  61
[1] "tbl2"
                  cls
clus               [,1] [,2]
  CCDC15 MUTATED      4    1
  CCDC15 WILD-TYPE  175   61
        clus
vv       CCDC15 MUTATED CCDC15 WILD-TYPE
  FEMALE              4              175
  MALE                1               61
                  vv
clus               OTHER THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  CCDC15 MUTATED       0                                             5
  CCDC15 WILD-TYPE    19                                           123
                  vv
clus               THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  CCDC15 MUTATED                                                                        0
  CCDC15 WILD-TYPE                                                                     71
                  vv
clus               THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  CCDC15 MUTATED                                                                     0
  CCDC15 WILD-TYPE                                                                  23
D7V3, multiclass
                                                                        clus
vv                                                                       CCDC15 MUTATED
  OTHER                                                                               0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                       5
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)              0
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                 0
                                                                        clus
vv                                                                       CCDC15 WILD-TYPE
  OTHER                                                                                19
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                       123
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)               71
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                  23
D7V4, binary
                  cls
clus                 0   1
  CCDC15 MUTATED     0   5
  CCDC15 WILD-TYPE  12 224
[1] "tbl2"
                  cls
clus               [,1] [,2]
  CCDC15 MUTATED      0    5
  CCDC15 WILD-TYPE   12  224
     clus
vv    CCDC15 MUTATED CCDC15 WILD-TYPE
  NO               0               12
  YES              5              224
D7V5, binary
                  cls
clus                 0   1
  CCDC15 MUTATED     4   0
  CCDC15 WILD-TYPE 197  10
[1] "tbl2"
                  cls
clus               [,1] [,2]
  CCDC15 MUTATED      4    0
  CCDC15 WILD-TYPE  197   10
     clus
vv    CCDC15 MUTATED CCDC15 WILD-TYPE
  NO               4              197
  YES              0               10
                  vv
clus                M0  M1  MX
  CCDC15 MUTATED     4   0   1
  CCDC15 WILD-TYPE  95   3 137
D7V6, multiclass
    clus
vv   CCDC15 MUTATED CCDC15 WILD-TYPE
  M0              4               95
  M1              0                3
  MX              1              137
                  vv
clus               MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  CCDC15 MUTATED              1                       0    4
  CCDC15 WILD-TYPE           53                       3  169
D7V7, multiclass
                         clus
vv                        CCDC15 MUTATED CCDC15 WILD-TYPE
  MINIMAL (T3)                         1               53
  MODERATE/ADVANCED (T4A)              0                3
  NONE                                 4              169
                  vv
clus                N0  N1 N1A N1B  NX
  CCDC15 MUTATED     1   2   0   2   0
  CCDC15 WILD-TYPE 118   9  51  29  29
D7V8, multiclass
                  vv
clus                R0  R1  RX
  CCDC15 MUTATED     5   0   0
  CCDC15 WILD-TYPE 185  19  14
D7V9, multiclass
    clus
vv   CCDC15 MUTATED CCDC15 WILD-TYPE
  R0              5              185
  R1              0               19
  RX              0               14
D7V10, continuous
D7V11, continuous
                  vv
clus               STAGE I STAGE II STAGE III STAGE IVA STAGE IVC
  CCDC15 MUTATED         3        1         0         1         0
  CCDC15 WILD-TYPE     132       29        54        17         3
D7V12, multiclass
D7V13, binary
                  cls
clus                 0   1
  CCDC15 MUTATED     1   4
  CCDC15 WILD-TYPE 122 105
[1] "tbl2"
                  cls
clus               [,1] [,2]
  CCDC15 MUTATED      1    4
  CCDC15 WILD-TYPE  122  105
            clus
vv           CCDC15 MUTATED CCDC15 WILD-TYPE
  MULTIFOCAL              1              122
  UNIFOCAL                4              105
D7V14, continuous

Clustering(8) Variable = ZNF845 MUTATION ANALYSIS
D8V1, continuous
D8V2, binary
                  cls
clus                 0   1
  ZNF845 MUTATED     4   1
  ZNF845 WILD-TYPE 175  61
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ZNF845 MUTATED      4    1
  ZNF845 WILD-TYPE  175   61
        clus
vv       ZNF845 MUTATED ZNF845 WILD-TYPE
  FEMALE              4              175
  MALE                1               61
                  vv
clus               OTHER THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  ZNF845 MUTATED       0                                             5
  ZNF845 WILD-TYPE    19                                           123
                  vv
clus               THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  ZNF845 MUTATED                                                                        0
  ZNF845 WILD-TYPE                                                                     71
                  vv
clus               THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  ZNF845 MUTATED                                                                     0
  ZNF845 WILD-TYPE                                                                  23
D8V3, multiclass
                                                                        clus
vv                                                                       ZNF845 MUTATED
  OTHER                                                                               0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                       5
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)              0
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                 0
                                                                        clus
vv                                                                       ZNF845 WILD-TYPE
  OTHER                                                                                19
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                       123
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)               71
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                  23
D8V4, binary
                  cls
clus                 0   1
  ZNF845 MUTATED     0   5
  ZNF845 WILD-TYPE  12 224
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ZNF845 MUTATED      0    5
  ZNF845 WILD-TYPE   12  224
     clus
vv    ZNF845 MUTATED ZNF845 WILD-TYPE
  NO               0               12
  YES              5              224
D8V5, binary
                  cls
clus                 0   1
  ZNF845 MUTATED     3   1
  ZNF845 WILD-TYPE 198   9
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ZNF845 MUTATED      3    1
  ZNF845 WILD-TYPE  198    9
     clus
vv    ZNF845 MUTATED ZNF845 WILD-TYPE
  NO               3              198
  YES              1                9
                  vv
clus                M0  M1  MX
  ZNF845 MUTATED     3   0   2
  ZNF845 WILD-TYPE  96   3 136
D8V6, multiclass
    clus
vv   ZNF845 MUTATED ZNF845 WILD-TYPE
  M0              3               96
  M1              0                3
  MX              2              136
                  vv
clus               MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  ZNF845 MUTATED              1                       0    3
  ZNF845 WILD-TYPE           53                       3  170
D8V7, multiclass
                         clus
vv                        ZNF845 MUTATED ZNF845 WILD-TYPE
  MINIMAL (T3)                         1               53
  MODERATE/ADVANCED (T4A)              0                3
  NONE                                 3              170
                  vv
clus                N0  N1 N1A N1B  NX
  ZNF845 MUTATED     4   0   0   1   0
  ZNF845 WILD-TYPE 115  11  51  30  29
D8V8, multiclass
                  vv
clus                R0  R1  RX
  ZNF845 MUTATED     4   0   0
  ZNF845 WILD-TYPE 186  19  14
D8V9, multiclass
    clus
vv   ZNF845 MUTATED ZNF845 WILD-TYPE
  R0              4              186
  R1              0               19
  RX              0               14
D8V10, continuous
D8V11, continuous
                  vv
clus               STAGE I STAGE II STAGE III STAGE IVA STAGE IVC
  ZNF845 MUTATED         1        2         1         1         0
  ZNF845 WILD-TYPE     134       28        53        17         3
D8V12, multiclass
D8V13, binary
                  cls
clus                 0   1
  ZNF845 MUTATED     3   2
  ZNF845 WILD-TYPE 120 107
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ZNF845 MUTATED      3    2
  ZNF845 WILD-TYPE  120  107
            clus
vv           ZNF845 MUTATED ZNF845 WILD-TYPE
  MULTIFOCAL              3              120
  UNIFOCAL                2              107
D8V14, continuous

Clustering(9) Variable = TG MUTATION ANALYSIS
D9V1, continuous
D9V2, binary
              cls
clus             0   1
  TG MUTATED     9   3
  TG WILD-TYPE 170  59
[1] "tbl2"
              cls
clus           [,1] [,2]
  TG MUTATED      9    3
  TG WILD-TYPE  170   59
        clus
vv       TG MUTATED TG WILD-TYPE
  FEMALE          9          170
  MALE            3           59
              vv
clus           OTHER THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  TG MUTATED       1                                             2
  TG WILD-TYPE    18                                           126
              vv
clus           THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  TG MUTATED                                                                        6
  TG WILD-TYPE                                                                     65
              vv
clus           THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  TG MUTATED                                                                     3
  TG WILD-TYPE                                                                  20
D9V3, multiclass
                                                                        clus
vv                                                                       TG MUTATED
  OTHER                                                                           1
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                   2
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)          6
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)             3
                                                                        clus
vv                                                                       TG WILD-TYPE
  OTHER                                                                            18
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                   126
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)           65
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)              20
D9V4, binary
              cls
clus             0   1
  TG MUTATED     0  12
  TG WILD-TYPE  12 217
[1] "tbl2"
              cls
clus           [,1] [,2]
  TG MUTATED      0   12
  TG WILD-TYPE   12  217
     clus
vv    TG MUTATED TG WILD-TYPE
  NO           0           12
  YES         12          217
D9V5, binary
              cls
clus             0   1
  TG MUTATED    11   0
  TG WILD-TYPE 190  10
[1] "tbl2"
              cls
clus           [,1] [,2]
  TG MUTATED     11    0
  TG WILD-TYPE  190   10
     clus
vv    TG MUTATED TG WILD-TYPE
  NO          11          190
  YES          0           10
              vv
clus            M0  M1  MX
  TG MUTATED     5   0   7
  TG WILD-TYPE  94   3 131
D9V6, multiclass
    clus
vv   TG MUTATED TG WILD-TYPE
  M0          5           94
  M1          0            3
  MX          7          131
              vv
clus           MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  TG MUTATED              2                       0   10
  TG WILD-TYPE           52                       3  163
D9V7, multiclass
                         clus
vv                        TG MUTATED TG WILD-TYPE
  MINIMAL (T3)                     2           52
  MODERATE/ADVANCED (T4A)          0            3
  NONE                            10          163
              vv
clus            N0  N1 N1A N1B  NX
  TG MUTATED     6   1   2   1   2
  TG WILD-TYPE 113  10  49  30  27
D9V8, multiclass
              vv
clus            R0  R1  RX
  TG MUTATED    10   1   1
  TG WILD-TYPE 180  18  13
D9V9, multiclass
    clus
vv   TG MUTATED TG WILD-TYPE
  R0         10          180
  R1          1           18
  RX          1           13
D9V10, continuous
D9V11, continuous
              vv
clus           STAGE I STAGE II STAGE III STAGE IVA STAGE IVC
  TG MUTATED         7        2         2         1         0
  TG WILD-TYPE     128       28        52        17         3
D9V12, multiclass
D9V13, binary
              cls
clus             0   1
  TG MUTATED     7   5
  TG WILD-TYPE 116 104
[1] "tbl2"
              cls
clus           [,1] [,2]
  TG MUTATED      7    5
  TG WILD-TYPE  116  104
            clus
vv           TG MUTATED TG WILD-TYPE
  MULTIFOCAL          7          116
  UNIFOCAL            5          104
D9V14, continuous

Clustering(10) Variable = PRB2 MUTATION ANALYSIS
D10V1, continuous
D10V2, binary
                cls
clus               0   1
  PRB2 MUTATED     2   1
  PRB2 WILD-TYPE 177  61
[1] "tbl2"
                cls
clus             [,1] [,2]
  PRB2 MUTATED      2    1
  PRB2 WILD-TYPE  177   61
        clus
vv       PRB2 MUTATED PRB2 WILD-TYPE
  FEMALE            2            177
  MALE              1             61
                vv
clus             OTHER THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  PRB2 MUTATED       0                                             1
  PRB2 WILD-TYPE    19                                           127
                vv
clus             THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  PRB2 MUTATED                                                                        2
  PRB2 WILD-TYPE                                                                     69
                vv
clus             THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  PRB2 MUTATED                                                                     0
  PRB2 WILD-TYPE                                                                  23
D10V3, multiclass
                                                                        clus
vv                                                                       PRB2 MUTATED
  OTHER                                                                             0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                     1
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)            2
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)               0
                                                                        clus
vv                                                                       PRB2 WILD-TYPE
  OTHER                                                                              19
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                     127
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)             69
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                23
D10V4, binary
                cls
clus               0   1
  PRB2 MUTATED     0   3
  PRB2 WILD-TYPE  12 226
[1] "tbl2"
                cls
clus             [,1] [,2]
  PRB2 MUTATED      0    3
  PRB2 WILD-TYPE   12  226
     clus
vv    PRB2 MUTATED PRB2 WILD-TYPE
  NO             0             12
  YES            3            226
D10V5, binary
                cls
clus               0   1
  PRB2 MUTATED     3   0
  PRB2 WILD-TYPE 198  10
[1] "tbl2"
                cls
clus             [,1] [,2]
  PRB2 MUTATED      3    0
  PRB2 WILD-TYPE  198   10
     clus
vv    PRB2 MUTATED PRB2 WILD-TYPE
  NO             3            198
  YES            0             10
                vv
clus              M0  M1  MX
  PRB2 MUTATED     1   0   2
  PRB2 WILD-TYPE  98   3 136
D10V6, multiclass
    clus
vv   PRB2 MUTATED PRB2 WILD-TYPE
  M0            1             98
  M1            0              3
  MX            2            136
                vv
clus             MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  PRB2 MUTATED              1                       0    2
  PRB2 WILD-TYPE           53                       3  171
D10V7, multiclass
                         clus
vv                        PRB2 MUTATED PRB2 WILD-TYPE
  MINIMAL (T3)                       1             53
  MODERATE/ADVANCED (T4A)            0              3
  NONE                               2            171
                vv
clus              N0  N1 N1A N1B  NX
  PRB2 MUTATED     2   0   0   0   1
  PRB2 WILD-TYPE 117  11  51  31  28
D10V8, multiclass
                vv
clus              R0  R1  RX
  PRB2 MUTATED     3   0   0
  PRB2 WILD-TYPE 187  19  14
D10V9, multiclass
    clus
vv   PRB2 MUTATED PRB2 WILD-TYPE
  R0            3            187
  R1            0             19
  RX            0             14
D10V10, continuous
[1] "Remove cluster labels:" "PRB2 MUTATED"          
clus
  PRB2 MUTATED PRB2 WILD-TYPE 
             1            190 
    TCGA-BJ-A0Z0     TCGA-BJ-A0Z3     TCGA-BJ-A0Z9     TCGA-BJ-A0ZA 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-BJ-A0ZB     TCGA-BJ-A0ZH     TCGA-BJ-A0ZJ     TCGA-BJ-A18Y 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-BJ-A190     TCGA-BJ-A191     TCGA-BJ-A28R     TCGA-BJ-A28T 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-BJ-A28X     TCGA-BJ-A290     TCGA-BJ-A3PR     TCGA-CE-A3MD 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-DE-A0XZ     TCGA-DE-A0Y2     TCGA-DE-A0Y3     TCGA-DE-A3KN 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-DJ-A13M     TCGA-DJ-A13O     TCGA-DJ-A13P     TCGA-DJ-A13R 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-DJ-A13T     TCGA-DJ-A13U     TCGA-DJ-A13V     TCGA-DJ-A13W 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-DJ-A13X     TCGA-DJ-A1QG     TCGA-DJ-A1QH     TCGA-DJ-A1QM 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-DJ-A2PO     TCGA-DJ-A2PP     TCGA-DJ-A2PQ     TCGA-DJ-A2PR 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-DJ-A2PS     TCGA-DJ-A2PT     TCGA-DJ-A2PU     TCGA-DJ-A2PV 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-DJ-A2PW     TCGA-DJ-A2PX     TCGA-DJ-A2PY     TCGA-DJ-A2PZ 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-DJ-A2Q0     TCGA-DJ-A2Q1     TCGA-DJ-A2Q2     TCGA-DJ-A2Q3 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-DJ-A2Q4     TCGA-DJ-A2Q5     TCGA-DJ-A2Q6     TCGA-DJ-A2Q7 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-DJ-A2Q8     TCGA-DJ-A2Q9     TCGA-DJ-A2QA     TCGA-DJ-A2QB 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-DJ-A3UK     TCGA-DJ-A3UM     TCGA-DJ-A3UN     TCGA-DJ-A3UO 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-DJ-A3UP     TCGA-DJ-A3UQ     TCGA-DJ-A3UR     TCGA-DJ-A3UU 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-DJ-A3UV     TCGA-DJ-A3UW     TCGA-DJ-A3UX     TCGA-DO-A1K0 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-DO-A2HM     TCGA-E3-A3DY     TCGA-E3-A3DZ     TCGA-E3-A3E0 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-E3-A3E1     TCGA-E3-A3E2     TCGA-E3-A3E3     TCGA-E3-A3E5 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-E8-A242     TCGA-E8-A2EA     TCGA-EM-A1CS     TCGA-EM-A1CT 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-EM-A1CU     TCGA-EM-A1CV     TCGA-EM-A1CW     TCGA-EM-A1YA 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-EM-A1YB     TCGA-EM-A1YC     TCGA-EM-A1YD     TCGA-EM-A1YE 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-EM-A22I     TCGA-EM-A22J     TCGA-EM-A22K     TCGA-EM-A22L 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-EM-A22M     TCGA-EM-A22N     TCGA-EM-A22O     TCGA-EM-A22P 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-EM-A22Q     TCGA-EM-A2CK     TCGA-EM-A2CM     TCGA-EM-A2CN 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-EM-A2CP     TCGA-EM-A2CQ     TCGA-EM-A2CT     TCGA-EM-A2CU 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-EM-A2OV     TCGA-EM-A2OW     TCGA-EM-A2OX     TCGA-EM-A2OY 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-EM-A2P0     TCGA-EM-A2P1     TCGA-EM-A2P2     TCGA-EM-A2P3 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-EM-A3AJ     TCGA-EM-A3AK     TCGA-EM-A3AN     TCGA-EM-A3AO 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-EM-A3AQ     TCGA-EM-A3AR     TCGA-EM-A3O8     TCGA-EM-A3OB 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-ET-A25G     TCGA-ET-A25I     TCGA-ET-A25J     TCGA-ET-A25K 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-ET-A25O     TCGA-ET-A2MZ     TCGA-ET-A2N0     TCGA-ET-A2N1 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-ET-A2N4     TCGA-ET-A39K     TCGA-ET-A39L     TCGA-ET-A39O 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-ET-A39P     TCGA-ET-A39R     TCGA-ET-A39S     TCGA-ET-A39T 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-ET-A3BO     TCGA-ET-A3BP     TCGA-ET-A3BQ     TCGA-ET-A3BS 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-ET-A3BT     TCGA-ET-A3BU     TCGA-ET-A3BV     TCGA-ET-A3BX 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-ET-A3DQ     TCGA-ET-A3DR     TCGA-ET-A3DS     TCGA-ET-A3DT 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-ET-A3DU     TCGA-ET-A3DV     TCGA-ET-A3DW     TCGA-FE-A22Z 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-FE-A230     TCGA-FE-A231     TCGA-FE-A232     TCGA-FE-A233 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-FE-A234     TCGA-FE-A235     TCGA-FE-A236     TCGA-FE-A237 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-FE-A23A     TCGA-FE-A3PB     TCGA-FE-A3PC     TCGA-FE-A3PD 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-FK-A3S3     TCGA-FK-A3SE     TCGA-FK-A3SG     TCGA-FK-A3SH 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-FY-A2QD     TCGA-FY-A3I4     TCGA-FY-A3I5     TCGA-FY-A3NM 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-FY-A3NN     TCGA-FY-A3ON     TCGA-FY-A3R6     TCGA-FY-A3R7 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-FY-A3R9     TCGA-FY-A3W9     TCGA-GE-A2C6     TCGA-H2-A26U 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-H2-A2K9     TCGA-H2-A3RH     TCGA-H2-A3RI     TCGA-IM-A3EB 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-IM-A3ED     TCGA-IM-A3U2     TCGA-IM-A3U3     TCGA-J8-A3NZ 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-J8-A3O0     TCGA-J8-A3O1 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
D10V11, continuous
                vv
clus             STAGE I STAGE II STAGE III STAGE IVA STAGE IVC
  PRB2 MUTATED         2        1         0         0         0
  PRB2 WILD-TYPE     133       29        54        18         3
D10V12, multiclass
D10V13, binary
                cls
clus               0   1
  PRB2 MUTATED     2   1
  PRB2 WILD-TYPE 121 108
[1] "tbl2"
                cls
clus             [,1] [,2]
  PRB2 MUTATED      2    1
  PRB2 WILD-TYPE  121  108
            clus
vv           PRB2 MUTATED PRB2 WILD-TYPE
  MULTIFOCAL            2            121
  UNIFOCAL              1            108
D10V14, continuous

Clustering(11) Variable = R3HDM2 MUTATION ANALYSIS
D11V1, continuous
D11V2, binary
                  cls
clus                 0   1
  R3HDM2 MUTATED     3   1
  R3HDM2 WILD-TYPE 176  61
[1] "tbl2"
                  cls
clus               [,1] [,2]
  R3HDM2 MUTATED      3    1
  R3HDM2 WILD-TYPE  176   61
        clus
vv       R3HDM2 MUTATED R3HDM2 WILD-TYPE
  FEMALE              3              176
  MALE                1               61
                  vv
clus               OTHER THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  R3HDM2 MUTATED       0                                             1
  R3HDM2 WILD-TYPE    19                                           127
                  vv
clus               THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  R3HDM2 MUTATED                                                                        3
  R3HDM2 WILD-TYPE                                                                     68
                  vv
clus               THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  R3HDM2 MUTATED                                                                     0
  R3HDM2 WILD-TYPE                                                                  23
D11V3, multiclass
                                                                        clus
vv                                                                       R3HDM2 MUTATED
  OTHER                                                                               0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                       1
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)              3
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                 0
                                                                        clus
vv                                                                       R3HDM2 WILD-TYPE
  OTHER                                                                                19
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                       127
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)               68
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                  23
D11V4, binary
                  cls
clus                 0   1
  R3HDM2 MUTATED     0   4
  R3HDM2 WILD-TYPE  12 225
[1] "tbl2"
                  cls
clus               [,1] [,2]
  R3HDM2 MUTATED      0    4
  R3HDM2 WILD-TYPE   12  225
     clus
vv    R3HDM2 MUTATED R3HDM2 WILD-TYPE
  NO               0               12
  YES              4              225
D11V5, binary
                  cls
clus                 0   1
  R3HDM2 MUTATED     3   0
  R3HDM2 WILD-TYPE 198  10
[1] "tbl2"
                  cls
clus               [,1] [,2]
  R3HDM2 MUTATED      3    0
  R3HDM2 WILD-TYPE  198   10
     clus
vv    R3HDM2 MUTATED R3HDM2 WILD-TYPE
  NO               3              198
  YES              0               10
                  vv
clus                M0  M1  MX
  R3HDM2 MUTATED     1   0   3
  R3HDM2 WILD-TYPE  98   3 135
D11V6, multiclass
    clus
vv   R3HDM2 MUTATED R3HDM2 WILD-TYPE
  M0              1               98
  M1              0                3
  MX              3              135
                  vv
clus               MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  R3HDM2 MUTATED              0                       0    4
  R3HDM2 WILD-TYPE           54                       3  169
D11V7, multiclass
                         clus
vv                        R3HDM2 MUTATED R3HDM2 WILD-TYPE
  MINIMAL (T3)                         0               54
  MODERATE/ADVANCED (T4A)              0                3
  NONE                                 4              169
                  vv
clus                N0  N1 N1A N1B  NX
  R3HDM2 MUTATED     3   0   0   0   1
  R3HDM2 WILD-TYPE 116  11  51  31  28
D11V8, multiclass
                  vv
clus                R0  R1  RX
  R3HDM2 MUTATED     4   0   0
  R3HDM2 WILD-TYPE 186  19  14
D11V9, multiclass
    clus
vv   R3HDM2 MUTATED R3HDM2 WILD-TYPE
  R0              4              186
  R1              0               19
  RX              0               14
D11V10, continuous
[1] "Remove cluster labels:" "R3HDM2 MUTATED"        
clus
  R3HDM2 MUTATED R3HDM2 WILD-TYPE 
               2              189 
      TCGA-BJ-A0Z0       TCGA-BJ-A0Z3       TCGA-BJ-A0Z9       TCGA-BJ-A0ZA 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-BJ-A0ZB       TCGA-BJ-A0ZH       TCGA-BJ-A0ZJ       TCGA-BJ-A18Y 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-BJ-A191       TCGA-BJ-A28R       TCGA-BJ-A28T       TCGA-BJ-A28X 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-BJ-A290       TCGA-BJ-A3PR       TCGA-CE-A3MD       TCGA-DE-A0XZ 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-DE-A0Y2       TCGA-DE-A0Y3       TCGA-DE-A3KN       TCGA-DJ-A13M 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-DJ-A13O       TCGA-DJ-A13P       TCGA-DJ-A13R       TCGA-DJ-A13T 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-DJ-A13U       TCGA-DJ-A13V       TCGA-DJ-A13W       TCGA-DJ-A13X 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-DJ-A1QG       TCGA-DJ-A1QH       TCGA-DJ-A1QM       TCGA-DJ-A2PO 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-DJ-A2PP       TCGA-DJ-A2PQ       TCGA-DJ-A2PR       TCGA-DJ-A2PS 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-DJ-A2PT       TCGA-DJ-A2PU       TCGA-DJ-A2PV       TCGA-DJ-A2PW 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-DJ-A2PX       TCGA-DJ-A2PY       TCGA-DJ-A2PZ       TCGA-DJ-A2Q0 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-DJ-A2Q1       TCGA-DJ-A2Q2       TCGA-DJ-A2Q3       TCGA-DJ-A2Q4 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-DJ-A2Q5       TCGA-DJ-A2Q6       TCGA-DJ-A2Q7       TCGA-DJ-A2Q8 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-DJ-A2Q9       TCGA-DJ-A2QA       TCGA-DJ-A2QB       TCGA-DJ-A3UK 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-DJ-A3UM       TCGA-DJ-A3UN       TCGA-DJ-A3UO       TCGA-DJ-A3UP 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-DJ-A3UQ       TCGA-DJ-A3UR       TCGA-DJ-A3UU       TCGA-DJ-A3UV 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-DJ-A3UW       TCGA-DJ-A3UX       TCGA-DO-A1K0       TCGA-DO-A2HM 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-E3-A3DY       TCGA-E3-A3DZ       TCGA-E3-A3E0       TCGA-E3-A3E1 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-E3-A3E2       TCGA-E3-A3E3       TCGA-E3-A3E5       TCGA-E8-A242 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-E8-A2EA       TCGA-EM-A1CS       TCGA-EM-A1CT       TCGA-EM-A1CU 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-EM-A1CV       TCGA-EM-A1CW       TCGA-EM-A1YA       TCGA-EM-A1YB 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-EM-A1YC       TCGA-EM-A1YD       TCGA-EM-A1YE       TCGA-EM-A22I 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-EM-A22J       TCGA-EM-A22K       TCGA-EM-A22L       TCGA-EM-A22M 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-EM-A22N       TCGA-EM-A22O       TCGA-EM-A22P       TCGA-EM-A22Q 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-EM-A2CK       TCGA-EM-A2CM       TCGA-EM-A2CN       TCGA-EM-A2CP 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-EM-A2CQ       TCGA-EM-A2CR       TCGA-EM-A2CT       TCGA-EM-A2CU 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-EM-A2OV       TCGA-EM-A2OW       TCGA-EM-A2OX       TCGA-EM-A2OY 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-EM-A2P0       TCGA-EM-A2P1       TCGA-EM-A2P2       TCGA-EM-A2P3 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-EM-A3AJ       TCGA-EM-A3AK       TCGA-EM-A3AN       TCGA-EM-A3AO 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-EM-A3AQ       TCGA-EM-A3AR       TCGA-EM-A3O8       TCGA-EM-A3OB 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-ET-A25G       TCGA-ET-A25I       TCGA-ET-A25J       TCGA-ET-A25K 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-ET-A25O       TCGA-ET-A2MZ       TCGA-ET-A2N0       TCGA-ET-A2N1 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-ET-A2N4       TCGA-ET-A39K       TCGA-ET-A39L       TCGA-ET-A39O 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-ET-A39P       TCGA-ET-A39R       TCGA-ET-A39S       TCGA-ET-A39T 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-ET-A3BO       TCGA-ET-A3BP       TCGA-ET-A3BQ       TCGA-ET-A3BS 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-ET-A3BT       TCGA-ET-A3BU       TCGA-ET-A3BV       TCGA-ET-A3BX 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-ET-A3DQ       TCGA-ET-A3DR       TCGA-ET-A3DS       TCGA-ET-A3DT 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-ET-A3DU       TCGA-ET-A3DV       TCGA-ET-A3DW       TCGA-FE-A22Z 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-FE-A230       TCGA-FE-A231       TCGA-FE-A232       TCGA-FE-A233 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-FE-A234       TCGA-FE-A235       TCGA-FE-A236       TCGA-FE-A237 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-FE-A23A       TCGA-FE-A3PB       TCGA-FE-A3PC       TCGA-FE-A3PD 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-FK-A3S3       TCGA-FK-A3SE       TCGA-FK-A3SG       TCGA-FK-A3SH 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-FY-A2QD       TCGA-FY-A3I4       TCGA-FY-A3NM       TCGA-FY-A3NN 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-FY-A3ON       TCGA-FY-A3R6       TCGA-FY-A3R7       TCGA-FY-A3R9 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-FY-A3W9       TCGA-GE-A2C6       TCGA-H2-A26U       TCGA-H2-A2K9 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-H2-A3RH       TCGA-H2-A3RI       TCGA-IM-A3EB       TCGA-IM-A3ED 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-IM-A3U2       TCGA-IM-A3U3       TCGA-J8-A3NZ       TCGA-J8-A3O0 
"R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" "R3HDM2 WILD-TYPE" 
      TCGA-J8-A3O1 
"R3HDM2 WILD-TYPE" 
D11V11, continuous
                  vv
clus               STAGE I STAGE II STAGE III STAGE IVA STAGE IVC
  R3HDM2 MUTATED         2        1         1         0         0
  R3HDM2 WILD-TYPE     133       29        53        18         3
D11V12, multiclass
D11V13, binary
                  cls
clus                 0   1
  R3HDM2 MUTATED     2   2
  R3HDM2 WILD-TYPE 121 107
[1] "tbl2"
                  cls
clus               [,1] [,2]
  R3HDM2 MUTATED      2    2
  R3HDM2 WILD-TYPE  121  107
            clus
vv           R3HDM2 MUTATED R3HDM2 WILD-TYPE
  MULTIFOCAL              2              121
  UNIFOCAL                2              107
D11V14, continuous

Clustering(12) Variable = PPTC7 MUTATION ANALYSIS
D12V1, continuous
D12V2, binary
                 cls
clus                0   1
  PPTC7 MUTATED     1   2
  PPTC7 WILD-TYPE 178  60
[1] "tbl2"
                 cls
clus              [,1] [,2]
  PPTC7 MUTATED      1    2
  PPTC7 WILD-TYPE  178   60
        clus
vv       PPTC7 MUTATED PPTC7 WILD-TYPE
  FEMALE             1             178
  MALE               2              60
                 vv
clus              OTHER THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  PPTC7 MUTATED       0                                             1
  PPTC7 WILD-TYPE    19                                           127
                 vv
clus              THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  PPTC7 MUTATED                                                                        2
  PPTC7 WILD-TYPE                                                                     69
                 vv
clus              THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  PPTC7 MUTATED                                                                     0
  PPTC7 WILD-TYPE                                                                  23
D12V3, multiclass
                                                                        clus
vv                                                                       PPTC7 MUTATED
  OTHER                                                                              0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                      1
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)             2
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                0
                                                                        clus
vv                                                                       PPTC7 WILD-TYPE
  OTHER                                                                               19
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                      127
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)              69
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                 23
D12V4, binary
                 cls
clus                0   1
  PPTC7 MUTATED     0   3
  PPTC7 WILD-TYPE  12 226
[1] "tbl2"
                 cls
clus              [,1] [,2]
  PPTC7 MUTATED      0    3
  PPTC7 WILD-TYPE   12  226
     clus
vv    PPTC7 MUTATED PPTC7 WILD-TYPE
  NO              0              12
  YES             3             226
D12V5, binary
                 cls
clus                0   1
  PPTC7 MUTATED     3   0
  PPTC7 WILD-TYPE 198  10
[1] "tbl2"
                 cls
clus              [,1] [,2]
  PPTC7 MUTATED      3    0
  PPTC7 WILD-TYPE  198   10
     clus
vv    PPTC7 MUTATED PPTC7 WILD-TYPE
  NO              3             198
  YES             0              10
                 vv
clus               M0  M1  MX
  PPTC7 MUTATED     2   0   1
  PPTC7 WILD-TYPE  97   3 137
D12V6, multiclass
    clus
vv   PPTC7 MUTATED PPTC7 WILD-TYPE
  M0             2              97
  M1             0               3
  MX             1             137
                 vv
clus              MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  PPTC7 MUTATED              0                       0    3
  PPTC7 WILD-TYPE           54                       3  170
D12V7, multiclass
                         clus
vv                        PPTC7 MUTATED PPTC7 WILD-TYPE
  MINIMAL (T3)                        0              54
  MODERATE/ADVANCED (T4A)             0               3
  NONE                                3             170
                 vv
clus               N0  N1 N1A N1B  NX
  PPTC7 MUTATED     2   0   1   0   0
  PPTC7 WILD-TYPE 117  11  50  31  29
D12V8, multiclass
                 vv
clus               R0  R1  RX
  PPTC7 MUTATED     3   0   0
  PPTC7 WILD-TYPE 187  19  14
D12V9, multiclass
    clus
vv   PPTC7 MUTATED PPTC7 WILD-TYPE
  R0             3             187
  R1             0              19
  RX             0              14
D12V10, continuous
D12V11, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IVA STAGE IVC
  PPTC7 MUTATED         2        0         1         0         0
  PPTC7 WILD-TYPE     133       30        53        18         3
D12V12, multiclass
D12V13, binary
                 cls
clus                0   1
  PPTC7 MUTATED     2   1
  PPTC7 WILD-TYPE 121 108
[1] "tbl2"
                 cls
clus              [,1] [,2]
  PPTC7 MUTATED      2    1
  PPTC7 WILD-TYPE  121  108
            clus
vv           PPTC7 MUTATED PPTC7 WILD-TYPE
  MULTIFOCAL             2             121
  UNIFOCAL               1             108
D12V14, continuous

Clustering(13) Variable = LYPD3 MUTATION ANALYSIS
D13V1, continuous
D13V2, binary
                 cls
clus                0   1
  LYPD3 MUTATED     2   1
  LYPD3 WILD-TYPE 177  61
[1] "tbl2"
                 cls
clus              [,1] [,2]
  LYPD3 MUTATED      2    1
  LYPD3 WILD-TYPE  177   61
        clus
vv       LYPD3 MUTATED LYPD3 WILD-TYPE
  FEMALE             2             177
  MALE               1              61
                 vv
clus              OTHER THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  LYPD3 MUTATED       1                                             1
  LYPD3 WILD-TYPE    18                                           127
                 vv
clus              THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  LYPD3 MUTATED                                                                        0
  LYPD3 WILD-TYPE                                                                     71
                 vv
clus              THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  LYPD3 MUTATED                                                                     1
  LYPD3 WILD-TYPE                                                                  22
D13V3, multiclass
                                                                        clus
vv                                                                       LYPD3 MUTATED
  OTHER                                                                              1
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                      1
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)             0
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                1
                                                                        clus
vv                                                                       LYPD3 WILD-TYPE
  OTHER                                                                               18
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                      127
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)              71
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                 22
D13V4, binary
                 cls
clus                0   1
  LYPD3 MUTATED     0   3
  LYPD3 WILD-TYPE  12 226
[1] "tbl2"
                 cls
clus              [,1] [,2]
  LYPD3 MUTATED      0    3
  LYPD3 WILD-TYPE   12  226
     clus
vv    LYPD3 MUTATED LYPD3 WILD-TYPE
  NO              0              12
  YES             3             226
D13V5, binary
                 cls
clus                0   1
  LYPD3 MUTATED     3   0
  LYPD3 WILD-TYPE 198  10
[1] "tbl2"
                 cls
clus              [,1] [,2]
  LYPD3 MUTATED      3    0
  LYPD3 WILD-TYPE  198   10
     clus
vv    LYPD3 MUTATED LYPD3 WILD-TYPE
  NO              3             198
  YES             0              10
                 vv
clus               M0  M1  MX
  LYPD3 MUTATED     2   0   1
  LYPD3 WILD-TYPE  97   3 137
D13V6, multiclass
    clus
vv   LYPD3 MUTATED LYPD3 WILD-TYPE
  M0             2              97
  M1             0               3
  MX             1             137
                 vv
clus              MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  LYPD3 MUTATED              1                       0    2
  LYPD3 WILD-TYPE           53                       3  171
D13V7, multiclass
                         clus
vv                        LYPD3 MUTATED LYPD3 WILD-TYPE
  MINIMAL (T3)                        1              53
  MODERATE/ADVANCED (T4A)             0               3
  NONE                                2             171
                 vv
clus               N0  N1 N1A N1B  NX
  LYPD3 MUTATED     2   0   1   0   0
  LYPD3 WILD-TYPE 117  11  50  31  29
D13V8, multiclass
                 vv
clus               R0  R1  RX
  LYPD3 MUTATED     2   0   1
  LYPD3 WILD-TYPE 188  19  13
D13V9, multiclass
    clus
vv   LYPD3 MUTATED LYPD3 WILD-TYPE
  R0             2             188
  R1             0              19
  RX             1              13
D13V10, continuous
D13V11, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IVA STAGE IVC
  LYPD3 MUTATED         2        0         1         0         0
  LYPD3 WILD-TYPE     133       30        53        18         3
D13V12, multiclass
D13V13, binary
                 cls
clus                0   1
  LYPD3 MUTATED     3   0
  LYPD3 WILD-TYPE 120 109
[1] "tbl2"
                 cls
clus              [,1] [,2]
  LYPD3 MUTATED      3    0
  LYPD3 WILD-TYPE  120  109
            clus
vv           LYPD3 MUTATED LYPD3 WILD-TYPE
  MULTIFOCAL             3             120
  UNIFOCAL               0             109
D13V14, continuous

Clustering(14) Variable = TMEM90B MUTATION ANALYSIS
D14V1, continuous
D14V2, binary
                   cls
clus                  0   1
  TMEM90B MUTATED     3   0
  TMEM90B WILD-TYPE 176  62
[1] "tbl2"
                   cls
clus                [,1] [,2]
  TMEM90B MUTATED      3    0
  TMEM90B WILD-TYPE  176   62
        clus
vv       TMEM90B MUTATED TMEM90B WILD-TYPE
  FEMALE               3               176
  MALE                 0                62
                   vv
clus                OTHER THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  TMEM90B MUTATED       1                                             2
  TMEM90B WILD-TYPE    18                                           126
                   vv
clus                THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  TMEM90B MUTATED                                                                        0
  TMEM90B WILD-TYPE                                                                     71
                   vv
clus                THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  TMEM90B MUTATED                                                                     0
  TMEM90B WILD-TYPE                                                                  23
D14V3, multiclass
                                                                        clus
vv                                                                       TMEM90B MUTATED
  OTHER                                                                                1
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                        2
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)               0
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                  0
                                                                        clus
vv                                                                       TMEM90B WILD-TYPE
  OTHER                                                                                 18
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                        126
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)                71
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                   23
D14V4, binary
                   cls
clus                  0   1
  TMEM90B MUTATED     0   3
  TMEM90B WILD-TYPE  12 226
[1] "tbl2"
                   cls
clus                [,1] [,2]
  TMEM90B MUTATED      0    3
  TMEM90B WILD-TYPE   12  226
     clus
vv    TMEM90B MUTATED TMEM90B WILD-TYPE
  NO                0                12
  YES               3               226
D14V5, binary
                   cls
clus                  0   1
  TMEM90B MUTATED     3   0
  TMEM90B WILD-TYPE 198  10
[1] "tbl2"
                   cls
clus                [,1] [,2]
  TMEM90B MUTATED      3    0
  TMEM90B WILD-TYPE  198   10
     clus
vv    TMEM90B MUTATED TMEM90B WILD-TYPE
  NO                3               198
  YES               0                10
                   vv
clus                 M0  M1  MX
  TMEM90B MUTATED     2   0   1
  TMEM90B WILD-TYPE  97   3 137
D14V6, multiclass
    clus
vv   TMEM90B MUTATED TMEM90B WILD-TYPE
  M0               2                97
  M1               0                 3
  MX               1               137
                   vv
clus                MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  TMEM90B MUTATED              2                       0    1
  TMEM90B WILD-TYPE           52                       3  172
D14V7, multiclass
                         clus
vv                        TMEM90B MUTATED TMEM90B WILD-TYPE
  MINIMAL (T3)                          2                52
  MODERATE/ADVANCED (T4A)               0                 3
  NONE                                  1               172
                   vv
clus                 N0  N1 N1A N1B  NX
  TMEM90B MUTATED     2   0   1   0   0
  TMEM90B WILD-TYPE 117  11  50  31  29
D14V8, multiclass
                   vv
clus                 R0  R1  RX
  TMEM90B MUTATED     3   0   0
  TMEM90B WILD-TYPE 187  19  14
D14V9, multiclass
    clus
vv   TMEM90B MUTATED TMEM90B WILD-TYPE
  R0               3               187
  R1               0                19
  RX               0                14
D14V10, continuous
D14V11, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IVA STAGE IVC
  TMEM90B MUTATED         1        0         2         0         0
  TMEM90B WILD-TYPE     134       30        52        18         3
D14V12, multiclass
D14V13, binary
                   cls
clus                  0   1
  TMEM90B MUTATED     3   0
  TMEM90B WILD-TYPE 120 109
[1] "tbl2"
                   cls
clus                [,1] [,2]
  TMEM90B MUTATED      3    0
  TMEM90B WILD-TYPE  120  109
            clus
vv           TMEM90B MUTATED TMEM90B WILD-TYPE
  MULTIFOCAL               3               120
  UNIFOCAL                 0               109
D14V14, continuous
[1] "Remove cluster labels:" "TMEM90B MUTATED"       
clus
  TMEM90B MUTATED TMEM90B WILD-TYPE 
                2               190 
       TCGA-BJ-A0Z2        TCGA-BJ-A0Z3        TCGA-BJ-A0Z9        TCGA-BJ-A0ZA 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-BJ-A0ZB        TCGA-BJ-A0ZC        TCGA-BJ-A0ZE        TCGA-BJ-A0ZF 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-BJ-A0ZG        TCGA-BJ-A0ZH        TCGA-BJ-A0ZJ        TCGA-BJ-A18Y 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-BJ-A190        TCGA-BJ-A191        TCGA-BJ-A192        TCGA-BJ-A28R 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-BJ-A28T        TCGA-BJ-A28V        TCGA-BJ-A290        TCGA-CE-A27D 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-CE-A3MD        TCGA-CE-A3ME        TCGA-DE-A0XZ        TCGA-DE-A0Y2 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-DE-A0Y3        TCGA-DE-A2OL        TCGA-DE-A3KN        TCGA-DJ-A13M 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-DJ-A13O        TCGA-DJ-A13R        TCGA-DJ-A13S        TCGA-DJ-A13U 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-DJ-A13V        TCGA-DJ-A13W        TCGA-DJ-A13X        TCGA-DJ-A1QD 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-DJ-A1QE        TCGA-DJ-A1QF        TCGA-DJ-A1QG        TCGA-DJ-A1QH 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-DJ-A1QI        TCGA-DJ-A1QL        TCGA-DJ-A1QM        TCGA-DJ-A1QN 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-DJ-A1QO        TCGA-DJ-A1QQ        TCGA-DJ-A2PN        TCGA-DJ-A2PO 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-DJ-A2PP        TCGA-DJ-A2PQ        TCGA-DJ-A2PR        TCGA-DJ-A2PS 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-DJ-A2PT        TCGA-DJ-A2PU        TCGA-DJ-A2PV        TCGA-DJ-A2PW 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-DJ-A2PY        TCGA-DJ-A2PZ        TCGA-DJ-A2Q0        TCGA-DJ-A2Q1 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-DJ-A2Q2        TCGA-DJ-A2Q3        TCGA-DJ-A2Q4        TCGA-DJ-A2Q5 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-DJ-A2Q6        TCGA-DJ-A2Q7        TCGA-DJ-A2Q8        TCGA-DJ-A2Q9 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-DJ-A2QA        TCGA-DJ-A2QC        TCGA-DJ-A3UM        TCGA-DJ-A3UN 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-DJ-A3UO        TCGA-DJ-A3UP        TCGA-DJ-A3UR        TCGA-DJ-A3US 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-DJ-A3UT        TCGA-DJ-A3UU        TCGA-DJ-A3UV        TCGA-DJ-A3UW 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-DJ-A3UX        TCGA-DJ-A3UY        TCGA-DO-A1JZ        TCGA-DO-A1K0 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-DO-A2HM        TCGA-E3-A3DY        TCGA-E3-A3DZ        TCGA-E3-A3E0 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-E3-A3E1        TCGA-E3-A3E2        TCGA-E3-A3E3        TCGA-EM-A1CS 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EM-A1CT        TCGA-EM-A1CU        TCGA-EM-A1CV        TCGA-EM-A1CW 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EM-A1YA        TCGA-EM-A1YB        TCGA-EM-A1YC        TCGA-EM-A1YD 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EM-A1YE        TCGA-EM-A22I        TCGA-EM-A22J        TCGA-EM-A22K 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EM-A22L        TCGA-EM-A22N        TCGA-EM-A22O        TCGA-EM-A22P 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EM-A22Q        TCGA-EM-A2CJ        TCGA-EM-A2CK        TCGA-EM-A2CL 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EM-A2CM        TCGA-EM-A2CN        TCGA-EM-A2CO        TCGA-EM-A2CP 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EM-A2CQ        TCGA-EM-A2CR        TCGA-EM-A2CT        TCGA-EM-A2CU 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EM-A2OW        TCGA-EM-A2OX        TCGA-EM-A2OY        TCGA-EM-A2P0 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EM-A2P1        TCGA-EM-A2P2        TCGA-EM-A2P3        TCGA-EM-A3AI 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EM-A3AJ        TCGA-EM-A3AK        TCGA-EM-A3AN        TCGA-EM-A3AO 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EM-A3AP        TCGA-EM-A3AQ        TCGA-EM-A3AR        TCGA-EM-A3O8 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EM-A3OB        TCGA-ET-A25G        TCGA-ET-A25I        TCGA-ET-A25J 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-ET-A25K        TCGA-ET-A25O        TCGA-ET-A25R        TCGA-ET-A2MY 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-ET-A2MZ        TCGA-ET-A2N0        TCGA-ET-A2N5        TCGA-ET-A39J 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-ET-A39M        TCGA-ET-A39N        TCGA-ET-A39O        TCGA-ET-A39P 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-ET-A39T        TCGA-ET-A3BN        TCGA-ET-A3BO        TCGA-ET-A3BP 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-ET-A3BQ        TCGA-ET-A3BS        TCGA-ET-A3BT        TCGA-ET-A3BU 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-ET-A3BV        TCGA-ET-A3BW        TCGA-ET-A3BX        TCGA-ET-A3DO 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-ET-A3DS        TCGA-ET-A3DT        TCGA-FE-A22Z        TCGA-FE-A230 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-FE-A232        TCGA-FE-A233        TCGA-FE-A234        TCGA-FE-A235 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-FE-A236        TCGA-FE-A237        TCGA-FE-A23A        TCGA-FE-A3PB 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-FE-A3PC        TCGA-FE-A3PD        TCGA-FY-A2QD        TCGA-FY-A3I4 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-FY-A3I5        TCGA-FY-A3ON        TCGA-FY-A3R8        TCGA-FY-A3W9 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-GE-A2C6        TCGA-IM-A3EB        TCGA-IM-A3ED        TCGA-IM-A3U2 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-IM-A3U3        TCGA-J8-A3O0 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 

Clustering(15) Variable = ZNF799 MUTATION ANALYSIS
D15V1, continuous
D15V2, binary
                  cls
clus                 0   1
  ZNF799 MUTATED     3   1
  ZNF799 WILD-TYPE 176  61
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ZNF799 MUTATED      3    1
  ZNF799 WILD-TYPE  176   61
        clus
vv       ZNF799 MUTATED ZNF799 WILD-TYPE
  FEMALE              3              176
  MALE                1               61
                  vv
clus               OTHER THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  ZNF799 MUTATED       0                                             3
  ZNF799 WILD-TYPE    19                                           125
                  vv
clus               THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  ZNF799 MUTATED                                                                        1
  ZNF799 WILD-TYPE                                                                     70
                  vv
clus               THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  ZNF799 MUTATED                                                                     0
  ZNF799 WILD-TYPE                                                                  23
D15V3, multiclass
                                                                        clus
vv                                                                       ZNF799 MUTATED
  OTHER                                                                               0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                       3
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)              1
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                 0
                                                                        clus
vv                                                                       ZNF799 WILD-TYPE
  OTHER                                                                                19
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                       125
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)               70
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                  23
D15V4, binary
                  cls
clus                 0   1
  ZNF799 MUTATED     0   4
  ZNF799 WILD-TYPE  12 225
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ZNF799 MUTATED      0    4
  ZNF799 WILD-TYPE   12  225
     clus
vv    ZNF799 MUTATED ZNF799 WILD-TYPE
  NO               0               12
  YES              4              225
D15V5, binary
                  cls
clus                 0   1
  ZNF799 MUTATED     3   0
  ZNF799 WILD-TYPE 198  10
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ZNF799 MUTATED      3    0
  ZNF799 WILD-TYPE  198   10
     clus
vv    ZNF799 MUTATED ZNF799 WILD-TYPE
  NO               3              198
  YES              0               10
                  vv
clus                M0  M1  MX
  ZNF799 MUTATED     2   0   2
  ZNF799 WILD-TYPE  97   3 136
D15V6, multiclass
    clus
vv   ZNF799 MUTATED ZNF799 WILD-TYPE
  M0              2               97
  M1              0                3
  MX              2              136
                  vv
clus               MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  ZNF799 MUTATED              0                       0    4
  ZNF799 WILD-TYPE           54                       3  169
D15V7, multiclass
                         clus
vv                        ZNF799 MUTATED ZNF799 WILD-TYPE
  MINIMAL (T3)                         0               54
  MODERATE/ADVANCED (T4A)              0                3
  NONE                                 4              169
                  vv
clus                N0  N1 N1A N1B  NX
  ZNF799 MUTATED     1   1   0   0   2
  ZNF799 WILD-TYPE 118  10  51  31  27
D15V8, multiclass
                  vv
clus                R0  R1  RX
  ZNF799 MUTATED     4   0   0
  ZNF799 WILD-TYPE 186  19  14
D15V9, multiclass
    clus
vv   ZNF799 MUTATED ZNF799 WILD-TYPE
  R0              4              186
  R1              0               19
  RX              0               14
D15V10, continuous
[1] "Remove cluster labels:" "ZNF799 MUTATED"        
clus
  ZNF799 MUTATED ZNF799 WILD-TYPE 
               2              189 
      TCGA-BJ-A0Z0       TCGA-BJ-A0Z3       TCGA-BJ-A0Z9       TCGA-BJ-A0ZA 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-BJ-A0ZB       TCGA-BJ-A0ZH       TCGA-BJ-A0ZJ       TCGA-BJ-A18Y 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-BJ-A190       TCGA-BJ-A191       TCGA-BJ-A28R       TCGA-BJ-A28T 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-BJ-A28X       TCGA-BJ-A290       TCGA-DE-A0XZ       TCGA-DE-A0Y2 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-DE-A0Y3       TCGA-DE-A3KN       TCGA-DJ-A13M       TCGA-DJ-A13O 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-DJ-A13P       TCGA-DJ-A13R       TCGA-DJ-A13T       TCGA-DJ-A13U 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-DJ-A13V       TCGA-DJ-A13W       TCGA-DJ-A13X       TCGA-DJ-A1QG 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-DJ-A1QH       TCGA-DJ-A1QM       TCGA-DJ-A2PO       TCGA-DJ-A2PP 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-DJ-A2PQ       TCGA-DJ-A2PR       TCGA-DJ-A2PS       TCGA-DJ-A2PT 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-DJ-A2PU       TCGA-DJ-A2PV       TCGA-DJ-A2PW       TCGA-DJ-A2PX 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-DJ-A2PY       TCGA-DJ-A2PZ       TCGA-DJ-A2Q0       TCGA-DJ-A2Q1 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-DJ-A2Q2       TCGA-DJ-A2Q3       TCGA-DJ-A2Q4       TCGA-DJ-A2Q5 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-DJ-A2Q6       TCGA-DJ-A2Q7       TCGA-DJ-A2Q8       TCGA-DJ-A2Q9 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-DJ-A2QA       TCGA-DJ-A2QB       TCGA-DJ-A3UK       TCGA-DJ-A3UM 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-DJ-A3UN       TCGA-DJ-A3UO       TCGA-DJ-A3UP       TCGA-DJ-A3UQ 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-DJ-A3UR       TCGA-DJ-A3UU       TCGA-DJ-A3UV       TCGA-DJ-A3UW 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-DJ-A3UX       TCGA-DO-A1K0       TCGA-DO-A2HM       TCGA-E3-A3DY 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-E3-A3DZ       TCGA-E3-A3E0       TCGA-E3-A3E1       TCGA-E3-A3E2 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-E3-A3E3       TCGA-E3-A3E5       TCGA-E8-A242       TCGA-E8-A2EA 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-EM-A1CS       TCGA-EM-A1CT       TCGA-EM-A1CU       TCGA-EM-A1CV 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-EM-A1CW       TCGA-EM-A1YA       TCGA-EM-A1YB       TCGA-EM-A1YC 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-EM-A1YD       TCGA-EM-A1YE       TCGA-EM-A22I       TCGA-EM-A22J 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-EM-A22K       TCGA-EM-A22L       TCGA-EM-A22M       TCGA-EM-A22N 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-EM-A22O       TCGA-EM-A22P       TCGA-EM-A22Q       TCGA-EM-A2CK 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-EM-A2CM       TCGA-EM-A2CN       TCGA-EM-A2CP       TCGA-EM-A2CQ 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-EM-A2CR       TCGA-EM-A2CT       TCGA-EM-A2CU       TCGA-EM-A2OV 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-EM-A2OW       TCGA-EM-A2OX       TCGA-EM-A2OY       TCGA-EM-A2P0 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-EM-A2P1       TCGA-EM-A2P2       TCGA-EM-A2P3       TCGA-EM-A3AJ 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-EM-A3AK       TCGA-EM-A3AN       TCGA-EM-A3AO       TCGA-EM-A3AQ 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-EM-A3AR       TCGA-EM-A3O8       TCGA-EM-A3OB       TCGA-ET-A25G 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-ET-A25I       TCGA-ET-A25J       TCGA-ET-A25K       TCGA-ET-A25O 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-ET-A2MZ       TCGA-ET-A2N0       TCGA-ET-A2N1       TCGA-ET-A2N4 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-ET-A39K       TCGA-ET-A39L       TCGA-ET-A39O       TCGA-ET-A39P 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-ET-A39R       TCGA-ET-A39S       TCGA-ET-A39T       TCGA-ET-A3BO 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-ET-A3BP       TCGA-ET-A3BQ       TCGA-ET-A3BS       TCGA-ET-A3BT 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-ET-A3BU       TCGA-ET-A3BV       TCGA-ET-A3BX       TCGA-ET-A3DQ 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-ET-A3DR       TCGA-ET-A3DS       TCGA-ET-A3DT       TCGA-ET-A3DU 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-ET-A3DV       TCGA-ET-A3DW       TCGA-FE-A22Z       TCGA-FE-A230 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-FE-A231       TCGA-FE-A232       TCGA-FE-A233       TCGA-FE-A234 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-FE-A235       TCGA-FE-A236       TCGA-FE-A237       TCGA-FE-A23A 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-FE-A3PB       TCGA-FE-A3PC       TCGA-FE-A3PD       TCGA-FK-A3S3 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-FK-A3SE       TCGA-FK-A3SG       TCGA-FK-A3SH       TCGA-FY-A2QD 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-FY-A3I4       TCGA-FY-A3I5       TCGA-FY-A3NM       TCGA-FY-A3NN 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-FY-A3ON       TCGA-FY-A3R6       TCGA-FY-A3R7       TCGA-FY-A3R9 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-FY-A3W9       TCGA-GE-A2C6       TCGA-H2-A26U       TCGA-H2-A2K9 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-H2-A3RH       TCGA-H2-A3RI       TCGA-IM-A3EB       TCGA-IM-A3ED 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-IM-A3U2       TCGA-IM-A3U3       TCGA-J8-A3NZ       TCGA-J8-A3O0 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-J8-A3O1 
"ZNF799 WILD-TYPE" 
D15V11, continuous
                  vv
clus               STAGE I STAGE II STAGE III STAGE IVA STAGE IVC
  ZNF799 MUTATED         3        1         0         0         0
  ZNF799 WILD-TYPE     132       29        54        18         3
D15V12, multiclass
D15V13, binary
                  cls
clus                 0   1
  ZNF799 MUTATED     1   3
  ZNF799 WILD-TYPE 122 106
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ZNF799 MUTATED      1    3
  ZNF799 WILD-TYPE  122  106
            clus
vv           ZNF799 MUTATED ZNF799 WILD-TYPE
  MULTIFOCAL              1              122
  UNIFOCAL                3              106
D15V14, continuous
[1] "Remove cluster labels:" "ZNF799 MUTATED"        
clus
  ZNF799 MUTATED ZNF799 WILD-TYPE 
               2              190 
      TCGA-BJ-A0Z2       TCGA-BJ-A0Z3       TCGA-BJ-A0Z9       TCGA-BJ-A0ZA 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-BJ-A0ZB       TCGA-BJ-A0ZC       TCGA-BJ-A0ZE       TCGA-BJ-A0ZF 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-BJ-A0ZG       TCGA-BJ-A0ZH       TCGA-BJ-A0ZJ       TCGA-BJ-A18Y 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-BJ-A190       TCGA-BJ-A191       TCGA-BJ-A192       TCGA-BJ-A28R 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-BJ-A28T       TCGA-BJ-A28V       TCGA-BJ-A290       TCGA-CE-A27D 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-CE-A3ME       TCGA-DE-A0XZ       TCGA-DE-A0Y2       TCGA-DE-A0Y3 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-DE-A2OL       TCGA-DE-A3KN       TCGA-DJ-A13M       TCGA-DJ-A13O 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-DJ-A13R       TCGA-DJ-A13S       TCGA-DJ-A13U       TCGA-DJ-A13V 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-DJ-A13W       TCGA-DJ-A13X       TCGA-DJ-A1QD       TCGA-DJ-A1QE 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-DJ-A1QF       TCGA-DJ-A1QG       TCGA-DJ-A1QH       TCGA-DJ-A1QI 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-DJ-A1QL       TCGA-DJ-A1QM       TCGA-DJ-A1QN       TCGA-DJ-A1QO 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-DJ-A1QQ       TCGA-DJ-A2PN       TCGA-DJ-A2PO       TCGA-DJ-A2PP 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-DJ-A2PQ       TCGA-DJ-A2PR       TCGA-DJ-A2PS       TCGA-DJ-A2PT 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-DJ-A2PU       TCGA-DJ-A2PV       TCGA-DJ-A2PW       TCGA-DJ-A2PY 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-DJ-A2PZ       TCGA-DJ-A2Q0       TCGA-DJ-A2Q1       TCGA-DJ-A2Q2 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-DJ-A2Q3       TCGA-DJ-A2Q4       TCGA-DJ-A2Q5       TCGA-DJ-A2Q6 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-DJ-A2Q7       TCGA-DJ-A2Q8       TCGA-DJ-A2Q9       TCGA-DJ-A2QA 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-DJ-A2QC       TCGA-DJ-A3UK       TCGA-DJ-A3UM       TCGA-DJ-A3UN 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-DJ-A3UO       TCGA-DJ-A3UP       TCGA-DJ-A3UQ       TCGA-DJ-A3UR 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-DJ-A3US       TCGA-DJ-A3UT       TCGA-DJ-A3UU       TCGA-DJ-A3UV 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-DJ-A3UW       TCGA-DJ-A3UX       TCGA-DJ-A3UY       TCGA-DO-A1JZ 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-DO-A1K0       TCGA-DO-A2HM       TCGA-E3-A3DY       TCGA-E3-A3DZ 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-E3-A3E0       TCGA-E3-A3E1       TCGA-E3-A3E2       TCGA-E3-A3E3 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-EM-A1CS       TCGA-EM-A1CT       TCGA-EM-A1CU       TCGA-EM-A1CV 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-EM-A1CW       TCGA-EM-A1YA       TCGA-EM-A1YB       TCGA-EM-A1YC 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-EM-A1YD       TCGA-EM-A1YE       TCGA-EM-A22I       TCGA-EM-A22J 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-EM-A22K       TCGA-EM-A22L       TCGA-EM-A22N       TCGA-EM-A22O 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-EM-A22P       TCGA-EM-A22Q       TCGA-EM-A2CJ       TCGA-EM-A2CK 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-EM-A2CL       TCGA-EM-A2CM       TCGA-EM-A2CN       TCGA-EM-A2CO 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-EM-A2CP       TCGA-EM-A2CQ       TCGA-EM-A2CR       TCGA-EM-A2CT 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-EM-A2CU       TCGA-EM-A2OW       TCGA-EM-A2OX       TCGA-EM-A2OY 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-EM-A2P0       TCGA-EM-A2P1       TCGA-EM-A2P2       TCGA-EM-A2P3 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-EM-A3AJ       TCGA-EM-A3AK       TCGA-EM-A3AN       TCGA-EM-A3AO 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-EM-A3AP       TCGA-EM-A3AQ       TCGA-EM-A3AR       TCGA-EM-A3O8 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-EM-A3OB       TCGA-ET-A25G       TCGA-ET-A25I       TCGA-ET-A25J 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-ET-A25K       TCGA-ET-A25O       TCGA-ET-A25R       TCGA-ET-A2MY 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-ET-A2MZ       TCGA-ET-A2N0       TCGA-ET-A2N5       TCGA-ET-A39J 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-ET-A39M       TCGA-ET-A39N       TCGA-ET-A39O       TCGA-ET-A39P 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-ET-A39T       TCGA-ET-A3BN       TCGA-ET-A3BO       TCGA-ET-A3BP 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-ET-A3BQ       TCGA-ET-A3BS       TCGA-ET-A3BT       TCGA-ET-A3BU 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-ET-A3BV       TCGA-ET-A3BW       TCGA-ET-A3BX       TCGA-ET-A3DO 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-ET-A3DS       TCGA-ET-A3DT       TCGA-FE-A22Z       TCGA-FE-A230 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-FE-A232       TCGA-FE-A233       TCGA-FE-A234       TCGA-FE-A235 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-FE-A236       TCGA-FE-A237       TCGA-FE-A23A       TCGA-FE-A3PB 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-FE-A3PC       TCGA-FE-A3PD       TCGA-FY-A2QD       TCGA-FY-A3I4 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-FY-A3I5       TCGA-FY-A3ON       TCGA-FY-A3R8       TCGA-FY-A3W9 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-GE-A2C6       TCGA-IM-A3EB       TCGA-IM-A3ED       TCGA-IM-A3U2 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 
      TCGA-IM-A3U3       TCGA-J8-A3O0 
"ZNF799 WILD-TYPE" "ZNF799 WILD-TYPE" 

Clustering(16) Variable = PPM1D MUTATION ANALYSIS
D16V1, continuous
D16V2, binary
                 cls
clus                0   1
  PPM1D MUTATED     4   1
  PPM1D WILD-TYPE 175  61
[1] "tbl2"
                 cls
clus              [,1] [,2]
  PPM1D MUTATED      4    1
  PPM1D WILD-TYPE  175   61
        clus
vv       PPM1D MUTATED PPM1D WILD-TYPE
  FEMALE             4             175
  MALE               1              61
                 vv
clus              OTHER THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  PPM1D MUTATED       0                                             4
  PPM1D WILD-TYPE    19                                           124
                 vv
clus              THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  PPM1D MUTATED                                                                        1
  PPM1D WILD-TYPE                                                                     70
                 vv
clus              THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  PPM1D MUTATED                                                                     0
  PPM1D WILD-TYPE                                                                  23
D16V3, multiclass
                                                                        clus
vv                                                                       PPM1D MUTATED
  OTHER                                                                              0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                      4
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)             1
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                0
                                                                        clus
vv                                                                       PPM1D WILD-TYPE
  OTHER                                                                               19
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                      124
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)              70
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                 23
D16V4, binary
                 cls
clus                0   1
  PPM1D MUTATED     0   5
  PPM1D WILD-TYPE  12 224
[1] "tbl2"
                 cls
clus              [,1] [,2]
  PPM1D MUTATED      0    5
  PPM1D WILD-TYPE   12  224
     clus
vv    PPM1D MUTATED PPM1D WILD-TYPE
  NO              0              12
  YES             5             224
D16V5, binary
                 cls
clus                0   1
  PPM1D MUTATED     4   0
  PPM1D WILD-TYPE 197  10
[1] "tbl2"
                 cls
clus              [,1] [,2]
  PPM1D MUTATED      4    0
  PPM1D WILD-TYPE  197   10
     clus
vv    PPM1D MUTATED PPM1D WILD-TYPE
  NO              4             197
  YES             0              10
                 vv
clus               M0  M1  MX
  PPM1D MUTATED     2   0   3
  PPM1D WILD-TYPE  97   3 135
D16V6, multiclass
    clus
vv   PPM1D MUTATED PPM1D WILD-TYPE
  M0             2              97
  M1             0               3
  MX             3             135
                 vv
clus              MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  PPM1D MUTATED              2                       0    3
  PPM1D WILD-TYPE           52                       3  170
D16V7, multiclass
                         clus
vv                        PPM1D MUTATED PPM1D WILD-TYPE
  MINIMAL (T3)                        2              52
  MODERATE/ADVANCED (T4A)             0               3
  NONE                                3             170
                 vv
clus               N0  N1 N1A N1B  NX
  PPM1D MUTATED     1   0   3   0   1
  PPM1D WILD-TYPE 118  11  48  31  28
D16V8, multiclass
                 vv
clus               R0  R1  RX
  PPM1D MUTATED     4   0   0
  PPM1D WILD-TYPE 186  19  14
D16V9, multiclass
    clus
vv   PPM1D MUTATED PPM1D WILD-TYPE
  R0             4             186
  R1             0              19
  RX             0              14
D16V10, continuous
D16V11, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IVA STAGE IVC
  PPM1D MUTATED         1        0         4         0         0
  PPM1D WILD-TYPE     134       30        50        18         3
D16V12, multiclass
D16V13, binary
                 cls
clus                0   1
  PPM1D MUTATED     3   2
  PPM1D WILD-TYPE 120 107
[1] "tbl2"
                 cls
clus              [,1] [,2]
  PPM1D MUTATED      3    2
  PPM1D WILD-TYPE  120  107
            clus
vv           PPM1D MUTATED PPM1D WILD-TYPE
  MULTIFOCAL             3             120
  UNIFOCAL               2             107
D16V14, continuous

Clustering(17) Variable = ATAD2 MUTATION ANALYSIS
D17V1, continuous
D17V2, binary
                 cls
clus                0   1
  ATAD2 MUTATED     3   0
  ATAD2 WILD-TYPE 176  62
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ATAD2 MUTATED      3    0
  ATAD2 WILD-TYPE  176   62
        clus
vv       ATAD2 MUTATED ATAD2 WILD-TYPE
  FEMALE             3             176
  MALE               0              62
                 vv
clus              OTHER THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  ATAD2 MUTATED       0                                             2
  ATAD2 WILD-TYPE    19                                           126
                 vv
clus              THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  ATAD2 MUTATED                                                                        1
  ATAD2 WILD-TYPE                                                                     70
                 vv
clus              THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  ATAD2 MUTATED                                                                     0
  ATAD2 WILD-TYPE                                                                  23
D17V3, multiclass
                                                                        clus
vv                                                                       ATAD2 MUTATED
  OTHER                                                                              0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                      2
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)             1
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                0
                                                                        clus
vv                                                                       ATAD2 WILD-TYPE
  OTHER                                                                               19
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                      126
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)              70
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                 23
D17V4, binary
                 cls
clus                0   1
  ATAD2 MUTATED     0   3
  ATAD2 WILD-TYPE  12 226
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ATAD2 MUTATED      0    3
  ATAD2 WILD-TYPE   12  226
     clus
vv    ATAD2 MUTATED ATAD2 WILD-TYPE
  NO              0              12
  YES             3             226
D17V5, binary
                 cls
clus                0   1
  ATAD2 MUTATED     3   0
  ATAD2 WILD-TYPE 198  10
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ATAD2 MUTATED      3    0
  ATAD2 WILD-TYPE  198   10
     clus
vv    ATAD2 MUTATED ATAD2 WILD-TYPE
  NO              3             198
  YES             0              10
                 vv
clus               M0  M1  MX
  ATAD2 MUTATED     1   0   2
  ATAD2 WILD-TYPE  98   3 136
D17V6, multiclass
    clus
vv   ATAD2 MUTATED ATAD2 WILD-TYPE
  M0             1              98
  M1             0               3
  MX             2             136
                 vv
clus              MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  ATAD2 MUTATED              0                       0    3
  ATAD2 WILD-TYPE           54                       3  170
D17V7, multiclass
                         clus
vv                        ATAD2 MUTATED ATAD2 WILD-TYPE
  MINIMAL (T3)                        0              54
  MODERATE/ADVANCED (T4A)             0               3
  NONE                                3             170
                 vv
clus               N0  N1 N1A N1B  NX
  ATAD2 MUTATED     3   0   0   0   0
  ATAD2 WILD-TYPE 116  11  51  31  29
D17V8, multiclass
                 vv
clus               R0  R1  RX
  ATAD2 MUTATED     3   0   0
  ATAD2 WILD-TYPE 187  19  14
D17V9, multiclass
    clus
vv   ATAD2 MUTATED ATAD2 WILD-TYPE
  R0             3             187
  R1             0              19
  RX             0              14
D17V10, continuous
D17V11, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IVA STAGE IVC
  ATAD2 MUTATED         3        0         0         0         0
  ATAD2 WILD-TYPE     132       30        54        18         3
D17V12, multiclass
D17V13, binary
                 cls
clus                0   1
  ATAD2 MUTATED     3   0
  ATAD2 WILD-TYPE 120 109
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ATAD2 MUTATED      3    0
  ATAD2 WILD-TYPE  120  109
            clus
vv           ATAD2 MUTATED ATAD2 WILD-TYPE
  MULTIFOCAL             3             120
  UNIFOCAL               0             109
D17V14, continuous

Clustering(18) Variable = KRAS MUTATION ANALYSIS
D18V1, continuous
D18V2, binary
                cls
clus               0   1
  KRAS MUTATED     3   0
  KRAS WILD-TYPE 176  62
[1] "tbl2"
                cls
clus             [,1] [,2]
  KRAS MUTATED      3    0
  KRAS WILD-TYPE  176   62
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  FEMALE            3            176
  MALE              0             62
                vv
clus             OTHER THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  KRAS MUTATED       0                                             0
  KRAS WILD-TYPE    19                                           128
                vv
clus             THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  KRAS MUTATED                                                                        3
  KRAS WILD-TYPE                                                                     68
                vv
clus             THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  KRAS MUTATED                                                                     0
  KRAS WILD-TYPE                                                                  23
D18V3, multiclass
                                                                        clus
vv                                                                       KRAS MUTATED
  OTHER                                                                             0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                     0
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)            3
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)               0
                                                                        clus
vv                                                                       KRAS WILD-TYPE
  OTHER                                                                              19
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                     128
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)             68
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                23
D18V4, binary
                cls
clus               0   1
  KRAS MUTATED     0   3
  KRAS WILD-TYPE  12 226
[1] "tbl2"
                cls
clus             [,1] [,2]
  KRAS MUTATED      0    3
  KRAS WILD-TYPE   12  226
     clus
vv    KRAS MUTATED KRAS WILD-TYPE
  NO             0             12
  YES            3            226
D18V5, binary
                cls
clus               0   1
  KRAS MUTATED     3   0
  KRAS WILD-TYPE 198  10
[1] "tbl2"
                cls
clus             [,1] [,2]
  KRAS MUTATED      3    0
  KRAS WILD-TYPE  198   10
     clus
vv    KRAS MUTATED KRAS WILD-TYPE
  NO             3            198
  YES            0             10
                vv
clus              M0  M1  MX
  KRAS MUTATED     2   0   1
  KRAS WILD-TYPE  97   3 137
D18V6, multiclass
    clus
vv   KRAS MUTATED KRAS WILD-TYPE
  M0            2             97
  M1            0              3
  MX            1            137
                vv
clus             MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  KRAS MUTATED              1                       0    1
  KRAS WILD-TYPE           53                       3  172
D18V7, multiclass
[1] "Remove cluster labels:" "KRAS MUTATED"          
clus
  KRAS MUTATED KRAS WILD-TYPE 
             2            228 
    TCGA-BJ-A0YZ     TCGA-BJ-A0Z0     TCGA-BJ-A0Z2     TCGA-BJ-A0Z3 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BJ-A0Z9     TCGA-BJ-A0ZA     TCGA-BJ-A0ZB     TCGA-BJ-A0ZC 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BJ-A0ZF     TCGA-BJ-A0ZG     TCGA-BJ-A0ZH     TCGA-BJ-A0ZJ 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BJ-A18Y     TCGA-BJ-A190     TCGA-BJ-A191     TCGA-BJ-A192 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BJ-A28X     TCGA-BJ-A290     TCGA-BJ-A3PR     TCGA-CE-A3MD 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DE-A0XZ     TCGA-DE-A0Y2     TCGA-DE-A2OL     TCGA-DE-A3KN 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A13M     TCGA-DJ-A13O     TCGA-DJ-A13P     TCGA-DJ-A13R 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A13S     TCGA-DJ-A13T     TCGA-DJ-A13U     TCGA-DJ-A13V 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A13W     TCGA-DJ-A13X     TCGA-DJ-A1QD     TCGA-DJ-A1QE 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A1QF     TCGA-DJ-A1QG     TCGA-DJ-A1QH     TCGA-DJ-A1QI 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A1QL     TCGA-DJ-A1QM     TCGA-DJ-A1QN     TCGA-DJ-A1QO 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A1QQ     TCGA-DJ-A2PN     TCGA-DJ-A2PO     TCGA-DJ-A2PP 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A2PQ     TCGA-DJ-A2PR     TCGA-DJ-A2PS     TCGA-DJ-A2PT 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A2PU     TCGA-DJ-A2PV     TCGA-DJ-A2PW     TCGA-DJ-A2PX 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A2PY     TCGA-DJ-A2PZ     TCGA-DJ-A2Q0     TCGA-DJ-A2Q1 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A2Q2     TCGA-DJ-A2Q3     TCGA-DJ-A2Q4     TCGA-DJ-A2Q5 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A2Q6     TCGA-DJ-A2Q7     TCGA-DJ-A2Q8     TCGA-DJ-A2Q9 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A2QA     TCGA-DJ-A2QB     TCGA-DJ-A2QC     TCGA-DJ-A3UK 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A3UM     TCGA-DJ-A3UN     TCGA-DJ-A3UO     TCGA-DJ-A3UP 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A3UQ     TCGA-DJ-A3UR     TCGA-DJ-A3US     TCGA-DJ-A3UT 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A3UU     TCGA-DJ-A3UV     TCGA-DJ-A3UW     TCGA-DJ-A3UX 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A3UY     TCGA-DO-A1JZ     TCGA-DO-A1K0     TCGA-DO-A2HM 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-E3-A3DY     TCGA-E3-A3DZ     TCGA-E3-A3E0     TCGA-E3-A3E1 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-E3-A3E2     TCGA-E3-A3E3     TCGA-E3-A3E5     TCGA-E8-A242 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-E8-A2EA     TCGA-EM-A1CS     TCGA-EM-A1CT     TCGA-EM-A1CU 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A1CV     TCGA-EM-A1CW     TCGA-EM-A1YA     TCGA-EM-A1YB 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A1YC     TCGA-EM-A1YD     TCGA-EM-A1YE     TCGA-EM-A22I 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A22J     TCGA-EM-A22K     TCGA-EM-A22L     TCGA-EM-A22M 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A22N     TCGA-EM-A22O     TCGA-EM-A22P     TCGA-EM-A22Q 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A2CJ     TCGA-EM-A2CK     TCGA-EM-A2CL     TCGA-EM-A2CM 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A2CN     TCGA-EM-A2CO     TCGA-EM-A2CP     TCGA-EM-A2CR 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A2CT     TCGA-EM-A2CU     TCGA-EM-A2OV     TCGA-EM-A2OW 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A2OX     TCGA-EM-A2OY     TCGA-EM-A2P0     TCGA-EM-A2P1 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A2P2     TCGA-EM-A2P3     TCGA-EM-A3AI     TCGA-EM-A3AJ 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A3AK     TCGA-EM-A3AN     TCGA-EM-A3AO     TCGA-EM-A3AP 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A3AQ     TCGA-EM-A3AR     TCGA-EM-A3O8     TCGA-EM-A3OB 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A25G     TCGA-ET-A25I     TCGA-ET-A25J     TCGA-ET-A25K 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A25O     TCGA-ET-A25R     TCGA-ET-A2MY     TCGA-ET-A2MZ 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A2N0     TCGA-ET-A2N1     TCGA-ET-A2N4     TCGA-ET-A2N5 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A39I     TCGA-ET-A39J     TCGA-ET-A39K     TCGA-ET-A39L 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A39M     TCGA-ET-A39N     TCGA-ET-A39O     TCGA-ET-A39P 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A39R     TCGA-ET-A39S     TCGA-ET-A39T     TCGA-ET-A3BN 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A3BO     TCGA-ET-A3BP     TCGA-ET-A3BQ     TCGA-ET-A3BS 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A3BT     TCGA-ET-A3BU     TCGA-ET-A3BV     TCGA-ET-A3BW 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A3BX     TCGA-ET-A3DO     TCGA-ET-A3DP     TCGA-ET-A3DQ 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A3DR     TCGA-ET-A3DS     TCGA-ET-A3DT     TCGA-ET-A3DU 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A3DV     TCGA-ET-A3DW     TCGA-FE-A22Z     TCGA-FE-A230 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-FE-A231     TCGA-FE-A232     TCGA-FE-A233     TCGA-FE-A234 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-FE-A235     TCGA-FE-A236     TCGA-FE-A237     TCGA-FE-A23A 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-FE-A3PB     TCGA-FE-A3PC     TCGA-FE-A3PD     TCGA-FK-A3S3 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-FK-A3SE     TCGA-FK-A3SG     TCGA-FK-A3SH     TCGA-FY-A2QD 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-FY-A3BL     TCGA-FY-A3I4     TCGA-FY-A3I5     TCGA-FY-A3NM 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-FY-A3NN     TCGA-FY-A3NP     TCGA-FY-A3ON     TCGA-FY-A3R6 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-FY-A3R7     TCGA-FY-A3R8     TCGA-FY-A3R9     TCGA-FY-A3RA 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-FY-A3W9     TCGA-FY-A3WA     TCGA-GE-A2C6     TCGA-H2-A26U 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-H2-A3RI     TCGA-IM-A3EB     TCGA-IM-A3ED     TCGA-IM-A3U2 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-IM-A3U3     TCGA-J8-A3NZ     TCGA-J8-A3O0     TCGA-J8-A3O1 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
                vv
clus              N0  N1 N1A N1B  NX
  KRAS MUTATED     2   0   1   0   0
  KRAS WILD-TYPE 117  11  50  31  29
D18V8, multiclass
                vv
clus              R0  R1  RX
  KRAS MUTATED     1   1   0
  KRAS WILD-TYPE 189  18  14
D18V9, multiclass
[1] "Remove cluster labels:" "KRAS MUTATED"          
clus
  KRAS MUTATED KRAS WILD-TYPE 
             2            221 
    TCGA-BJ-A0YZ     TCGA-BJ-A0Z0     TCGA-BJ-A0Z2     TCGA-BJ-A0Z3 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BJ-A0Z9     TCGA-BJ-A0ZA     TCGA-BJ-A0ZB     TCGA-BJ-A0ZC 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BJ-A0ZF     TCGA-BJ-A0ZG     TCGA-BJ-A0ZH     TCGA-BJ-A0ZJ 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BJ-A18Y     TCGA-BJ-A190     TCGA-BJ-A191     TCGA-BJ-A192 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BJ-A28X     TCGA-BJ-A3PR     TCGA-CE-A3MD     TCGA-DE-A0XZ 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DE-A0Y2     TCGA-DE-A0Y3     TCGA-DE-A2OL     TCGA-DE-A3KN 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A13M     TCGA-DJ-A13O     TCGA-DJ-A13P     TCGA-DJ-A13R 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A13S     TCGA-DJ-A13T     TCGA-DJ-A13U     TCGA-DJ-A13V 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A13W     TCGA-DJ-A13X     TCGA-DJ-A1QD     TCGA-DJ-A1QE 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A1QF     TCGA-DJ-A1QG     TCGA-DJ-A1QH     TCGA-DJ-A1QI 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A1QL     TCGA-DJ-A1QM     TCGA-DJ-A1QN     TCGA-DJ-A1QO 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A1QQ     TCGA-DJ-A2PN     TCGA-DJ-A2PO     TCGA-DJ-A2PP 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A2PQ     TCGA-DJ-A2PR     TCGA-DJ-A2PS     TCGA-DJ-A2PT 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A2PU     TCGA-DJ-A2PV     TCGA-DJ-A2PW     TCGA-DJ-A2PX 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A2PY     TCGA-DJ-A2PZ     TCGA-DJ-A2Q0     TCGA-DJ-A2Q1 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A2Q2     TCGA-DJ-A2Q3     TCGA-DJ-A2Q4     TCGA-DJ-A2Q5 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A2Q6     TCGA-DJ-A2Q7     TCGA-DJ-A2Q8     TCGA-DJ-A2Q9 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A2QA     TCGA-DJ-A2QB     TCGA-DJ-A2QC     TCGA-DJ-A3UK 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A3UM     TCGA-DJ-A3UN     TCGA-DJ-A3UO     TCGA-DJ-A3UP 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A3UQ     TCGA-DJ-A3UR     TCGA-DJ-A3US     TCGA-DJ-A3UT 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A3UU     TCGA-DJ-A3UV     TCGA-DJ-A3UW     TCGA-DJ-A3UX 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A3UY     TCGA-DO-A1JZ     TCGA-DO-A1K0     TCGA-DO-A2HM 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-E3-A3DY     TCGA-E3-A3DZ     TCGA-E3-A3E0     TCGA-E3-A3E1 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-E3-A3E2     TCGA-E3-A3E3     TCGA-E3-A3E5     TCGA-E8-A242 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-E8-A2EA     TCGA-EM-A1CS     TCGA-EM-A1CW     TCGA-EM-A1YA 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A1YB     TCGA-EM-A1YC     TCGA-EM-A1YD     TCGA-EM-A1YE 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A22I     TCGA-EM-A22J     TCGA-EM-A22K     TCGA-EM-A22L 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A22M     TCGA-EM-A22N     TCGA-EM-A22O     TCGA-EM-A22P 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A22Q     TCGA-EM-A2CJ     TCGA-EM-A2CK     TCGA-EM-A2CL 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A2CM     TCGA-EM-A2CN     TCGA-EM-A2CO     TCGA-EM-A2CP 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A2CR     TCGA-EM-A2CT     TCGA-EM-A2CU     TCGA-EM-A2OV 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A2OW     TCGA-EM-A2OX     TCGA-EM-A2OY     TCGA-EM-A2P0 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A2P1     TCGA-EM-A2P2     TCGA-EM-A2P3     TCGA-EM-A3AI 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A3AJ     TCGA-EM-A3AK     TCGA-EM-A3AN     TCGA-EM-A3AO 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A3AP     TCGA-EM-A3AQ     TCGA-EM-A3AR     TCGA-EM-A3O8 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A3OB     TCGA-ET-A25G     TCGA-ET-A25I     TCGA-ET-A25J 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A25K     TCGA-ET-A25O     TCGA-ET-A25R     TCGA-ET-A2MY 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A2MZ     TCGA-ET-A2N0     TCGA-ET-A2N1     TCGA-ET-A2N4 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A2N5     TCGA-ET-A39I     TCGA-ET-A39J     TCGA-ET-A39K 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A39L     TCGA-ET-A39M     TCGA-ET-A39N     TCGA-ET-A39O 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A39P     TCGA-ET-A39R     TCGA-ET-A39S     TCGA-ET-A39T 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A3BN     TCGA-ET-A3BO     TCGA-ET-A3BP     TCGA-ET-A3BQ 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A3BS     TCGA-ET-A3BT     TCGA-ET-A3BU     TCGA-ET-A3BV 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A3BW     TCGA-ET-A3BX     TCGA-ET-A3DO     TCGA-ET-A3DP 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A3DQ     TCGA-ET-A3DR     TCGA-ET-A3DS     TCGA-ET-A3DT 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A3DU     TCGA-ET-A3DV     TCGA-ET-A3DW     TCGA-FE-A22Z 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-FE-A230     TCGA-FE-A231     TCGA-FE-A232     TCGA-FE-A233 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-FE-A234     TCGA-FE-A235     TCGA-FE-A236     TCGA-FE-A237 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-FE-A23A     TCGA-FE-A3PB     TCGA-FE-A3PC     TCGA-FE-A3PD 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-FK-A3S3     TCGA-FK-A3SE     TCGA-FK-A3SG     TCGA-FK-A3SH 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-FY-A3BL     TCGA-FY-A3I4     TCGA-FY-A3I5     TCGA-FY-A3NM 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-FY-A3NN     TCGA-FY-A3NP     TCGA-FY-A3ON     TCGA-FY-A3R6 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-FY-A3R8     TCGA-FY-A3R9     TCGA-FY-A3RA     TCGA-FY-A3W9 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-FY-A3WA     TCGA-GE-A2C6     TCGA-IM-A3EB     TCGA-IM-A3ED 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-IM-A3U2     TCGA-IM-A3U3     TCGA-J8-A3NZ     TCGA-J8-A3O0 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-J8-A3O1 
"KRAS WILD-TYPE" 
D18V10, continuous
[1] "Remove cluster labels:" "KRAS MUTATED"          
clus
  KRAS MUTATED KRAS WILD-TYPE 
             2            189 
    TCGA-BJ-A0Z0     TCGA-BJ-A0Z3     TCGA-BJ-A0Z9     TCGA-BJ-A0ZA 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BJ-A0ZB     TCGA-BJ-A0ZH     TCGA-BJ-A0ZJ     TCGA-BJ-A18Y 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BJ-A190     TCGA-BJ-A191     TCGA-BJ-A28R     TCGA-BJ-A28T 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BJ-A28X     TCGA-BJ-A290     TCGA-BJ-A3PR     TCGA-CE-A3MD 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DE-A0XZ     TCGA-DE-A0Y2     TCGA-DE-A0Y3     TCGA-DE-A3KN 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A13M     TCGA-DJ-A13O     TCGA-DJ-A13P     TCGA-DJ-A13R 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A13T     TCGA-DJ-A13U     TCGA-DJ-A13V     TCGA-DJ-A13W 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A13X     TCGA-DJ-A1QG     TCGA-DJ-A1QH     TCGA-DJ-A1QM 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A2PO     TCGA-DJ-A2PP     TCGA-DJ-A2PQ     TCGA-DJ-A2PR 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A2PS     TCGA-DJ-A2PT     TCGA-DJ-A2PU     TCGA-DJ-A2PV 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A2PW     TCGA-DJ-A2PX     TCGA-DJ-A2PY     TCGA-DJ-A2PZ 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A2Q0     TCGA-DJ-A2Q1     TCGA-DJ-A2Q2     TCGA-DJ-A2Q3 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A2Q4     TCGA-DJ-A2Q5     TCGA-DJ-A2Q6     TCGA-DJ-A2Q7 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A2Q8     TCGA-DJ-A2Q9     TCGA-DJ-A2QA     TCGA-DJ-A2QB 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A3UK     TCGA-DJ-A3UM     TCGA-DJ-A3UN     TCGA-DJ-A3UO 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A3UP     TCGA-DJ-A3UQ     TCGA-DJ-A3UR     TCGA-DJ-A3UU 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A3UV     TCGA-DJ-A3UW     TCGA-DJ-A3UX     TCGA-DO-A1K0 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DO-A2HM     TCGA-E3-A3DY     TCGA-E3-A3DZ     TCGA-E3-A3E0 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-E3-A3E1     TCGA-E3-A3E2     TCGA-E3-A3E3     TCGA-E3-A3E5 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-E8-A242     TCGA-E8-A2EA     TCGA-EM-A1CS     TCGA-EM-A1CT 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A1CU     TCGA-EM-A1CV     TCGA-EM-A1CW     TCGA-EM-A1YA 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A1YB     TCGA-EM-A1YC     TCGA-EM-A1YD     TCGA-EM-A1YE 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A22I     TCGA-EM-A22J     TCGA-EM-A22K     TCGA-EM-A22L 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A22M     TCGA-EM-A22N     TCGA-EM-A22O     TCGA-EM-A22P 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A22Q     TCGA-EM-A2CK     TCGA-EM-A2CM     TCGA-EM-A2CN 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A2CP     TCGA-EM-A2CR     TCGA-EM-A2CT     TCGA-EM-A2CU 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A2OV     TCGA-EM-A2OW     TCGA-EM-A2OX     TCGA-EM-A2OY 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A2P0     TCGA-EM-A2P1     TCGA-EM-A2P2     TCGA-EM-A2P3 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A3AJ     TCGA-EM-A3AK     TCGA-EM-A3AN     TCGA-EM-A3AO 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A3AQ     TCGA-EM-A3AR     TCGA-EM-A3O8     TCGA-EM-A3OB 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A25G     TCGA-ET-A25I     TCGA-ET-A25J     TCGA-ET-A25K 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A25O     TCGA-ET-A2MZ     TCGA-ET-A2N0     TCGA-ET-A2N1 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A2N4     TCGA-ET-A39K     TCGA-ET-A39L     TCGA-ET-A39O 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A39P     TCGA-ET-A39R     TCGA-ET-A39S     TCGA-ET-A39T 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A3BO     TCGA-ET-A3BP     TCGA-ET-A3BQ     TCGA-ET-A3BS 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A3BT     TCGA-ET-A3BU     TCGA-ET-A3BV     TCGA-ET-A3BX 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A3DQ     TCGA-ET-A3DR     TCGA-ET-A3DS     TCGA-ET-A3DT 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A3DU     TCGA-ET-A3DV     TCGA-ET-A3DW     TCGA-FE-A22Z 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-FE-A230     TCGA-FE-A231     TCGA-FE-A232     TCGA-FE-A233 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-FE-A234     TCGA-FE-A235     TCGA-FE-A236     TCGA-FE-A237 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-FE-A23A     TCGA-FE-A3PB     TCGA-FE-A3PC     TCGA-FE-A3PD 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-FK-A3S3     TCGA-FK-A3SE     TCGA-FK-A3SG     TCGA-FK-A3SH 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-FY-A2QD     TCGA-FY-A3I4     TCGA-FY-A3I5     TCGA-FY-A3NM 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-FY-A3NN     TCGA-FY-A3ON     TCGA-FY-A3R6     TCGA-FY-A3R7 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-FY-A3R9     TCGA-FY-A3W9     TCGA-GE-A2C6     TCGA-H2-A26U 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-H2-A2K9     TCGA-H2-A3RI     TCGA-IM-A3EB     TCGA-IM-A3ED 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-IM-A3U2     TCGA-IM-A3U3     TCGA-J8-A3NZ     TCGA-J8-A3O0 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-J8-A3O1 
"KRAS WILD-TYPE" 
D18V11, continuous
                vv
clus             STAGE I STAGE II STAGE III STAGE IVA STAGE IVC
  KRAS MUTATED         2        0         1         0         0
  KRAS WILD-TYPE     133       30        53        18         3
D18V12, multiclass
D18V13, binary
                cls
clus               0   1
  KRAS MUTATED     2   1
  KRAS WILD-TYPE 121 108
[1] "tbl2"
                cls
clus             [,1] [,2]
  KRAS MUTATED      2    1
  KRAS WILD-TYPE  121  108
            clus
vv           KRAS MUTATED KRAS WILD-TYPE
  MULTIFOCAL            2            121
  UNIFOCAL              1            108
D18V14, continuous
[1] "Remove cluster labels:" "KRAS MUTATED"          
clus
  KRAS MUTATED KRAS WILD-TYPE 
             2            190 
    TCGA-BJ-A0Z2     TCGA-BJ-A0Z3     TCGA-BJ-A0Z9     TCGA-BJ-A0ZA 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BJ-A0ZB     TCGA-BJ-A0ZC     TCGA-BJ-A0ZF     TCGA-BJ-A0ZG 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BJ-A0ZH     TCGA-BJ-A0ZJ     TCGA-BJ-A18Y     TCGA-BJ-A190 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BJ-A191     TCGA-BJ-A192     TCGA-BJ-A28R     TCGA-BJ-A28T 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BJ-A28V     TCGA-BJ-A290     TCGA-CE-A27D     TCGA-CE-A3MD 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-CE-A3ME     TCGA-DE-A0XZ     TCGA-DE-A0Y2     TCGA-DE-A0Y3 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DE-A2OL     TCGA-DE-A3KN     TCGA-DJ-A13M     TCGA-DJ-A13O 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A13R     TCGA-DJ-A13S     TCGA-DJ-A13U     TCGA-DJ-A13V 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A13W     TCGA-DJ-A13X     TCGA-DJ-A1QD     TCGA-DJ-A1QE 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A1QF     TCGA-DJ-A1QG     TCGA-DJ-A1QH     TCGA-DJ-A1QI 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A1QL     TCGA-DJ-A1QM     TCGA-DJ-A1QN     TCGA-DJ-A1QO 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A1QQ     TCGA-DJ-A2PN     TCGA-DJ-A2PO     TCGA-DJ-A2PP 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A2PQ     TCGA-DJ-A2PR     TCGA-DJ-A2PS     TCGA-DJ-A2PT 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A2PU     TCGA-DJ-A2PV     TCGA-DJ-A2PW     TCGA-DJ-A2PY 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A2PZ     TCGA-DJ-A2Q0     TCGA-DJ-A2Q1     TCGA-DJ-A2Q2 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A2Q3     TCGA-DJ-A2Q4     TCGA-DJ-A2Q5     TCGA-DJ-A2Q6 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A2Q7     TCGA-DJ-A2Q8     TCGA-DJ-A2Q9     TCGA-DJ-A2QA 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A2QC     TCGA-DJ-A3UK     TCGA-DJ-A3UM     TCGA-DJ-A3UN 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A3UO     TCGA-DJ-A3UP     TCGA-DJ-A3UQ     TCGA-DJ-A3UR 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A3US     TCGA-DJ-A3UT     TCGA-DJ-A3UU     TCGA-DJ-A3UV 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A3UW     TCGA-DJ-A3UX     TCGA-DJ-A3UY     TCGA-DO-A1JZ 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DO-A1K0     TCGA-DO-A2HM     TCGA-E3-A3DY     TCGA-E3-A3DZ 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-E3-A3E0     TCGA-E3-A3E1     TCGA-E3-A3E2     TCGA-E3-A3E3 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A1CS     TCGA-EM-A1CT     TCGA-EM-A1CU     TCGA-EM-A1CV 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A1CW     TCGA-EM-A1YA     TCGA-EM-A1YB     TCGA-EM-A1YC 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A1YD     TCGA-EM-A1YE     TCGA-EM-A22I     TCGA-EM-A22J 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A22K     TCGA-EM-A22L     TCGA-EM-A22N     TCGA-EM-A22O 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A22P     TCGA-EM-A22Q     TCGA-EM-A2CJ     TCGA-EM-A2CK 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A2CL     TCGA-EM-A2CM     TCGA-EM-A2CN     TCGA-EM-A2CO 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A2CP     TCGA-EM-A2CR     TCGA-EM-A2CT     TCGA-EM-A2CU 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A2OW     TCGA-EM-A2OX     TCGA-EM-A2OY     TCGA-EM-A2P0 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A2P1     TCGA-EM-A2P2     TCGA-EM-A2P3     TCGA-EM-A3AI 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A3AJ     TCGA-EM-A3AK     TCGA-EM-A3AN     TCGA-EM-A3AO 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A3AP     TCGA-EM-A3AQ     TCGA-EM-A3AR     TCGA-EM-A3O8 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A3OB     TCGA-ET-A25G     TCGA-ET-A25I     TCGA-ET-A25J 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A25K     TCGA-ET-A25O     TCGA-ET-A25R     TCGA-ET-A2MY 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A2MZ     TCGA-ET-A2N0     TCGA-ET-A2N5     TCGA-ET-A39J 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A39M     TCGA-ET-A39N     TCGA-ET-A39O     TCGA-ET-A39P 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A39T     TCGA-ET-A3BN     TCGA-ET-A3BO     TCGA-ET-A3BP 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A3BQ     TCGA-ET-A3BS     TCGA-ET-A3BT     TCGA-ET-A3BU 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A3BV     TCGA-ET-A3BW     TCGA-ET-A3BX     TCGA-ET-A3DO 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A3DS     TCGA-ET-A3DT     TCGA-FE-A22Z     TCGA-FE-A230 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-FE-A232     TCGA-FE-A233     TCGA-FE-A234     TCGA-FE-A235 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-FE-A236     TCGA-FE-A237     TCGA-FE-A23A     TCGA-FE-A3PB 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-FE-A3PC     TCGA-FE-A3PD     TCGA-FY-A2QD     TCGA-FY-A3I4 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-FY-A3I5     TCGA-FY-A3ON     TCGA-FY-A3R8     TCGA-FY-A3W9 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-GE-A2C6     TCGA-IM-A3EB     TCGA-IM-A3ED     TCGA-IM-A3U2 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-IM-A3U3     TCGA-J8-A3O0 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" 

Clustering(19) Variable = SLC5A11 MUTATION ANALYSIS
D19V1, continuous
D19V2, binary
                   cls
clus                  0   1
  SLC5A11 MUTATED     3   0
  SLC5A11 WILD-TYPE 176  62
[1] "tbl2"
                   cls
clus                [,1] [,2]
  SLC5A11 MUTATED      3    0
  SLC5A11 WILD-TYPE  176   62
        clus
vv       SLC5A11 MUTATED SLC5A11 WILD-TYPE
  FEMALE               3               176
  MALE                 0                62
                   vv
clus                OTHER THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  SLC5A11 MUTATED       0                                             1
  SLC5A11 WILD-TYPE    19                                           127
                   vv
clus                THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  SLC5A11 MUTATED                                                                        2
  SLC5A11 WILD-TYPE                                                                     69
                   vv
clus                THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  SLC5A11 MUTATED                                                                     0
  SLC5A11 WILD-TYPE                                                                  23
D19V3, multiclass
                                                                        clus
vv                                                                       SLC5A11 MUTATED
  OTHER                                                                                0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                        1
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)               2
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                  0
                                                                        clus
vv                                                                       SLC5A11 WILD-TYPE
  OTHER                                                                                 19
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                        127
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)                69
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                   23
D19V4, binary
                   cls
clus                  0   1
  SLC5A11 MUTATED     0   3
  SLC5A11 WILD-TYPE  12 226
[1] "tbl2"
                   cls
clus                [,1] [,2]
  SLC5A11 MUTATED      0    3
  SLC5A11 WILD-TYPE   12  226
     clus
vv    SLC5A11 MUTATED SLC5A11 WILD-TYPE
  NO                0                12
  YES               3               226
D19V5, binary
                   cls
clus                  0   1
  SLC5A11 MUTATED     3   0
  SLC5A11 WILD-TYPE 198  10
[1] "tbl2"
                   cls
clus                [,1] [,2]
  SLC5A11 MUTATED      3    0
  SLC5A11 WILD-TYPE  198   10
     clus
vv    SLC5A11 MUTATED SLC5A11 WILD-TYPE
  NO                3               198
  YES               0                10
                   vv
clus                 M0  M1  MX
  SLC5A11 MUTATED     1   0   2
  SLC5A11 WILD-TYPE  98   3 136
D19V6, multiclass
    clus
vv   SLC5A11 MUTATED SLC5A11 WILD-TYPE
  M0               1                98
  M1               0                 3
  MX               2               136
                   vv
clus                MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  SLC5A11 MUTATED              0                       0    3
  SLC5A11 WILD-TYPE           54                       3  170
D19V7, multiclass
                         clus
vv                        SLC5A11 MUTATED SLC5A11 WILD-TYPE
  MINIMAL (T3)                          0                54
  MODERATE/ADVANCED (T4A)               0                 3
  NONE                                  3               170
                   vv
clus                 N0  N1 N1A N1B  NX
  SLC5A11 MUTATED     1   0   1   0   1
  SLC5A11 WILD-TYPE 118  11  50  31  28
D19V8, multiclass
                   vv
clus                 R0  R1  RX
  SLC5A11 MUTATED     3   0   0
  SLC5A11 WILD-TYPE 187  19  14
D19V9, multiclass
    clus
vv   SLC5A11 MUTATED SLC5A11 WILD-TYPE
  R0               3               187
  R1               0                19
  RX               0                14
D19V10, continuous
[1] "Remove cluster labels:" "SLC5A11 MUTATED"       
clus
  SLC5A11 MUTATED SLC5A11 WILD-TYPE 
                1               190 
       TCGA-BJ-A0Z0        TCGA-BJ-A0Z3        TCGA-BJ-A0Z9        TCGA-BJ-A0ZA 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-BJ-A0ZB        TCGA-BJ-A0ZH        TCGA-BJ-A0ZJ        TCGA-BJ-A18Y 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-BJ-A190        TCGA-BJ-A191        TCGA-BJ-A28R        TCGA-BJ-A28T 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-BJ-A28X        TCGA-BJ-A290        TCGA-BJ-A3PR        TCGA-CE-A3MD 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-DE-A0XZ        TCGA-DE-A0Y2        TCGA-DE-A0Y3        TCGA-DE-A3KN 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-DJ-A13M        TCGA-DJ-A13O        TCGA-DJ-A13P        TCGA-DJ-A13R 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-DJ-A13T        TCGA-DJ-A13U        TCGA-DJ-A13V        TCGA-DJ-A13W 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-DJ-A13X        TCGA-DJ-A1QG        TCGA-DJ-A1QH        TCGA-DJ-A1QM 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-DJ-A2PO        TCGA-DJ-A2PP        TCGA-DJ-A2PQ        TCGA-DJ-A2PR 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-DJ-A2PS        TCGA-DJ-A2PT        TCGA-DJ-A2PU        TCGA-DJ-A2PV 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-DJ-A2PW        TCGA-DJ-A2PX        TCGA-DJ-A2PY        TCGA-DJ-A2PZ 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-DJ-A2Q0        TCGA-DJ-A2Q1        TCGA-DJ-A2Q2        TCGA-DJ-A2Q3 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-DJ-A2Q4        TCGA-DJ-A2Q5        TCGA-DJ-A2Q6        TCGA-DJ-A2Q7 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-DJ-A2Q8        TCGA-DJ-A2Q9        TCGA-DJ-A2QA        TCGA-DJ-A2QB 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-DJ-A3UK        TCGA-DJ-A3UM        TCGA-DJ-A3UN        TCGA-DJ-A3UO 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-DJ-A3UP        TCGA-DJ-A3UQ        TCGA-DJ-A3UR        TCGA-DJ-A3UU 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-DJ-A3UV        TCGA-DJ-A3UW        TCGA-DJ-A3UX        TCGA-DO-A1K0 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-DO-A2HM        TCGA-E3-A3DY        TCGA-E3-A3DZ        TCGA-E3-A3E0 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-E3-A3E1        TCGA-E3-A3E2        TCGA-E3-A3E3        TCGA-E3-A3E5 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-E8-A242        TCGA-E8-A2EA        TCGA-EM-A1CS        TCGA-EM-A1CT 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-EM-A1CU        TCGA-EM-A1CV        TCGA-EM-A1CW        TCGA-EM-A1YA 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-EM-A1YB        TCGA-EM-A1YC        TCGA-EM-A1YD        TCGA-EM-A1YE 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-EM-A22I        TCGA-EM-A22J        TCGA-EM-A22K        TCGA-EM-A22L 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-EM-A22M        TCGA-EM-A22N        TCGA-EM-A22O        TCGA-EM-A22P 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-EM-A22Q        TCGA-EM-A2CK        TCGA-EM-A2CM        TCGA-EM-A2CN 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-EM-A2CP        TCGA-EM-A2CQ        TCGA-EM-A2CR        TCGA-EM-A2CT 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-EM-A2CU        TCGA-EM-A2OV        TCGA-EM-A2OW        TCGA-EM-A2OX 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-EM-A2OY        TCGA-EM-A2P0        TCGA-EM-A2P1        TCGA-EM-A2P2 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-EM-A2P3        TCGA-EM-A3AJ        TCGA-EM-A3AK        TCGA-EM-A3AN 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-EM-A3AO        TCGA-EM-A3AQ        TCGA-EM-A3AR        TCGA-EM-A3O8 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-EM-A3OB        TCGA-ET-A25G        TCGA-ET-A25I        TCGA-ET-A25J 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-ET-A25K        TCGA-ET-A25O        TCGA-ET-A2MZ        TCGA-ET-A2N0 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-ET-A2N1        TCGA-ET-A2N4        TCGA-ET-A39K        TCGA-ET-A39L 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-ET-A39O        TCGA-ET-A39P        TCGA-ET-A39R        TCGA-ET-A39S 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-ET-A39T        TCGA-ET-A3BO        TCGA-ET-A3BP        TCGA-ET-A3BQ 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-ET-A3BS        TCGA-ET-A3BT        TCGA-ET-A3BU        TCGA-ET-A3BV 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-ET-A3BX        TCGA-ET-A3DQ        TCGA-ET-A3DR        TCGA-ET-A3DS 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-ET-A3DT        TCGA-ET-A3DU        TCGA-ET-A3DV        TCGA-ET-A3DW 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-FE-A22Z        TCGA-FE-A230        TCGA-FE-A231        TCGA-FE-A232 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-FE-A233        TCGA-FE-A234        TCGA-FE-A235        TCGA-FE-A236 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-FE-A237        TCGA-FE-A23A        TCGA-FE-A3PB        TCGA-FE-A3PC 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-FE-A3PD        TCGA-FK-A3S3        TCGA-FK-A3SE        TCGA-FK-A3SG 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-FY-A2QD        TCGA-FY-A3I4        TCGA-FY-A3I5        TCGA-FY-A3NM 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-FY-A3NN        TCGA-FY-A3ON        TCGA-FY-A3R6        TCGA-FY-A3R7 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-FY-A3R9        TCGA-FY-A3W9        TCGA-GE-A2C6        TCGA-H2-A26U 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-H2-A2K9        TCGA-H2-A3RH        TCGA-H2-A3RI        TCGA-IM-A3EB 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-IM-A3ED        TCGA-IM-A3U2        TCGA-IM-A3U3        TCGA-J8-A3NZ 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-J8-A3O0        TCGA-J8-A3O1 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
D19V11, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IVA STAGE IVC
  SLC5A11 MUTATED         2        0         1         0         0
  SLC5A11 WILD-TYPE     133       30        53        18         3
D19V12, multiclass
D19V13, binary
                   cls
clus                  0   1
  SLC5A11 MUTATED     1   2
  SLC5A11 WILD-TYPE 122 107
[1] "tbl2"
                   cls
clus                [,1] [,2]
  SLC5A11 MUTATED      1    2
  SLC5A11 WILD-TYPE  122  107
            clus
vv           SLC5A11 MUTATED SLC5A11 WILD-TYPE
  MULTIFOCAL               1               122
  UNIFOCAL                 2               107
D19V14, continuous
[1] "Remove cluster labels:" "SLC5A11 MUTATED"       
clus
  SLC5A11 MUTATED SLC5A11 WILD-TYPE 
                2               190 
       TCGA-BJ-A0Z2        TCGA-BJ-A0Z3        TCGA-BJ-A0Z9        TCGA-BJ-A0ZA 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-BJ-A0ZB        TCGA-BJ-A0ZC        TCGA-BJ-A0ZE        TCGA-BJ-A0ZF 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-BJ-A0ZG        TCGA-BJ-A0ZH        TCGA-BJ-A0ZJ        TCGA-BJ-A18Y 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-BJ-A190        TCGA-BJ-A191        TCGA-BJ-A192        TCGA-BJ-A28R 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-BJ-A28T        TCGA-BJ-A28V        TCGA-BJ-A290        TCGA-CE-A27D 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-CE-A3MD        TCGA-CE-A3ME        TCGA-DE-A0XZ        TCGA-DE-A0Y2 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-DE-A0Y3        TCGA-DE-A2OL        TCGA-DE-A3KN        TCGA-DJ-A13M 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-DJ-A13O        TCGA-DJ-A13R        TCGA-DJ-A13U        TCGA-DJ-A13V 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-DJ-A13W        TCGA-DJ-A13X        TCGA-DJ-A1QD        TCGA-DJ-A1QE 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-DJ-A1QF        TCGA-DJ-A1QG        TCGA-DJ-A1QH        TCGA-DJ-A1QI 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-DJ-A1QL        TCGA-DJ-A1QM        TCGA-DJ-A1QN        TCGA-DJ-A1QO 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-DJ-A1QQ        TCGA-DJ-A2PN        TCGA-DJ-A2PO        TCGA-DJ-A2PP 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-DJ-A2PQ        TCGA-DJ-A2PR        TCGA-DJ-A2PS        TCGA-DJ-A2PT 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-DJ-A2PU        TCGA-DJ-A2PV        TCGA-DJ-A2PW        TCGA-DJ-A2PY 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-DJ-A2PZ        TCGA-DJ-A2Q0        TCGA-DJ-A2Q1        TCGA-DJ-A2Q2 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-DJ-A2Q3        TCGA-DJ-A2Q4        TCGA-DJ-A2Q5        TCGA-DJ-A2Q6 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-DJ-A2Q7        TCGA-DJ-A2Q8        TCGA-DJ-A2Q9        TCGA-DJ-A2QA 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-DJ-A2QC        TCGA-DJ-A3UK        TCGA-DJ-A3UM        TCGA-DJ-A3UN 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-DJ-A3UO        TCGA-DJ-A3UP        TCGA-DJ-A3UQ        TCGA-DJ-A3UR 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-DJ-A3US        TCGA-DJ-A3UT        TCGA-DJ-A3UU        TCGA-DJ-A3UV 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-DJ-A3UW        TCGA-DJ-A3UX        TCGA-DJ-A3UY        TCGA-DO-A1JZ 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-DO-A1K0        TCGA-DO-A2HM        TCGA-E3-A3DY        TCGA-E3-A3DZ 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-E3-A3E0        TCGA-E3-A3E1        TCGA-E3-A3E2        TCGA-E3-A3E3 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-EM-A1CS        TCGA-EM-A1CT        TCGA-EM-A1CU        TCGA-EM-A1CV 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-EM-A1CW        TCGA-EM-A1YA        TCGA-EM-A1YB        TCGA-EM-A1YC 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-EM-A1YD        TCGA-EM-A1YE        TCGA-EM-A22I        TCGA-EM-A22J 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-EM-A22K        TCGA-EM-A22L        TCGA-EM-A22N        TCGA-EM-A22O 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-EM-A22P        TCGA-EM-A22Q        TCGA-EM-A2CJ        TCGA-EM-A2CK 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-EM-A2CL        TCGA-EM-A2CM        TCGA-EM-A2CN        TCGA-EM-A2CO 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-EM-A2CP        TCGA-EM-A2CQ        TCGA-EM-A2CR        TCGA-EM-A2CT 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-EM-A2CU        TCGA-EM-A2OW        TCGA-EM-A2OX        TCGA-EM-A2OY 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-EM-A2P0        TCGA-EM-A2P1        TCGA-EM-A2P2        TCGA-EM-A2P3 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-EM-A3AI        TCGA-EM-A3AJ        TCGA-EM-A3AK        TCGA-EM-A3AN 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-EM-A3AO        TCGA-EM-A3AQ        TCGA-EM-A3AR        TCGA-EM-A3O8 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-EM-A3OB        TCGA-ET-A25G        TCGA-ET-A25I        TCGA-ET-A25J 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-ET-A25K        TCGA-ET-A25O        TCGA-ET-A25R        TCGA-ET-A2MY 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-ET-A2MZ        TCGA-ET-A2N0        TCGA-ET-A2N5        TCGA-ET-A39J 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-ET-A39M        TCGA-ET-A39N        TCGA-ET-A39O        TCGA-ET-A39P 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-ET-A39T        TCGA-ET-A3BN        TCGA-ET-A3BO        TCGA-ET-A3BP 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-ET-A3BQ        TCGA-ET-A3BS        TCGA-ET-A3BT        TCGA-ET-A3BU 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-ET-A3BV        TCGA-ET-A3BW        TCGA-ET-A3BX        TCGA-ET-A3DO 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-ET-A3DS        TCGA-ET-A3DT        TCGA-FE-A22Z        TCGA-FE-A230 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-FE-A232        TCGA-FE-A233        TCGA-FE-A234        TCGA-FE-A235 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-FE-A236        TCGA-FE-A237        TCGA-FE-A23A        TCGA-FE-A3PB 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-FE-A3PC        TCGA-FE-A3PD        TCGA-FY-A2QD        TCGA-FY-A3I4 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-FY-A3I5        TCGA-FY-A3ON        TCGA-FY-A3R8        TCGA-FY-A3W9 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-GE-A2C6        TCGA-IM-A3EB        TCGA-IM-A3ED        TCGA-IM-A3U2 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 
       TCGA-IM-A3U3        TCGA-J8-A3O0 
"SLC5A11 WILD-TYPE" "SLC5A11 WILD-TYPE" 

Clustering(20) Variable = PRG4 MUTATION ANALYSIS
D20V1, continuous
D20V2, binary
                cls
clus               0   1
  PRG4 MUTATED     2   1
  PRG4 WILD-TYPE 177  61
[1] "tbl2"
                cls
clus             [,1] [,2]
  PRG4 MUTATED      2    1
  PRG4 WILD-TYPE  177   61
        clus
vv       PRG4 MUTATED PRG4 WILD-TYPE
  FEMALE            2            177
  MALE              1             61
                vv
clus             OTHER THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  PRG4 MUTATED       1                                             2
  PRG4 WILD-TYPE    18                                           126
                vv
clus             THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  PRG4 MUTATED                                                                        0
  PRG4 WILD-TYPE                                                                     71
                vv
clus             THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  PRG4 MUTATED                                                                     0
  PRG4 WILD-TYPE                                                                  23
D20V3, multiclass
                                                                        clus
vv                                                                       PRG4 MUTATED
  OTHER                                                                             1
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                     2
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)            0
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)               0
                                                                        clus
vv                                                                       PRG4 WILD-TYPE
  OTHER                                                                              18
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                     126
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)             71
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                23
D20V4, binary
                cls
clus               0   1
  PRG4 MUTATED     0   3
  PRG4 WILD-TYPE  12 226
[1] "tbl2"
                cls
clus             [,1] [,2]
  PRG4 MUTATED      0    3
  PRG4 WILD-TYPE   12  226
     clus
vv    PRG4 MUTATED PRG4 WILD-TYPE
  NO             0             12
  YES            3            226
D20V5, binary
                cls
clus               0   1
  PRG4 MUTATED     3   0
  PRG4 WILD-TYPE 198  10
[1] "tbl2"
                cls
clus             [,1] [,2]
  PRG4 MUTATED      3    0
  PRG4 WILD-TYPE  198   10
     clus
vv    PRG4 MUTATED PRG4 WILD-TYPE
  NO             3            198
  YES            0             10
                vv
clus              M0  M1  MX
  PRG4 MUTATED     3   0   0
  PRG4 WILD-TYPE  96   3 138
D20V6, multiclass
    clus
vv   PRG4 MUTATED PRG4 WILD-TYPE
  M0            3             96
  M1            0              3
  MX            0            138
                vv
clus             MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  PRG4 MUTATED              0                       0    3
  PRG4 WILD-TYPE           54                       3  170
D20V7, multiclass
                         clus
vv                        PRG4 MUTATED PRG4 WILD-TYPE
  MINIMAL (T3)                       0             54
  MODERATE/ADVANCED (T4A)            0              3
  NONE                               3            170
                vv
clus              N0  N1 N1A N1B  NX
  PRG4 MUTATED     1   0   2   0   0
  PRG4 WILD-TYPE 118  11  49  31  29
D20V8, multiclass
                vv
clus              R0  R1  RX
  PRG4 MUTATED     3   0   0
  PRG4 WILD-TYPE 187  19  14
D20V9, multiclass
    clus
vv   PRG4 MUTATED PRG4 WILD-TYPE
  R0            3            187
  R1            0             19
  RX            0             14
D20V10, continuous
D20V11, continuous
                vv
clus             STAGE I STAGE II STAGE III STAGE IVA STAGE IVC
  PRG4 MUTATED         2        0         1         0         0
  PRG4 WILD-TYPE     133       30        53        18         3
D20V12, multiclass
D20V13, binary
                cls
clus               0   1
  PRG4 MUTATED     3   0
  PRG4 WILD-TYPE 120 109
[1] "tbl2"
                cls
clus             [,1] [,2]
  PRG4 MUTATED      3    0
  PRG4 WILD-TYPE  120  109
            clus
vv           PRG4 MUTATED PRG4 WILD-TYPE
  MULTIFOCAL            3            120
  UNIFOCAL              0            109
D20V14, continuous

Clustering(21) Variable = SLC26A11 MUTATION ANALYSIS
D21V1, continuous
D21V2, binary
                    cls
clus                   0   1
  SLC26A11 MUTATED     1   2
  SLC26A11 WILD-TYPE 178  60
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  SLC26A11 MUTATED      1    2
  SLC26A11 WILD-TYPE  178   60
        clus
vv       SLC26A11 MUTATED SLC26A11 WILD-TYPE
  FEMALE                1                178
  MALE                  2                 60
                    vv
clus                 OTHER THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  SLC26A11 MUTATED       1                                             1
  SLC26A11 WILD-TYPE    18                                           127
                    vv
clus                 THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  SLC26A11 MUTATED                                                                        1
  SLC26A11 WILD-TYPE                                                                     70
                    vv
clus                 THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  SLC26A11 MUTATED                                                                     0
  SLC26A11 WILD-TYPE                                                                  23
D21V3, multiclass
                                                                        clus
vv                                                                       SLC26A11 MUTATED
  OTHER                                                                                 1
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                         1
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)                1
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                   0
                                                                        clus
vv                                                                       SLC26A11 WILD-TYPE
  OTHER                                                                                  18
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                         127
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)                 70
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                    23
D21V4, binary
                    cls
clus                   0   1
  SLC26A11 MUTATED     0   3
  SLC26A11 WILD-TYPE  12 226
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  SLC26A11 MUTATED      0    3
  SLC26A11 WILD-TYPE   12  226
     clus
vv    SLC26A11 MUTATED SLC26A11 WILD-TYPE
  NO                 0                 12
  YES                3                226
D21V5, binary
                    cls
clus                   0   1
  SLC26A11 MUTATED     3   0
  SLC26A11 WILD-TYPE 198  10
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  SLC26A11 MUTATED      3    0
  SLC26A11 WILD-TYPE  198   10
     clus
vv    SLC26A11 MUTATED SLC26A11 WILD-TYPE
  NO                 3                198
  YES                0                 10
                    vv
clus                  M0  M1  MX
  SLC26A11 MUTATED     3   0   0
  SLC26A11 WILD-TYPE  96   3 138
D21V6, multiclass
    clus
vv   SLC26A11 MUTATED SLC26A11 WILD-TYPE
  M0                3                 96
  M1                0                  3
  MX                0                138
                    vv
clus                 MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  SLC26A11 MUTATED              0                       0    3
  SLC26A11 WILD-TYPE           54                       3  170
D21V7, multiclass
                         clus
vv                        SLC26A11 MUTATED SLC26A11 WILD-TYPE
  MINIMAL (T3)                           0                 54
  MODERATE/ADVANCED (T4A)                0                  3
  NONE                                   3                170
                    vv
clus                  N0  N1 N1A N1B  NX
  SLC26A11 MUTATED     2   0   1   0   0
  SLC26A11 WILD-TYPE 117  11  50  31  29
D21V8, multiclass
                    vv
clus                  R0  R1  RX
  SLC26A11 MUTATED     3   0   0
  SLC26A11 WILD-TYPE 187  19  14
D21V9, multiclass
    clus
vv   SLC26A11 MUTATED SLC26A11 WILD-TYPE
  R0                3                187
  R1                0                 19
  RX                0                 14
D21V10, continuous
D21V11, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IVA STAGE IVC
  SLC26A11 MUTATED         3        0         0         0         0
  SLC26A11 WILD-TYPE     132       30        54        18         3
D21V12, multiclass
D21V13, binary
                    cls
clus                   0   1
  SLC26A11 MUTATED     2   1
  SLC26A11 WILD-TYPE 121 108
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  SLC26A11 MUTATED      2    1
  SLC26A11 WILD-TYPE  121  108
            clus
vv           SLC26A11 MUTATED SLC26A11 WILD-TYPE
  MULTIFOCAL                2                121
  UNIFOCAL                  1                108
D21V14, continuous

Clustering(22) Variable = ANKRD30A MUTATION ANALYSIS
D22V1, continuous
D22V2, binary
                    cls
clus                   0   1
  ANKRD30A MUTATED     2   1
  ANKRD30A WILD-TYPE 177  61
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  ANKRD30A MUTATED      2    1
  ANKRD30A WILD-TYPE  177   61
        clus
vv       ANKRD30A MUTATED ANKRD30A WILD-TYPE
  FEMALE                2                177
  MALE                  1                 61
                    vv
clus                 OTHER THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  ANKRD30A MUTATED       0                                             2
  ANKRD30A WILD-TYPE    19                                           126
                    vv
clus                 THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  ANKRD30A MUTATED                                                                        1
  ANKRD30A WILD-TYPE                                                                     70
                    vv
clus                 THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  ANKRD30A MUTATED                                                                     0
  ANKRD30A WILD-TYPE                                                                  23
D22V3, multiclass
                                                                        clus
vv                                                                       ANKRD30A MUTATED
  OTHER                                                                                 0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                         2
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)                1
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                   0
                                                                        clus
vv                                                                       ANKRD30A WILD-TYPE
  OTHER                                                                                  19
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                         126
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)                 70
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                    23
D22V4, binary
                    cls
clus                   0   1
  ANKRD30A MUTATED     0   3
  ANKRD30A WILD-TYPE  12 226
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  ANKRD30A MUTATED      0    3
  ANKRD30A WILD-TYPE   12  226
     clus
vv    ANKRD30A MUTATED ANKRD30A WILD-TYPE
  NO                 0                 12
  YES                3                226
D22V5, binary
                    cls
clus                   0   1
  ANKRD30A MUTATED     2   0
  ANKRD30A WILD-TYPE 199  10
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  ANKRD30A MUTATED      2    0
  ANKRD30A WILD-TYPE  199   10
     clus
vv    ANKRD30A MUTATED ANKRD30A WILD-TYPE
  NO                 2                199
  YES                0                 10
                    vv
clus                  M0  M1  MX
  ANKRD30A MUTATED     2   0   1
  ANKRD30A WILD-TYPE  97   3 137
D22V6, multiclass
    clus
vv   ANKRD30A MUTATED ANKRD30A WILD-TYPE
  M0                2                 97
  M1                0                  3
  MX                1                137
                    vv
clus                 MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  ANKRD30A MUTATED              0                       0    2
  ANKRD30A WILD-TYPE           54                       3  171
D22V7, multiclass
[1] "Remove cluster labels:" "ANKRD30A MUTATED"      
clus
  ANKRD30A MUTATED ANKRD30A WILD-TYPE 
                 2                228 
        TCGA-BJ-A0YZ         TCGA-BJ-A0Z0         TCGA-BJ-A0Z2 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-BJ-A0Z3         TCGA-BJ-A0Z9         TCGA-BJ-A0ZA 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-BJ-A0ZB         TCGA-BJ-A0ZC         TCGA-BJ-A0ZE 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-BJ-A0ZF         TCGA-BJ-A0ZG         TCGA-BJ-A0ZH 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-BJ-A0ZJ         TCGA-BJ-A18Y         TCGA-BJ-A190 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-BJ-A191         TCGA-BJ-A192         TCGA-BJ-A28X 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-BJ-A290         TCGA-BJ-A3PR         TCGA-CE-A3MD 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DE-A0XZ         TCGA-DE-A0Y2         TCGA-DE-A2OL 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DE-A3KN         TCGA-DJ-A13M         TCGA-DJ-A13O 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A13P         TCGA-DJ-A13R         TCGA-DJ-A13S 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A13T         TCGA-DJ-A13U         TCGA-DJ-A13V 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A13W         TCGA-DJ-A13X         TCGA-DJ-A1QD 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A1QE         TCGA-DJ-A1QF         TCGA-DJ-A1QG 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A1QH         TCGA-DJ-A1QI         TCGA-DJ-A1QL 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A1QM         TCGA-DJ-A1QN         TCGA-DJ-A1QO 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A1QQ         TCGA-DJ-A2PN         TCGA-DJ-A2PO 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A2PP         TCGA-DJ-A2PQ         TCGA-DJ-A2PR 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A2PS         TCGA-DJ-A2PT         TCGA-DJ-A2PU 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A2PV         TCGA-DJ-A2PW         TCGA-DJ-A2PX 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A2PY         TCGA-DJ-A2PZ         TCGA-DJ-A2Q0 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A2Q1         TCGA-DJ-A2Q2         TCGA-DJ-A2Q3 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A2Q4         TCGA-DJ-A2Q5         TCGA-DJ-A2Q6 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A2Q7         TCGA-DJ-A2Q8         TCGA-DJ-A2Q9 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A2QA         TCGA-DJ-A2QB         TCGA-DJ-A2QC 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A3UK         TCGA-DJ-A3UM         TCGA-DJ-A3UN 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A3UO         TCGA-DJ-A3UP         TCGA-DJ-A3UQ 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A3UR         TCGA-DJ-A3US         TCGA-DJ-A3UT 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A3UU         TCGA-DJ-A3UV         TCGA-DJ-A3UW 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A3UX         TCGA-DJ-A3UY         TCGA-DO-A1JZ 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DO-A1K0         TCGA-DO-A2HM         TCGA-E3-A3DY 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-E3-A3DZ         TCGA-E3-A3E0         TCGA-E3-A3E2 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-E3-A3E3         TCGA-E3-A3E5         TCGA-E8-A242 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-E8-A2EA         TCGA-EM-A1CS         TCGA-EM-A1CT 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-EM-A1CU         TCGA-EM-A1CV         TCGA-EM-A1CW 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-EM-A1YA         TCGA-EM-A1YB         TCGA-EM-A1YC 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-EM-A1YD         TCGA-EM-A1YE         TCGA-EM-A22I 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-EM-A22J         TCGA-EM-A22K         TCGA-EM-A22L 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-EM-A22M         TCGA-EM-A22N         TCGA-EM-A22O 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-EM-A22P         TCGA-EM-A22Q         TCGA-EM-A2CJ 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-EM-A2CK         TCGA-EM-A2CL         TCGA-EM-A2CM 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-EM-A2CN         TCGA-EM-A2CO         TCGA-EM-A2CP 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-EM-A2CQ         TCGA-EM-A2CR         TCGA-EM-A2CT 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-EM-A2CU         TCGA-EM-A2OV         TCGA-EM-A2OW 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-EM-A2OY         TCGA-EM-A2P0         TCGA-EM-A2P1 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-EM-A2P2         TCGA-EM-A2P3         TCGA-EM-A3AI 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-EM-A3AJ         TCGA-EM-A3AK         TCGA-EM-A3AN 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-EM-A3AO         TCGA-EM-A3AP         TCGA-EM-A3AQ 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-EM-A3AR         TCGA-EM-A3O8         TCGA-EM-A3OB 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-ET-A25G         TCGA-ET-A25I         TCGA-ET-A25J 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-ET-A25K         TCGA-ET-A25O         TCGA-ET-A25R 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-ET-A2MY         TCGA-ET-A2MZ         TCGA-ET-A2N0 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-ET-A2N1         TCGA-ET-A2N4         TCGA-ET-A2N5 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-ET-A39I         TCGA-ET-A39J         TCGA-ET-A39K 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-ET-A39L         TCGA-ET-A39M         TCGA-ET-A39N 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-ET-A39O         TCGA-ET-A39P         TCGA-ET-A39R 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-ET-A39S         TCGA-ET-A39T         TCGA-ET-A3BN 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-ET-A3BO         TCGA-ET-A3BP         TCGA-ET-A3BQ 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-ET-A3BS         TCGA-ET-A3BT         TCGA-ET-A3BU 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-ET-A3BV         TCGA-ET-A3BW         TCGA-ET-A3BX 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-ET-A3DO         TCGA-ET-A3DP         TCGA-ET-A3DQ 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-ET-A3DR         TCGA-ET-A3DS         TCGA-ET-A3DT 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-ET-A3DU         TCGA-ET-A3DV         TCGA-ET-A3DW 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-FE-A22Z         TCGA-FE-A230         TCGA-FE-A231 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-FE-A232         TCGA-FE-A233         TCGA-FE-A234 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-FE-A235         TCGA-FE-A236         TCGA-FE-A237 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-FE-A23A         TCGA-FE-A3PB         TCGA-FE-A3PC 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-FE-A3PD         TCGA-FK-A3S3         TCGA-FK-A3SE 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-FK-A3SG         TCGA-FK-A3SH         TCGA-FY-A2QD 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-FY-A3BL         TCGA-FY-A3I4         TCGA-FY-A3I5 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-FY-A3NM         TCGA-FY-A3NN         TCGA-FY-A3NP 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-FY-A3ON         TCGA-FY-A3R6         TCGA-FY-A3R7 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-FY-A3R8         TCGA-FY-A3R9         TCGA-FY-A3RA 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-FY-A3W9         TCGA-FY-A3WA         TCGA-GE-A2C6 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-H2-A26U         TCGA-H2-A3RI         TCGA-IM-A3EB 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-IM-A3ED         TCGA-IM-A3U2         TCGA-IM-A3U3 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-J8-A3NZ         TCGA-J8-A3O0         TCGA-J8-A3O1 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
                    vv
clus                  N0  N1 N1A N1B  NX
  ANKRD30A MUTATED     2   0   0   1   0
  ANKRD30A WILD-TYPE 117  11  51  30  29
D22V8, multiclass
                    vv
clus                  R0  R1  RX
  ANKRD30A MUTATED     2   0   0
  ANKRD30A WILD-TYPE 188  19  14
D22V9, multiclass
[1] "Remove cluster labels:" "ANKRD30A MUTATED"      
clus
  ANKRD30A MUTATED ANKRD30A WILD-TYPE 
                 2                221 
        TCGA-BJ-A0YZ         TCGA-BJ-A0Z0         TCGA-BJ-A0Z2 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-BJ-A0Z3         TCGA-BJ-A0Z9         TCGA-BJ-A0ZA 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-BJ-A0ZB         TCGA-BJ-A0ZC         TCGA-BJ-A0ZE 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-BJ-A0ZF         TCGA-BJ-A0ZG         TCGA-BJ-A0ZH 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-BJ-A0ZJ         TCGA-BJ-A18Y         TCGA-BJ-A190 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-BJ-A191         TCGA-BJ-A192         TCGA-BJ-A28X 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-BJ-A3PR         TCGA-CE-A3MD         TCGA-DE-A0XZ 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DE-A0Y2         TCGA-DE-A0Y3         TCGA-DE-A2OL 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DE-A3KN         TCGA-DJ-A13M         TCGA-DJ-A13O 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A13P         TCGA-DJ-A13R         TCGA-DJ-A13S 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A13T         TCGA-DJ-A13U         TCGA-DJ-A13V 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A13W         TCGA-DJ-A13X         TCGA-DJ-A1QD 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A1QE         TCGA-DJ-A1QF         TCGA-DJ-A1QG 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A1QH         TCGA-DJ-A1QI         TCGA-DJ-A1QL 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A1QM         TCGA-DJ-A1QN         TCGA-DJ-A1QO 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A1QQ         TCGA-DJ-A2PN         TCGA-DJ-A2PO 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A2PP         TCGA-DJ-A2PQ         TCGA-DJ-A2PR 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A2PS         TCGA-DJ-A2PT         TCGA-DJ-A2PU 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A2PV         TCGA-DJ-A2PW         TCGA-DJ-A2PX 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A2PY         TCGA-DJ-A2PZ         TCGA-DJ-A2Q0 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A2Q1         TCGA-DJ-A2Q2         TCGA-DJ-A2Q3 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A2Q4         TCGA-DJ-A2Q5         TCGA-DJ-A2Q6 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A2Q7         TCGA-DJ-A2Q8         TCGA-DJ-A2Q9 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A2QA         TCGA-DJ-A2QB         TCGA-DJ-A2QC 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A3UK         TCGA-DJ-A3UM         TCGA-DJ-A3UN 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A3UO         TCGA-DJ-A3UP         TCGA-DJ-A3UQ 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A3UR         TCGA-DJ-A3US         TCGA-DJ-A3UT 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A3UU         TCGA-DJ-A3UV         TCGA-DJ-A3UW 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A3UX         TCGA-DJ-A3UY         TCGA-DO-A1JZ 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DO-A1K0         TCGA-DO-A2HM         TCGA-E3-A3DY 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-E3-A3DZ         TCGA-E3-A3E0         TCGA-E3-A3E2 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-E3-A3E3         TCGA-E3-A3E5         TCGA-E8-A242 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-E8-A2EA         TCGA-EM-A1CS         TCGA-EM-A1CW 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-EM-A1YA         TCGA-EM-A1YB         TCGA-EM-A1YC 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-EM-A1YD         TCGA-EM-A1YE         TCGA-EM-A22I 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-EM-A22J         TCGA-EM-A22K         TCGA-EM-A22L 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-EM-A22M         TCGA-EM-A22N         TCGA-EM-A22O 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-EM-A22P         TCGA-EM-A22Q         TCGA-EM-A2CJ 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-EM-A2CK         TCGA-EM-A2CL         TCGA-EM-A2CM 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-EM-A2CN         TCGA-EM-A2CO         TCGA-EM-A2CP 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-EM-A2CQ         TCGA-EM-A2CR         TCGA-EM-A2CT 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-EM-A2CU         TCGA-EM-A2OV         TCGA-EM-A2OW 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-EM-A2OY         TCGA-EM-A2P0         TCGA-EM-A2P1 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-EM-A2P2         TCGA-EM-A2P3         TCGA-EM-A3AI 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-EM-A3AJ         TCGA-EM-A3AK         TCGA-EM-A3AN 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-EM-A3AO         TCGA-EM-A3AP         TCGA-EM-A3AQ 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-EM-A3AR         TCGA-EM-A3O8         TCGA-EM-A3OB 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-ET-A25G         TCGA-ET-A25I         TCGA-ET-A25J 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-ET-A25K         TCGA-ET-A25O         TCGA-ET-A25R 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-ET-A2MY         TCGA-ET-A2MZ         TCGA-ET-A2N0 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-ET-A2N1         TCGA-ET-A2N4         TCGA-ET-A2N5 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-ET-A39I         TCGA-ET-A39J         TCGA-ET-A39K 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-ET-A39L         TCGA-ET-A39M         TCGA-ET-A39N 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-ET-A39O         TCGA-ET-A39P         TCGA-ET-A39R 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-ET-A39S         TCGA-ET-A39T         TCGA-ET-A3BN 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-ET-A3BO         TCGA-ET-A3BP         TCGA-ET-A3BQ 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-ET-A3BS         TCGA-ET-A3BT         TCGA-ET-A3BU 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-ET-A3BV         TCGA-ET-A3BW         TCGA-ET-A3BX 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-ET-A3DO         TCGA-ET-A3DP         TCGA-ET-A3DQ 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-ET-A3DR         TCGA-ET-A3DS         TCGA-ET-A3DT 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-ET-A3DU         TCGA-ET-A3DV         TCGA-ET-A3DW 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-FE-A22Z         TCGA-FE-A230         TCGA-FE-A231 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-FE-A232         TCGA-FE-A233         TCGA-FE-A234 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-FE-A235         TCGA-FE-A236         TCGA-FE-A237 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-FE-A23A         TCGA-FE-A3PB         TCGA-FE-A3PC 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-FE-A3PD         TCGA-FK-A3S3         TCGA-FK-A3SE 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-FK-A3SG         TCGA-FK-A3SH         TCGA-FY-A3BL 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-FY-A3I4         TCGA-FY-A3I5         TCGA-FY-A3NM 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-FY-A3NN         TCGA-FY-A3NP         TCGA-FY-A3ON 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-FY-A3R6         TCGA-FY-A3R8         TCGA-FY-A3R9 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-FY-A3RA         TCGA-FY-A3W9         TCGA-FY-A3WA 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-GE-A2C6         TCGA-IM-A3EB         TCGA-IM-A3ED 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-IM-A3U2         TCGA-IM-A3U3         TCGA-J8-A3NZ 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-J8-A3O0         TCGA-J8-A3O1 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
D22V10, continuous
D22V11, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IVA STAGE IVC
  ANKRD30A MUTATED         2        0         0         1         0
  ANKRD30A WILD-TYPE     133       30        54        17         3
D22V12, multiclass
D22V13, binary
                    cls
clus                   0   1
  ANKRD30A MUTATED     2   1
  ANKRD30A WILD-TYPE 121 108
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  ANKRD30A MUTATED      2    1
  ANKRD30A WILD-TYPE  121  108
            clus
vv           ANKRD30A MUTATED ANKRD30A WILD-TYPE
  MULTIFOCAL                2                121
  UNIFOCAL                  1                108
D22V14, continuous
[1] "Remove cluster labels:" "ANKRD30A MUTATED"      
clus
  ANKRD30A MUTATED ANKRD30A WILD-TYPE 
                 2                190 
        TCGA-BJ-A0Z2         TCGA-BJ-A0Z3         TCGA-BJ-A0Z9 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-BJ-A0ZA         TCGA-BJ-A0ZB         TCGA-BJ-A0ZC 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-BJ-A0ZE         TCGA-BJ-A0ZF         TCGA-BJ-A0ZG 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-BJ-A0ZH         TCGA-BJ-A0ZJ         TCGA-BJ-A18Y 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-BJ-A190         TCGA-BJ-A191         TCGA-BJ-A192 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-BJ-A28R         TCGA-BJ-A28T         TCGA-BJ-A28V 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-BJ-A290         TCGA-CE-A27D         TCGA-CE-A3MD 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-CE-A3ME         TCGA-DE-A0XZ         TCGA-DE-A0Y2 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DE-A0Y3         TCGA-DE-A2OL         TCGA-DE-A3KN 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A13M         TCGA-DJ-A13O         TCGA-DJ-A13R 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A13S         TCGA-DJ-A13U         TCGA-DJ-A13V 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A13W         TCGA-DJ-A13X         TCGA-DJ-A1QD 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A1QE         TCGA-DJ-A1QF         TCGA-DJ-A1QG 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A1QH         TCGA-DJ-A1QI         TCGA-DJ-A1QL 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A1QM         TCGA-DJ-A1QN         TCGA-DJ-A1QO 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A1QQ         TCGA-DJ-A2PN         TCGA-DJ-A2PO 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A2PP         TCGA-DJ-A2PQ         TCGA-DJ-A2PR 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A2PS         TCGA-DJ-A2PT         TCGA-DJ-A2PU 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A2PV         TCGA-DJ-A2PW         TCGA-DJ-A2PY 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A2PZ         TCGA-DJ-A2Q0         TCGA-DJ-A2Q1 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A2Q2         TCGA-DJ-A2Q3         TCGA-DJ-A2Q4 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A2Q5         TCGA-DJ-A2Q6         TCGA-DJ-A2Q7 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A2Q8         TCGA-DJ-A2Q9         TCGA-DJ-A2QA 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A2QC         TCGA-DJ-A3UK         TCGA-DJ-A3UM 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A3UN         TCGA-DJ-A3UO         TCGA-DJ-A3UP 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A3UQ         TCGA-DJ-A3UR         TCGA-DJ-A3US 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A3UT         TCGA-DJ-A3UU         TCGA-DJ-A3UV 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DJ-A3UW         TCGA-DJ-A3UX         TCGA-DJ-A3UY 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-DO-A1JZ         TCGA-DO-A1K0         TCGA-DO-A2HM 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-E3-A3DY         TCGA-E3-A3DZ         TCGA-E3-A3E0 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-E3-A3E2         TCGA-E3-A3E3         TCGA-EM-A1CS 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-EM-A1CT         TCGA-EM-A1CU         TCGA-EM-A1CV 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-EM-A1CW         TCGA-EM-A1YA         TCGA-EM-A1YB 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-EM-A1YC         TCGA-EM-A1YD         TCGA-EM-A1YE 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-EM-A22I         TCGA-EM-A22J         TCGA-EM-A22K 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-EM-A22L         TCGA-EM-A22N         TCGA-EM-A22O 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-EM-A22P         TCGA-EM-A22Q         TCGA-EM-A2CJ 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-EM-A2CK         TCGA-EM-A2CL         TCGA-EM-A2CM 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-EM-A2CN         TCGA-EM-A2CO         TCGA-EM-A2CP 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-EM-A2CQ         TCGA-EM-A2CR         TCGA-EM-A2CT 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-EM-A2CU         TCGA-EM-A2OW         TCGA-EM-A2OY 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-EM-A2P0         TCGA-EM-A2P1         TCGA-EM-A2P2 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-EM-A2P3         TCGA-EM-A3AI         TCGA-EM-A3AJ 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-EM-A3AK         TCGA-EM-A3AN         TCGA-EM-A3AO 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-EM-A3AP         TCGA-EM-A3AQ         TCGA-EM-A3AR 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-EM-A3O8         TCGA-EM-A3OB         TCGA-ET-A25G 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-ET-A25I         TCGA-ET-A25J         TCGA-ET-A25K 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-ET-A25O         TCGA-ET-A25R         TCGA-ET-A2MY 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-ET-A2MZ         TCGA-ET-A2N0         TCGA-ET-A2N5 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-ET-A39J         TCGA-ET-A39M         TCGA-ET-A39N 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-ET-A39O         TCGA-ET-A39P         TCGA-ET-A39T 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-ET-A3BN         TCGA-ET-A3BO         TCGA-ET-A3BP 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-ET-A3BQ         TCGA-ET-A3BS         TCGA-ET-A3BT 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-ET-A3BU         TCGA-ET-A3BV         TCGA-ET-A3BW 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-ET-A3BX         TCGA-ET-A3DO         TCGA-ET-A3DS 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-ET-A3DT         TCGA-FE-A22Z         TCGA-FE-A230 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-FE-A232         TCGA-FE-A233         TCGA-FE-A234 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-FE-A235         TCGA-FE-A236         TCGA-FE-A237 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-FE-A23A         TCGA-FE-A3PB         TCGA-FE-A3PC 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-FE-A3PD         TCGA-FY-A2QD         TCGA-FY-A3I4 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-FY-A3I5         TCGA-FY-A3ON         TCGA-FY-A3R8 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-FY-A3W9         TCGA-GE-A2C6         TCGA-IM-A3EB 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-IM-A3ED         TCGA-IM-A3U2         TCGA-IM-A3U3 
"ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" "ANKRD30A WILD-TYPE" 
        TCGA-J8-A3O0 
"ANKRD30A WILD-TYPE" 

Clustering(23) Variable = FAM155A MUTATION ANALYSIS
D23V1, continuous
D23V2, binary
                   cls
clus                  0   1
  FAM155A MUTATED     2   1
  FAM155A WILD-TYPE 177  61
[1] "tbl2"
                   cls
clus                [,1] [,2]
  FAM155A MUTATED      2    1
  FAM155A WILD-TYPE  177   61
        clus
vv       FAM155A MUTATED FAM155A WILD-TYPE
  FEMALE               2               177
  MALE                 1                61
                   vv
clus                OTHER THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  FAM155A MUTATED       1                                             2
  FAM155A WILD-TYPE    18                                           126
                   vv
clus                THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  FAM155A MUTATED                                                                        0
  FAM155A WILD-TYPE                                                                     71
                   vv
clus                THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  FAM155A MUTATED                                                                     0
  FAM155A WILD-TYPE                                                                  23
D23V3, multiclass
                                                                        clus
vv                                                                       FAM155A MUTATED
  OTHER                                                                                1
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                        2
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)               0
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                  0
                                                                        clus
vv                                                                       FAM155A WILD-TYPE
  OTHER                                                                                 18
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                        126
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)                71
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                   23
D23V4, binary
                   cls
clus                  0   1
  FAM155A MUTATED     0   3
  FAM155A WILD-TYPE  12 226
[1] "tbl2"
                   cls
clus                [,1] [,2]
  FAM155A MUTATED      0    3
  FAM155A WILD-TYPE   12  226
     clus
vv    FAM155A MUTATED FAM155A WILD-TYPE
  NO                0                12
  YES               3               226
D23V5, binary
                   cls
clus                  0   1
  FAM155A MUTATED     2   0
  FAM155A WILD-TYPE 199  10
[1] "tbl2"
                   cls
clus                [,1] [,2]
  FAM155A MUTATED      2    0
  FAM155A WILD-TYPE  199   10
     clus
vv    FAM155A MUTATED FAM155A WILD-TYPE
  NO                2               199
  YES               0                10
                   vv
clus                 M0  M1  MX
  FAM155A MUTATED     0   0   3
  FAM155A WILD-TYPE  99   3 135
D23V6, multiclass
    clus
vv   FAM155A MUTATED FAM155A WILD-TYPE
  M0               0                99
  M1               0                 3
  MX               3               135
                   vv
clus                MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  FAM155A MUTATED              0                       0    3
  FAM155A WILD-TYPE           54                       3  170
D23V7, multiclass
                         clus
vv                        FAM155A MUTATED FAM155A WILD-TYPE
  MINIMAL (T3)                          0                54
  MODERATE/ADVANCED (T4A)               0                 3
  NONE                                  3               170
                   vv
clus                 N0  N1 N1A N1B  NX
  FAM155A MUTATED     2   0   1   0   0
  FAM155A WILD-TYPE 117  11  50  31  29
D23V8, multiclass
                   vv
clus                 R0  R1  RX
  FAM155A MUTATED     3   0   0
  FAM155A WILD-TYPE 187  19  14
D23V9, multiclass
    clus
vv   FAM155A MUTATED FAM155A WILD-TYPE
  R0               3               187
  R1               0                19
  RX               0                14
D23V10, continuous
D23V11, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IVA STAGE IVC
  FAM155A MUTATED         2        0         1         0         0
  FAM155A WILD-TYPE     133       30        53        18         3
D23V12, multiclass
D23V13, binary
                   cls
clus                  0   1
  FAM155A MUTATED     3   0
  FAM155A WILD-TYPE 120 109
[1] "tbl2"
                   cls
clus                [,1] [,2]
  FAM155A MUTATED      3    0
  FAM155A WILD-TYPE  120  109
            clus
vv           FAM155A MUTATED FAM155A WILD-TYPE
  MULTIFOCAL               3               120
  UNIFOCAL                 0               109
D23V14, continuous
[1] "Remove cluster labels:" "FAM155A MUTATED"       
clus
  FAM155A MUTATED FAM155A WILD-TYPE 
                1               191 
       TCGA-BJ-A0Z2        TCGA-BJ-A0Z3        TCGA-BJ-A0Z9        TCGA-BJ-A0ZA 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-BJ-A0ZB        TCGA-BJ-A0ZC        TCGA-BJ-A0ZE        TCGA-BJ-A0ZF 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-BJ-A0ZG        TCGA-BJ-A0ZH        TCGA-BJ-A0ZJ        TCGA-BJ-A18Y 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-BJ-A190        TCGA-BJ-A191        TCGA-BJ-A192        TCGA-BJ-A28R 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-BJ-A28T        TCGA-BJ-A28V        TCGA-BJ-A290        TCGA-CE-A27D 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-CE-A3MD        TCGA-CE-A3ME        TCGA-DE-A0XZ        TCGA-DE-A0Y2 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-DE-A0Y3        TCGA-DE-A2OL        TCGA-DE-A3KN        TCGA-DJ-A13M 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-DJ-A13O        TCGA-DJ-A13R        TCGA-DJ-A13S        TCGA-DJ-A13U 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-DJ-A13V        TCGA-DJ-A13W        TCGA-DJ-A13X        TCGA-DJ-A1QD 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-DJ-A1QE        TCGA-DJ-A1QF        TCGA-DJ-A1QG        TCGA-DJ-A1QH 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-DJ-A1QI        TCGA-DJ-A1QL        TCGA-DJ-A1QM        TCGA-DJ-A1QN 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-DJ-A1QO        TCGA-DJ-A1QQ        TCGA-DJ-A2PN        TCGA-DJ-A2PO 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-DJ-A2PP        TCGA-DJ-A2PQ        TCGA-DJ-A2PR        TCGA-DJ-A2PS 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-DJ-A2PT        TCGA-DJ-A2PU        TCGA-DJ-A2PV        TCGA-DJ-A2PW 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-DJ-A2PY        TCGA-DJ-A2PZ        TCGA-DJ-A2Q0        TCGA-DJ-A2Q1 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-DJ-A2Q2        TCGA-DJ-A2Q3        TCGA-DJ-A2Q4        TCGA-DJ-A2Q5 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-DJ-A2Q6        TCGA-DJ-A2Q7        TCGA-DJ-A2Q8        TCGA-DJ-A2Q9 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-DJ-A2QA        TCGA-DJ-A2QC        TCGA-DJ-A3UK        TCGA-DJ-A3UM 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-DJ-A3UN        TCGA-DJ-A3UO        TCGA-DJ-A3UP        TCGA-DJ-A3UQ 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-DJ-A3UR        TCGA-DJ-A3US        TCGA-DJ-A3UT        TCGA-DJ-A3UU 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-DJ-A3UV        TCGA-DJ-A3UW        TCGA-DJ-A3UX        TCGA-DJ-A3UY 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-DO-A1JZ        TCGA-DO-A1K0        TCGA-DO-A2HM        TCGA-E3-A3DY 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-E3-A3DZ        TCGA-E3-A3E0        TCGA-E3-A3E1        TCGA-E3-A3E2 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-E3-A3E3        TCGA-EM-A1CT        TCGA-EM-A1CU        TCGA-EM-A1CV 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-EM-A1CW        TCGA-EM-A1YA        TCGA-EM-A1YB        TCGA-EM-A1YC 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-EM-A1YD        TCGA-EM-A1YE        TCGA-EM-A22I        TCGA-EM-A22J 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-EM-A22K        TCGA-EM-A22L        TCGA-EM-A22N        TCGA-EM-A22O 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-EM-A22P        TCGA-EM-A22Q        TCGA-EM-A2CJ        TCGA-EM-A2CK 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-EM-A2CL        TCGA-EM-A2CM        TCGA-EM-A2CN        TCGA-EM-A2CO 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-EM-A2CP        TCGA-EM-A2CQ        TCGA-EM-A2CR        TCGA-EM-A2CT 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-EM-A2CU        TCGA-EM-A2OW        TCGA-EM-A2OX        TCGA-EM-A2OY 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-EM-A2P0        TCGA-EM-A2P1        TCGA-EM-A2P2        TCGA-EM-A2P3 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-EM-A3AI        TCGA-EM-A3AJ        TCGA-EM-A3AK        TCGA-EM-A3AN 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-EM-A3AO        TCGA-EM-A3AP        TCGA-EM-A3AQ        TCGA-EM-A3AR 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-EM-A3O8        TCGA-EM-A3OB        TCGA-ET-A25G        TCGA-ET-A25I 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-ET-A25J        TCGA-ET-A25K        TCGA-ET-A25O        TCGA-ET-A25R 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-ET-A2MY        TCGA-ET-A2MZ        TCGA-ET-A2N0        TCGA-ET-A2N5 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-ET-A39J        TCGA-ET-A39M        TCGA-ET-A39N        TCGA-ET-A39O 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-ET-A39P        TCGA-ET-A39T        TCGA-ET-A3BN        TCGA-ET-A3BO 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-ET-A3BP        TCGA-ET-A3BQ        TCGA-ET-A3BS        TCGA-ET-A3BT 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-ET-A3BU        TCGA-ET-A3BV        TCGA-ET-A3BW        TCGA-ET-A3BX 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-ET-A3DO        TCGA-ET-A3DS        TCGA-ET-A3DT        TCGA-FE-A22Z 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-FE-A230        TCGA-FE-A232        TCGA-FE-A233        TCGA-FE-A234 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-FE-A235        TCGA-FE-A236        TCGA-FE-A237        TCGA-FE-A23A 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-FE-A3PB        TCGA-FE-A3PC        TCGA-FE-A3PD        TCGA-FY-A2QD 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-FY-A3I4        TCGA-FY-A3I5        TCGA-FY-A3ON        TCGA-FY-A3R8 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-FY-A3W9        TCGA-GE-A2C6        TCGA-IM-A3EB        TCGA-IM-A3ED 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 
       TCGA-IM-A3U2        TCGA-IM-A3U3        TCGA-J8-A3O0 
"FAM155A WILD-TYPE" "FAM155A WILD-TYPE" "FAM155A WILD-TYPE" 

Clustering(24) Variable = ZFHX3 MUTATION ANALYSIS
D24V1, continuous
D24V2, binary
                 cls
clus                0   1
  ZFHX3 MUTATED     4   1
  ZFHX3 WILD-TYPE 175  61
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ZFHX3 MUTATED      4    1
  ZFHX3 WILD-TYPE  175   61
        clus
vv       ZFHX3 MUTATED ZFHX3 WILD-TYPE
  FEMALE             4             175
  MALE               1              61
                 vv
clus              OTHER THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  ZFHX3 MUTATED       0                                             4
  ZFHX3 WILD-TYPE    19                                           124
                 vv
clus              THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  ZFHX3 MUTATED                                                                        0
  ZFHX3 WILD-TYPE                                                                     71
                 vv
clus              THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  ZFHX3 MUTATED                                                                     1
  ZFHX3 WILD-TYPE                                                                  22
D24V3, multiclass
                                                                        clus
vv                                                                       ZFHX3 MUTATED
  OTHER                                                                              0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                      4
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)             0
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                1
                                                                        clus
vv                                                                       ZFHX3 WILD-TYPE
  OTHER                                                                               19
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                      124
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)              71
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                 22
D24V4, binary
                 cls
clus                0   1
  ZFHX3 MUTATED     1   4
  ZFHX3 WILD-TYPE  11 225
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ZFHX3 MUTATED      1    4
  ZFHX3 WILD-TYPE   11  225
     clus
vv    ZFHX3 MUTATED ZFHX3 WILD-TYPE
  NO              1              11
  YES             4             225
D24V5, binary
                 cls
clus                0   1
  ZFHX3 MUTATED     5   0
  ZFHX3 WILD-TYPE 196  10
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ZFHX3 MUTATED      5    0
  ZFHX3 WILD-TYPE  196   10
     clus
vv    ZFHX3 MUTATED ZFHX3 WILD-TYPE
  NO              5             196
  YES             0              10
                 vv
clus               M0  M1  MX
  ZFHX3 MUTATED     2   0   3
  ZFHX3 WILD-TYPE  97   3 135
D24V6, multiclass
    clus
vv   ZFHX3 MUTATED ZFHX3 WILD-TYPE
  M0             2              97
  M1             0               3
  MX             3             135
                 vv
clus              MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  ZFHX3 MUTATED              3                       0    2
  ZFHX3 WILD-TYPE           51                       3  171
D24V7, multiclass
                         clus
vv                        ZFHX3 MUTATED ZFHX3 WILD-TYPE
  MINIMAL (T3)                        3              51
  MODERATE/ADVANCED (T4A)             0               3
  NONE                                2             171
                 vv
clus               N0  N1 N1A N1B  NX
  ZFHX3 MUTATED     1   0   2   2   0
  ZFHX3 WILD-TYPE 118  11  49  29  29
D24V8, multiclass
                 vv
clus               R0  R1  RX
  ZFHX3 MUTATED     4   1   0
  ZFHX3 WILD-TYPE 186  18  14
D24V9, multiclass
    clus
vv   ZFHX3 MUTATED ZFHX3 WILD-TYPE
  R0             4             186
  R1             1              18
  RX             0              14
D24V10, continuous
D24V11, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IVA STAGE IVC
  ZFHX3 MUTATED         2        0         3         0         0
  ZFHX3 WILD-TYPE     133       30        51        18         3
D24V12, multiclass
D24V13, binary
                 cls
clus                0   1
  ZFHX3 MUTATED     5   0
  ZFHX3 WILD-TYPE 118 109
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ZFHX3 MUTATED      5    0
  ZFHX3 WILD-TYPE  118  109
            clus
vv           ZFHX3 MUTATED ZFHX3 WILD-TYPE
  MULTIFOCAL             5             118
  UNIFOCAL               0             109
D24V14, continuous

Clustering(25) Variable = ARMCX3 MUTATION ANALYSIS
D25V1, continuous
D25V2, binary
                  cls
clus                 0   1
  ARMCX3 MUTATED     3   0
  ARMCX3 WILD-TYPE 176  62
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ARMCX3 MUTATED      3    0
  ARMCX3 WILD-TYPE  176   62
        clus
vv       ARMCX3 MUTATED ARMCX3 WILD-TYPE
  FEMALE              3              176
  MALE                0               62
                  vv
clus               OTHER THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  ARMCX3 MUTATED       0                                             2
  ARMCX3 WILD-TYPE    19                                           126
                  vv
clus               THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  ARMCX3 MUTATED                                                                        1
  ARMCX3 WILD-TYPE                                                                     70
                  vv
clus               THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  ARMCX3 MUTATED                                                                     0
  ARMCX3 WILD-TYPE                                                                  23
D25V3, multiclass
                                                                        clus
vv                                                                       ARMCX3 MUTATED
  OTHER                                                                               0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                       2
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)              1
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                 0
                                                                        clus
vv                                                                       ARMCX3 WILD-TYPE
  OTHER                                                                                19
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                       126
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)               70
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                  23
D25V4, binary
                  cls
clus                 0   1
  ARMCX3 MUTATED     0   3
  ARMCX3 WILD-TYPE  12 226
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ARMCX3 MUTATED      0    3
  ARMCX3 WILD-TYPE   12  226
     clus
vv    ARMCX3 MUTATED ARMCX3 WILD-TYPE
  NO               0               12
  YES              3              226
D25V5, binary
                  cls
clus                 0   1
  ARMCX3 MUTATED     2   0
  ARMCX3 WILD-TYPE 199  10
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ARMCX3 MUTATED      2    0
  ARMCX3 WILD-TYPE  199   10
     clus
vv    ARMCX3 MUTATED ARMCX3 WILD-TYPE
  NO               2              199
  YES              0               10
                  vv
clus                M0  M1  MX
  ARMCX3 MUTATED     1   0   2
  ARMCX3 WILD-TYPE  98   3 136
D25V6, multiclass
    clus
vv   ARMCX3 MUTATED ARMCX3 WILD-TYPE
  M0              1               98
  M1              0                3
  MX              2              136
                  vv
clus               MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  ARMCX3 MUTATED              0                       0    3
  ARMCX3 WILD-TYPE           54                       3  170
D25V7, multiclass
                         clus
vv                        ARMCX3 MUTATED ARMCX3 WILD-TYPE
  MINIMAL (T3)                         0               54
  MODERATE/ADVANCED (T4A)              0                3
  NONE                                 3              170
                  vv
clus                N0  N1 N1A N1B  NX
  ARMCX3 MUTATED     3   0   0   0   0
  ARMCX3 WILD-TYPE 116  11  51  31  29
D25V8, multiclass
                  vv
clus                R0  R1  RX
  ARMCX3 MUTATED     3   0   0
  ARMCX3 WILD-TYPE 187  19  14
D25V9, multiclass
    clus
vv   ARMCX3 MUTATED ARMCX3 WILD-TYPE
  R0              3              187
  R1              0               19
  RX              0               14
D25V10, continuous
[1] "Remove cluster labels:" "ARMCX3 MUTATED"        
clus
  ARMCX3 MUTATED ARMCX3 WILD-TYPE 
               2              189 
      TCGA-BJ-A0Z0       TCGA-BJ-A0Z3       TCGA-BJ-A0Z9       TCGA-BJ-A0ZA 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-BJ-A0ZB       TCGA-BJ-A0ZH       TCGA-BJ-A0ZJ       TCGA-BJ-A18Y 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-BJ-A190       TCGA-BJ-A191       TCGA-BJ-A28R       TCGA-BJ-A28T 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-BJ-A28X       TCGA-BJ-A290       TCGA-BJ-A3PR       TCGA-CE-A3MD 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DE-A0XZ       TCGA-DE-A0Y2       TCGA-DE-A0Y3       TCGA-DE-A3KN 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A13M       TCGA-DJ-A13O       TCGA-DJ-A13P       TCGA-DJ-A13R 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A13T       TCGA-DJ-A13U       TCGA-DJ-A13V       TCGA-DJ-A13W 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A13X       TCGA-DJ-A1QG       TCGA-DJ-A1QH       TCGA-DJ-A1QM 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A2PO       TCGA-DJ-A2PP       TCGA-DJ-A2PQ       TCGA-DJ-A2PR 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A2PS       TCGA-DJ-A2PT       TCGA-DJ-A2PU       TCGA-DJ-A2PV 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A2PW       TCGA-DJ-A2PX       TCGA-DJ-A2PY       TCGA-DJ-A2PZ 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A2Q0       TCGA-DJ-A2Q1       TCGA-DJ-A2Q2       TCGA-DJ-A2Q3 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A2Q4       TCGA-DJ-A2Q5       TCGA-DJ-A2Q6       TCGA-DJ-A2Q7 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A2Q8       TCGA-DJ-A2Q9       TCGA-DJ-A2QA       TCGA-DJ-A2QB 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A3UK       TCGA-DJ-A3UM       TCGA-DJ-A3UN       TCGA-DJ-A3UO 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A3UP       TCGA-DJ-A3UQ       TCGA-DJ-A3UR       TCGA-DJ-A3UU 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A3UV       TCGA-DJ-A3UW       TCGA-DJ-A3UX       TCGA-DO-A1K0 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DO-A2HM       TCGA-E3-A3DY       TCGA-E3-A3DZ       TCGA-E3-A3E0 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-E3-A3E1       TCGA-E3-A3E2       TCGA-E3-A3E3       TCGA-E3-A3E5 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-E8-A242       TCGA-E8-A2EA       TCGA-EM-A1CT       TCGA-EM-A1CU 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EM-A1CV       TCGA-EM-A1CW       TCGA-EM-A1YA       TCGA-EM-A1YB 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EM-A1YC       TCGA-EM-A1YD       TCGA-EM-A1YE       TCGA-EM-A22I 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EM-A22J       TCGA-EM-A22K       TCGA-EM-A22L       TCGA-EM-A22M 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EM-A22N       TCGA-EM-A22O       TCGA-EM-A22P       TCGA-EM-A22Q 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EM-A2CK       TCGA-EM-A2CM       TCGA-EM-A2CN       TCGA-EM-A2CP 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EM-A2CQ       TCGA-EM-A2CR       TCGA-EM-A2CT       TCGA-EM-A2CU 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EM-A2OV       TCGA-EM-A2OW       TCGA-EM-A2OX       TCGA-EM-A2OY 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EM-A2P0       TCGA-EM-A2P1       TCGA-EM-A2P2       TCGA-EM-A2P3 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EM-A3AJ       TCGA-EM-A3AK       TCGA-EM-A3AN       TCGA-EM-A3AO 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EM-A3AQ       TCGA-EM-A3AR       TCGA-EM-A3O8       TCGA-ET-A25G 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-ET-A25I       TCGA-ET-A25J       TCGA-ET-A25K       TCGA-ET-A25O 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-ET-A2MZ       TCGA-ET-A2N0       TCGA-ET-A2N1       TCGA-ET-A2N4 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-ET-A39K       TCGA-ET-A39L       TCGA-ET-A39O       TCGA-ET-A39P 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-ET-A39R       TCGA-ET-A39S       TCGA-ET-A39T       TCGA-ET-A3BO 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-ET-A3BP       TCGA-ET-A3BQ       TCGA-ET-A3BS       TCGA-ET-A3BT 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-ET-A3BU       TCGA-ET-A3BV       TCGA-ET-A3BX       TCGA-ET-A3DQ 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-ET-A3DR       TCGA-ET-A3DS       TCGA-ET-A3DT       TCGA-ET-A3DU 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-ET-A3DV       TCGA-ET-A3DW       TCGA-FE-A22Z       TCGA-FE-A230 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-FE-A231       TCGA-FE-A232       TCGA-FE-A233       TCGA-FE-A234 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-FE-A235       TCGA-FE-A236       TCGA-FE-A237       TCGA-FE-A23A 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-FE-A3PB       TCGA-FE-A3PC       TCGA-FE-A3PD       TCGA-FK-A3S3 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-FK-A3SE       TCGA-FK-A3SG       TCGA-FK-A3SH       TCGA-FY-A2QD 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-FY-A3I4       TCGA-FY-A3I5       TCGA-FY-A3NM       TCGA-FY-A3NN 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-FY-A3ON       TCGA-FY-A3R6       TCGA-FY-A3R7       TCGA-FY-A3R9 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-FY-A3W9       TCGA-GE-A2C6       TCGA-H2-A26U       TCGA-H2-A2K9 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-H2-A3RH       TCGA-H2-A3RI       TCGA-IM-A3EB       TCGA-IM-A3ED 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-IM-A3U2       TCGA-IM-A3U3       TCGA-J8-A3NZ       TCGA-J8-A3O0 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-J8-A3O1 
"ARMCX3 WILD-TYPE" 
D25V11, continuous
                  vv
clus               STAGE I STAGE II STAGE III STAGE IVA STAGE IVC
  ARMCX3 MUTATED         3        0         0         0         0
  ARMCX3 WILD-TYPE     132       30        54        18         3
D25V12, multiclass
D25V13, binary
                  cls
clus                 0   1
  ARMCX3 MUTATED     1   2
  ARMCX3 WILD-TYPE 122 107
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ARMCX3 MUTATED      1    2
  ARMCX3 WILD-TYPE  122  107
            clus
vv           ARMCX3 MUTATED ARMCX3 WILD-TYPE
  MULTIFOCAL              1              122
  UNIFOCAL                2              107
D25V14, continuous

Clustering(26) Variable = COL5A3 MUTATION ANALYSIS
D26V1, continuous
D26V2, binary
                  cls
clus                 0   1
  COL5A3 MUTATED     5   0
  COL5A3 WILD-TYPE 174  62
[1] "tbl2"
                  cls
clus               [,1] [,2]
  COL5A3 MUTATED      5    0
  COL5A3 WILD-TYPE  174   62
        clus
vv       COL5A3 MUTATED COL5A3 WILD-TYPE
  FEMALE              5              174
  MALE                0               62
                  vv
clus               OTHER THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  COL5A3 MUTATED       0                                             3
  COL5A3 WILD-TYPE    19                                           125
                  vv
clus               THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  COL5A3 MUTATED                                                                        1
  COL5A3 WILD-TYPE                                                                     70
                  vv
clus               THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  COL5A3 MUTATED                                                                     1
  COL5A3 WILD-TYPE                                                                  22
D26V3, multiclass
                                                                        clus
vv                                                                       COL5A3 MUTATED
  OTHER                                                                               0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                       3
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)              1
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                 1
                                                                        clus
vv                                                                       COL5A3 WILD-TYPE
  OTHER                                                                                19
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                       125
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)               70
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                  22
D26V4, binary
                  cls
clus                 0   1
  COL5A3 MUTATED     0   5
  COL5A3 WILD-TYPE  12 224
[1] "tbl2"
                  cls
clus               [,1] [,2]
  COL5A3 MUTATED      0    5
  COL5A3 WILD-TYPE   12  224
     clus
vv    COL5A3 MUTATED COL5A3 WILD-TYPE
  NO               0               12
  YES              5              224
D26V5, binary
                  cls
clus                 0   1
  COL5A3 MUTATED     4   0
  COL5A3 WILD-TYPE 197  10
[1] "tbl2"
                  cls
clus               [,1] [,2]
  COL5A3 MUTATED      4    0
  COL5A3 WILD-TYPE  197   10
     clus
vv    COL5A3 MUTATED COL5A3 WILD-TYPE
  NO               4              197
  YES              0               10
                  vv
clus                M0  M1  MX
  COL5A3 MUTATED     1   0   4
  COL5A3 WILD-TYPE  98   3 134
D26V6, multiclass
    clus
vv   COL5A3 MUTATED COL5A3 WILD-TYPE
  M0              1               98
  M1              0                3
  MX              4              134
                  vv
clus               MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  COL5A3 MUTATED              1                       0    4
  COL5A3 WILD-TYPE           53                       3  169
D26V7, multiclass
                         clus
vv                        COL5A3 MUTATED COL5A3 WILD-TYPE
  MINIMAL (T3)                         1               53
  MODERATE/ADVANCED (T4A)              0                3
  NONE                                 4              169
                  vv
clus                N0  N1 N1A N1B  NX
  COL5A3 MUTATED     3   0   1   1   0
  COL5A3 WILD-TYPE 116  11  50  30  29
D26V8, multiclass
                  vv
clus                R0  R1  RX
  COL5A3 MUTATED     4   1   0
  COL5A3 WILD-TYPE 186  18  14
D26V9, multiclass
    clus
vv   COL5A3 MUTATED COL5A3 WILD-TYPE
  R0              4              186
  R1              1               18
  RX              0               14
D26V10, continuous
D26V11, continuous
                  vv
clus               STAGE I STAGE II STAGE III STAGE IVA STAGE IVC
  COL5A3 MUTATED         3        1         0         1         0
  COL5A3 WILD-TYPE     132       29        54        17         3
D26V12, multiclass
D26V13, binary
                  cls
clus                 0   1
  COL5A3 MUTATED     4   1
  COL5A3 WILD-TYPE 119 108
[1] "tbl2"
                  cls
clus               [,1] [,2]
  COL5A3 MUTATED      4    1
  COL5A3 WILD-TYPE  119  108
            clus
vv           COL5A3 MUTATED COL5A3 WILD-TYPE
  MULTIFOCAL              4              119
  UNIFOCAL                1              108
D26V14, continuous

Clustering(27) Variable = CDC27 MUTATION ANALYSIS
D27V1, continuous
D27V2, binary
                 cls
clus                0   1
  CDC27 MUTATED     3   0
  CDC27 WILD-TYPE 176  62
[1] "tbl2"
                 cls
clus              [,1] [,2]
  CDC27 MUTATED      3    0
  CDC27 WILD-TYPE  176   62
        clus
vv       CDC27 MUTATED CDC27 WILD-TYPE
  FEMALE             3             176
  MALE               0              62
                 vv
clus              OTHER THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  CDC27 MUTATED       0                                             2
  CDC27 WILD-TYPE    19                                           126
                 vv
clus              THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  CDC27 MUTATED                                                                        1
  CDC27 WILD-TYPE                                                                     70
                 vv
clus              THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  CDC27 MUTATED                                                                     0
  CDC27 WILD-TYPE                                                                  23
D27V3, multiclass
                                                                        clus
vv                                                                       CDC27 MUTATED
  OTHER                                                                              0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                      2
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)             1
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                0
                                                                        clus
vv                                                                       CDC27 WILD-TYPE
  OTHER                                                                               19
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                      126
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)              70
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                 23
D27V4, binary
                 cls
clus                0   1
  CDC27 MUTATED     0   3
  CDC27 WILD-TYPE  12 226
[1] "tbl2"
                 cls
clus              [,1] [,2]
  CDC27 MUTATED      0    3
  CDC27 WILD-TYPE   12  226
     clus
vv    CDC27 MUTATED CDC27 WILD-TYPE
  NO              0              12
  YES             3             226
D27V5, binary
                 cls
clus                0   1
  CDC27 MUTATED     2   1
  CDC27 WILD-TYPE 199   9
[1] "tbl2"
                 cls
clus              [,1] [,2]
  CDC27 MUTATED      2    1
  CDC27 WILD-TYPE  199    9
     clus
vv    CDC27 MUTATED CDC27 WILD-TYPE
  NO              2             199
  YES             1               9
                 vv
clus               M0  M1  MX
  CDC27 MUTATED     2   0   1
  CDC27 WILD-TYPE  97   3 137
D27V6, multiclass
    clus
vv   CDC27 MUTATED CDC27 WILD-TYPE
  M0             2              97
  M1             0               3
  MX             1             137
                 vv
clus              MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  CDC27 MUTATED              1                       0    2
  CDC27 WILD-TYPE           53                       3  171
D27V7, multiclass
                         clus
vv                        CDC27 MUTATED CDC27 WILD-TYPE
  MINIMAL (T3)                        1              53
  MODERATE/ADVANCED (T4A)             0               3
  NONE                                2             171
                 vv
clus               N0  N1 N1A N1B  NX
  CDC27 MUTATED     3   0   0   0   0
  CDC27 WILD-TYPE 116  11  51  31  29
D27V8, multiclass
                 vv
clus               R0  R1  RX
  CDC27 MUTATED     3   0   0
  CDC27 WILD-TYPE 187  19  14
D27V9, multiclass
    clus
vv   CDC27 MUTATED CDC27 WILD-TYPE
  R0             3             187
  R1             0              19
  RX             0              14
D27V10, continuous
[1] "Remove cluster labels:" "CDC27 MUTATED"         
clus
  CDC27 MUTATED CDC27 WILD-TYPE 
              2             189 
     TCGA-BJ-A0Z0      TCGA-BJ-A0Z3      TCGA-BJ-A0Z9      TCGA-BJ-A0ZA 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-BJ-A0ZB      TCGA-BJ-A0ZH      TCGA-BJ-A0ZJ      TCGA-BJ-A18Y 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-BJ-A190      TCGA-BJ-A191      TCGA-BJ-A28R      TCGA-BJ-A28T 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-BJ-A28X      TCGA-BJ-A290      TCGA-BJ-A3PR      TCGA-CE-A3MD 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-DE-A0XZ      TCGA-DE-A0Y2      TCGA-DE-A0Y3      TCGA-DE-A3KN 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-DJ-A13M      TCGA-DJ-A13O      TCGA-DJ-A13R      TCGA-DJ-A13T 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-DJ-A13U      TCGA-DJ-A13V      TCGA-DJ-A13W      TCGA-DJ-A13X 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-DJ-A1QG      TCGA-DJ-A1QH      TCGA-DJ-A1QM      TCGA-DJ-A2PO 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-DJ-A2PP      TCGA-DJ-A2PQ      TCGA-DJ-A2PR      TCGA-DJ-A2PS 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-DJ-A2PT      TCGA-DJ-A2PU      TCGA-DJ-A2PV      TCGA-DJ-A2PW 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-DJ-A2PX      TCGA-DJ-A2PY      TCGA-DJ-A2PZ      TCGA-DJ-A2Q0 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-DJ-A2Q1      TCGA-DJ-A2Q2      TCGA-DJ-A2Q3      TCGA-DJ-A2Q4 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-DJ-A2Q5      TCGA-DJ-A2Q6      TCGA-DJ-A2Q7      TCGA-DJ-A2Q8 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-DJ-A2Q9      TCGA-DJ-A2QA      TCGA-DJ-A2QB      TCGA-DJ-A3UK 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-DJ-A3UM      TCGA-DJ-A3UN      TCGA-DJ-A3UO      TCGA-DJ-A3UP 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-DJ-A3UQ      TCGA-DJ-A3UR      TCGA-DJ-A3UU      TCGA-DJ-A3UV 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-DJ-A3UW      TCGA-DJ-A3UX      TCGA-DO-A1K0      TCGA-DO-A2HM 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-E3-A3DY      TCGA-E3-A3DZ      TCGA-E3-A3E0      TCGA-E3-A3E1 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-E3-A3E2      TCGA-E3-A3E3      TCGA-E3-A3E5      TCGA-E8-A242 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-E8-A2EA      TCGA-EM-A1CS      TCGA-EM-A1CT      TCGA-EM-A1CU 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-EM-A1CV      TCGA-EM-A1CW      TCGA-EM-A1YA      TCGA-EM-A1YB 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-EM-A1YC      TCGA-EM-A1YD      TCGA-EM-A1YE      TCGA-EM-A22I 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-EM-A22J      TCGA-EM-A22K      TCGA-EM-A22L      TCGA-EM-A22M 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-EM-A22N      TCGA-EM-A22O      TCGA-EM-A22P      TCGA-EM-A22Q 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-EM-A2CK      TCGA-EM-A2CM      TCGA-EM-A2CN      TCGA-EM-A2CP 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-EM-A2CQ      TCGA-EM-A2CR      TCGA-EM-A2CT      TCGA-EM-A2CU 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-EM-A2OV      TCGA-EM-A2OW      TCGA-EM-A2OX      TCGA-EM-A2OY 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-EM-A2P0      TCGA-EM-A2P1      TCGA-EM-A2P2      TCGA-EM-A2P3 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-EM-A3AJ      TCGA-EM-A3AK      TCGA-EM-A3AN      TCGA-EM-A3AO 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-EM-A3AQ      TCGA-EM-A3AR      TCGA-EM-A3O8      TCGA-ET-A25G 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-ET-A25I      TCGA-ET-A25J      TCGA-ET-A25K      TCGA-ET-A25O 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-ET-A2MZ      TCGA-ET-A2N0      TCGA-ET-A2N1      TCGA-ET-A2N4 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-ET-A39K      TCGA-ET-A39L      TCGA-ET-A39O      TCGA-ET-A39P 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-ET-A39R      TCGA-ET-A39S      TCGA-ET-A39T      TCGA-ET-A3BO 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-ET-A3BP      TCGA-ET-A3BQ      TCGA-ET-A3BS      TCGA-ET-A3BT 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-ET-A3BU      TCGA-ET-A3BV      TCGA-ET-A3BX      TCGA-ET-A3DQ 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-ET-A3DR      TCGA-ET-A3DS      TCGA-ET-A3DT      TCGA-ET-A3DU 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-ET-A3DV      TCGA-ET-A3DW      TCGA-FE-A22Z      TCGA-FE-A230 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-FE-A231      TCGA-FE-A232      TCGA-FE-A233      TCGA-FE-A234 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-FE-A235      TCGA-FE-A236      TCGA-FE-A237      TCGA-FE-A23A 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-FE-A3PB      TCGA-FE-A3PC      TCGA-FE-A3PD      TCGA-FK-A3S3 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-FK-A3SE      TCGA-FK-A3SG      TCGA-FK-A3SH      TCGA-FY-A2QD 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-FY-A3I4      TCGA-FY-A3I5      TCGA-FY-A3NM      TCGA-FY-A3NN 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-FY-A3ON      TCGA-FY-A3R6      TCGA-FY-A3R7      TCGA-FY-A3R9 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-FY-A3W9      TCGA-GE-A2C6      TCGA-H2-A26U      TCGA-H2-A2K9 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-H2-A3RH      TCGA-H2-A3RI      TCGA-IM-A3EB      TCGA-IM-A3ED 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-IM-A3U2      TCGA-IM-A3U3      TCGA-J8-A3NZ      TCGA-J8-A3O0 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-J8-A3O1 
"CDC27 WILD-TYPE" 
D27V11, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IVA STAGE IVC
  CDC27 MUTATED         1        1         1         0         0
  CDC27 WILD-TYPE     134       29        53        18         3
D27V12, multiclass
D27V13, binary
                 cls
clus                0   1
  CDC27 MUTATED     2   1
  CDC27 WILD-TYPE 121 108
[1] "tbl2"
                 cls
clus              [,1] [,2]
  CDC27 MUTATED      2    1
  CDC27 WILD-TYPE  121  108
            clus
vv           CDC27 MUTATED CDC27 WILD-TYPE
  MULTIFOCAL             2             121
  UNIFOCAL               1             108
D27V14, continuous
[1] "Remove cluster labels:" "CDC27 MUTATED"         
clus
  CDC27 MUTATED CDC27 WILD-TYPE 
              2             190 
     TCGA-BJ-A0Z2      TCGA-BJ-A0Z3      TCGA-BJ-A0Z9      TCGA-BJ-A0ZA 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-BJ-A0ZB      TCGA-BJ-A0ZC      TCGA-BJ-A0ZE      TCGA-BJ-A0ZF 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-BJ-A0ZG      TCGA-BJ-A0ZH      TCGA-BJ-A0ZJ      TCGA-BJ-A18Y 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-BJ-A190      TCGA-BJ-A191      TCGA-BJ-A192      TCGA-BJ-A28R 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-BJ-A28T      TCGA-BJ-A28V      TCGA-BJ-A290      TCGA-CE-A27D 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-CE-A3MD      TCGA-CE-A3ME      TCGA-DE-A0XZ      TCGA-DE-A0Y2 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-DE-A0Y3      TCGA-DE-A2OL      TCGA-DE-A3KN      TCGA-DJ-A13M 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-DJ-A13O      TCGA-DJ-A13R      TCGA-DJ-A13S      TCGA-DJ-A13U 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-DJ-A13V      TCGA-DJ-A13W      TCGA-DJ-A13X      TCGA-DJ-A1QD 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-DJ-A1QE      TCGA-DJ-A1QF      TCGA-DJ-A1QG      TCGA-DJ-A1QH 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-DJ-A1QL      TCGA-DJ-A1QM      TCGA-DJ-A1QN      TCGA-DJ-A1QO 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-DJ-A1QQ      TCGA-DJ-A2PN      TCGA-DJ-A2PO      TCGA-DJ-A2PP 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-DJ-A2PQ      TCGA-DJ-A2PR      TCGA-DJ-A2PS      TCGA-DJ-A2PT 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-DJ-A2PU      TCGA-DJ-A2PV      TCGA-DJ-A2PW      TCGA-DJ-A2PY 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-DJ-A2PZ      TCGA-DJ-A2Q0      TCGA-DJ-A2Q1      TCGA-DJ-A2Q2 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-DJ-A2Q3      TCGA-DJ-A2Q4      TCGA-DJ-A2Q5      TCGA-DJ-A2Q6 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-DJ-A2Q7      TCGA-DJ-A2Q8      TCGA-DJ-A2Q9      TCGA-DJ-A2QA 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-DJ-A2QC      TCGA-DJ-A3UK      TCGA-DJ-A3UM      TCGA-DJ-A3UN 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-DJ-A3UO      TCGA-DJ-A3UP      TCGA-DJ-A3UQ      TCGA-DJ-A3UR 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-DJ-A3US      TCGA-DJ-A3UT      TCGA-DJ-A3UU      TCGA-DJ-A3UV 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-DJ-A3UW      TCGA-DJ-A3UX      TCGA-DJ-A3UY      TCGA-DO-A1JZ 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-DO-A1K0      TCGA-DO-A2HM      TCGA-E3-A3DY      TCGA-E3-A3DZ 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-E3-A3E0      TCGA-E3-A3E1      TCGA-E3-A3E2      TCGA-E3-A3E3 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-EM-A1CS      TCGA-EM-A1CT      TCGA-EM-A1CU      TCGA-EM-A1CV 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-EM-A1CW      TCGA-EM-A1YA      TCGA-EM-A1YB      TCGA-EM-A1YC 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-EM-A1YD      TCGA-EM-A1YE      TCGA-EM-A22I      TCGA-EM-A22J 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-EM-A22K      TCGA-EM-A22L      TCGA-EM-A22N      TCGA-EM-A22O 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-EM-A22P      TCGA-EM-A22Q      TCGA-EM-A2CJ      TCGA-EM-A2CK 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-EM-A2CL      TCGA-EM-A2CM      TCGA-EM-A2CN      TCGA-EM-A2CO 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-EM-A2CP      TCGA-EM-A2CQ      TCGA-EM-A2CR      TCGA-EM-A2CT 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-EM-A2CU      TCGA-EM-A2OW      TCGA-EM-A2OX      TCGA-EM-A2OY 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-EM-A2P0      TCGA-EM-A2P1      TCGA-EM-A2P2      TCGA-EM-A2P3 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-EM-A3AI      TCGA-EM-A3AJ      TCGA-EM-A3AK      TCGA-EM-A3AN 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-EM-A3AO      TCGA-EM-A3AP      TCGA-EM-A3AQ      TCGA-EM-A3AR 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-EM-A3O8      TCGA-ET-A25G      TCGA-ET-A25I      TCGA-ET-A25J 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-ET-A25K      TCGA-ET-A25O      TCGA-ET-A25R      TCGA-ET-A2MY 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-ET-A2MZ      TCGA-ET-A2N0      TCGA-ET-A2N5      TCGA-ET-A39J 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-ET-A39M      TCGA-ET-A39N      TCGA-ET-A39O      TCGA-ET-A39P 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-ET-A39T      TCGA-ET-A3BN      TCGA-ET-A3BO      TCGA-ET-A3BP 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-ET-A3BQ      TCGA-ET-A3BS      TCGA-ET-A3BT      TCGA-ET-A3BU 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-ET-A3BV      TCGA-ET-A3BW      TCGA-ET-A3BX      TCGA-ET-A3DO 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-ET-A3DS      TCGA-ET-A3DT      TCGA-FE-A22Z      TCGA-FE-A230 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-FE-A232      TCGA-FE-A233      TCGA-FE-A234      TCGA-FE-A235 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-FE-A236      TCGA-FE-A237      TCGA-FE-A23A      TCGA-FE-A3PB 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-FE-A3PC      TCGA-FE-A3PD      TCGA-FY-A2QD      TCGA-FY-A3I4 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-FY-A3I5      TCGA-FY-A3ON      TCGA-FY-A3R8      TCGA-FY-A3W9 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-GE-A2C6      TCGA-IM-A3EB      TCGA-IM-A3ED      TCGA-IM-A3U2 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
     TCGA-IM-A3U3      TCGA-J8-A3O0 
"CDC27 WILD-TYPE" "CDC27 WILD-TYPE" 
                                      V1 
                                   "AGE" 
                                      V2 
                                "GENDER" 
                                      V3 
                     "HISTOLOGICAL.TYPE" 
                                      V4 
"RADIATIONS.RADIATION.REGIMENINDICATION" 
                                      V5 
                     "RADIATIONEXPOSURE" 
                                      V6 
                    "DISTANT.METASTASIS" 
                                      V7 
              "EXTRATHYROIDAL.EXTENSION" 
                                      V8 
                 "LYMPH.NODE.METASTASIS" 
                                      V9 
             "COMPLETENESS.OF.RESECTION" 
                                     V10 
                 "NUMBER.OF.LYMPH.NODES" 
                                     V11 
                       "TUMOR.STAGECODE" 
                                     V12 
                 "NEOPLASM.DISEASESTAGE" 
                                     V13 
                         "MULTIFOCALITY" 
                                     V14 
                            "TUMOR.SIZE" 
> q(save="no")
