
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/423694/STAD-TP.mutsig.cluster.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataPicker/STAD-TP/3353011/STAD-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=378, in cluster file=220, common to both=156
[1] "Reduce the number of clustering variables from 25 to 24."
[1]  24 156
[1] "TRIM48 MUTATION ANALYSIS"
[1] 3
  TRIM48 MUTATED TRIM48 WILD-TYPE 
              11              145 
  TRIM48 MUTATED TRIM48 WILD-TYPE 
              11              145 
[1] "PGM5 MUTATION ANALYSIS"
[1] 3
  PGM5 MUTATED PGM5 WILD-TYPE 
            15            141 
  PGM5 MUTATED PGM5 WILD-TYPE 
            15            141 
[1] "KRAS MUTATION ANALYSIS"
[1] 3
  KRAS MUTATED KRAS WILD-TYPE 
            16            140 
  KRAS MUTATED KRAS WILD-TYPE 
            16            140 
[1] "CBWD1 MUTATION ANALYSIS"
[1] 3
  CBWD1 MUTATED CBWD1 WILD-TYPE 
             18             138 
  CBWD1 MUTATED CBWD1 WILD-TYPE 
             18             138 
[1] "TP53 MUTATION ANALYSIS"
[1] 3
  TP53 MUTATED TP53 WILD-TYPE 
            74             82 
  TP53 MUTATED TP53 WILD-TYPE 
            74             82 
[1] "PIK3CA MUTATION ANALYSIS"
[1] 3
  PIK3CA MUTATED PIK3CA WILD-TYPE 
              35              121 
  PIK3CA MUTATED PIK3CA WILD-TYPE 
              35              121 
[1] "ARID1A MUTATION ANALYSIS"
[1] 3
  ARID1A MUTATED ARID1A WILD-TYPE 
              29              127 
  ARID1A MUTATED ARID1A WILD-TYPE 
              29              127 
[1] "SMAD4 MUTATION ANALYSIS"
[1] 3
  SMAD4 MUTATED SMAD4 WILD-TYPE 
             11             145 
  SMAD4 MUTATED SMAD4 WILD-TYPE 
             11             145 
[1] "RHOA MUTATION ANALYSIS"
[1] 3
  RHOA MUTATED RHOA WILD-TYPE 
            10            146 
  RHOA MUTATED RHOA WILD-TYPE 
            10            146 
[1] "MXRA8 MUTATION ANALYSIS"
[1] 3
  MXRA8 MUTATED MXRA8 WILD-TYPE 
              7             149 
  MXRA8 MUTATED MXRA8 WILD-TYPE 
              7             149 
[1] "IRF2 MUTATION ANALYSIS"
[1] 3
  IRF2 MUTATED IRF2 WILD-TYPE 
            11            145 
  IRF2 MUTATED IRF2 WILD-TYPE 
            11            145 
[1] "CDH1 MUTATION ANALYSIS"
[1] 3
  CDH1 MUTATED CDH1 WILD-TYPE 
            14            142 
  CDH1 MUTATED CDH1 WILD-TYPE 
            14            142 
[1] "PTEN MUTATION ANALYSIS"
[1] 3
  PTEN MUTATED PTEN WILD-TYPE 
            11            145 
  PTEN MUTATED PTEN WILD-TYPE 
            11            145 
[1] "B2M MUTATION ANALYSIS"
[1] 3
  B2M MUTATED B2M WILD-TYPE 
            6           150 
  B2M MUTATED B2M WILD-TYPE 
            6           150 
[1] "FBXW7 MUTATION ANALYSIS"
[1] 3
  FBXW7 MUTATED FBXW7 WILD-TYPE 
             11             145 
  FBXW7 MUTATED FBXW7 WILD-TYPE 
             11             145 
[1] "PTH2 MUTATION ANALYSIS"
[1] 3
  PTH2 MUTATED PTH2 WILD-TYPE 
             4            152 
  PTH2 MUTATED PTH2 WILD-TYPE 
             4            152 
[1] "FAM46D MUTATION ANALYSIS"
[1] 3
  FAM46D MUTATED FAM46D WILD-TYPE 
               5              151 
  FAM46D MUTATED FAM46D WILD-TYPE 
               5              151 
[1] "RNF43 MUTATION ANALYSIS"
[1] 3
  RNF43 MUTATED RNF43 WILD-TYPE 
              6             150 
  RNF43 MUTATED RNF43 WILD-TYPE 
              6             150 
[1] "APC MUTATION ANALYSIS"
[1] 3
  APC MUTATED APC WILD-TYPE 
           25           131 
  APC MUTATED APC WILD-TYPE 
           25           131 
[1] "MAP2K7 MUTATION ANALYSIS"
[1] 3
  MAP2K7 MUTATED MAP2K7 WILD-TYPE 
               9              147 
  MAP2K7 MUTATED MAP2K7 WILD-TYPE 
               9              147 
[1] "WSB2 MUTATION ANALYSIS"
[1] 3
  WSB2 MUTATED WSB2 WILD-TYPE 
             6            150 
  WSB2 MUTATED WSB2 WILD-TYPE 
             6            150 
[1] "BCOR MUTATION ANALYSIS"
[1] 3
  BCOR MUTATED BCOR WILD-TYPE 
            13            143 
  BCOR MUTATED BCOR WILD-TYPE 
            13            143 
[1] "TRPS1 MUTATION ANALYSIS"
[1] 3
  TRPS1 MUTATED TRPS1 WILD-TYPE 
             22             134 
  TRPS1 MUTATED TRPS1 WILD-TYPE 
             22             134 
[1] "IAPP MUTATION ANALYSIS"
[1] 3
  IAPP MUTATED IAPP WILD-TYPE 
             4            152 
  IAPP MUTATED IAPP WILD-TYPE 
             4            152 
[1] "data2feature, selection=ALL"
 [1] "YEARSTOBIRTH"                          
 [2] "DAYSTODEATH"                           
 [3] "DAYSTOLASTFOLLOWUP"                    
 [4] "VITALSTATUS"                           
 [5] "DCCUPLOADDATE"                         
 [6] "PRIMARYSITEOFDESEASE"                  
 [7] "GENDER"                                
 [8] "DATEOFINITIALPATHOLOGICDIAGNOSIS"      
 [9] "HISTOLOGICALTYPE"                      
[10] "RADIATIONS.RADIATION.REGIMENINDICATION"
[11] "DISTANT.METASTASIS"                    
[12] "LYMPH.NODE.METASTASIS"                 
[13] "COMPLETENESS.OF.RESECTION"             
[14] "NUMBER.OF.LYMPH.NODES"                 
[15] "TUMOR.STAGECODE"                       
[16] "NEOPLASM.DISEASESTAGE"                 
[17] "BATCHNUMBER"                           

Input Data has 17 rows and 156 columns.

[1] "Batch" "17"   
[1] "Last Follow UP"
TCGA-B7-5816 TCGA-B7-5818 TCGA-BR-4183 TCGA-BR-4184 TCGA-BR-4187 TCGA-BR-4188 
         171            3           NA           NA           NA           NA 
TCGA-BR-4191 TCGA-BR-4201 TCGA-BR-4253 TCGA-BR-4255 TCGA-BR-4256 TCGA-BR-4257 
          NA           NA           NA           NA           NA           NA 
TCGA-BR-4267 TCGA-BR-4279 TCGA-BR-4280 TCGA-BR-4292 TCGA-BR-4294 TCGA-BR-4357 
          NA           NA           NA           NA           NA           NA 
TCGA-BR-4361 TCGA-BR-4362 TCGA-BR-4363 TCGA-BR-4366 TCGA-BR-4368 TCGA-BR-4369 
          NA           NA           NA           NA           NA           NA 
TCGA-BR-4370 TCGA-BR-4371 TCGA-BR-6452 TCGA-BR-6453 TCGA-BR-6454 TCGA-BR-6455 
          NA           NA           29           NA           NA           43 
TCGA-BR-6456 TCGA-BR-6457 TCGA-BR-6458 TCGA-BR-6563 TCGA-BR-6564 TCGA-BR-6565 
          NA           41           41           26           25           19 
TCGA-BR-6566 TCGA-BR-6705 TCGA-BR-6706 TCGA-BR-6707 TCGA-BR-6801 TCGA-BR-6802 
          19           52           66           30           34           23 
TCGA-BR-6803 TCGA-BR-6852 TCGA-BR-7196 TCGA-BR-7197 TCGA-BR-7703 TCGA-BR-7707 
          20            8           37           45           14            4 
TCGA-BR-7715 TCGA-BR-7716 TCGA-BR-7717 TCGA-BR-7722 TCGA-BR-7723 TCGA-BR-7851 
          32           25           21            5          138           30 
TCGA-BR-7901 TCGA-BR-7957 TCGA-BR-8059 TCGA-BR-8077 TCGA-BR-8080 TCGA-BR-8081 
          29           21           25           21           15           14 
TCGA-BR-8284 TCGA-BR-8295 TCGA-BR-8296 TCGA-BR-8676 TCGA-BR-8682 TCGA-BR-8690 
          22           47           45           27           50           18 
TCGA-BR-A4IV TCGA-BR-A4IY TCGA-BR-A4IZ TCGA-BR-A4J1 TCGA-BR-A4J4 TCGA-BR-A4J6 
          28           12           24           NA           16            4 
TCGA-BR-A4J8 TCGA-BR-A4QI TCGA-BR-A4QL TCGA-CD-5798 TCGA-CD-5799 TCGA-CD-5800 
           7           15           68           25           21           11 
TCGA-CD-5801 TCGA-CD-5802 TCGA-CD-5803 TCGA-CD-5804 TCGA-CD-5813 TCGA-CG-4300 
          15            9            2           NA           12           NA 
TCGA-CG-4301 TCGA-CG-4304 TCGA-CG-4305 TCGA-CG-4306 TCGA-CG-4436 TCGA-CG-4437 
          92          822          485           NA          242          245 
TCGA-CG-4438 TCGA-CG-4440 TCGA-CG-4441 TCGA-CG-4442 TCGA-CG-4443 TCGA-CG-4444 
        1644           NA           NA           NA          912         1431 
TCGA-CG-4449 TCGA-CG-4455 TCGA-CG-4462 TCGA-CG-4465 TCGA-CG-4466 TCGA-CG-4469 
         580          366           NA           NA          576           NA 
TCGA-CG-4474 TCGA-CG-4475 TCGA-CG-4476 TCGA-CG-4477 TCGA-CG-5717 TCGA-CG-5718 
          NA           NA           NA           31           NA           31 
TCGA-CG-5719 TCGA-CG-5720 TCGA-CG-5721 TCGA-CG-5722 TCGA-CG-5723 TCGA-CG-5724 
          31           NA          182           29         2131           NA 
TCGA-CG-5726 TCGA-CG-5727 TCGA-CG-5728 TCGA-CG-5730 TCGA-CG-5732 TCGA-CG-5733 
          NA          944         1980          122         1674           NA 
TCGA-CG-5734 TCGA-D7-5577 TCGA-D7-5578 TCGA-D7-5579 TCGA-D7-6518 TCGA-D7-6519 
          NA          263          109          138          298          476 
TCGA-D7-6520 TCGA-D7-6521 TCGA-D7-6522 TCGA-D7-6524 TCGA-D7-6525 TCGA-D7-6526 
         293          249          210           21          181          201 
TCGA-D7-6527 TCGA-D7-6528 TCGA-D7-6815 TCGA-D7-6817 TCGA-D7-6818 TCGA-D7-6820 
         126           51          111           24          123           89 
TCGA-D7-6822 TCGA-EQ-5647 TCGA-F1-6177 TCGA-F1-6874 TCGA-F1-6875 TCGA-FP-7735 
         130           19          199           61           NA           12 
TCGA-FP-7829 TCGA-FP-7916 TCGA-FP-7998 TCGA-FP-8099 TCGA-FP-8209 TCGA-HF-7132 
           6           92          109           31           NA           NA 
TCGA-HF-7133 TCGA-HF-7136 TCGA-HJ-7597 TCGA-IN-7806 TCGA-IN-7808 TCGA-IP-7968 
          NA           NA           NA          209          108           77 
Variable 1:'AGE':	nDistinctValues=45,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'DAYSTODEATH':	nDistinctValues=18,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 3:'DAYSTOLASTFOLLOWUP':	nDistinctValues=78,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 4:'VITALSTATUS':	nDistinctValues=2,	numeric=TRUE,	binary=TRUE,	exclude=FALSE.
Variable 5:'DCCUPLOADDAY':	nDistinctValues=1,	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=11,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 9:'HISTOLOGICAL.TYPE':	nDistinctValues=7,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 10:'RADIATIONS.RADIATION.REGIMENINDICATION':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 11:'DISTANT.METASTASIS':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 12:'LYMPH.NODE.METASTASIS':	nDistinctValues=6,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 13:'COMPLETENESS.OF.RESECTION':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 14:'NUMBER.OF.LYMPH.NODES':	nDistinctValues=30,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 15:'TUMOR.STAGECODE':	nDistinctValues=11,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 16:'NEOPLASM.DISEASESTAGE':	nDistinctValues=11,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 17:'BATCH.NUMBER':	nDistinctValues=14,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "rownames(nsurv.mat)"
 [1] "AGE"                                   
 [2] "GENDER"                                
 [3] "HISTOLOGICAL.TYPE"                     
 [4] "RADIATIONS.RADIATION.REGIMENINDICATION"
 [5] "DISTANT.METASTASIS"                    
 [6] "LYMPH.NODE.METASTASIS"                 
 [7] "COMPLETENESS.OF.RESECTION"             
 [8] "NUMBER.OF.LYMPH.NODES"                 
 [9] "TUMOR.STAGECODE"                       
[10] "NEOPLASM.DISEASESTAGE"                 
[1] "TUMOR.?STAGE" "9"           
[1] "stage2"
vv
 T1 T1A T1B  T2 T2A T2B  T3  T4 T4A T4B  TX 
  3   1   1  28  10  13  62  15  12   2   9 
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T"
[1] "PATHOLOGY.N"
Output Data has 156 columns, 1 survival variables, and 10 non-survival variables.
AGE, nv=45, binary=FALSE, numeric=TRUE
GENDER, nv=2, binary=FALSE, numeric=FALSE
HISTOLOGICAL.TYPE, nv=7, binary=FALSE, numeric=FALSE
RADIATIONS.RADIATION.REGIMENINDICATION, nv=2, binary=FALSE, numeric=FALSE
DISTANT.METASTASIS, nv=3, binary=FALSE, numeric=FALSE
LYMPH.NODE.METASTASIS, nv=6, binary=FALSE, numeric=FALSE
COMPLETENESS.OF.RESECTION, nv=4, binary=FALSE, numeric=FALSE
NUMBER.OF.LYMPH.NODES, nv=30, binary=FALSE, numeric=TRUE
TUMOR.STAGECODE, nv=0, binary=FALSE, numeric=TRUE
NEOPLASM.DISEASESTAGE, nv=11, binary=FALSE, numeric=FALSE

Clustering(1) Variable = TRIM48 MUTATION ANALYSIS
D1V1, survival
                  sevent
clus2               0  1
  TRIM48 MUTATED    4  3
  TRIM48 WILD-TYPE 99 14
  TRIM48 MUTATED TRIM48 WILD-TYPE 
               7              113 
  TRIM48 MUTATED TRIM48 WILD-TYPE 
               3               14 
$`TRIM48 MUTATED`
TCGA-BR-7851 TCGA-CG-4305 TCGA-CG-4306 TCGA-CG-5723 TCGA-CG-5726 TCGA-CG-5728 
        0.99        15.95         1.02        70.06        28.96        65.10 
TCGA-F1-6875 
       72.23 

$`TRIM48 WILD-TYPE`
TCGA-B7-5816 TCGA-B7-5818 TCGA-BR-6452 TCGA-BR-6455 TCGA-BR-6457 TCGA-BR-6458 
        5.62         0.10         0.95         1.41         1.35         1.35 
TCGA-BR-6563 TCGA-BR-6564 TCGA-BR-6565 TCGA-BR-6566 TCGA-BR-6705 TCGA-BR-6706 
        0.85         0.82         0.62         0.62         1.71         2.17 
TCGA-BR-6707 TCGA-BR-6801 TCGA-BR-6802 TCGA-BR-6803 TCGA-BR-6852 TCGA-BR-7196 
        0.99         1.12         0.76         0.66         0.26         1.22 
TCGA-BR-7197 TCGA-BR-7703 TCGA-BR-7707 TCGA-BR-7715 TCGA-BR-7716 TCGA-BR-7717 
        1.48         0.46         0.13         1.05         0.82         0.69 
TCGA-BR-7722 TCGA-BR-7723 TCGA-BR-7901 TCGA-BR-7957 TCGA-BR-8059 TCGA-BR-8077 
        0.16         4.54         0.95         0.69         0.82         0.69 
TCGA-BR-8080 TCGA-BR-8081 TCGA-BR-8284 TCGA-BR-8295 TCGA-BR-8296 TCGA-BR-8676 
        0.49         0.46         0.72         1.55         1.48         0.89 
TCGA-BR-8682 TCGA-BR-8690 TCGA-BR-A4IV TCGA-BR-A4IY TCGA-BR-A4IZ TCGA-BR-A4J1 
        1.64         0.59         0.92         0.39         0.79         0.72 
TCGA-BR-A4J4 TCGA-BR-A4J6 TCGA-BR-A4J8 TCGA-BR-A4QI TCGA-BR-A4QL TCGA-CD-5798 
        0.53         0.13         0.23         0.49         2.24         0.82 
TCGA-CD-5799 TCGA-CD-5800 TCGA-CD-5801 TCGA-CD-5802 TCGA-CD-5803 TCGA-CD-5813 
        0.69         0.36         0.49         0.30         0.07         0.39 
TCGA-CG-4300 TCGA-CG-4301 TCGA-CG-4304 TCGA-CG-4436 TCGA-CG-4437 TCGA-CG-4438 
       20.02         3.02        27.02         7.96         8.05        54.05 
TCGA-CG-4440 TCGA-CG-4441 TCGA-CG-4443 TCGA-CG-4444 TCGA-CG-4449 TCGA-CG-4455 
        4.01        14.01        29.98        47.05        19.07        12.03 
TCGA-CG-4465 TCGA-CG-4466 TCGA-CG-4469 TCGA-CG-4477 TCGA-CG-5717 TCGA-CG-5718 
        8.98        18.94         7.07         1.02         6.94         1.02 
TCGA-CG-5719 TCGA-CG-5720 TCGA-CG-5721 TCGA-CG-5722 TCGA-CG-5724 TCGA-CG-5727 
        1.02         0.99         5.98         0.95        12.03        31.04 
TCGA-CG-5730 TCGA-CG-5732 TCGA-CG-5733 TCGA-CG-5734 TCGA-D7-5577 TCGA-D7-5578 
        4.01        55.04        21.07         7.99         8.65         3.58 
TCGA-D7-5579 TCGA-D7-6518 TCGA-D7-6519 TCGA-D7-6520 TCGA-D7-6521 TCGA-D7-6522 
        4.54         9.80        15.65         9.63         8.19         6.90 
TCGA-D7-6524 TCGA-D7-6525 TCGA-D7-6526 TCGA-D7-6527 TCGA-D7-6528 TCGA-D7-6815 
        0.69         5.95         6.61         4.14         1.68         3.65 
TCGA-D7-6817 TCGA-D7-6818 TCGA-D7-6820 TCGA-D7-6822 TCGA-EQ-5647 TCGA-F1-6177 
        0.79         4.04         2.93         4.27         0.62         6.54 
TCGA-F1-6874 TCGA-FP-7735 TCGA-FP-7829 TCGA-FP-7916 TCGA-FP-7998 TCGA-FP-8099 
        2.01         0.39         0.20         3.02         3.58         1.02 
TCGA-FP-8209 TCGA-HJ-7597 TCGA-IN-7806 TCGA-IN-7808 TCGA-IP-7968 
       59.05        26.43         6.87         3.55         2.53 

  TRIM48 MUTATED TRIM48 WILD-TYPE 
            0.99             0.07 
  TRIM48 MUTATED TRIM48 WILD-TYPE 
           72.23            59.05 
  TRIM48 MUTATED TRIM48 WILD-TYPE 
           28.96             1.48 
[1] "1.0 - 72.2 (29.0)" "0.1 - 59.0 (1.5)" 
      TCGA-B7-5816       TCGA-B7-5818       TCGA-BR-6452       TCGA-BR-6455 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-BR-6457       TCGA-BR-6458       TCGA-BR-6563       TCGA-BR-6564 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-BR-6565       TCGA-BR-6566       TCGA-BR-6705       TCGA-BR-6706 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-BR-6707       TCGA-BR-6801       TCGA-BR-6802       TCGA-BR-6803 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-BR-6852       TCGA-BR-7196       TCGA-BR-7197       TCGA-BR-7703 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-BR-7707       TCGA-BR-7715       TCGA-BR-7716       TCGA-BR-7717 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-BR-7722       TCGA-BR-7723       TCGA-BR-7851       TCGA-BR-7901 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE"   "TRIM48 MUTATED" "TRIM48 WILD-TYPE" 
      TCGA-BR-7957       TCGA-BR-8059       TCGA-BR-8077       TCGA-BR-8080 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-BR-8081       TCGA-BR-8284       TCGA-BR-8295       TCGA-BR-8296 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-BR-8676       TCGA-BR-8682       TCGA-BR-8690       TCGA-BR-A4IV 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-BR-A4IY       TCGA-BR-A4IZ       TCGA-BR-A4J1       TCGA-BR-A4J4 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-BR-A4J6       TCGA-BR-A4J8       TCGA-BR-A4QI       TCGA-BR-A4QL 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-CD-5798       TCGA-CD-5799       TCGA-CD-5800       TCGA-CD-5801 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-CD-5802       TCGA-CD-5803       TCGA-CD-5813       TCGA-CG-4300 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-CG-4301       TCGA-CG-4304       TCGA-CG-4305       TCGA-CG-4306 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE"   "TRIM48 MUTATED"   "TRIM48 MUTATED" 
      TCGA-CG-4436       TCGA-CG-4437       TCGA-CG-4438       TCGA-CG-4440 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-CG-4441       TCGA-CG-4443       TCGA-CG-4444       TCGA-CG-4449 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-CG-4455       TCGA-CG-4465       TCGA-CG-4466       TCGA-CG-4469 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-CG-4477       TCGA-CG-5717       TCGA-CG-5718       TCGA-CG-5719 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-CG-5720       TCGA-CG-5721       TCGA-CG-5722       TCGA-CG-5723 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE"   "TRIM48 MUTATED" 
      TCGA-CG-5724       TCGA-CG-5726       TCGA-CG-5727       TCGA-CG-5728 
"TRIM48 WILD-TYPE"   "TRIM48 MUTATED" "TRIM48 WILD-TYPE"   "TRIM48 MUTATED" 
      TCGA-CG-5730       TCGA-CG-5732       TCGA-CG-5733       TCGA-CG-5734 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-D7-5577       TCGA-D7-5578       TCGA-D7-5579       TCGA-D7-6518 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-D7-6519       TCGA-D7-6520       TCGA-D7-6521       TCGA-D7-6522 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-D7-6524       TCGA-D7-6525       TCGA-D7-6526       TCGA-D7-6527 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-D7-6528       TCGA-D7-6815       TCGA-D7-6817       TCGA-D7-6818 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-D7-6820       TCGA-D7-6822       TCGA-EQ-5647       TCGA-F1-6177 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-F1-6874       TCGA-F1-6875       TCGA-FP-7735       TCGA-FP-7829 
"TRIM48 WILD-TYPE"   "TRIM48 MUTATED" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-FP-7916       TCGA-FP-7998       TCGA-FP-8099       TCGA-FP-8209 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-HJ-7597       TCGA-IN-7806       TCGA-IN-7808       TCGA-IP-7968 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-B7-5816       TCGA-B7-5818       TCGA-BR-6452       TCGA-BR-6455 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-BR-6457       TCGA-BR-6458       TCGA-BR-6563       TCGA-BR-6564 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-BR-6565       TCGA-BR-6566       TCGA-BR-6705       TCGA-BR-6706 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-BR-6707       TCGA-BR-6801       TCGA-BR-6802       TCGA-BR-6803 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-BR-6852       TCGA-BR-7196       TCGA-BR-7197       TCGA-BR-7703 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-BR-7707       TCGA-BR-7715       TCGA-BR-7716       TCGA-BR-7717 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-BR-7722       TCGA-BR-7723       TCGA-BR-7851       TCGA-BR-7901 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE"   "TRIM48 MUTATED" "TRIM48 WILD-TYPE" 
      TCGA-BR-7957       TCGA-BR-8059       TCGA-BR-8077       TCGA-BR-8080 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-BR-8081       TCGA-BR-8284       TCGA-BR-8295       TCGA-BR-8296 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-BR-8676       TCGA-BR-8682       TCGA-BR-8690       TCGA-BR-A4IV 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-BR-A4IY       TCGA-BR-A4IZ       TCGA-BR-A4J1       TCGA-BR-A4J4 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-BR-A4J6       TCGA-BR-A4J8       TCGA-BR-A4QI       TCGA-BR-A4QL 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-CD-5798       TCGA-CD-5799       TCGA-CD-5800       TCGA-CD-5801 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-CD-5802       TCGA-CD-5803       TCGA-CD-5813       TCGA-CG-4300 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-CG-4301       TCGA-CG-4304       TCGA-CG-4305       TCGA-CG-4306 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE"   "TRIM48 MUTATED"   "TRIM48 MUTATED" 
      TCGA-CG-4436       TCGA-CG-4437       TCGA-CG-4438       TCGA-CG-4440 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-CG-4441       TCGA-CG-4443       TCGA-CG-4444       TCGA-CG-4449 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-CG-4455       TCGA-CG-4465       TCGA-CG-4466       TCGA-CG-4469 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-CG-4477       TCGA-CG-5717       TCGA-CG-5718       TCGA-CG-5719 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-CG-5720       TCGA-CG-5721       TCGA-CG-5722       TCGA-CG-5723 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE"   "TRIM48 MUTATED" 
      TCGA-CG-5724       TCGA-CG-5726       TCGA-CG-5727       TCGA-CG-5728 
"TRIM48 WILD-TYPE"   "TRIM48 MUTATED" "TRIM48 WILD-TYPE"   "TRIM48 MUTATED" 
      TCGA-CG-5730       TCGA-CG-5732       TCGA-CG-5733       TCGA-CG-5734 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-D7-5577       TCGA-D7-5578       TCGA-D7-5579       TCGA-D7-6518 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-D7-6519       TCGA-D7-6520       TCGA-D7-6521       TCGA-D7-6522 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-D7-6524       TCGA-D7-6525       TCGA-D7-6526       TCGA-D7-6527 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-D7-6528       TCGA-D7-6815       TCGA-D7-6817       TCGA-D7-6818 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-D7-6820       TCGA-D7-6822       TCGA-EQ-5647       TCGA-F1-6177 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-F1-6874       TCGA-F1-6875       TCGA-FP-7735       TCGA-FP-7829 
"TRIM48 WILD-TYPE"   "TRIM48 MUTATED" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-FP-7916       TCGA-FP-7998       TCGA-FP-8099       TCGA-FP-8209 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-HJ-7597       TCGA-IN-7806       TCGA-IN-7808       TCGA-IP-7968 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-B7-5816       TCGA-B7-5818       TCGA-BR-6452       TCGA-BR-6455 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-BR-6457       TCGA-BR-6458       TCGA-BR-6563       TCGA-BR-6564 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-BR-6565       TCGA-BR-6566       TCGA-BR-6705       TCGA-BR-6706 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-BR-6707       TCGA-BR-6801       TCGA-BR-6802       TCGA-BR-6803 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-BR-6852       TCGA-BR-7196       TCGA-BR-7197       TCGA-BR-7703 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-BR-7707       TCGA-BR-7715       TCGA-BR-7716       TCGA-BR-7717 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-BR-7722       TCGA-BR-7723       TCGA-BR-7851       TCGA-BR-7901 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE"   "TRIM48 MUTATED" "TRIM48 WILD-TYPE" 
      TCGA-BR-7957       TCGA-BR-8059       TCGA-BR-8077       TCGA-BR-8080 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-BR-8081       TCGA-BR-8284       TCGA-BR-8295       TCGA-BR-8296 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-BR-8676       TCGA-BR-8682       TCGA-BR-8690       TCGA-BR-A4IV 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-BR-A4IY       TCGA-BR-A4IZ       TCGA-BR-A4J1       TCGA-BR-A4J4 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-BR-A4J6       TCGA-BR-A4J8       TCGA-BR-A4QI       TCGA-BR-A4QL 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-CD-5798       TCGA-CD-5799       TCGA-CD-5800       TCGA-CD-5801 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-CD-5802       TCGA-CD-5803       TCGA-CD-5813       TCGA-CG-4300 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-CG-4301       TCGA-CG-4304       TCGA-CG-4305       TCGA-CG-4306 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE"   "TRIM48 MUTATED"   "TRIM48 MUTATED" 
      TCGA-CG-4436       TCGA-CG-4437       TCGA-CG-4438       TCGA-CG-4440 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-CG-4441       TCGA-CG-4443       TCGA-CG-4444       TCGA-CG-4449 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-CG-4455       TCGA-CG-4465       TCGA-CG-4466       TCGA-CG-4469 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-CG-4477       TCGA-CG-5717       TCGA-CG-5718       TCGA-CG-5719 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-CG-5720       TCGA-CG-5721       TCGA-CG-5722       TCGA-CG-5723 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE"   "TRIM48 MUTATED" 
      TCGA-CG-5724       TCGA-CG-5726       TCGA-CG-5727       TCGA-CG-5728 
"TRIM48 WILD-TYPE"   "TRIM48 MUTATED" "TRIM48 WILD-TYPE"   "TRIM48 MUTATED" 
      TCGA-CG-5730       TCGA-CG-5732       TCGA-CG-5733       TCGA-CG-5734 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-D7-5577       TCGA-D7-5578       TCGA-D7-5579       TCGA-D7-6518 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-D7-6519       TCGA-D7-6520       TCGA-D7-6521       TCGA-D7-6522 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-D7-6524       TCGA-D7-6525       TCGA-D7-6526       TCGA-D7-6527 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-D7-6528       TCGA-D7-6815       TCGA-D7-6817       TCGA-D7-6818 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-D7-6820       TCGA-D7-6822       TCGA-EQ-5647       TCGA-F1-6177 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-F1-6874       TCGA-F1-6875       TCGA-FP-7735       TCGA-FP-7829 
"TRIM48 WILD-TYPE"   "TRIM48 MUTATED" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-FP-7916       TCGA-FP-7998       TCGA-FP-8099       TCGA-FP-8209 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
      TCGA-HJ-7597       TCGA-IN-7806       TCGA-IN-7808       TCGA-IP-7968 
"TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" "TRIM48 WILD-TYPE" 
[1] "hr=" "2.4"
D1V2, continuous
D1V3, binary
                  cls
clus                0  1
  TRIM48 MUTATED    3  8
  TRIM48 WILD-TYPE 60 85
[1] "tbl2"
                  cls
clus               [,1] [,2]
  TRIM48 MUTATED      3    8
  TRIM48 WILD-TYPE   60   85
        clus
vv       TRIM48 MUTATED TRIM48 WILD-TYPE
  FEMALE              3               60
  MALE                8               85
                  vv
clus               STOMACH  ADENOCARCINOMA  DIFFUSE TYPE
  TRIM48 MUTATED                                       0
  TRIM48 WILD-TYPE                                    23
                  vv
clus               STOMACH  ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  TRIM48 MUTATED                                                        7
  TRIM48 WILD-TYPE                                                     71
                  vv
clus               STOMACH  INTESTINAL ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  TRIM48 MUTATED                                                                   3
  TRIM48 WILD-TYPE                                                                27
                  vv
clus               STOMACH  INTESTINAL ADENOCARCINOMA  TUBULAR TYPE
  TRIM48 MUTATED                                                  0
  TRIM48 WILD-TYPE                                               10
                  vv
clus               STOMACH  INTESTINAL ADENOCARCINOMA \302\240MUCINOUS TYPE
  TRIM48 MUTATED                                                          1
  TRIM48 WILD-TYPE                                                        9
                  vv
clus               STOMACH  INTESTINAL ADENOCARCINOMA \302\240PAPILLARY TYPE
  TRIM48 MUTATED                                                           0
  TRIM48 WILD-TYPE                                                         3
                  vv
clus               STOMACH ADENOCARCINOMA  SIGNET RING TYPE
  TRIM48 MUTATED                                          0
  TRIM48 WILD-TYPE                                        1
D1V4, multiclass
D1V5, binary
                  cls
clus                 0   1
  TRIM48 MUTATED     1  10
  TRIM48 WILD-TYPE   5 140
[1] "tbl2"
                  cls
clus               [,1] [,2]
  TRIM48 MUTATED      1   10
  TRIM48 WILD-TYPE    5  140
     clus
vv    TRIM48 MUTATED TRIM48 WILD-TYPE
  NO               1                5
  YES             10              140
                  vv
clus                M0  M1  MX
  TRIM48 MUTATED     9   1   1
  TRIM48 WILD-TYPE 123  13   9
D1V6, multiclass
    clus
vv   TRIM48 MUTATED TRIM48 WILD-TYPE
  M0              9              123
  M1              1               13
  MX              1                9
                  vv
clus               N0 N1 N2 N3 N3A NX
  TRIM48 MUTATED    4  5  1  0   0  1
  TRIM48 WILD-TYPE 45 44 24 14   8 10
D1V7, multiclass
                  vv
clus               R0 R1 R2 RX
  TRIM48 MUTATED    7  0  1  3
  TRIM48 WILD-TYPE 99  6  9 21
D1V8, multiclass
    clus
vv   TRIM48 MUTATED TRIM48 WILD-TYPE
  R0              7               99
  R1              0                6
  R2              1                9
  RX              3               21
D1V9, continuous
D1V10, continuous
                  vv
clus               STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB
  TRIM48 MUTATED         0        2        1        4         0         0
  TRIM48 WILD-TYPE       1        3       15       23         7        10
                  vv
clus               STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  TRIM48 MUTATED           1          1          0          0        1
  TRIM48 WILD-TYPE         3         29         12          6       22
D1V11, multiclass

Clustering(2) Variable = PGM5 MUTATION ANALYSIS
D2V1, survival
                sevent
clus2             0  1
  PGM5 MUTATED    8  1
  PGM5 WILD-TYPE 95 16
  PGM5 MUTATED PGM5 WILD-TYPE 
             9            111 
  PGM5 MUTATED PGM5 WILD-TYPE 
             1             16 
$`PGM5 MUTATED`
TCGA-BR-6452 TCGA-BR-7707 TCGA-BR-8081 TCGA-BR-A4QL TCGA-CG-4305 TCGA-CG-5726 
        0.95         0.13         0.46         2.24        15.95        28.96 
TCGA-CG-5728 TCGA-D7-6521 TCGA-F1-6177 
       65.10         8.19         6.54 

$`PGM5 WILD-TYPE`
TCGA-B7-5816 TCGA-B7-5818 TCGA-BR-6455 TCGA-BR-6457 TCGA-BR-6458 TCGA-BR-6563 
        5.62         0.10         1.41         1.35         1.35         0.85 
TCGA-BR-6564 TCGA-BR-6565 TCGA-BR-6566 TCGA-BR-6705 TCGA-BR-6706 TCGA-BR-6707 
        0.82         0.62         0.62         1.71         2.17         0.99 
TCGA-BR-6801 TCGA-BR-6802 TCGA-BR-6803 TCGA-BR-6852 TCGA-BR-7196 TCGA-BR-7197 
        1.12         0.76         0.66         0.26         1.22         1.48 
TCGA-BR-7703 TCGA-BR-7715 TCGA-BR-7716 TCGA-BR-7717 TCGA-BR-7722 TCGA-BR-7723 
        0.46         1.05         0.82         0.69         0.16         4.54 
TCGA-BR-7851 TCGA-BR-7901 TCGA-BR-7957 TCGA-BR-8059 TCGA-BR-8077 TCGA-BR-8080 
        0.99         0.95         0.69         0.82         0.69         0.49 
TCGA-BR-8284 TCGA-BR-8295 TCGA-BR-8296 TCGA-BR-8676 TCGA-BR-8682 TCGA-BR-8690 
        0.72         1.55         1.48         0.89         1.64         0.59 
TCGA-BR-A4IV TCGA-BR-A4IY TCGA-BR-A4IZ TCGA-BR-A4J1 TCGA-BR-A4J4 TCGA-BR-A4J6 
        0.92         0.39         0.79         0.72         0.53         0.13 
TCGA-BR-A4J8 TCGA-BR-A4QI TCGA-CD-5798 TCGA-CD-5799 TCGA-CD-5800 TCGA-CD-5801 
        0.23         0.49         0.82         0.69         0.36         0.49 
TCGA-CD-5802 TCGA-CD-5803 TCGA-CD-5813 TCGA-CG-4300 TCGA-CG-4301 TCGA-CG-4304 
        0.30         0.07         0.39        20.02         3.02        27.02 
TCGA-CG-4306 TCGA-CG-4436 TCGA-CG-4437 TCGA-CG-4438 TCGA-CG-4440 TCGA-CG-4441 
        1.02         7.96         8.05        54.05         4.01        14.01 
TCGA-CG-4443 TCGA-CG-4444 TCGA-CG-4449 TCGA-CG-4455 TCGA-CG-4465 TCGA-CG-4466 
       29.98        47.05        19.07        12.03         8.98        18.94 
TCGA-CG-4469 TCGA-CG-4477 TCGA-CG-5717 TCGA-CG-5718 TCGA-CG-5719 TCGA-CG-5720 
        7.07         1.02         6.94         1.02         1.02         0.99 
TCGA-CG-5721 TCGA-CG-5722 TCGA-CG-5723 TCGA-CG-5724 TCGA-CG-5727 TCGA-CG-5730 
        5.98         0.95        70.06        12.03        31.04         4.01 
TCGA-CG-5732 TCGA-CG-5733 TCGA-CG-5734 TCGA-D7-5577 TCGA-D7-5578 TCGA-D7-5579 
       55.04        21.07         7.99         8.65         3.58         4.54 
TCGA-D7-6518 TCGA-D7-6519 TCGA-D7-6520 TCGA-D7-6522 TCGA-D7-6524 TCGA-D7-6525 
        9.80        15.65         9.63         6.90         0.69         5.95 
TCGA-D7-6526 TCGA-D7-6527 TCGA-D7-6528 TCGA-D7-6815 TCGA-D7-6817 TCGA-D7-6818 
        6.61         4.14         1.68         3.65         0.79         4.04 
TCGA-D7-6820 TCGA-D7-6822 TCGA-EQ-5647 TCGA-F1-6874 TCGA-F1-6875 TCGA-FP-7735 
        2.93         4.27         0.62         2.01        72.23         0.39 
TCGA-FP-7829 TCGA-FP-7916 TCGA-FP-7998 TCGA-FP-8099 TCGA-FP-8209 TCGA-HJ-7597 
        0.20         3.02         3.58         1.02        59.05        26.43 
TCGA-IN-7806 TCGA-IN-7808 TCGA-IP-7968 
        6.87         3.55         2.53 

  PGM5 MUTATED PGM5 WILD-TYPE 
          0.13           0.07 
  PGM5 MUTATED PGM5 WILD-TYPE 
         65.10          72.23 
  PGM5 MUTATED PGM5 WILD-TYPE 
          6.54           1.48 
[1] "0.1 - 65.1 (6.5)" "0.1 - 72.2 (1.5)"
    TCGA-B7-5816     TCGA-B7-5818     TCGA-BR-6452     TCGA-BR-6455 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE"   "PGM5 MUTATED" "PGM5 WILD-TYPE" 
    TCGA-BR-6457     TCGA-BR-6458     TCGA-BR-6563     TCGA-BR-6564 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-BR-6565     TCGA-BR-6566     TCGA-BR-6705     TCGA-BR-6706 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-BR-6707     TCGA-BR-6801     TCGA-BR-6802     TCGA-BR-6803 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-BR-6852     TCGA-BR-7196     TCGA-BR-7197     TCGA-BR-7703 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-BR-7707     TCGA-BR-7715     TCGA-BR-7716     TCGA-BR-7717 
  "PGM5 MUTATED" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-BR-7722     TCGA-BR-7723     TCGA-BR-7851     TCGA-BR-7901 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-BR-7957     TCGA-BR-8059     TCGA-BR-8077     TCGA-BR-8080 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-BR-8081     TCGA-BR-8284     TCGA-BR-8295     TCGA-BR-8296 
  "PGM5 MUTATED" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-BR-8676     TCGA-BR-8682     TCGA-BR-8690     TCGA-BR-A4IV 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-BR-A4IY     TCGA-BR-A4IZ     TCGA-BR-A4J1     TCGA-BR-A4J4 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-BR-A4J6     TCGA-BR-A4J8     TCGA-BR-A4QI     TCGA-BR-A4QL 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE"   "PGM5 MUTATED" 
    TCGA-CD-5798     TCGA-CD-5799     TCGA-CD-5800     TCGA-CD-5801 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-CD-5802     TCGA-CD-5803     TCGA-CD-5813     TCGA-CG-4300 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-CG-4301     TCGA-CG-4304     TCGA-CG-4305     TCGA-CG-4306 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE"   "PGM5 MUTATED" "PGM5 WILD-TYPE" 
    TCGA-CG-4436     TCGA-CG-4437     TCGA-CG-4438     TCGA-CG-4440 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-CG-4441     TCGA-CG-4443     TCGA-CG-4444     TCGA-CG-4449 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-CG-4455     TCGA-CG-4465     TCGA-CG-4466     TCGA-CG-4469 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-CG-4477     TCGA-CG-5717     TCGA-CG-5718     TCGA-CG-5719 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-CG-5720     TCGA-CG-5721     TCGA-CG-5722     TCGA-CG-5723 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-CG-5724     TCGA-CG-5726     TCGA-CG-5727     TCGA-CG-5728 
"PGM5 WILD-TYPE"   "PGM5 MUTATED" "PGM5 WILD-TYPE"   "PGM5 MUTATED" 
    TCGA-CG-5730     TCGA-CG-5732     TCGA-CG-5733     TCGA-CG-5734 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-D7-5577     TCGA-D7-5578     TCGA-D7-5579     TCGA-D7-6518 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-D7-6519     TCGA-D7-6520     TCGA-D7-6521     TCGA-D7-6522 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE"   "PGM5 MUTATED" "PGM5 WILD-TYPE" 
    TCGA-D7-6524     TCGA-D7-6525     TCGA-D7-6526     TCGA-D7-6527 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-D7-6528     TCGA-D7-6815     TCGA-D7-6817     TCGA-D7-6818 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-D7-6820     TCGA-D7-6822     TCGA-EQ-5647     TCGA-F1-6177 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE"   "PGM5 MUTATED" 
    TCGA-F1-6874     TCGA-F1-6875     TCGA-FP-7735     TCGA-FP-7829 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-FP-7916     TCGA-FP-7998     TCGA-FP-8099     TCGA-FP-8209 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-HJ-7597     TCGA-IN-7806     TCGA-IN-7808     TCGA-IP-7968 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-B7-5816     TCGA-B7-5818     TCGA-BR-6452     TCGA-BR-6455 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE"   "PGM5 MUTATED" "PGM5 WILD-TYPE" 
    TCGA-BR-6457     TCGA-BR-6458     TCGA-BR-6563     TCGA-BR-6564 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-BR-6565     TCGA-BR-6566     TCGA-BR-6705     TCGA-BR-6706 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-BR-6707     TCGA-BR-6801     TCGA-BR-6802     TCGA-BR-6803 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-BR-6852     TCGA-BR-7196     TCGA-BR-7197     TCGA-BR-7703 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-BR-7707     TCGA-BR-7715     TCGA-BR-7716     TCGA-BR-7717 
  "PGM5 MUTATED" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-BR-7722     TCGA-BR-7723     TCGA-BR-7851     TCGA-BR-7901 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-BR-7957     TCGA-BR-8059     TCGA-BR-8077     TCGA-BR-8080 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-BR-8081     TCGA-BR-8284     TCGA-BR-8295     TCGA-BR-8296 
  "PGM5 MUTATED" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-BR-8676     TCGA-BR-8682     TCGA-BR-8690     TCGA-BR-A4IV 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-BR-A4IY     TCGA-BR-A4IZ     TCGA-BR-A4J1     TCGA-BR-A4J4 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-BR-A4J6     TCGA-BR-A4J8     TCGA-BR-A4QI     TCGA-BR-A4QL 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE"   "PGM5 MUTATED" 
    TCGA-CD-5798     TCGA-CD-5799     TCGA-CD-5800     TCGA-CD-5801 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-CD-5802     TCGA-CD-5803     TCGA-CD-5813     TCGA-CG-4300 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-CG-4301     TCGA-CG-4304     TCGA-CG-4305     TCGA-CG-4306 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE"   "PGM5 MUTATED" "PGM5 WILD-TYPE" 
    TCGA-CG-4436     TCGA-CG-4437     TCGA-CG-4438     TCGA-CG-4440 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-CG-4441     TCGA-CG-4443     TCGA-CG-4444     TCGA-CG-4449 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-CG-4455     TCGA-CG-4465     TCGA-CG-4466     TCGA-CG-4469 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-CG-4477     TCGA-CG-5717     TCGA-CG-5718     TCGA-CG-5719 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-CG-5720     TCGA-CG-5721     TCGA-CG-5722     TCGA-CG-5723 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-CG-5724     TCGA-CG-5726     TCGA-CG-5727     TCGA-CG-5728 
"PGM5 WILD-TYPE"   "PGM5 MUTATED" "PGM5 WILD-TYPE"   "PGM5 MUTATED" 
    TCGA-CG-5730     TCGA-CG-5732     TCGA-CG-5733     TCGA-CG-5734 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-D7-5577     TCGA-D7-5578     TCGA-D7-5579     TCGA-D7-6518 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-D7-6519     TCGA-D7-6520     TCGA-D7-6521     TCGA-D7-6522 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE"   "PGM5 MUTATED" "PGM5 WILD-TYPE" 
    TCGA-D7-6524     TCGA-D7-6525     TCGA-D7-6526     TCGA-D7-6527 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-D7-6528     TCGA-D7-6815     TCGA-D7-6817     TCGA-D7-6818 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-D7-6820     TCGA-D7-6822     TCGA-EQ-5647     TCGA-F1-6177 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE"   "PGM5 MUTATED" 
    TCGA-F1-6874     TCGA-F1-6875     TCGA-FP-7735     TCGA-FP-7829 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-FP-7916     TCGA-FP-7998     TCGA-FP-8099     TCGA-FP-8209 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-HJ-7597     TCGA-IN-7806     TCGA-IN-7808     TCGA-IP-7968 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-B7-5816     TCGA-B7-5818     TCGA-BR-6452     TCGA-BR-6455 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE"   "PGM5 MUTATED" "PGM5 WILD-TYPE" 
    TCGA-BR-6457     TCGA-BR-6458     TCGA-BR-6563     TCGA-BR-6564 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-BR-6565     TCGA-BR-6566     TCGA-BR-6705     TCGA-BR-6706 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-BR-6707     TCGA-BR-6801     TCGA-BR-6802     TCGA-BR-6803 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-BR-6852     TCGA-BR-7196     TCGA-BR-7197     TCGA-BR-7703 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-BR-7707     TCGA-BR-7715     TCGA-BR-7716     TCGA-BR-7717 
  "PGM5 MUTATED" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-BR-7722     TCGA-BR-7723     TCGA-BR-7851     TCGA-BR-7901 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-BR-7957     TCGA-BR-8059     TCGA-BR-8077     TCGA-BR-8080 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-BR-8081     TCGA-BR-8284     TCGA-BR-8295     TCGA-BR-8296 
  "PGM5 MUTATED" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-BR-8676     TCGA-BR-8682     TCGA-BR-8690     TCGA-BR-A4IV 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-BR-A4IY     TCGA-BR-A4IZ     TCGA-BR-A4J1     TCGA-BR-A4J4 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-BR-A4J6     TCGA-BR-A4J8     TCGA-BR-A4QI     TCGA-BR-A4QL 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE"   "PGM5 MUTATED" 
    TCGA-CD-5798     TCGA-CD-5799     TCGA-CD-5800     TCGA-CD-5801 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-CD-5802     TCGA-CD-5803     TCGA-CD-5813     TCGA-CG-4300 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-CG-4301     TCGA-CG-4304     TCGA-CG-4305     TCGA-CG-4306 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE"   "PGM5 MUTATED" "PGM5 WILD-TYPE" 
    TCGA-CG-4436     TCGA-CG-4437     TCGA-CG-4438     TCGA-CG-4440 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-CG-4441     TCGA-CG-4443     TCGA-CG-4444     TCGA-CG-4449 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-CG-4455     TCGA-CG-4465     TCGA-CG-4466     TCGA-CG-4469 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-CG-4477     TCGA-CG-5717     TCGA-CG-5718     TCGA-CG-5719 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-CG-5720     TCGA-CG-5721     TCGA-CG-5722     TCGA-CG-5723 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-CG-5724     TCGA-CG-5726     TCGA-CG-5727     TCGA-CG-5728 
"PGM5 WILD-TYPE"   "PGM5 MUTATED" "PGM5 WILD-TYPE"   "PGM5 MUTATED" 
    TCGA-CG-5730     TCGA-CG-5732     TCGA-CG-5733     TCGA-CG-5734 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-D7-5577     TCGA-D7-5578     TCGA-D7-5579     TCGA-D7-6518 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-D7-6519     TCGA-D7-6520     TCGA-D7-6521     TCGA-D7-6522 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE"   "PGM5 MUTATED" "PGM5 WILD-TYPE" 
    TCGA-D7-6524     TCGA-D7-6525     TCGA-D7-6526     TCGA-D7-6527 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-D7-6528     TCGA-D7-6815     TCGA-D7-6817     TCGA-D7-6818 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-D7-6820     TCGA-D7-6822     TCGA-EQ-5647     TCGA-F1-6177 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE"   "PGM5 MUTATED" 
    TCGA-F1-6874     TCGA-F1-6875     TCGA-FP-7735     TCGA-FP-7829 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-FP-7916     TCGA-FP-7998     TCGA-FP-8099     TCGA-FP-8209 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
    TCGA-HJ-7597     TCGA-IN-7806     TCGA-IN-7808     TCGA-IP-7968 
"PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" "PGM5 WILD-TYPE" 
[1] "hr=" "2.4"
D2V2, continuous
D2V3, binary
                cls
clus              0  1
  PGM5 MUTATED   10  5
  PGM5 WILD-TYPE 53 88
[1] "tbl2"
                cls
clus             [,1] [,2]
  PGM5 MUTATED     10    5
  PGM5 WILD-TYPE   53   88
        clus
vv       PGM5 MUTATED PGM5 WILD-TYPE
  FEMALE           10             53
  MALE              5             88
                vv
clus             STOMACH  ADENOCARCINOMA  DIFFUSE TYPE
  PGM5 MUTATED                                       2
  PGM5 WILD-TYPE                                    21
                vv
clus             STOMACH  ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  PGM5 MUTATED                                                       10
  PGM5 WILD-TYPE                                                     68
                vv
clus             STOMACH  INTESTINAL ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  PGM5 MUTATED                                                                   2
  PGM5 WILD-TYPE                                                                28
                vv
clus             STOMACH  INTESTINAL ADENOCARCINOMA  TUBULAR TYPE
  PGM5 MUTATED                                                  0
  PGM5 WILD-TYPE                                               10
                vv
clus             STOMACH  INTESTINAL ADENOCARCINOMA \302\240MUCINOUS TYPE
  PGM5 MUTATED                                                          1
  PGM5 WILD-TYPE                                                        9
                vv
clus             STOMACH  INTESTINAL ADENOCARCINOMA \302\240PAPILLARY TYPE
  PGM5 MUTATED                                                           0
  PGM5 WILD-TYPE                                                         3
                vv
clus             STOMACH ADENOCARCINOMA  SIGNET RING TYPE
  PGM5 MUTATED                                          0
  PGM5 WILD-TYPE                                        1
D2V4, multiclass
D2V5, binary
                cls
clus               0   1
  PGM5 MUTATED     1  14
  PGM5 WILD-TYPE   5 136
[1] "tbl2"
                cls
clus             [,1] [,2]
  PGM5 MUTATED      1   14
  PGM5 WILD-TYPE    5  136
     clus
vv    PGM5 MUTATED PGM5 WILD-TYPE
  NO             1              5
  YES           14            136
                vv
clus              M0  M1  MX
  PGM5 MUTATED    13   1   1
  PGM5 WILD-TYPE 119  13   9
D2V6, multiclass
    clus
vv   PGM5 MUTATED PGM5 WILD-TYPE
  M0           13            119
  M1            1             13
  MX            1              9
                vv
clus             N0 N1 N2 N3 N3A NX
  PGM5 MUTATED    5  4  1  1   1  3
  PGM5 WILD-TYPE 44 45 24 13   7  8
D2V7, multiclass
                vv
clus             R0 R1 R2 RX
  PGM5 MUTATED   10  0  1  4
  PGM5 WILD-TYPE 96  6  9 20
D2V8, multiclass
    clus
vv   PGM5 MUTATED PGM5 WILD-TYPE
  R0           10             96
  R1            0              6
  R2            1              9
  RX            4             20
D2V9, continuous
D2V10, continuous
                vv
clus             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB
  PGM5 MUTATED         1        2        1        3         0         0
  PGM5 WILD-TYPE       0        3       15       24         7        10
                vv
clus             STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  PGM5 MUTATED           1          1          1          0        1
  PGM5 WILD-TYPE         3         29         11          6       22
D2V11, multiclass

Clustering(3) Variable = KRAS MUTATION ANALYSIS
D3V1, survival
                sevent
clus2             0  1
  KRAS MUTATED    9  0
  KRAS WILD-TYPE 94 17
  KRAS MUTATED KRAS WILD-TYPE 
             9            111 
  KRAS MUTATED KRAS WILD-TYPE 
             0             17 
$`KRAS MUTATED`
TCGA-BR-6705 TCGA-BR-6802 TCGA-BR-7703 TCGA-BR-7707 TCGA-BR-8059 TCGA-BR-A4QL 
        1.71         0.76         0.46         0.13         0.82         2.24 
TCGA-CD-5798 TCGA-CG-5719 TCGA-CG-5727 
        0.82         1.02        31.04 

$`KRAS WILD-TYPE`
TCGA-B7-5816 TCGA-B7-5818 TCGA-BR-6452 TCGA-BR-6455 TCGA-BR-6457 TCGA-BR-6458 
        5.62         0.10         0.95         1.41         1.35         1.35 
TCGA-BR-6563 TCGA-BR-6564 TCGA-BR-6565 TCGA-BR-6566 TCGA-BR-6706 TCGA-BR-6707 
        0.85         0.82         0.62         0.62         2.17         0.99 
TCGA-BR-6801 TCGA-BR-6803 TCGA-BR-6852 TCGA-BR-7196 TCGA-BR-7197 TCGA-BR-7715 
        1.12         0.66         0.26         1.22         1.48         1.05 
TCGA-BR-7716 TCGA-BR-7717 TCGA-BR-7722 TCGA-BR-7723 TCGA-BR-7851 TCGA-BR-7901 
        0.82         0.69         0.16         4.54         0.99         0.95 
TCGA-BR-7957 TCGA-BR-8077 TCGA-BR-8080 TCGA-BR-8081 TCGA-BR-8284 TCGA-BR-8295 
        0.69         0.69         0.49         0.46         0.72         1.55 
TCGA-BR-8296 TCGA-BR-8676 TCGA-BR-8682 TCGA-BR-8690 TCGA-BR-A4IV TCGA-BR-A4IY 
        1.48         0.89         1.64         0.59         0.92         0.39 
TCGA-BR-A4IZ TCGA-BR-A4J1 TCGA-BR-A4J4 TCGA-BR-A4J6 TCGA-BR-A4J8 TCGA-BR-A4QI 
        0.79         0.72         0.53         0.13         0.23         0.49 
TCGA-CD-5799 TCGA-CD-5800 TCGA-CD-5801 TCGA-CD-5802 TCGA-CD-5803 TCGA-CD-5813 
        0.69         0.36         0.49         0.30         0.07         0.39 
TCGA-CG-4300 TCGA-CG-4301 TCGA-CG-4304 TCGA-CG-4305 TCGA-CG-4306 TCGA-CG-4436 
       20.02         3.02        27.02        15.95         1.02         7.96 
TCGA-CG-4437 TCGA-CG-4438 TCGA-CG-4440 TCGA-CG-4441 TCGA-CG-4443 TCGA-CG-4444 
        8.05        54.05         4.01        14.01        29.98        47.05 
TCGA-CG-4449 TCGA-CG-4455 TCGA-CG-4465 TCGA-CG-4466 TCGA-CG-4469 TCGA-CG-4477 
       19.07        12.03         8.98        18.94         7.07         1.02 
TCGA-CG-5717 TCGA-CG-5718 TCGA-CG-5720 TCGA-CG-5721 TCGA-CG-5722 TCGA-CG-5723 
        6.94         1.02         0.99         5.98         0.95        70.06 
TCGA-CG-5724 TCGA-CG-5726 TCGA-CG-5728 TCGA-CG-5730 TCGA-CG-5732 TCGA-CG-5733 
       12.03        28.96        65.10         4.01        55.04        21.07 
TCGA-CG-5734 TCGA-D7-5577 TCGA-D7-5578 TCGA-D7-5579 TCGA-D7-6518 TCGA-D7-6519 
        7.99         8.65         3.58         4.54         9.80        15.65 
TCGA-D7-6520 TCGA-D7-6521 TCGA-D7-6522 TCGA-D7-6524 TCGA-D7-6525 TCGA-D7-6526 
        9.63         8.19         6.90         0.69         5.95         6.61 
TCGA-D7-6527 TCGA-D7-6528 TCGA-D7-6815 TCGA-D7-6817 TCGA-D7-6818 TCGA-D7-6820 
        4.14         1.68         3.65         0.79         4.04         2.93 
TCGA-D7-6822 TCGA-EQ-5647 TCGA-F1-6177 TCGA-F1-6874 TCGA-F1-6875 TCGA-FP-7735 
        4.27         0.62         6.54         2.01        72.23         0.39 
TCGA-FP-7829 TCGA-FP-7916 TCGA-FP-7998 TCGA-FP-8099 TCGA-FP-8209 TCGA-HJ-7597 
        0.20         3.02         3.58         1.02        59.05        26.43 
TCGA-IN-7806 TCGA-IN-7808 TCGA-IP-7968 
        6.87         3.55         2.53 

  KRAS MUTATED KRAS WILD-TYPE 
          0.13           0.07 
  KRAS MUTATED KRAS WILD-TYPE 
         31.04          72.23 
  KRAS MUTATED KRAS WILD-TYPE 
          0.82           1.64 
[1] "0.1 - 31.0 (0.8)" "0.1 - 72.2 (1.6)"
    TCGA-B7-5816     TCGA-B7-5818     TCGA-BR-6452     TCGA-BR-6455 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BR-6457     TCGA-BR-6458     TCGA-BR-6563     TCGA-BR-6564 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BR-6565     TCGA-BR-6566     TCGA-BR-6705     TCGA-BR-6706 
"KRAS WILD-TYPE" "KRAS WILD-TYPE"   "KRAS MUTATED" "KRAS WILD-TYPE" 
    TCGA-BR-6707     TCGA-BR-6801     TCGA-BR-6802     TCGA-BR-6803 
"KRAS WILD-TYPE" "KRAS WILD-TYPE"   "KRAS MUTATED" "KRAS WILD-TYPE" 
    TCGA-BR-6852     TCGA-BR-7196     TCGA-BR-7197     TCGA-BR-7703 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE"   "KRAS MUTATED" 
    TCGA-BR-7707     TCGA-BR-7715     TCGA-BR-7716     TCGA-BR-7717 
  "KRAS MUTATED" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BR-7722     TCGA-BR-7723     TCGA-BR-7851     TCGA-BR-7901 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BR-7957     TCGA-BR-8059     TCGA-BR-8077     TCGA-BR-8080 
"KRAS WILD-TYPE"   "KRAS MUTATED" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BR-8081     TCGA-BR-8284     TCGA-BR-8295     TCGA-BR-8296 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BR-8676     TCGA-BR-8682     TCGA-BR-8690     TCGA-BR-A4IV 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BR-A4IY     TCGA-BR-A4IZ     TCGA-BR-A4J1     TCGA-BR-A4J4 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BR-A4J6     TCGA-BR-A4J8     TCGA-BR-A4QI     TCGA-BR-A4QL 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE"   "KRAS MUTATED" 
    TCGA-CD-5798     TCGA-CD-5799     TCGA-CD-5800     TCGA-CD-5801 
  "KRAS MUTATED" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-CD-5802     TCGA-CD-5803     TCGA-CD-5813     TCGA-CG-4300 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-CG-4301     TCGA-CG-4304     TCGA-CG-4305     TCGA-CG-4306 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-CG-4436     TCGA-CG-4437     TCGA-CG-4438     TCGA-CG-4440 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-CG-4441     TCGA-CG-4443     TCGA-CG-4444     TCGA-CG-4449 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-CG-4455     TCGA-CG-4465     TCGA-CG-4466     TCGA-CG-4469 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-CG-4477     TCGA-CG-5717     TCGA-CG-5718     TCGA-CG-5719 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE"   "KRAS MUTATED" 
    TCGA-CG-5720     TCGA-CG-5721     TCGA-CG-5722     TCGA-CG-5723 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-CG-5724     TCGA-CG-5726     TCGA-CG-5727     TCGA-CG-5728 
"KRAS WILD-TYPE" "KRAS WILD-TYPE"   "KRAS MUTATED" "KRAS WILD-TYPE" 
    TCGA-CG-5730     TCGA-CG-5732     TCGA-CG-5733     TCGA-CG-5734 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-D7-5577     TCGA-D7-5578     TCGA-D7-5579     TCGA-D7-6518 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-D7-6519     TCGA-D7-6520     TCGA-D7-6521     TCGA-D7-6522 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-D7-6524     TCGA-D7-6525     TCGA-D7-6526     TCGA-D7-6527 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-D7-6528     TCGA-D7-6815     TCGA-D7-6817     TCGA-D7-6818 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-D7-6820     TCGA-D7-6822     TCGA-EQ-5647     TCGA-F1-6177 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-F1-6874     TCGA-F1-6875     TCGA-FP-7735     TCGA-FP-7829 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-FP-7916     TCGA-FP-7998     TCGA-FP-8099     TCGA-FP-8209 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-HJ-7597     TCGA-IN-7806     TCGA-IN-7808     TCGA-IP-7968 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-B7-5816     TCGA-B7-5818     TCGA-BR-6452     TCGA-BR-6455 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BR-6457     TCGA-BR-6458     TCGA-BR-6563     TCGA-BR-6564 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BR-6565     TCGA-BR-6566     TCGA-BR-6705     TCGA-BR-6706 
"KRAS WILD-TYPE" "KRAS WILD-TYPE"   "KRAS MUTATED" "KRAS WILD-TYPE" 
    TCGA-BR-6707     TCGA-BR-6801     TCGA-BR-6802     TCGA-BR-6803 
"KRAS WILD-TYPE" "KRAS WILD-TYPE"   "KRAS MUTATED" "KRAS WILD-TYPE" 
    TCGA-BR-6852     TCGA-BR-7196     TCGA-BR-7197     TCGA-BR-7703 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE"   "KRAS MUTATED" 
    TCGA-BR-7707     TCGA-BR-7715     TCGA-BR-7716     TCGA-BR-7717 
  "KRAS MUTATED" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BR-7722     TCGA-BR-7723     TCGA-BR-7851     TCGA-BR-7901 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BR-7957     TCGA-BR-8059     TCGA-BR-8077     TCGA-BR-8080 
"KRAS WILD-TYPE"   "KRAS MUTATED" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BR-8081     TCGA-BR-8284     TCGA-BR-8295     TCGA-BR-8296 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BR-8676     TCGA-BR-8682     TCGA-BR-8690     TCGA-BR-A4IV 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BR-A4IY     TCGA-BR-A4IZ     TCGA-BR-A4J1     TCGA-BR-A4J4 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BR-A4J6     TCGA-BR-A4J8     TCGA-BR-A4QI     TCGA-BR-A4QL 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE"   "KRAS MUTATED" 
    TCGA-CD-5798     TCGA-CD-5799     TCGA-CD-5800     TCGA-CD-5801 
  "KRAS MUTATED" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-CD-5802     TCGA-CD-5803     TCGA-CD-5813     TCGA-CG-4300 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-CG-4301     TCGA-CG-4304     TCGA-CG-4305     TCGA-CG-4306 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-CG-4436     TCGA-CG-4437     TCGA-CG-4438     TCGA-CG-4440 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-CG-4441     TCGA-CG-4443     TCGA-CG-4444     TCGA-CG-4449 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-CG-4455     TCGA-CG-4465     TCGA-CG-4466     TCGA-CG-4469 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-CG-4477     TCGA-CG-5717     TCGA-CG-5718     TCGA-CG-5719 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE"   "KRAS MUTATED" 
    TCGA-CG-5720     TCGA-CG-5721     TCGA-CG-5722     TCGA-CG-5723 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-CG-5724     TCGA-CG-5726     TCGA-CG-5727     TCGA-CG-5728 
"KRAS WILD-TYPE" "KRAS WILD-TYPE"   "KRAS MUTATED" "KRAS WILD-TYPE" 
    TCGA-CG-5730     TCGA-CG-5732     TCGA-CG-5733     TCGA-CG-5734 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-D7-5577     TCGA-D7-5578     TCGA-D7-5579     TCGA-D7-6518 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-D7-6519     TCGA-D7-6520     TCGA-D7-6521     TCGA-D7-6522 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-D7-6524     TCGA-D7-6525     TCGA-D7-6526     TCGA-D7-6527 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-D7-6528     TCGA-D7-6815     TCGA-D7-6817     TCGA-D7-6818 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-D7-6820     TCGA-D7-6822     TCGA-EQ-5647     TCGA-F1-6177 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-F1-6874     TCGA-F1-6875     TCGA-FP-7735     TCGA-FP-7829 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-FP-7916     TCGA-FP-7998     TCGA-FP-8099     TCGA-FP-8209 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-HJ-7597     TCGA-IN-7806     TCGA-IN-7808     TCGA-IP-7968 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-B7-5816     TCGA-B7-5818     TCGA-BR-6452     TCGA-BR-6455 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BR-6457     TCGA-BR-6458     TCGA-BR-6563     TCGA-BR-6564 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BR-6565     TCGA-BR-6566     TCGA-BR-6705     TCGA-BR-6706 
"KRAS WILD-TYPE" "KRAS WILD-TYPE"   "KRAS MUTATED" "KRAS WILD-TYPE" 
    TCGA-BR-6707     TCGA-BR-6801     TCGA-BR-6802     TCGA-BR-6803 
"KRAS WILD-TYPE" "KRAS WILD-TYPE"   "KRAS MUTATED" "KRAS WILD-TYPE" 
    TCGA-BR-6852     TCGA-BR-7196     TCGA-BR-7197     TCGA-BR-7703 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE"   "KRAS MUTATED" 
    TCGA-BR-7707     TCGA-BR-7715     TCGA-BR-7716     TCGA-BR-7717 
  "KRAS MUTATED" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BR-7722     TCGA-BR-7723     TCGA-BR-7851     TCGA-BR-7901 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BR-7957     TCGA-BR-8059     TCGA-BR-8077     TCGA-BR-8080 
"KRAS WILD-TYPE"   "KRAS MUTATED" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BR-8081     TCGA-BR-8284     TCGA-BR-8295     TCGA-BR-8296 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BR-8676     TCGA-BR-8682     TCGA-BR-8690     TCGA-BR-A4IV 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BR-A4IY     TCGA-BR-A4IZ     TCGA-BR-A4J1     TCGA-BR-A4J4 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BR-A4J6     TCGA-BR-A4J8     TCGA-BR-A4QI     TCGA-BR-A4QL 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE"   "KRAS MUTATED" 
    TCGA-CD-5798     TCGA-CD-5799     TCGA-CD-5800     TCGA-CD-5801 
  "KRAS MUTATED" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-CD-5802     TCGA-CD-5803     TCGA-CD-5813     TCGA-CG-4300 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-CG-4301     TCGA-CG-4304     TCGA-CG-4305     TCGA-CG-4306 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-CG-4436     TCGA-CG-4437     TCGA-CG-4438     TCGA-CG-4440 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-CG-4441     TCGA-CG-4443     TCGA-CG-4444     TCGA-CG-4449 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-CG-4455     TCGA-CG-4465     TCGA-CG-4466     TCGA-CG-4469 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-CG-4477     TCGA-CG-5717     TCGA-CG-5718     TCGA-CG-5719 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE"   "KRAS MUTATED" 
    TCGA-CG-5720     TCGA-CG-5721     TCGA-CG-5722     TCGA-CG-5723 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-CG-5724     TCGA-CG-5726     TCGA-CG-5727     TCGA-CG-5728 
"KRAS WILD-TYPE" "KRAS WILD-TYPE"   "KRAS MUTATED" "KRAS WILD-TYPE" 
    TCGA-CG-5730     TCGA-CG-5732     TCGA-CG-5733     TCGA-CG-5734 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-D7-5577     TCGA-D7-5578     TCGA-D7-5579     TCGA-D7-6518 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-D7-6519     TCGA-D7-6520     TCGA-D7-6521     TCGA-D7-6522 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-D7-6524     TCGA-D7-6525     TCGA-D7-6526     TCGA-D7-6527 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-D7-6528     TCGA-D7-6815     TCGA-D7-6817     TCGA-D7-6818 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-D7-6820     TCGA-D7-6822     TCGA-EQ-5647     TCGA-F1-6177 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-F1-6874     TCGA-F1-6875     TCGA-FP-7735     TCGA-FP-7829 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-FP-7916     TCGA-FP-7998     TCGA-FP-8099     TCGA-FP-8209 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-HJ-7597     TCGA-IN-7806     TCGA-IN-7808     TCGA-IP-7968 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
[1] "hr="     "7.3e+07"
D3V2, continuous
D3V3, binary
                cls
clus              0  1
  KRAS MUTATED   10  6
  KRAS WILD-TYPE 53 87
[1] "tbl2"
                cls
clus             [,1] [,2]
  KRAS MUTATED     10    6
  KRAS WILD-TYPE   53   87
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  FEMALE           10             53
  MALE              6             87
                vv
clus             STOMACH  ADENOCARCINOMA  DIFFUSE TYPE
  KRAS MUTATED                                       0
  KRAS WILD-TYPE                                    23
                vv
clus             STOMACH  ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  KRAS MUTATED                                                       11
  KRAS WILD-TYPE                                                     67
                vv
clus             STOMACH  INTESTINAL ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  KRAS MUTATED                                                                   3
  KRAS WILD-TYPE                                                                27
                vv
clus             STOMACH  INTESTINAL ADENOCARCINOMA  TUBULAR TYPE
  KRAS MUTATED                                                  0
  KRAS WILD-TYPE                                               10
                vv
clus             STOMACH  INTESTINAL ADENOCARCINOMA \302\240MUCINOUS TYPE
  KRAS MUTATED                                                          1
  KRAS WILD-TYPE                                                        9
                vv
clus             STOMACH  INTESTINAL ADENOCARCINOMA \302\240PAPILLARY TYPE
  KRAS MUTATED                                                           1
  KRAS WILD-TYPE                                                         2
                vv
clus             STOMACH ADENOCARCINOMA  SIGNET RING TYPE
  KRAS MUTATED                                          0
  KRAS WILD-TYPE                                        1
D3V4, multiclass
D3V5, binary
                cls
clus               0   1
  KRAS MUTATED     0  16
  KRAS WILD-TYPE   6 134
[1] "tbl2"
                cls
clus             [,1] [,2]
  KRAS MUTATED      0   16
  KRAS WILD-TYPE    6  134
     clus
vv    KRAS MUTATED KRAS WILD-TYPE
  NO             0              6
  YES           16            134
                vv
clus              M0  M1  MX
  KRAS MUTATED    14   1   1
  KRAS WILD-TYPE 118  13   9
D3V6, multiclass
    clus
vv   KRAS MUTATED KRAS WILD-TYPE
  M0           14            118
  M1            1             13
  MX            1              9
                vv
clus             N0 N1 N2 N3 N3A NX
  KRAS MUTATED    7  4  2  0   1  2
  KRAS WILD-TYPE 42 45 23 14   7  9
D3V7, multiclass
                vv
clus             R0 R1 R2 RX
  KRAS MUTATED    8  0  0  7
  KRAS WILD-TYPE 98  6 10 17
D3V8, multiclass
    clus
vv   KRAS MUTATED KRAS WILD-TYPE
  R0            8             98
  R1            0              6
  R2            0             10
  RX            7             17
D3V9, continuous
D3V10, continuous
                vv
clus             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB
  KRAS MUTATED         0        2        1        2         0         0
  KRAS WILD-TYPE       1        3       15       25         7        10
                vv
clus             STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  KRAS MUTATED           2          3          2          0        2
  KRAS WILD-TYPE         2         27         10          6       21
D3V11, multiclass

Clustering(4) Variable = CBWD1 MUTATION ANALYSIS
D4V1, survival
                 sevent
clus2              0  1
  CBWD1 MUTATED   10  3
  CBWD1 WILD-TYPE 93 14
  CBWD1 MUTATED CBWD1 WILD-TYPE 
             13             107 
  CBWD1 MUTATED CBWD1 WILD-TYPE 
              3              14 
$`CBWD1 MUTATED`
TCGA-B7-5816 TCGA-BR-6452 TCGA-BR-6566 TCGA-BR-6852 TCGA-BR-7707 TCGA-BR-7851 
        5.62         0.95         0.62         0.26         0.13         0.99 
TCGA-BR-A4QL TCGA-CG-4305 TCGA-CG-4306 TCGA-CG-5721 TCGA-CG-5733 TCGA-F1-6874 
        2.24        15.95         1.02         5.98        21.07         2.01 
TCGA-HJ-7597 
       26.43 

$`CBWD1 WILD-TYPE`
TCGA-B7-5818 TCGA-BR-6455 TCGA-BR-6457 TCGA-BR-6458 TCGA-BR-6563 TCGA-BR-6564 
        0.10         1.41         1.35         1.35         0.85         0.82 
TCGA-BR-6565 TCGA-BR-6705 TCGA-BR-6706 TCGA-BR-6707 TCGA-BR-6801 TCGA-BR-6802 
        0.62         1.71         2.17         0.99         1.12         0.76 
TCGA-BR-6803 TCGA-BR-7196 TCGA-BR-7197 TCGA-BR-7703 TCGA-BR-7715 TCGA-BR-7716 
        0.66         1.22         1.48         0.46         1.05         0.82 
TCGA-BR-7717 TCGA-BR-7722 TCGA-BR-7723 TCGA-BR-7901 TCGA-BR-7957 TCGA-BR-8059 
        0.69         0.16         4.54         0.95         0.69         0.82 
TCGA-BR-8077 TCGA-BR-8080 TCGA-BR-8081 TCGA-BR-8284 TCGA-BR-8295 TCGA-BR-8296 
        0.69         0.49         0.46         0.72         1.55         1.48 
TCGA-BR-8676 TCGA-BR-8682 TCGA-BR-8690 TCGA-BR-A4IV TCGA-BR-A4IY TCGA-BR-A4IZ 
        0.89         1.64         0.59         0.92         0.39         0.79 
TCGA-BR-A4J1 TCGA-BR-A4J4 TCGA-BR-A4J6 TCGA-BR-A4J8 TCGA-BR-A4QI TCGA-CD-5798 
        0.72         0.53         0.13         0.23         0.49         0.82 
TCGA-CD-5799 TCGA-CD-5800 TCGA-CD-5801 TCGA-CD-5802 TCGA-CD-5803 TCGA-CD-5813 
        0.69         0.36         0.49         0.30         0.07         0.39 
TCGA-CG-4300 TCGA-CG-4301 TCGA-CG-4304 TCGA-CG-4436 TCGA-CG-4437 TCGA-CG-4438 
       20.02         3.02        27.02         7.96         8.05        54.05 
TCGA-CG-4440 TCGA-CG-4441 TCGA-CG-4443 TCGA-CG-4444 TCGA-CG-4449 TCGA-CG-4455 
        4.01        14.01        29.98        47.05        19.07        12.03 
TCGA-CG-4465 TCGA-CG-4466 TCGA-CG-4469 TCGA-CG-4477 TCGA-CG-5717 TCGA-CG-5718 
        8.98        18.94         7.07         1.02         6.94         1.02 
TCGA-CG-5719 TCGA-CG-5720 TCGA-CG-5722 TCGA-CG-5723 TCGA-CG-5724 TCGA-CG-5726 
        1.02         0.99         0.95        70.06        12.03        28.96 
TCGA-CG-5727 TCGA-CG-5728 TCGA-CG-5730 TCGA-CG-5732 TCGA-CG-5734 TCGA-D7-5577 
       31.04        65.10         4.01        55.04         7.99         8.65 
TCGA-D7-5578 TCGA-D7-5579 TCGA-D7-6518 TCGA-D7-6519 TCGA-D7-6520 TCGA-D7-6521 
        3.58         4.54         9.80        15.65         9.63         8.19 
TCGA-D7-6522 TCGA-D7-6524 TCGA-D7-6525 TCGA-D7-6526 TCGA-D7-6527 TCGA-D7-6528 
        6.90         0.69         5.95         6.61         4.14         1.68 
TCGA-D7-6815 TCGA-D7-6817 TCGA-D7-6818 TCGA-D7-6820 TCGA-D7-6822 TCGA-EQ-5647 
        3.65         0.79         4.04         2.93         4.27         0.62 
TCGA-F1-6177 TCGA-F1-6875 TCGA-FP-7735 TCGA-FP-7829 TCGA-FP-7916 TCGA-FP-7998 
        6.54        72.23         0.39         0.20         3.02         3.58 
TCGA-FP-8099 TCGA-FP-8209 TCGA-IN-7806 TCGA-IN-7808 TCGA-IP-7968 
        1.02        59.05         6.87         3.55         2.53 

  CBWD1 MUTATED CBWD1 WILD-TYPE 
           0.13            0.07 
  CBWD1 MUTATED CBWD1 WILD-TYPE 
          26.43           72.23 
  CBWD1 MUTATED CBWD1 WILD-TYPE 
           2.01            1.48 
[1] "0.1 - 26.4 (2.0)" "0.1 - 72.2 (1.5)"
     TCGA-B7-5816      TCGA-B7-5818      TCGA-BR-6452      TCGA-BR-6455 
  "CBWD1 MUTATED" "CBWD1 WILD-TYPE"   "CBWD1 MUTATED" "CBWD1 WILD-TYPE" 
     TCGA-BR-6457      TCGA-BR-6458      TCGA-BR-6563      TCGA-BR-6564 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-BR-6565      TCGA-BR-6566      TCGA-BR-6705      TCGA-BR-6706 
"CBWD1 WILD-TYPE"   "CBWD1 MUTATED" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-BR-6707      TCGA-BR-6801      TCGA-BR-6802      TCGA-BR-6803 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-BR-6852      TCGA-BR-7196      TCGA-BR-7197      TCGA-BR-7703 
  "CBWD1 MUTATED" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-BR-7707      TCGA-BR-7715      TCGA-BR-7716      TCGA-BR-7717 
  "CBWD1 MUTATED" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-BR-7722      TCGA-BR-7723      TCGA-BR-7851      TCGA-BR-7901 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE"   "CBWD1 MUTATED" "CBWD1 WILD-TYPE" 
     TCGA-BR-7957      TCGA-BR-8059      TCGA-BR-8077      TCGA-BR-8080 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-BR-8081      TCGA-BR-8284      TCGA-BR-8295      TCGA-BR-8296 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-BR-8676      TCGA-BR-8682      TCGA-BR-8690      TCGA-BR-A4IV 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-BR-A4IY      TCGA-BR-A4IZ      TCGA-BR-A4J1      TCGA-BR-A4J4 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-BR-A4J6      TCGA-BR-A4J8      TCGA-BR-A4QI      TCGA-BR-A4QL 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE"   "CBWD1 MUTATED" 
     TCGA-CD-5798      TCGA-CD-5799      TCGA-CD-5800      TCGA-CD-5801 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-CD-5802      TCGA-CD-5803      TCGA-CD-5813      TCGA-CG-4300 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-CG-4301      TCGA-CG-4304      TCGA-CG-4305      TCGA-CG-4306 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE"   "CBWD1 MUTATED"   "CBWD1 MUTATED" 
     TCGA-CG-4436      TCGA-CG-4437      TCGA-CG-4438      TCGA-CG-4440 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-CG-4441      TCGA-CG-4443      TCGA-CG-4444      TCGA-CG-4449 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-CG-4455      TCGA-CG-4465      TCGA-CG-4466      TCGA-CG-4469 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-CG-4477      TCGA-CG-5717      TCGA-CG-5718      TCGA-CG-5719 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-CG-5720      TCGA-CG-5721      TCGA-CG-5722      TCGA-CG-5723 
"CBWD1 WILD-TYPE"   "CBWD1 MUTATED" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-CG-5724      TCGA-CG-5726      TCGA-CG-5727      TCGA-CG-5728 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-CG-5730      TCGA-CG-5732      TCGA-CG-5733      TCGA-CG-5734 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE"   "CBWD1 MUTATED" "CBWD1 WILD-TYPE" 
     TCGA-D7-5577      TCGA-D7-5578      TCGA-D7-5579      TCGA-D7-6518 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-D7-6519      TCGA-D7-6520      TCGA-D7-6521      TCGA-D7-6522 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-D7-6524      TCGA-D7-6525      TCGA-D7-6526      TCGA-D7-6527 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-D7-6528      TCGA-D7-6815      TCGA-D7-6817      TCGA-D7-6818 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-D7-6820      TCGA-D7-6822      TCGA-EQ-5647      TCGA-F1-6177 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-F1-6874      TCGA-F1-6875      TCGA-FP-7735      TCGA-FP-7829 
  "CBWD1 MUTATED" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-FP-7916      TCGA-FP-7998      TCGA-FP-8099      TCGA-FP-8209 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-HJ-7597      TCGA-IN-7806      TCGA-IN-7808      TCGA-IP-7968 
  "CBWD1 MUTATED" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-B7-5816      TCGA-B7-5818      TCGA-BR-6452      TCGA-BR-6455 
  "CBWD1 MUTATED" "CBWD1 WILD-TYPE"   "CBWD1 MUTATED" "CBWD1 WILD-TYPE" 
     TCGA-BR-6457      TCGA-BR-6458      TCGA-BR-6563      TCGA-BR-6564 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-BR-6565      TCGA-BR-6566      TCGA-BR-6705      TCGA-BR-6706 
"CBWD1 WILD-TYPE"   "CBWD1 MUTATED" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-BR-6707      TCGA-BR-6801      TCGA-BR-6802      TCGA-BR-6803 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-BR-6852      TCGA-BR-7196      TCGA-BR-7197      TCGA-BR-7703 
  "CBWD1 MUTATED" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-BR-7707      TCGA-BR-7715      TCGA-BR-7716      TCGA-BR-7717 
  "CBWD1 MUTATED" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-BR-7722      TCGA-BR-7723      TCGA-BR-7851      TCGA-BR-7901 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE"   "CBWD1 MUTATED" "CBWD1 WILD-TYPE" 
     TCGA-BR-7957      TCGA-BR-8059      TCGA-BR-8077      TCGA-BR-8080 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-BR-8081      TCGA-BR-8284      TCGA-BR-8295      TCGA-BR-8296 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-BR-8676      TCGA-BR-8682      TCGA-BR-8690      TCGA-BR-A4IV 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-BR-A4IY      TCGA-BR-A4IZ      TCGA-BR-A4J1      TCGA-BR-A4J4 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-BR-A4J6      TCGA-BR-A4J8      TCGA-BR-A4QI      TCGA-BR-A4QL 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE"   "CBWD1 MUTATED" 
     TCGA-CD-5798      TCGA-CD-5799      TCGA-CD-5800      TCGA-CD-5801 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-CD-5802      TCGA-CD-5803      TCGA-CD-5813      TCGA-CG-4300 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-CG-4301      TCGA-CG-4304      TCGA-CG-4305      TCGA-CG-4306 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE"   "CBWD1 MUTATED"   "CBWD1 MUTATED" 
     TCGA-CG-4436      TCGA-CG-4437      TCGA-CG-4438      TCGA-CG-4440 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-CG-4441      TCGA-CG-4443      TCGA-CG-4444      TCGA-CG-4449 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-CG-4455      TCGA-CG-4465      TCGA-CG-4466      TCGA-CG-4469 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-CG-4477      TCGA-CG-5717      TCGA-CG-5718      TCGA-CG-5719 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-CG-5720      TCGA-CG-5721      TCGA-CG-5722      TCGA-CG-5723 
"CBWD1 WILD-TYPE"   "CBWD1 MUTATED" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-CG-5724      TCGA-CG-5726      TCGA-CG-5727      TCGA-CG-5728 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-CG-5730      TCGA-CG-5732      TCGA-CG-5733      TCGA-CG-5734 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE"   "CBWD1 MUTATED" "CBWD1 WILD-TYPE" 
     TCGA-D7-5577      TCGA-D7-5578      TCGA-D7-5579      TCGA-D7-6518 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-D7-6519      TCGA-D7-6520      TCGA-D7-6521      TCGA-D7-6522 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-D7-6524      TCGA-D7-6525      TCGA-D7-6526      TCGA-D7-6527 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-D7-6528      TCGA-D7-6815      TCGA-D7-6817      TCGA-D7-6818 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-D7-6820      TCGA-D7-6822      TCGA-EQ-5647      TCGA-F1-6177 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-F1-6874      TCGA-F1-6875      TCGA-FP-7735      TCGA-FP-7829 
  "CBWD1 MUTATED" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-FP-7916      TCGA-FP-7998      TCGA-FP-8099      TCGA-FP-8209 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-HJ-7597      TCGA-IN-7806      TCGA-IN-7808      TCGA-IP-7968 
  "CBWD1 MUTATED" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-B7-5816      TCGA-B7-5818      TCGA-BR-6452      TCGA-BR-6455 
  "CBWD1 MUTATED" "CBWD1 WILD-TYPE"   "CBWD1 MUTATED" "CBWD1 WILD-TYPE" 
     TCGA-BR-6457      TCGA-BR-6458      TCGA-BR-6563      TCGA-BR-6564 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-BR-6565      TCGA-BR-6566      TCGA-BR-6705      TCGA-BR-6706 
"CBWD1 WILD-TYPE"   "CBWD1 MUTATED" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-BR-6707      TCGA-BR-6801      TCGA-BR-6802      TCGA-BR-6803 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-BR-6852      TCGA-BR-7196      TCGA-BR-7197      TCGA-BR-7703 
  "CBWD1 MUTATED" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-BR-7707      TCGA-BR-7715      TCGA-BR-7716      TCGA-BR-7717 
  "CBWD1 MUTATED" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-BR-7722      TCGA-BR-7723      TCGA-BR-7851      TCGA-BR-7901 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE"   "CBWD1 MUTATED" "CBWD1 WILD-TYPE" 
     TCGA-BR-7957      TCGA-BR-8059      TCGA-BR-8077      TCGA-BR-8080 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-BR-8081      TCGA-BR-8284      TCGA-BR-8295      TCGA-BR-8296 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-BR-8676      TCGA-BR-8682      TCGA-BR-8690      TCGA-BR-A4IV 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-BR-A4IY      TCGA-BR-A4IZ      TCGA-BR-A4J1      TCGA-BR-A4J4 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-BR-A4J6      TCGA-BR-A4J8      TCGA-BR-A4QI      TCGA-BR-A4QL 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE"   "CBWD1 MUTATED" 
     TCGA-CD-5798      TCGA-CD-5799      TCGA-CD-5800      TCGA-CD-5801 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-CD-5802      TCGA-CD-5803      TCGA-CD-5813      TCGA-CG-4300 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-CG-4301      TCGA-CG-4304      TCGA-CG-4305      TCGA-CG-4306 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE"   "CBWD1 MUTATED"   "CBWD1 MUTATED" 
     TCGA-CG-4436      TCGA-CG-4437      TCGA-CG-4438      TCGA-CG-4440 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-CG-4441      TCGA-CG-4443      TCGA-CG-4444      TCGA-CG-4449 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-CG-4455      TCGA-CG-4465      TCGA-CG-4466      TCGA-CG-4469 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-CG-4477      TCGA-CG-5717      TCGA-CG-5718      TCGA-CG-5719 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-CG-5720      TCGA-CG-5721      TCGA-CG-5722      TCGA-CG-5723 
"CBWD1 WILD-TYPE"   "CBWD1 MUTATED" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-CG-5724      TCGA-CG-5726      TCGA-CG-5727      TCGA-CG-5728 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-CG-5730      TCGA-CG-5732      TCGA-CG-5733      TCGA-CG-5734 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE"   "CBWD1 MUTATED" "CBWD1 WILD-TYPE" 
     TCGA-D7-5577      TCGA-D7-5578      TCGA-D7-5579      TCGA-D7-6518 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-D7-6519      TCGA-D7-6520      TCGA-D7-6521      TCGA-D7-6522 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-D7-6524      TCGA-D7-6525      TCGA-D7-6526      TCGA-D7-6527 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-D7-6528      TCGA-D7-6815      TCGA-D7-6817      TCGA-D7-6818 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-D7-6820      TCGA-D7-6822      TCGA-EQ-5647      TCGA-F1-6177 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-F1-6874      TCGA-F1-6875      TCGA-FP-7735      TCGA-FP-7829 
  "CBWD1 MUTATED" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-FP-7916      TCGA-FP-7998      TCGA-FP-8099      TCGA-FP-8209 
"CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
     TCGA-HJ-7597      TCGA-IN-7806      TCGA-IN-7808      TCGA-IP-7968 
  "CBWD1 MUTATED" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" "CBWD1 WILD-TYPE" 
[1] "hr=" "2"  
D4V2, continuous
D4V3, binary
                 cls
clus               0  1
  CBWD1 MUTATED   12  6
  CBWD1 WILD-TYPE 51 87
[1] "tbl2"
                 cls
clus              [,1] [,2]
  CBWD1 MUTATED     12    6
  CBWD1 WILD-TYPE   51   87
        clus
vv       CBWD1 MUTATED CBWD1 WILD-TYPE
  FEMALE            12              51
  MALE               6              87
                 vv
clus              STOMACH  ADENOCARCINOMA  DIFFUSE TYPE
  CBWD1 MUTATED                                       1
  CBWD1 WILD-TYPE                                    22
                 vv
clus              STOMACH  ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  CBWD1 MUTATED                                                       11
  CBWD1 WILD-TYPE                                                     67
                 vv
clus              STOMACH  INTESTINAL ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  CBWD1 MUTATED                                                                   4
  CBWD1 WILD-TYPE                                                                26
                 vv
clus              STOMACH  INTESTINAL ADENOCARCINOMA  TUBULAR TYPE
  CBWD1 MUTATED                                                  0
  CBWD1 WILD-TYPE                                               10
                 vv
clus              STOMACH  INTESTINAL ADENOCARCINOMA \302\240MUCINOUS TYPE
  CBWD1 MUTATED                                                          1
  CBWD1 WILD-TYPE                                                        9
                 vv
clus              STOMACH  INTESTINAL ADENOCARCINOMA \302\240PAPILLARY TYPE
  CBWD1 MUTATED                                                           0
  CBWD1 WILD-TYPE                                                         3
                 vv
clus              STOMACH ADENOCARCINOMA  SIGNET RING TYPE
  CBWD1 MUTATED                                          1
  CBWD1 WILD-TYPE                                        0
D4V4, multiclass
D4V5, binary
                 cls
clus                0   1
  CBWD1 MUTATED     1  17
  CBWD1 WILD-TYPE   5 133
[1] "tbl2"
                 cls
clus              [,1] [,2]
  CBWD1 MUTATED      1   17
  CBWD1 WILD-TYPE    5  133
     clus
vv    CBWD1 MUTATED CBWD1 WILD-TYPE
  NO              1               5
  YES            17             133
                 vv
clus               M0  M1  MX
  CBWD1 MUTATED    16   1   1
  CBWD1 WILD-TYPE 116  13   9
D4V6, multiclass
    clus
vv   CBWD1 MUTATED CBWD1 WILD-TYPE
  M0            16             116
  M1             1              13
  MX             1               9
                 vv
clus              N0 N1 N2 N3 N3A NX
  CBWD1 MUTATED    8  4  3  0   1  2
  CBWD1 WILD-TYPE 41 45 22 14   7  9
D4V7, multiclass
                 vv
clus              R0 R1 R2 RX
  CBWD1 MUTATED   13  0  1  4
  CBWD1 WILD-TYPE 93  6  9 20
D4V8, multiclass
    clus
vv   CBWD1 MUTATED CBWD1 WILD-TYPE
  R0            13              93
  R1             0               6
  R2             1               9
  RX             4              20
D4V9, continuous
D4V10, continuous
                 vv
clus              STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB
  CBWD1 MUTATED         0        1        2        6         0         0
  CBWD1 WILD-TYPE       1        4       14       21         7        10
                 vv
clus              STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  CBWD1 MUTATED           0          2          1          0        3
  CBWD1 WILD-TYPE         4         28         11          6       20
D4V11, multiclass

Clustering(5) Variable = TP53 MUTATION ANALYSIS
D5V1, survival
                sevent
clus2             0  1
  TP53 MUTATED   55  7
  TP53 WILD-TYPE 48 10
  TP53 MUTATED TP53 WILD-TYPE 
            62             58 
  TP53 MUTATED TP53 WILD-TYPE 
             7             10 
$`TP53 MUTATED`
TCGA-B7-5818 TCGA-BR-6457 TCGA-BR-6458 TCGA-BR-6565 TCGA-BR-6803 TCGA-BR-6852 
        0.10         1.35         1.35         0.62         0.66         0.26 
TCGA-BR-7197 TCGA-BR-7703 TCGA-BR-7715 TCGA-BR-7716 TCGA-BR-7723 TCGA-BR-7901 
        1.48         0.46         1.05         0.82         4.54         0.95 
TCGA-BR-8077 TCGA-BR-8080 TCGA-BR-8295 TCGA-BR-8296 TCGA-BR-8682 TCGA-BR-8690 
        0.69         0.49         1.55         1.48         1.64         0.59 
TCGA-BR-A4IY TCGA-BR-A4J8 TCGA-BR-A4QI TCGA-CD-5799 TCGA-CD-5800 TCGA-CD-5813 
        0.39         0.23         0.49         0.69         0.36         0.39 
TCGA-CG-4300 TCGA-CG-4436 TCGA-CG-4438 TCGA-CG-4440 TCGA-CG-4444 TCGA-CG-4449 
       20.02         7.96        54.05         4.01        47.05        19.07 
TCGA-CG-4466 TCGA-CG-4469 TCGA-CG-5717 TCGA-CG-5718 TCGA-CG-5721 TCGA-CG-5723 
       18.94         7.07         6.94         1.02         5.98        70.06 
TCGA-CG-5726 TCGA-CG-5727 TCGA-CG-5730 TCGA-CG-5732 TCGA-D7-5578 TCGA-D7-6518 
       28.96        31.04         4.01        55.04         3.58         9.80 
TCGA-D7-6520 TCGA-D7-6521 TCGA-D7-6525 TCGA-D7-6526 TCGA-D7-6527 TCGA-D7-6528 
        9.63         8.19         5.95         6.61         4.14         1.68 
TCGA-D7-6815 TCGA-D7-6817 TCGA-D7-6818 TCGA-D7-6820 TCGA-D7-6822 TCGA-F1-6874 
        3.65         0.79         4.04         2.93         4.27         2.01 
TCGA-F1-6875 TCGA-FP-7735 TCGA-FP-7829 TCGA-FP-8099 TCGA-HJ-7597 TCGA-IN-7806 
       72.23         0.39         0.20         1.02        26.43         6.87 
TCGA-IN-7808 TCGA-IP-7968 
        3.55         2.53 

$`TP53 WILD-TYPE`
TCGA-B7-5816 TCGA-BR-6452 TCGA-BR-6455 TCGA-BR-6563 TCGA-BR-6564 TCGA-BR-6566 
        5.62         0.95         1.41         0.85         0.82         0.62 
TCGA-BR-6705 TCGA-BR-6706 TCGA-BR-6707 TCGA-BR-6801 TCGA-BR-6802 TCGA-BR-7196 
        1.71         2.17         0.99         1.12         0.76         1.22 
TCGA-BR-7707 TCGA-BR-7717 TCGA-BR-7722 TCGA-BR-7851 TCGA-BR-7957 TCGA-BR-8059 
        0.13         0.69         0.16         0.99         0.69         0.82 
TCGA-BR-8081 TCGA-BR-8284 TCGA-BR-8676 TCGA-BR-A4IV TCGA-BR-A4IZ TCGA-BR-A4J1 
        0.46         0.72         0.89         0.92         0.79         0.72 
TCGA-BR-A4J4 TCGA-BR-A4J6 TCGA-BR-A4QL TCGA-CD-5798 TCGA-CD-5801 TCGA-CD-5802 
        0.53         0.13         2.24         0.82         0.49         0.30 
TCGA-CD-5803 TCGA-CG-4301 TCGA-CG-4304 TCGA-CG-4305 TCGA-CG-4306 TCGA-CG-4437 
        0.07         3.02        27.02        15.95         1.02         8.05 
TCGA-CG-4441 TCGA-CG-4443 TCGA-CG-4455 TCGA-CG-4465 TCGA-CG-4477 TCGA-CG-5719 
       14.01        29.98        12.03         8.98         1.02         1.02 
TCGA-CG-5720 TCGA-CG-5722 TCGA-CG-5724 TCGA-CG-5728 TCGA-CG-5733 TCGA-CG-5734 
        0.99         0.95        12.03        65.10        21.07         7.99 
TCGA-D7-5577 TCGA-D7-5579 TCGA-D7-6519 TCGA-D7-6522 TCGA-D7-6524 TCGA-EQ-5647 
        8.65         4.54        15.65         6.90         0.69         0.62 
TCGA-F1-6177 TCGA-FP-7916 TCGA-FP-7998 TCGA-FP-8209 
        6.54         3.02         3.58        59.05 

  TP53 MUTATED TP53 WILD-TYPE 
          0.10           0.07 
  TP53 MUTATED TP53 WILD-TYPE 
         72.23          65.10 
  TP53 MUTATED TP53 WILD-TYPE 
          2.73           1.02 
[1] "0.1 - 72.2 (2.7)" "0.1 - 65.1 (1.0)"
    TCGA-B7-5816     TCGA-B7-5818     TCGA-BR-6452     TCGA-BR-6455 
"TP53 WILD-TYPE"   "TP53 MUTATED" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-BR-6457     TCGA-BR-6458     TCGA-BR-6563     TCGA-BR-6564 
  "TP53 MUTATED"   "TP53 MUTATED" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-BR-6565     TCGA-BR-6566     TCGA-BR-6705     TCGA-BR-6706 
  "TP53 MUTATED" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-BR-6707     TCGA-BR-6801     TCGA-BR-6802     TCGA-BR-6803 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE"   "TP53 MUTATED" 
    TCGA-BR-6852     TCGA-BR-7196     TCGA-BR-7197     TCGA-BR-7703 
  "TP53 MUTATED" "TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED" 
    TCGA-BR-7707     TCGA-BR-7715     TCGA-BR-7716     TCGA-BR-7717 
"TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED" "TP53 WILD-TYPE" 
    TCGA-BR-7722     TCGA-BR-7723     TCGA-BR-7851     TCGA-BR-7901 
"TP53 WILD-TYPE"   "TP53 MUTATED" "TP53 WILD-TYPE"   "TP53 MUTATED" 
    TCGA-BR-7957     TCGA-BR-8059     TCGA-BR-8077     TCGA-BR-8080 
"TP53 WILD-TYPE" "TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED" 
    TCGA-BR-8081     TCGA-BR-8284     TCGA-BR-8295     TCGA-BR-8296 
"TP53 WILD-TYPE" "TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED" 
    TCGA-BR-8676     TCGA-BR-8682     TCGA-BR-8690     TCGA-BR-A4IV 
"TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED" "TP53 WILD-TYPE" 
    TCGA-BR-A4IY     TCGA-BR-A4IZ     TCGA-BR-A4J1     TCGA-BR-A4J4 
  "TP53 MUTATED" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-BR-A4J6     TCGA-BR-A4J8     TCGA-BR-A4QI     TCGA-BR-A4QL 
"TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED" "TP53 WILD-TYPE" 
    TCGA-CD-5798     TCGA-CD-5799     TCGA-CD-5800     TCGA-CD-5801 
"TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED" "TP53 WILD-TYPE" 
    TCGA-CD-5802     TCGA-CD-5803     TCGA-CD-5813     TCGA-CG-4300 
"TP53 WILD-TYPE" "TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED" 
    TCGA-CG-4301     TCGA-CG-4304     TCGA-CG-4305     TCGA-CG-4306 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-CG-4436     TCGA-CG-4437     TCGA-CG-4438     TCGA-CG-4440 
  "TP53 MUTATED" "TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED" 
    TCGA-CG-4441     TCGA-CG-4443     TCGA-CG-4444     TCGA-CG-4449 
"TP53 WILD-TYPE" "TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED" 
    TCGA-CG-4455     TCGA-CG-4465     TCGA-CG-4466     TCGA-CG-4469 
"TP53 WILD-TYPE" "TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED" 
    TCGA-CG-4477     TCGA-CG-5717     TCGA-CG-5718     TCGA-CG-5719 
"TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED" "TP53 WILD-TYPE" 
    TCGA-CG-5720     TCGA-CG-5721     TCGA-CG-5722     TCGA-CG-5723 
"TP53 WILD-TYPE"   "TP53 MUTATED" "TP53 WILD-TYPE"   "TP53 MUTATED" 
    TCGA-CG-5724     TCGA-CG-5726     TCGA-CG-5727     TCGA-CG-5728 
"TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED" "TP53 WILD-TYPE" 
    TCGA-CG-5730     TCGA-CG-5732     TCGA-CG-5733     TCGA-CG-5734 
  "TP53 MUTATED"   "TP53 MUTATED" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-D7-5577     TCGA-D7-5578     TCGA-D7-5579     TCGA-D7-6518 
"TP53 WILD-TYPE"   "TP53 MUTATED" "TP53 WILD-TYPE"   "TP53 MUTATED" 
    TCGA-D7-6519     TCGA-D7-6520     TCGA-D7-6521     TCGA-D7-6522 
"TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED" "TP53 WILD-TYPE" 
    TCGA-D7-6524     TCGA-D7-6525     TCGA-D7-6526     TCGA-D7-6527 
"TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED"   "TP53 MUTATED" 
    TCGA-D7-6528     TCGA-D7-6815     TCGA-D7-6817     TCGA-D7-6818 
  "TP53 MUTATED"   "TP53 MUTATED"   "TP53 MUTATED"   "TP53 MUTATED" 
    TCGA-D7-6820     TCGA-D7-6822     TCGA-EQ-5647     TCGA-F1-6177 
  "TP53 MUTATED"   "TP53 MUTATED" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-F1-6874     TCGA-F1-6875     TCGA-FP-7735     TCGA-FP-7829 
  "TP53 MUTATED"   "TP53 MUTATED"   "TP53 MUTATED"   "TP53 MUTATED" 
    TCGA-FP-7916     TCGA-FP-7998     TCGA-FP-8099     TCGA-FP-8209 
"TP53 WILD-TYPE" "TP53 WILD-TYPE"   "TP53 MUTATED" "TP53 WILD-TYPE" 
    TCGA-HJ-7597     TCGA-IN-7806     TCGA-IN-7808     TCGA-IP-7968 
  "TP53 MUTATED"   "TP53 MUTATED"   "TP53 MUTATED"   "TP53 MUTATED" 
    TCGA-B7-5816     TCGA-B7-5818     TCGA-BR-6452     TCGA-BR-6455 
"TP53 WILD-TYPE"   "TP53 MUTATED" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-BR-6457     TCGA-BR-6458     TCGA-BR-6563     TCGA-BR-6564 
  "TP53 MUTATED"   "TP53 MUTATED" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-BR-6565     TCGA-BR-6566     TCGA-BR-6705     TCGA-BR-6706 
  "TP53 MUTATED" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-BR-6707     TCGA-BR-6801     TCGA-BR-6802     TCGA-BR-6803 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE"   "TP53 MUTATED" 
    TCGA-BR-6852     TCGA-BR-7196     TCGA-BR-7197     TCGA-BR-7703 
  "TP53 MUTATED" "TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED" 
    TCGA-BR-7707     TCGA-BR-7715     TCGA-BR-7716     TCGA-BR-7717 
"TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED" "TP53 WILD-TYPE" 
    TCGA-BR-7722     TCGA-BR-7723     TCGA-BR-7851     TCGA-BR-7901 
"TP53 WILD-TYPE"   "TP53 MUTATED" "TP53 WILD-TYPE"   "TP53 MUTATED" 
    TCGA-BR-7957     TCGA-BR-8059     TCGA-BR-8077     TCGA-BR-8080 
"TP53 WILD-TYPE" "TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED" 
    TCGA-BR-8081     TCGA-BR-8284     TCGA-BR-8295     TCGA-BR-8296 
"TP53 WILD-TYPE" "TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED" 
    TCGA-BR-8676     TCGA-BR-8682     TCGA-BR-8690     TCGA-BR-A4IV 
"TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED" "TP53 WILD-TYPE" 
    TCGA-BR-A4IY     TCGA-BR-A4IZ     TCGA-BR-A4J1     TCGA-BR-A4J4 
  "TP53 MUTATED" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-BR-A4J6     TCGA-BR-A4J8     TCGA-BR-A4QI     TCGA-BR-A4QL 
"TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED" "TP53 WILD-TYPE" 
    TCGA-CD-5798     TCGA-CD-5799     TCGA-CD-5800     TCGA-CD-5801 
"TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED" "TP53 WILD-TYPE" 
    TCGA-CD-5802     TCGA-CD-5803     TCGA-CD-5813     TCGA-CG-4300 
"TP53 WILD-TYPE" "TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED" 
    TCGA-CG-4301     TCGA-CG-4304     TCGA-CG-4305     TCGA-CG-4306 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-CG-4436     TCGA-CG-4437     TCGA-CG-4438     TCGA-CG-4440 
  "TP53 MUTATED" "TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED" 
    TCGA-CG-4441     TCGA-CG-4443     TCGA-CG-4444     TCGA-CG-4449 
"TP53 WILD-TYPE" "TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED" 
    TCGA-CG-4455     TCGA-CG-4465     TCGA-CG-4466     TCGA-CG-4469 
"TP53 WILD-TYPE" "TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED" 
    TCGA-CG-4477     TCGA-CG-5717     TCGA-CG-5718     TCGA-CG-5719 
"TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED" "TP53 WILD-TYPE" 
    TCGA-CG-5720     TCGA-CG-5721     TCGA-CG-5722     TCGA-CG-5723 
"TP53 WILD-TYPE"   "TP53 MUTATED" "TP53 WILD-TYPE"   "TP53 MUTATED" 
    TCGA-CG-5724     TCGA-CG-5726     TCGA-CG-5727     TCGA-CG-5728 
"TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED" "TP53 WILD-TYPE" 
    TCGA-CG-5730     TCGA-CG-5732     TCGA-CG-5733     TCGA-CG-5734 
  "TP53 MUTATED"   "TP53 MUTATED" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-D7-5577     TCGA-D7-5578     TCGA-D7-5579     TCGA-D7-6518 
"TP53 WILD-TYPE"   "TP53 MUTATED" "TP53 WILD-TYPE"   "TP53 MUTATED" 
    TCGA-D7-6519     TCGA-D7-6520     TCGA-D7-6521     TCGA-D7-6522 
"TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED" "TP53 WILD-TYPE" 
    TCGA-D7-6524     TCGA-D7-6525     TCGA-D7-6526     TCGA-D7-6527 
"TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED"   "TP53 MUTATED" 
    TCGA-D7-6528     TCGA-D7-6815     TCGA-D7-6817     TCGA-D7-6818 
  "TP53 MUTATED"   "TP53 MUTATED"   "TP53 MUTATED"   "TP53 MUTATED" 
    TCGA-D7-6820     TCGA-D7-6822     TCGA-EQ-5647     TCGA-F1-6177 
  "TP53 MUTATED"   "TP53 MUTATED" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-F1-6874     TCGA-F1-6875     TCGA-FP-7735     TCGA-FP-7829 
  "TP53 MUTATED"   "TP53 MUTATED"   "TP53 MUTATED"   "TP53 MUTATED" 
    TCGA-FP-7916     TCGA-FP-7998     TCGA-FP-8099     TCGA-FP-8209 
"TP53 WILD-TYPE" "TP53 WILD-TYPE"   "TP53 MUTATED" "TP53 WILD-TYPE" 
    TCGA-HJ-7597     TCGA-IN-7806     TCGA-IN-7808     TCGA-IP-7968 
  "TP53 MUTATED"   "TP53 MUTATED"   "TP53 MUTATED"   "TP53 MUTATED" 
    TCGA-B7-5816     TCGA-B7-5818     TCGA-BR-6452     TCGA-BR-6455 
"TP53 WILD-TYPE"   "TP53 MUTATED" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-BR-6457     TCGA-BR-6458     TCGA-BR-6563     TCGA-BR-6564 
  "TP53 MUTATED"   "TP53 MUTATED" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-BR-6565     TCGA-BR-6566     TCGA-BR-6705     TCGA-BR-6706 
  "TP53 MUTATED" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-BR-6707     TCGA-BR-6801     TCGA-BR-6802     TCGA-BR-6803 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE"   "TP53 MUTATED" 
    TCGA-BR-6852     TCGA-BR-7196     TCGA-BR-7197     TCGA-BR-7703 
  "TP53 MUTATED" "TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED" 
    TCGA-BR-7707     TCGA-BR-7715     TCGA-BR-7716     TCGA-BR-7717 
"TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED" "TP53 WILD-TYPE" 
    TCGA-BR-7722     TCGA-BR-7723     TCGA-BR-7851     TCGA-BR-7901 
"TP53 WILD-TYPE"   "TP53 MUTATED" "TP53 WILD-TYPE"   "TP53 MUTATED" 
    TCGA-BR-7957     TCGA-BR-8059     TCGA-BR-8077     TCGA-BR-8080 
"TP53 WILD-TYPE" "TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED" 
    TCGA-BR-8081     TCGA-BR-8284     TCGA-BR-8295     TCGA-BR-8296 
"TP53 WILD-TYPE" "TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED" 
    TCGA-BR-8676     TCGA-BR-8682     TCGA-BR-8690     TCGA-BR-A4IV 
"TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED" "TP53 WILD-TYPE" 
    TCGA-BR-A4IY     TCGA-BR-A4IZ     TCGA-BR-A4J1     TCGA-BR-A4J4 
  "TP53 MUTATED" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-BR-A4J6     TCGA-BR-A4J8     TCGA-BR-A4QI     TCGA-BR-A4QL 
"TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED" "TP53 WILD-TYPE" 
    TCGA-CD-5798     TCGA-CD-5799     TCGA-CD-5800     TCGA-CD-5801 
"TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED" "TP53 WILD-TYPE" 
    TCGA-CD-5802     TCGA-CD-5803     TCGA-CD-5813     TCGA-CG-4300 
"TP53 WILD-TYPE" "TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED" 
    TCGA-CG-4301     TCGA-CG-4304     TCGA-CG-4305     TCGA-CG-4306 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-CG-4436     TCGA-CG-4437     TCGA-CG-4438     TCGA-CG-4440 
  "TP53 MUTATED" "TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED" 
    TCGA-CG-4441     TCGA-CG-4443     TCGA-CG-4444     TCGA-CG-4449 
"TP53 WILD-TYPE" "TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED" 
    TCGA-CG-4455     TCGA-CG-4465     TCGA-CG-4466     TCGA-CG-4469 
"TP53 WILD-TYPE" "TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED" 
    TCGA-CG-4477     TCGA-CG-5717     TCGA-CG-5718     TCGA-CG-5719 
"TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED" "TP53 WILD-TYPE" 
    TCGA-CG-5720     TCGA-CG-5721     TCGA-CG-5722     TCGA-CG-5723 
"TP53 WILD-TYPE"   "TP53 MUTATED" "TP53 WILD-TYPE"   "TP53 MUTATED" 
    TCGA-CG-5724     TCGA-CG-5726     TCGA-CG-5727     TCGA-CG-5728 
"TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED" "TP53 WILD-TYPE" 
    TCGA-CG-5730     TCGA-CG-5732     TCGA-CG-5733     TCGA-CG-5734 
  "TP53 MUTATED"   "TP53 MUTATED" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-D7-5577     TCGA-D7-5578     TCGA-D7-5579     TCGA-D7-6518 
"TP53 WILD-TYPE"   "TP53 MUTATED" "TP53 WILD-TYPE"   "TP53 MUTATED" 
    TCGA-D7-6519     TCGA-D7-6520     TCGA-D7-6521     TCGA-D7-6522 
"TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED" "TP53 WILD-TYPE" 
    TCGA-D7-6524     TCGA-D7-6525     TCGA-D7-6526     TCGA-D7-6527 
"TP53 WILD-TYPE"   "TP53 MUTATED"   "TP53 MUTATED"   "TP53 MUTATED" 
    TCGA-D7-6528     TCGA-D7-6815     TCGA-D7-6817     TCGA-D7-6818 
  "TP53 MUTATED"   "TP53 MUTATED"   "TP53 MUTATED"   "TP53 MUTATED" 
    TCGA-D7-6820     TCGA-D7-6822     TCGA-EQ-5647     TCGA-F1-6177 
  "TP53 MUTATED"   "TP53 MUTATED" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-F1-6874     TCGA-F1-6875     TCGA-FP-7735     TCGA-FP-7829 
  "TP53 MUTATED"   "TP53 MUTATED"   "TP53 MUTATED"   "TP53 MUTATED" 
    TCGA-FP-7916     TCGA-FP-7998     TCGA-FP-8099     TCGA-FP-8209 
"TP53 WILD-TYPE" "TP53 WILD-TYPE"   "TP53 MUTATED" "TP53 WILD-TYPE" 
    TCGA-HJ-7597     TCGA-IN-7806     TCGA-IN-7808     TCGA-IP-7968 
  "TP53 MUTATED"   "TP53 MUTATED"   "TP53 MUTATED"   "TP53 MUTATED" 
[1] "hr=" "2.2"
D5V2, continuous
D5V3, binary
                cls
clus              0  1
  TP53 MUTATED   26 48
  TP53 WILD-TYPE 37 45
[1] "tbl2"
                cls
clus             [,1] [,2]
  TP53 MUTATED     26   48
  TP53 WILD-TYPE   37   45
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  FEMALE           26             37
  MALE             48             45
                vv
clus             STOMACH  ADENOCARCINOMA  DIFFUSE TYPE
  TP53 MUTATED                                       9
  TP53 WILD-TYPE                                    14
                vv
clus             STOMACH  ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  TP53 MUTATED                                                       32
  TP53 WILD-TYPE                                                     46
                vv
clus             STOMACH  INTESTINAL ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  TP53 MUTATED                                                                  15
  TP53 WILD-TYPE                                                                15
                vv
clus             STOMACH  INTESTINAL ADENOCARCINOMA  TUBULAR TYPE
  TP53 MUTATED                                                  8
  TP53 WILD-TYPE                                                2
                vv
clus             STOMACH  INTESTINAL ADENOCARCINOMA \302\240MUCINOUS TYPE
  TP53 MUTATED                                                          6
  TP53 WILD-TYPE                                                        4
                vv
clus             STOMACH  INTESTINAL ADENOCARCINOMA \302\240PAPILLARY TYPE
  TP53 MUTATED                                                           3
  TP53 WILD-TYPE                                                         0
                vv
clus             STOMACH ADENOCARCINOMA  SIGNET RING TYPE
  TP53 MUTATED                                          1
  TP53 WILD-TYPE                                        0
D5V4, multiclass
D5V5, binary
                cls
clus              0  1
  TP53 MUTATED    4 70
  TP53 WILD-TYPE  2 80
[1] "tbl2"
                cls
clus             [,1] [,2]
  TP53 MUTATED      4   70
  TP53 WILD-TYPE    2   80
     clus
vv    TP53 MUTATED TP53 WILD-TYPE
  NO             4              2
  YES           70             80
                vv
clus             M0 M1 MX
  TP53 MUTATED   64  3  7
  TP53 WILD-TYPE 68 11  3
D5V6, multiclass
    clus
vv   TP53 MUTATED TP53 WILD-TYPE
  M0           64             68
  M1            3             11
  MX            7              3
                vv
clus             N0 N1 N2 N3 N3A NX
  TP53 MUTATED   26 22 12  7   3  4
  TP53 WILD-TYPE 23 27 13  7   5  7
D5V7, multiclass
                vv
clus             R0 R1 R2 RX
  TP53 MUTATED   56  2  2  9
  TP53 WILD-TYPE 50  4  8 15
D5V8, multiclass
    clus
vv   TP53 MUTATED TP53 WILD-TYPE
  R0           56             50
  R1            2              4
  R2            2              8
  RX            9             15
D5V9, continuous
D5V10, continuous
                vv
clus             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB
  TP53 MUTATED         0        3        8       15         3         8
  TP53 WILD-TYPE       1        2        8       12         4         2
                vv
clus             STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  TP53 MUTATED           1         14          5          3        9
  TP53 WILD-TYPE         3         16          7          3       14
D5V11, multiclass

Clustering(6) Variable = PIK3CA MUTATION ANALYSIS
D6V1, survival
                  sevent
clus2               0  1
  PIK3CA MUTATED   26  2
  PIK3CA WILD-TYPE 77 15
  PIK3CA MUTATED PIK3CA WILD-TYPE 
              28               92 
  PIK3CA MUTATED PIK3CA WILD-TYPE 
               2               15 
$`PIK3CA MUTATED`
TCGA-B7-5816 TCGA-B7-5818 TCGA-BR-6452 TCGA-BR-6455 TCGA-BR-6706 TCGA-BR-6707 
        5.62         0.10         0.95         1.41         2.17         0.99 
TCGA-BR-6802 TCGA-BR-6852 TCGA-BR-7196 TCGA-BR-7851 TCGA-BR-8081 TCGA-BR-8284 
        0.76         0.26         1.22         0.99         0.46         0.72 
TCGA-BR-8676 TCGA-CD-5800 TCGA-CD-5801 TCGA-CG-4305 TCGA-CG-5720 TCGA-CG-5721 
        0.89         0.36         0.49        15.95         0.99         5.98 
TCGA-CG-5722 TCGA-CG-5728 TCGA-CG-5733 TCGA-D7-5577 TCGA-D7-5578 TCGA-D7-6815 
        0.95        65.10        21.07         8.65         3.58         3.65 
TCGA-F1-6177 TCGA-FP-7735 TCGA-FP-7916 TCGA-FP-7998 
        6.54         0.39         3.02         3.58 

$`PIK3CA WILD-TYPE`
TCGA-BR-6457 TCGA-BR-6458 TCGA-BR-6563 TCGA-BR-6564 TCGA-BR-6565 TCGA-BR-6566 
        1.35         1.35         0.85         0.82         0.62         0.62 
TCGA-BR-6705 TCGA-BR-6801 TCGA-BR-6803 TCGA-BR-7197 TCGA-BR-7703 TCGA-BR-7707 
        1.71         1.12         0.66         1.48         0.46         0.13 
TCGA-BR-7715 TCGA-BR-7716 TCGA-BR-7717 TCGA-BR-7722 TCGA-BR-7723 TCGA-BR-7901 
        1.05         0.82         0.69         0.16         4.54         0.95 
TCGA-BR-7957 TCGA-BR-8059 TCGA-BR-8077 TCGA-BR-8080 TCGA-BR-8295 TCGA-BR-8296 
        0.69         0.82         0.69         0.49         1.55         1.48 
TCGA-BR-8682 TCGA-BR-8690 TCGA-BR-A4IV TCGA-BR-A4IY TCGA-BR-A4IZ TCGA-BR-A4J1 
        1.64         0.59         0.92         0.39         0.79         0.72 
TCGA-BR-A4J4 TCGA-BR-A4J6 TCGA-BR-A4J8 TCGA-BR-A4QI TCGA-BR-A4QL TCGA-CD-5798 
        0.53         0.13         0.23         0.49         2.24         0.82 
TCGA-CD-5799 TCGA-CD-5802 TCGA-CD-5803 TCGA-CD-5813 TCGA-CG-4300 TCGA-CG-4301 
        0.69         0.30         0.07         0.39        20.02         3.02 
TCGA-CG-4304 TCGA-CG-4306 TCGA-CG-4436 TCGA-CG-4437 TCGA-CG-4438 TCGA-CG-4440 
       27.02         1.02         7.96         8.05        54.05         4.01 
TCGA-CG-4441 TCGA-CG-4443 TCGA-CG-4444 TCGA-CG-4449 TCGA-CG-4455 TCGA-CG-4465 
       14.01        29.98        47.05        19.07        12.03         8.98 
TCGA-CG-4466 TCGA-CG-4469 TCGA-CG-4477 TCGA-CG-5717 TCGA-CG-5718 TCGA-CG-5719 
       18.94         7.07         1.02         6.94         1.02         1.02 
TCGA-CG-5723 TCGA-CG-5724 TCGA-CG-5726 TCGA-CG-5727 TCGA-CG-5730 TCGA-CG-5732 
       70.06        12.03        28.96        31.04         4.01        55.04 
TCGA-CG-5734 TCGA-D7-5579 TCGA-D7-6518 TCGA-D7-6519 TCGA-D7-6520 TCGA-D7-6521 
        7.99         4.54         9.80        15.65         9.63         8.19 
TCGA-D7-6522 TCGA-D7-6524 TCGA-D7-6525 TCGA-D7-6526 TCGA-D7-6527 TCGA-D7-6528 
        6.90         0.69         5.95         6.61         4.14         1.68 
TCGA-D7-6817 TCGA-D7-6818 TCGA-D7-6820 TCGA-D7-6822 TCGA-EQ-5647 TCGA-F1-6874 
        0.79         4.04         2.93         4.27         0.62         2.01 
TCGA-F1-6875 TCGA-FP-7829 TCGA-FP-8099 TCGA-FP-8209 TCGA-HJ-7597 TCGA-IN-7806 
       72.23         0.20         1.02        59.05        26.43         6.87 
TCGA-IN-7808 TCGA-IP-7968 
        3.55         2.53 

  PIK3CA MUTATED PIK3CA WILD-TYPE 
            0.10             0.07 
  PIK3CA MUTATED PIK3CA WILD-TYPE 
           65.10            72.23 
  PIK3CA MUTATED PIK3CA WILD-TYPE 
           1.105            1.660 
[1] "0.1 - 65.1 (1.1)" "0.1 - 72.2 (1.7)"
      TCGA-B7-5816       TCGA-B7-5818       TCGA-BR-6452       TCGA-BR-6455 
  "PIK3CA MUTATED"   "PIK3CA MUTATED"   "PIK3CA MUTATED"   "PIK3CA MUTATED" 
      TCGA-BR-6457       TCGA-BR-6458       TCGA-BR-6563       TCGA-BR-6564 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-BR-6565       TCGA-BR-6566       TCGA-BR-6705       TCGA-BR-6706 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE"   "PIK3CA MUTATED" 
      TCGA-BR-6707       TCGA-BR-6801       TCGA-BR-6802       TCGA-BR-6803 
  "PIK3CA MUTATED" "PIK3CA WILD-TYPE"   "PIK3CA MUTATED" "PIK3CA WILD-TYPE" 
      TCGA-BR-6852       TCGA-BR-7196       TCGA-BR-7197       TCGA-BR-7703 
  "PIK3CA MUTATED"   "PIK3CA MUTATED" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-BR-7707       TCGA-BR-7715       TCGA-BR-7716       TCGA-BR-7717 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-BR-7722       TCGA-BR-7723       TCGA-BR-7851       TCGA-BR-7901 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE"   "PIK3CA MUTATED" "PIK3CA WILD-TYPE" 
      TCGA-BR-7957       TCGA-BR-8059       TCGA-BR-8077       TCGA-BR-8080 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-BR-8081       TCGA-BR-8284       TCGA-BR-8295       TCGA-BR-8296 
  "PIK3CA MUTATED"   "PIK3CA MUTATED" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-BR-8676       TCGA-BR-8682       TCGA-BR-8690       TCGA-BR-A4IV 
  "PIK3CA MUTATED" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-BR-A4IY       TCGA-BR-A4IZ       TCGA-BR-A4J1       TCGA-BR-A4J4 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-BR-A4J6       TCGA-BR-A4J8       TCGA-BR-A4QI       TCGA-BR-A4QL 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-CD-5798       TCGA-CD-5799       TCGA-CD-5800       TCGA-CD-5801 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE"   "PIK3CA MUTATED"   "PIK3CA MUTATED" 
      TCGA-CD-5802       TCGA-CD-5803       TCGA-CD-5813       TCGA-CG-4300 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-CG-4301       TCGA-CG-4304       TCGA-CG-4305       TCGA-CG-4306 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE"   "PIK3CA MUTATED" "PIK3CA WILD-TYPE" 
      TCGA-CG-4436       TCGA-CG-4437       TCGA-CG-4438       TCGA-CG-4440 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-CG-4441       TCGA-CG-4443       TCGA-CG-4444       TCGA-CG-4449 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-CG-4455       TCGA-CG-4465       TCGA-CG-4466       TCGA-CG-4469 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-CG-4477       TCGA-CG-5717       TCGA-CG-5718       TCGA-CG-5719 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-CG-5720       TCGA-CG-5721       TCGA-CG-5722       TCGA-CG-5723 
  "PIK3CA MUTATED"   "PIK3CA MUTATED"   "PIK3CA MUTATED" "PIK3CA WILD-TYPE" 
      TCGA-CG-5724       TCGA-CG-5726       TCGA-CG-5727       TCGA-CG-5728 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE"   "PIK3CA MUTATED" 
      TCGA-CG-5730       TCGA-CG-5732       TCGA-CG-5733       TCGA-CG-5734 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE"   "PIK3CA MUTATED" "PIK3CA WILD-TYPE" 
      TCGA-D7-5577       TCGA-D7-5578       TCGA-D7-5579       TCGA-D7-6518 
  "PIK3CA MUTATED"   "PIK3CA MUTATED" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-D7-6519       TCGA-D7-6520       TCGA-D7-6521       TCGA-D7-6522 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-D7-6524       TCGA-D7-6525       TCGA-D7-6526       TCGA-D7-6527 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-D7-6528       TCGA-D7-6815       TCGA-D7-6817       TCGA-D7-6818 
"PIK3CA WILD-TYPE"   "PIK3CA MUTATED" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-D7-6820       TCGA-D7-6822       TCGA-EQ-5647       TCGA-F1-6177 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE"   "PIK3CA MUTATED" 
      TCGA-F1-6874       TCGA-F1-6875       TCGA-FP-7735       TCGA-FP-7829 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE"   "PIK3CA MUTATED" "PIK3CA WILD-TYPE" 
      TCGA-FP-7916       TCGA-FP-7998       TCGA-FP-8099       TCGA-FP-8209 
  "PIK3CA MUTATED"   "PIK3CA MUTATED" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-HJ-7597       TCGA-IN-7806       TCGA-IN-7808       TCGA-IP-7968 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-B7-5816       TCGA-B7-5818       TCGA-BR-6452       TCGA-BR-6455 
  "PIK3CA MUTATED"   "PIK3CA MUTATED"   "PIK3CA MUTATED"   "PIK3CA MUTATED" 
      TCGA-BR-6457       TCGA-BR-6458       TCGA-BR-6563       TCGA-BR-6564 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-BR-6565       TCGA-BR-6566       TCGA-BR-6705       TCGA-BR-6706 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE"   "PIK3CA MUTATED" 
      TCGA-BR-6707       TCGA-BR-6801       TCGA-BR-6802       TCGA-BR-6803 
  "PIK3CA MUTATED" "PIK3CA WILD-TYPE"   "PIK3CA MUTATED" "PIK3CA WILD-TYPE" 
      TCGA-BR-6852       TCGA-BR-7196       TCGA-BR-7197       TCGA-BR-7703 
  "PIK3CA MUTATED"   "PIK3CA MUTATED" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-BR-7707       TCGA-BR-7715       TCGA-BR-7716       TCGA-BR-7717 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-BR-7722       TCGA-BR-7723       TCGA-BR-7851       TCGA-BR-7901 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE"   "PIK3CA MUTATED" "PIK3CA WILD-TYPE" 
      TCGA-BR-7957       TCGA-BR-8059       TCGA-BR-8077       TCGA-BR-8080 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-BR-8081       TCGA-BR-8284       TCGA-BR-8295       TCGA-BR-8296 
  "PIK3CA MUTATED"   "PIK3CA MUTATED" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-BR-8676       TCGA-BR-8682       TCGA-BR-8690       TCGA-BR-A4IV 
  "PIK3CA MUTATED" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-BR-A4IY       TCGA-BR-A4IZ       TCGA-BR-A4J1       TCGA-BR-A4J4 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-BR-A4J6       TCGA-BR-A4J8       TCGA-BR-A4QI       TCGA-BR-A4QL 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-CD-5798       TCGA-CD-5799       TCGA-CD-5800       TCGA-CD-5801 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE"   "PIK3CA MUTATED"   "PIK3CA MUTATED" 
      TCGA-CD-5802       TCGA-CD-5803       TCGA-CD-5813       TCGA-CG-4300 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-CG-4301       TCGA-CG-4304       TCGA-CG-4305       TCGA-CG-4306 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE"   "PIK3CA MUTATED" "PIK3CA WILD-TYPE" 
      TCGA-CG-4436       TCGA-CG-4437       TCGA-CG-4438       TCGA-CG-4440 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-CG-4441       TCGA-CG-4443       TCGA-CG-4444       TCGA-CG-4449 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-CG-4455       TCGA-CG-4465       TCGA-CG-4466       TCGA-CG-4469 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-CG-4477       TCGA-CG-5717       TCGA-CG-5718       TCGA-CG-5719 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-CG-5720       TCGA-CG-5721       TCGA-CG-5722       TCGA-CG-5723 
  "PIK3CA MUTATED"   "PIK3CA MUTATED"   "PIK3CA MUTATED" "PIK3CA WILD-TYPE" 
      TCGA-CG-5724       TCGA-CG-5726       TCGA-CG-5727       TCGA-CG-5728 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE"   "PIK3CA MUTATED" 
      TCGA-CG-5730       TCGA-CG-5732       TCGA-CG-5733       TCGA-CG-5734 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE"   "PIK3CA MUTATED" "PIK3CA WILD-TYPE" 
      TCGA-D7-5577       TCGA-D7-5578       TCGA-D7-5579       TCGA-D7-6518 
  "PIK3CA MUTATED"   "PIK3CA MUTATED" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-D7-6519       TCGA-D7-6520       TCGA-D7-6521       TCGA-D7-6522 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-D7-6524       TCGA-D7-6525       TCGA-D7-6526       TCGA-D7-6527 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-D7-6528       TCGA-D7-6815       TCGA-D7-6817       TCGA-D7-6818 
"PIK3CA WILD-TYPE"   "PIK3CA MUTATED" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-D7-6820       TCGA-D7-6822       TCGA-EQ-5647       TCGA-F1-6177 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE"   "PIK3CA MUTATED" 
      TCGA-F1-6874       TCGA-F1-6875       TCGA-FP-7735       TCGA-FP-7829 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE"   "PIK3CA MUTATED" "PIK3CA WILD-TYPE" 
      TCGA-FP-7916       TCGA-FP-7998       TCGA-FP-8099       TCGA-FP-8209 
  "PIK3CA MUTATED"   "PIK3CA MUTATED" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-HJ-7597       TCGA-IN-7806       TCGA-IN-7808       TCGA-IP-7968 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-B7-5816       TCGA-B7-5818       TCGA-BR-6452       TCGA-BR-6455 
  "PIK3CA MUTATED"   "PIK3CA MUTATED"   "PIK3CA MUTATED"   "PIK3CA MUTATED" 
      TCGA-BR-6457       TCGA-BR-6458       TCGA-BR-6563       TCGA-BR-6564 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-BR-6565       TCGA-BR-6566       TCGA-BR-6705       TCGA-BR-6706 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE"   "PIK3CA MUTATED" 
      TCGA-BR-6707       TCGA-BR-6801       TCGA-BR-6802       TCGA-BR-6803 
  "PIK3CA MUTATED" "PIK3CA WILD-TYPE"   "PIK3CA MUTATED" "PIK3CA WILD-TYPE" 
      TCGA-BR-6852       TCGA-BR-7196       TCGA-BR-7197       TCGA-BR-7703 
  "PIK3CA MUTATED"   "PIK3CA MUTATED" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-BR-7707       TCGA-BR-7715       TCGA-BR-7716       TCGA-BR-7717 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-BR-7722       TCGA-BR-7723       TCGA-BR-7851       TCGA-BR-7901 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE"   "PIK3CA MUTATED" "PIK3CA WILD-TYPE" 
      TCGA-BR-7957       TCGA-BR-8059       TCGA-BR-8077       TCGA-BR-8080 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-BR-8081       TCGA-BR-8284       TCGA-BR-8295       TCGA-BR-8296 
  "PIK3CA MUTATED"   "PIK3CA MUTATED" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-BR-8676       TCGA-BR-8682       TCGA-BR-8690       TCGA-BR-A4IV 
  "PIK3CA MUTATED" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-BR-A4IY       TCGA-BR-A4IZ       TCGA-BR-A4J1       TCGA-BR-A4J4 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-BR-A4J6       TCGA-BR-A4J8       TCGA-BR-A4QI       TCGA-BR-A4QL 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-CD-5798       TCGA-CD-5799       TCGA-CD-5800       TCGA-CD-5801 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE"   "PIK3CA MUTATED"   "PIK3CA MUTATED" 
      TCGA-CD-5802       TCGA-CD-5803       TCGA-CD-5813       TCGA-CG-4300 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-CG-4301       TCGA-CG-4304       TCGA-CG-4305       TCGA-CG-4306 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE"   "PIK3CA MUTATED" "PIK3CA WILD-TYPE" 
      TCGA-CG-4436       TCGA-CG-4437       TCGA-CG-4438       TCGA-CG-4440 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-CG-4441       TCGA-CG-4443       TCGA-CG-4444       TCGA-CG-4449 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-CG-4455       TCGA-CG-4465       TCGA-CG-4466       TCGA-CG-4469 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-CG-4477       TCGA-CG-5717       TCGA-CG-5718       TCGA-CG-5719 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-CG-5720       TCGA-CG-5721       TCGA-CG-5722       TCGA-CG-5723 
  "PIK3CA MUTATED"   "PIK3CA MUTATED"   "PIK3CA MUTATED" "PIK3CA WILD-TYPE" 
      TCGA-CG-5724       TCGA-CG-5726       TCGA-CG-5727       TCGA-CG-5728 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE"   "PIK3CA MUTATED" 
      TCGA-CG-5730       TCGA-CG-5732       TCGA-CG-5733       TCGA-CG-5734 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE"   "PIK3CA MUTATED" "PIK3CA WILD-TYPE" 
      TCGA-D7-5577       TCGA-D7-5578       TCGA-D7-5579       TCGA-D7-6518 
  "PIK3CA MUTATED"   "PIK3CA MUTATED" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-D7-6519       TCGA-D7-6520       TCGA-D7-6521       TCGA-D7-6522 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-D7-6524       TCGA-D7-6525       TCGA-D7-6526       TCGA-D7-6527 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-D7-6528       TCGA-D7-6815       TCGA-D7-6817       TCGA-D7-6818 
"PIK3CA WILD-TYPE"   "PIK3CA MUTATED" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-D7-6820       TCGA-D7-6822       TCGA-EQ-5647       TCGA-F1-6177 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE"   "PIK3CA MUTATED" 
      TCGA-F1-6874       TCGA-F1-6875       TCGA-FP-7735       TCGA-FP-7829 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE"   "PIK3CA MUTATED" "PIK3CA WILD-TYPE" 
      TCGA-FP-7916       TCGA-FP-7998       TCGA-FP-8099       TCGA-FP-8209 
  "PIK3CA MUTATED"   "PIK3CA MUTATED" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-HJ-7597       TCGA-IN-7806       TCGA-IN-7808       TCGA-IP-7968 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
[1] "hr=" "1.4"
D6V2, continuous
D6V3, binary
                  cls
clus                0  1
  PIK3CA MUTATED   15 20
  PIK3CA WILD-TYPE 48 73
[1] "tbl2"
                  cls
clus               [,1] [,2]
  PIK3CA MUTATED     15   20
  PIK3CA WILD-TYPE   48   73
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  FEMALE             15               48
  MALE               20               73
                  vv
clus               STOMACH  ADENOCARCINOMA  DIFFUSE TYPE
  PIK3CA MUTATED                                       5
  PIK3CA WILD-TYPE                                    18
                  vv
clus               STOMACH  ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  PIK3CA MUTATED                                                       17
  PIK3CA WILD-TYPE                                                     61
                  vv
clus               STOMACH  INTESTINAL ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  PIK3CA MUTATED                                                                   8
  PIK3CA WILD-TYPE                                                                22
                  vv
clus               STOMACH  INTESTINAL ADENOCARCINOMA  TUBULAR TYPE
  PIK3CA MUTATED                                                  3
  PIK3CA WILD-TYPE                                                7
                  vv
clus               STOMACH  INTESTINAL ADENOCARCINOMA \302\240MUCINOUS TYPE
  PIK3CA MUTATED                                                          1
  PIK3CA WILD-TYPE                                                        9
                  vv
clus               STOMACH  INTESTINAL ADENOCARCINOMA \302\240PAPILLARY TYPE
  PIK3CA MUTATED                                                           1
  PIK3CA WILD-TYPE                                                         2
                  vv
clus               STOMACH ADENOCARCINOMA  SIGNET RING TYPE
  PIK3CA MUTATED                                          0
  PIK3CA WILD-TYPE                                        1
D6V4, multiclass
D6V5, binary
                  cls
clus                 0   1
  PIK3CA MUTATED     1  34
  PIK3CA WILD-TYPE   5 116
[1] "tbl2"
                  cls
clus               [,1] [,2]
  PIK3CA MUTATED      1   34
  PIK3CA WILD-TYPE    5  116
     clus
vv    PIK3CA MUTATED PIK3CA WILD-TYPE
  NO               1                5
  YES             34              116
                  vv
clus                M0  M1  MX
  PIK3CA MUTATED    28   3   4
  PIK3CA WILD-TYPE 104  11   6
D6V6, multiclass
    clus
vv   PIK3CA MUTATED PIK3CA WILD-TYPE
  M0             28              104
  M1              3               11
  MX              4                6
                  vv
clus               N0 N1 N2 N3 N3A NX
  PIK3CA MUTATED   14  9  6  2   3  1
  PIK3CA WILD-TYPE 35 40 19 12   5 10
D6V7, multiclass
                  vv
clus               R0 R1 R2 RX
  PIK3CA MUTATED   27  0  2  3
  PIK3CA WILD-TYPE 79  6  8 21
D6V8, multiclass
    clus
vv   PIK3CA MUTATED PIK3CA WILD-TYPE
  R0             27               79
  R1              0                6
  R2              2                8
  RX              3               21
D6V9, continuous
D6V10, continuous
                  vv
clus               STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB
  PIK3CA MUTATED         1        0        5        7         2         1
  PIK3CA WILD-TYPE       0        5       11       20         5         9
                  vv
clus               STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  PIK3CA MUTATED           1         10          1          2        4
  PIK3CA WILD-TYPE         3         20         11          4       19
D6V11, multiclass

Clustering(7) Variable = ARID1A MUTATION ANALYSIS
D7V1, survival
                  sevent
clus2               0  1
  ARID1A MUTATED   17  3
  ARID1A WILD-TYPE 86 14
  ARID1A MUTATED ARID1A WILD-TYPE 
              20              100 
  ARID1A MUTATED ARID1A WILD-TYPE 
               3               14 
$`ARID1A MUTATED`
TCGA-B7-5816 TCGA-BR-6455 TCGA-BR-6707 TCGA-BR-6802 TCGA-BR-7196 TCGA-BR-7722 
        5.62         1.41         0.99         0.76         1.22         0.16 
TCGA-BR-7851 TCGA-BR-8059 TCGA-BR-8284 TCGA-BR-A4J1 TCGA-BR-A4QL TCGA-CD-5803 
        0.99         0.82         0.72         0.72         2.24         0.07 
TCGA-CG-4465 TCGA-CG-4469 TCGA-D7-5577 TCGA-D7-6521 TCGA-D7-6524 TCGA-F1-6177 
        8.98         7.07         8.65         8.19         0.69         6.54 
TCGA-FP-7998 TCGA-FP-8099 
        3.58         1.02 

$`ARID1A WILD-TYPE`
TCGA-B7-5818 TCGA-BR-6452 TCGA-BR-6457 TCGA-BR-6458 TCGA-BR-6563 TCGA-BR-6564 
        0.10         0.95         1.35         1.35         0.85         0.82 
TCGA-BR-6565 TCGA-BR-6566 TCGA-BR-6705 TCGA-BR-6706 TCGA-BR-6801 TCGA-BR-6803 
        0.62         0.62         1.71         2.17         1.12         0.66 
TCGA-BR-6852 TCGA-BR-7197 TCGA-BR-7703 TCGA-BR-7707 TCGA-BR-7715 TCGA-BR-7716 
        0.26         1.48         0.46         0.13         1.05         0.82 
TCGA-BR-7717 TCGA-BR-7723 TCGA-BR-7901 TCGA-BR-7957 TCGA-BR-8077 TCGA-BR-8080 
        0.69         4.54         0.95         0.69         0.69         0.49 
TCGA-BR-8081 TCGA-BR-8295 TCGA-BR-8296 TCGA-BR-8676 TCGA-BR-8682 TCGA-BR-8690 
        0.46         1.55         1.48         0.89         1.64         0.59 
TCGA-BR-A4IV TCGA-BR-A4IY TCGA-BR-A4IZ TCGA-BR-A4J4 TCGA-BR-A4J6 TCGA-BR-A4J8 
        0.92         0.39         0.79         0.53         0.13         0.23 
TCGA-BR-A4QI TCGA-CD-5798 TCGA-CD-5799 TCGA-CD-5800 TCGA-CD-5801 TCGA-CD-5802 
        0.49         0.82         0.69         0.36         0.49         0.30 
TCGA-CD-5813 TCGA-CG-4300 TCGA-CG-4301 TCGA-CG-4304 TCGA-CG-4305 TCGA-CG-4306 
        0.39        20.02         3.02        27.02        15.95         1.02 
TCGA-CG-4436 TCGA-CG-4437 TCGA-CG-4438 TCGA-CG-4440 TCGA-CG-4441 TCGA-CG-4443 
        7.96         8.05        54.05         4.01        14.01        29.98 
TCGA-CG-4444 TCGA-CG-4449 TCGA-CG-4455 TCGA-CG-4466 TCGA-CG-4477 TCGA-CG-5717 
       47.05        19.07        12.03        18.94         1.02         6.94 
TCGA-CG-5718 TCGA-CG-5719 TCGA-CG-5720 TCGA-CG-5721 TCGA-CG-5722 TCGA-CG-5723 
        1.02         1.02         0.99         5.98         0.95        70.06 
TCGA-CG-5724 TCGA-CG-5726 TCGA-CG-5727 TCGA-CG-5728 TCGA-CG-5730 TCGA-CG-5732 
       12.03        28.96        31.04        65.10         4.01        55.04 
TCGA-CG-5733 TCGA-CG-5734 TCGA-D7-5578 TCGA-D7-5579 TCGA-D7-6518 TCGA-D7-6519 
       21.07         7.99         3.58         4.54         9.80        15.65 
TCGA-D7-6520 TCGA-D7-6522 TCGA-D7-6525 TCGA-D7-6526 TCGA-D7-6527 TCGA-D7-6528 
        9.63         6.90         5.95         6.61         4.14         1.68 
TCGA-D7-6815 TCGA-D7-6817 TCGA-D7-6818 TCGA-D7-6820 TCGA-D7-6822 TCGA-EQ-5647 
        3.65         0.79         4.04         2.93         4.27         0.62 
TCGA-F1-6874 TCGA-F1-6875 TCGA-FP-7735 TCGA-FP-7829 TCGA-FP-7916 TCGA-FP-8209 
        2.01        72.23         0.39         0.20         3.02        59.05 
TCGA-HJ-7597 TCGA-IN-7806 TCGA-IN-7808 TCGA-IP-7968 
       26.43         6.87         3.55         2.53 

  ARID1A MUTATED ARID1A WILD-TYPE 
            0.07             0.10 
  ARID1A MUTATED ARID1A WILD-TYPE 
            8.98            72.23 
  ARID1A MUTATED ARID1A WILD-TYPE 
            1.12             1.66 
[1] "0.1 - 9.0 (1.1)"  "0.1 - 72.2 (1.7)"
      TCGA-B7-5816       TCGA-B7-5818       TCGA-BR-6452       TCGA-BR-6455 
  "ARID1A MUTATED" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE"   "ARID1A MUTATED" 
      TCGA-BR-6457       TCGA-BR-6458       TCGA-BR-6563       TCGA-BR-6564 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-BR-6565       TCGA-BR-6566       TCGA-BR-6705       TCGA-BR-6706 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-BR-6707       TCGA-BR-6801       TCGA-BR-6802       TCGA-BR-6803 
  "ARID1A MUTATED" "ARID1A WILD-TYPE"   "ARID1A MUTATED" "ARID1A WILD-TYPE" 
      TCGA-BR-6852       TCGA-BR-7196       TCGA-BR-7197       TCGA-BR-7703 
"ARID1A WILD-TYPE"   "ARID1A MUTATED" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-BR-7707       TCGA-BR-7715       TCGA-BR-7716       TCGA-BR-7717 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-BR-7722       TCGA-BR-7723       TCGA-BR-7851       TCGA-BR-7901 
  "ARID1A MUTATED" "ARID1A WILD-TYPE"   "ARID1A MUTATED" "ARID1A WILD-TYPE" 
      TCGA-BR-7957       TCGA-BR-8059       TCGA-BR-8077       TCGA-BR-8080 
"ARID1A WILD-TYPE"   "ARID1A MUTATED" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-BR-8081       TCGA-BR-8284       TCGA-BR-8295       TCGA-BR-8296 
"ARID1A WILD-TYPE"   "ARID1A MUTATED" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-BR-8676       TCGA-BR-8682       TCGA-BR-8690       TCGA-BR-A4IV 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-BR-A4IY       TCGA-BR-A4IZ       TCGA-BR-A4J1       TCGA-BR-A4J4 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE"   "ARID1A MUTATED" "ARID1A WILD-TYPE" 
      TCGA-BR-A4J6       TCGA-BR-A4J8       TCGA-BR-A4QI       TCGA-BR-A4QL 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE"   "ARID1A MUTATED" 
      TCGA-CD-5798       TCGA-CD-5799       TCGA-CD-5800       TCGA-CD-5801 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-CD-5802       TCGA-CD-5803       TCGA-CD-5813       TCGA-CG-4300 
"ARID1A WILD-TYPE"   "ARID1A MUTATED" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-CG-4301       TCGA-CG-4304       TCGA-CG-4305       TCGA-CG-4306 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-CG-4436       TCGA-CG-4437       TCGA-CG-4438       TCGA-CG-4440 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-CG-4441       TCGA-CG-4443       TCGA-CG-4444       TCGA-CG-4449 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-CG-4455       TCGA-CG-4465       TCGA-CG-4466       TCGA-CG-4469 
"ARID1A WILD-TYPE"   "ARID1A MUTATED" "ARID1A WILD-TYPE"   "ARID1A MUTATED" 
      TCGA-CG-4477       TCGA-CG-5717       TCGA-CG-5718       TCGA-CG-5719 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-CG-5720       TCGA-CG-5721       TCGA-CG-5722       TCGA-CG-5723 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-CG-5724       TCGA-CG-5726       TCGA-CG-5727       TCGA-CG-5728 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-CG-5730       TCGA-CG-5732       TCGA-CG-5733       TCGA-CG-5734 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-D7-5577       TCGA-D7-5578       TCGA-D7-5579       TCGA-D7-6518 
  "ARID1A MUTATED" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-D7-6519       TCGA-D7-6520       TCGA-D7-6521       TCGA-D7-6522 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE"   "ARID1A MUTATED" "ARID1A WILD-TYPE" 
      TCGA-D7-6524       TCGA-D7-6525       TCGA-D7-6526       TCGA-D7-6527 
  "ARID1A MUTATED" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-D7-6528       TCGA-D7-6815       TCGA-D7-6817       TCGA-D7-6818 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-D7-6820       TCGA-D7-6822       TCGA-EQ-5647       TCGA-F1-6177 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE"   "ARID1A MUTATED" 
      TCGA-F1-6874       TCGA-F1-6875       TCGA-FP-7735       TCGA-FP-7829 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-FP-7916       TCGA-FP-7998       TCGA-FP-8099       TCGA-FP-8209 
"ARID1A WILD-TYPE"   "ARID1A MUTATED"   "ARID1A MUTATED" "ARID1A WILD-TYPE" 
      TCGA-HJ-7597       TCGA-IN-7806       TCGA-IN-7808       TCGA-IP-7968 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-B7-5816       TCGA-B7-5818       TCGA-BR-6452       TCGA-BR-6455 
  "ARID1A MUTATED" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE"   "ARID1A MUTATED" 
      TCGA-BR-6457       TCGA-BR-6458       TCGA-BR-6563       TCGA-BR-6564 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-BR-6565       TCGA-BR-6566       TCGA-BR-6705       TCGA-BR-6706 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-BR-6707       TCGA-BR-6801       TCGA-BR-6802       TCGA-BR-6803 
  "ARID1A MUTATED" "ARID1A WILD-TYPE"   "ARID1A MUTATED" "ARID1A WILD-TYPE" 
      TCGA-BR-6852       TCGA-BR-7196       TCGA-BR-7197       TCGA-BR-7703 
"ARID1A WILD-TYPE"   "ARID1A MUTATED" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-BR-7707       TCGA-BR-7715       TCGA-BR-7716       TCGA-BR-7717 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-BR-7722       TCGA-BR-7723       TCGA-BR-7851       TCGA-BR-7901 
  "ARID1A MUTATED" "ARID1A WILD-TYPE"   "ARID1A MUTATED" "ARID1A WILD-TYPE" 
      TCGA-BR-7957       TCGA-BR-8059       TCGA-BR-8077       TCGA-BR-8080 
"ARID1A WILD-TYPE"   "ARID1A MUTATED" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-BR-8081       TCGA-BR-8284       TCGA-BR-8295       TCGA-BR-8296 
"ARID1A WILD-TYPE"   "ARID1A MUTATED" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-BR-8676       TCGA-BR-8682       TCGA-BR-8690       TCGA-BR-A4IV 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-BR-A4IY       TCGA-BR-A4IZ       TCGA-BR-A4J1       TCGA-BR-A4J4 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE"   "ARID1A MUTATED" "ARID1A WILD-TYPE" 
      TCGA-BR-A4J6       TCGA-BR-A4J8       TCGA-BR-A4QI       TCGA-BR-A4QL 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE"   "ARID1A MUTATED" 
      TCGA-CD-5798       TCGA-CD-5799       TCGA-CD-5800       TCGA-CD-5801 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-CD-5802       TCGA-CD-5803       TCGA-CD-5813       TCGA-CG-4300 
"ARID1A WILD-TYPE"   "ARID1A MUTATED" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-CG-4301       TCGA-CG-4304       TCGA-CG-4305       TCGA-CG-4306 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-CG-4436       TCGA-CG-4437       TCGA-CG-4438       TCGA-CG-4440 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-CG-4441       TCGA-CG-4443       TCGA-CG-4444       TCGA-CG-4449 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-CG-4455       TCGA-CG-4465       TCGA-CG-4466       TCGA-CG-4469 
"ARID1A WILD-TYPE"   "ARID1A MUTATED" "ARID1A WILD-TYPE"   "ARID1A MUTATED" 
      TCGA-CG-4477       TCGA-CG-5717       TCGA-CG-5718       TCGA-CG-5719 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-CG-5720       TCGA-CG-5721       TCGA-CG-5722       TCGA-CG-5723 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-CG-5724       TCGA-CG-5726       TCGA-CG-5727       TCGA-CG-5728 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-CG-5730       TCGA-CG-5732       TCGA-CG-5733       TCGA-CG-5734 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-D7-5577       TCGA-D7-5578       TCGA-D7-5579       TCGA-D7-6518 
  "ARID1A MUTATED" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-D7-6519       TCGA-D7-6520       TCGA-D7-6521       TCGA-D7-6522 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE"   "ARID1A MUTATED" "ARID1A WILD-TYPE" 
      TCGA-D7-6524       TCGA-D7-6525       TCGA-D7-6526       TCGA-D7-6527 
  "ARID1A MUTATED" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-D7-6528       TCGA-D7-6815       TCGA-D7-6817       TCGA-D7-6818 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-D7-6820       TCGA-D7-6822       TCGA-EQ-5647       TCGA-F1-6177 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE"   "ARID1A MUTATED" 
      TCGA-F1-6874       TCGA-F1-6875       TCGA-FP-7735       TCGA-FP-7829 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-FP-7916       TCGA-FP-7998       TCGA-FP-8099       TCGA-FP-8209 
"ARID1A WILD-TYPE"   "ARID1A MUTATED"   "ARID1A MUTATED" "ARID1A WILD-TYPE" 
      TCGA-HJ-7597       TCGA-IN-7806       TCGA-IN-7808       TCGA-IP-7968 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-B7-5816       TCGA-B7-5818       TCGA-BR-6452       TCGA-BR-6455 
  "ARID1A MUTATED" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE"   "ARID1A MUTATED" 
      TCGA-BR-6457       TCGA-BR-6458       TCGA-BR-6563       TCGA-BR-6564 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-BR-6565       TCGA-BR-6566       TCGA-BR-6705       TCGA-BR-6706 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-BR-6707       TCGA-BR-6801       TCGA-BR-6802       TCGA-BR-6803 
  "ARID1A MUTATED" "ARID1A WILD-TYPE"   "ARID1A MUTATED" "ARID1A WILD-TYPE" 
      TCGA-BR-6852       TCGA-BR-7196       TCGA-BR-7197       TCGA-BR-7703 
"ARID1A WILD-TYPE"   "ARID1A MUTATED" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-BR-7707       TCGA-BR-7715       TCGA-BR-7716       TCGA-BR-7717 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-BR-7722       TCGA-BR-7723       TCGA-BR-7851       TCGA-BR-7901 
  "ARID1A MUTATED" "ARID1A WILD-TYPE"   "ARID1A MUTATED" "ARID1A WILD-TYPE" 
      TCGA-BR-7957       TCGA-BR-8059       TCGA-BR-8077       TCGA-BR-8080 
"ARID1A WILD-TYPE"   "ARID1A MUTATED" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-BR-8081       TCGA-BR-8284       TCGA-BR-8295       TCGA-BR-8296 
"ARID1A WILD-TYPE"   "ARID1A MUTATED" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-BR-8676       TCGA-BR-8682       TCGA-BR-8690       TCGA-BR-A4IV 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-BR-A4IY       TCGA-BR-A4IZ       TCGA-BR-A4J1       TCGA-BR-A4J4 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE"   "ARID1A MUTATED" "ARID1A WILD-TYPE" 
      TCGA-BR-A4J6       TCGA-BR-A4J8       TCGA-BR-A4QI       TCGA-BR-A4QL 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE"   "ARID1A MUTATED" 
      TCGA-CD-5798       TCGA-CD-5799       TCGA-CD-5800       TCGA-CD-5801 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-CD-5802       TCGA-CD-5803       TCGA-CD-5813       TCGA-CG-4300 
"ARID1A WILD-TYPE"   "ARID1A MUTATED" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-CG-4301       TCGA-CG-4304       TCGA-CG-4305       TCGA-CG-4306 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-CG-4436       TCGA-CG-4437       TCGA-CG-4438       TCGA-CG-4440 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-CG-4441       TCGA-CG-4443       TCGA-CG-4444       TCGA-CG-4449 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-CG-4455       TCGA-CG-4465       TCGA-CG-4466       TCGA-CG-4469 
"ARID1A WILD-TYPE"   "ARID1A MUTATED" "ARID1A WILD-TYPE"   "ARID1A MUTATED" 
      TCGA-CG-4477       TCGA-CG-5717       TCGA-CG-5718       TCGA-CG-5719 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-CG-5720       TCGA-CG-5721       TCGA-CG-5722       TCGA-CG-5723 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-CG-5724       TCGA-CG-5726       TCGA-CG-5727       TCGA-CG-5728 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-CG-5730       TCGA-CG-5732       TCGA-CG-5733       TCGA-CG-5734 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-D7-5577       TCGA-D7-5578       TCGA-D7-5579       TCGA-D7-6518 
  "ARID1A MUTATED" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-D7-6519       TCGA-D7-6520       TCGA-D7-6521       TCGA-D7-6522 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE"   "ARID1A MUTATED" "ARID1A WILD-TYPE" 
      TCGA-D7-6524       TCGA-D7-6525       TCGA-D7-6526       TCGA-D7-6527 
  "ARID1A MUTATED" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-D7-6528       TCGA-D7-6815       TCGA-D7-6817       TCGA-D7-6818 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-D7-6820       TCGA-D7-6822       TCGA-EQ-5647       TCGA-F1-6177 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE"   "ARID1A MUTATED" 
      TCGA-F1-6874       TCGA-F1-6875       TCGA-FP-7735       TCGA-FP-7829 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-FP-7916       TCGA-FP-7998       TCGA-FP-8099       TCGA-FP-8209 
"ARID1A WILD-TYPE"   "ARID1A MUTATED"   "ARID1A MUTATED" "ARID1A WILD-TYPE" 
      TCGA-HJ-7597       TCGA-IN-7806       TCGA-IN-7808       TCGA-IP-7968 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
[1] "hr=" "3.2"
D7V2, continuous
D7V3, binary
                  cls
clus                0  1
  ARID1A MUTATED   14 15
  ARID1A WILD-TYPE 49 78
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ARID1A MUTATED     14   15
  ARID1A WILD-TYPE   49   78
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  FEMALE             14               49
  MALE               15               78
                  vv
clus               STOMACH  ADENOCARCINOMA  DIFFUSE TYPE
  ARID1A MUTATED                                       5
  ARID1A WILD-TYPE                                    18
                  vv
clus               STOMACH  ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  ARID1A MUTATED                                                       18
  ARID1A WILD-TYPE                                                     60
                  vv
clus               STOMACH  INTESTINAL ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  ARID1A MUTATED                                                                   5
  ARID1A WILD-TYPE                                                                25
                  vv
clus               STOMACH  INTESTINAL ADENOCARCINOMA  TUBULAR TYPE
  ARID1A MUTATED                                                  1
  ARID1A WILD-TYPE                                                9
                  vv
clus               STOMACH  INTESTINAL ADENOCARCINOMA \302\240MUCINOUS TYPE
  ARID1A MUTATED                                                          0
  ARID1A WILD-TYPE                                                       10
                  vv
clus               STOMACH  INTESTINAL ADENOCARCINOMA \302\240PAPILLARY TYPE
  ARID1A MUTATED                                                           0
  ARID1A WILD-TYPE                                                         3
                  vv
clus               STOMACH ADENOCARCINOMA  SIGNET RING TYPE
  ARID1A MUTATED                                          0
  ARID1A WILD-TYPE                                        1
D7V4, multiclass
D7V5, binary
                  cls
clus                 0   1
  ARID1A MUTATED     0  29
  ARID1A WILD-TYPE   6 121
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ARID1A MUTATED      0   29
  ARID1A WILD-TYPE    6  121
     clus
vv    ARID1A MUTATED ARID1A WILD-TYPE
  NO               0                6
  YES             29              121
                  vv
clus                M0  M1  MX
  ARID1A MUTATED    22   2   5
  ARID1A WILD-TYPE 110  12   5
D7V6, multiclass
    clus
vv   ARID1A MUTATED ARID1A WILD-TYPE
  M0             22              110
  M1              2               12
  MX              5                5
                  vv
clus               N0 N1 N2 N3 N3A NX
  ARID1A MUTATED    7 10  2  4   2  4
  ARID1A WILD-TYPE 42 39 23 10   6  7
D7V7, multiclass
                  vv
clus               R0 R1 R2 RX
  ARID1A MUTATED   17  2  1  8
  ARID1A WILD-TYPE 89  4  9 16
D7V8, multiclass
    clus
vv   ARID1A MUTATED ARID1A WILD-TYPE
  R0             17               89
  R1              2                4
  R2              1                9
  RX              8               16
D7V9, continuous
D7V10, continuous
                  vv
clus               STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB
  ARID1A MUTATED         1        0        1        4         2         0
  ARID1A WILD-TYPE       0        5       15       23         5        10
                  vv
clus               STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  ARID1A MUTATED           1         10          1          1        3
  ARID1A WILD-TYPE         3         20         11          5       20
D7V11, multiclass

Clustering(8) Variable = SMAD4 MUTATION ANALYSIS
D8V1, survival
                 sevent
clus2              0  1
  SMAD4 MUTATED    6  1
  SMAD4 WILD-TYPE 97 16
  SMAD4 MUTATED SMAD4 WILD-TYPE 
              7             113 
  SMAD4 MUTATED SMAD4 WILD-TYPE 
              1              16 
$`SMAD4 MUTATED`
TCGA-BR-7722 TCGA-BR-A4J6 TCGA-CD-5799 TCGA-CG-4469 TCGA-CG-5719 TCGA-D7-6815 
        0.16         0.13         0.69         7.07         1.02         3.65 
TCGA-FP-7829 
        0.20 

$`SMAD4 WILD-TYPE`
TCGA-B7-5816 TCGA-B7-5818 TCGA-BR-6452 TCGA-BR-6455 TCGA-BR-6457 TCGA-BR-6458 
        5.62         0.10         0.95         1.41         1.35         1.35 
TCGA-BR-6563 TCGA-BR-6564 TCGA-BR-6565 TCGA-BR-6566 TCGA-BR-6705 TCGA-BR-6706 
        0.85         0.82         0.62         0.62         1.71         2.17 
TCGA-BR-6707 TCGA-BR-6801 TCGA-BR-6802 TCGA-BR-6803 TCGA-BR-6852 TCGA-BR-7196 
        0.99         1.12         0.76         0.66         0.26         1.22 
TCGA-BR-7197 TCGA-BR-7703 TCGA-BR-7707 TCGA-BR-7715 TCGA-BR-7716 TCGA-BR-7717 
        1.48         0.46         0.13         1.05         0.82         0.69 
TCGA-BR-7723 TCGA-BR-7851 TCGA-BR-7901 TCGA-BR-7957 TCGA-BR-8059 TCGA-BR-8077 
        4.54         0.99         0.95         0.69         0.82         0.69 
TCGA-BR-8080 TCGA-BR-8081 TCGA-BR-8284 TCGA-BR-8295 TCGA-BR-8296 TCGA-BR-8676 
        0.49         0.46         0.72         1.55         1.48         0.89 
TCGA-BR-8682 TCGA-BR-8690 TCGA-BR-A4IV TCGA-BR-A4IY TCGA-BR-A4IZ TCGA-BR-A4J1 
        1.64         0.59         0.92         0.39         0.79         0.72 
TCGA-BR-A4J4 TCGA-BR-A4J8 TCGA-BR-A4QI TCGA-BR-A4QL TCGA-CD-5798 TCGA-CD-5800 
        0.53         0.23         0.49         2.24         0.82         0.36 
TCGA-CD-5801 TCGA-CD-5802 TCGA-CD-5803 TCGA-CD-5813 TCGA-CG-4300 TCGA-CG-4301 
        0.49         0.30         0.07         0.39        20.02         3.02 
TCGA-CG-4304 TCGA-CG-4305 TCGA-CG-4306 TCGA-CG-4436 TCGA-CG-4437 TCGA-CG-4438 
       27.02        15.95         1.02         7.96         8.05        54.05 
TCGA-CG-4440 TCGA-CG-4441 TCGA-CG-4443 TCGA-CG-4444 TCGA-CG-4449 TCGA-CG-4455 
        4.01        14.01        29.98        47.05        19.07        12.03 
TCGA-CG-4465 TCGA-CG-4466 TCGA-CG-4477 TCGA-CG-5717 TCGA-CG-5718 TCGA-CG-5720 
        8.98        18.94         1.02         6.94         1.02         0.99 
TCGA-CG-5721 TCGA-CG-5722 TCGA-CG-5723 TCGA-CG-5724 TCGA-CG-5726 TCGA-CG-5727 
        5.98         0.95        70.06        12.03        28.96        31.04 
TCGA-CG-5728 TCGA-CG-5730 TCGA-CG-5732 TCGA-CG-5733 TCGA-CG-5734 TCGA-D7-5577 
       65.10         4.01        55.04        21.07         7.99         8.65 
TCGA-D7-5578 TCGA-D7-5579 TCGA-D7-6518 TCGA-D7-6519 TCGA-D7-6520 TCGA-D7-6521 
        3.58         4.54         9.80        15.65         9.63         8.19 
TCGA-D7-6522 TCGA-D7-6524 TCGA-D7-6525 TCGA-D7-6526 TCGA-D7-6527 TCGA-D7-6528 
        6.90         0.69         5.95         6.61         4.14         1.68 
TCGA-D7-6817 TCGA-D7-6818 TCGA-D7-6820 TCGA-D7-6822 TCGA-EQ-5647 TCGA-F1-6177 
        0.79         4.04         2.93         4.27         0.62         6.54 
TCGA-F1-6874 TCGA-F1-6875 TCGA-FP-7735 TCGA-FP-7916 TCGA-FP-7998 TCGA-FP-8099 
        2.01        72.23         0.39         3.02         3.58         1.02 
TCGA-FP-8209 TCGA-HJ-7597 TCGA-IN-7806 TCGA-IN-7808 TCGA-IP-7968 
       59.05        26.43         6.87         3.55         2.53 

  SMAD4 MUTATED SMAD4 WILD-TYPE 
           0.13            0.07 
  SMAD4 MUTATED SMAD4 WILD-TYPE 
           7.07           72.23 
  SMAD4 MUTATED SMAD4 WILD-TYPE 
           0.69            1.64 
[1] "0.1 - 7.1 (0.7)"  "0.1 - 72.2 (1.6)"
     TCGA-B7-5816      TCGA-B7-5818      TCGA-BR-6452      TCGA-BR-6455 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-BR-6457      TCGA-BR-6458      TCGA-BR-6563      TCGA-BR-6564 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-BR-6565      TCGA-BR-6566      TCGA-BR-6705      TCGA-BR-6706 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-BR-6707      TCGA-BR-6801      TCGA-BR-6802      TCGA-BR-6803 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-BR-6852      TCGA-BR-7196      TCGA-BR-7197      TCGA-BR-7703 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-BR-7707      TCGA-BR-7715      TCGA-BR-7716      TCGA-BR-7717 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-BR-7722      TCGA-BR-7723      TCGA-BR-7851      TCGA-BR-7901 
  "SMAD4 MUTATED" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-BR-7957      TCGA-BR-8059      TCGA-BR-8077      TCGA-BR-8080 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-BR-8081      TCGA-BR-8284      TCGA-BR-8295      TCGA-BR-8296 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-BR-8676      TCGA-BR-8682      TCGA-BR-8690      TCGA-BR-A4IV 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-BR-A4IY      TCGA-BR-A4IZ      TCGA-BR-A4J1      TCGA-BR-A4J4 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-BR-A4J6      TCGA-BR-A4J8      TCGA-BR-A4QI      TCGA-BR-A4QL 
  "SMAD4 MUTATED" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-CD-5798      TCGA-CD-5799      TCGA-CD-5800      TCGA-CD-5801 
"SMAD4 WILD-TYPE"   "SMAD4 MUTATED" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-CD-5802      TCGA-CD-5803      TCGA-CD-5813      TCGA-CG-4300 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-CG-4301      TCGA-CG-4304      TCGA-CG-4305      TCGA-CG-4306 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-CG-4436      TCGA-CG-4437      TCGA-CG-4438      TCGA-CG-4440 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-CG-4441      TCGA-CG-4443      TCGA-CG-4444      TCGA-CG-4449 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-CG-4455      TCGA-CG-4465      TCGA-CG-4466      TCGA-CG-4469 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE"   "SMAD4 MUTATED" 
     TCGA-CG-4477      TCGA-CG-5717      TCGA-CG-5718      TCGA-CG-5719 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE"   "SMAD4 MUTATED" 
     TCGA-CG-5720      TCGA-CG-5721      TCGA-CG-5722      TCGA-CG-5723 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-CG-5724      TCGA-CG-5726      TCGA-CG-5727      TCGA-CG-5728 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-CG-5730      TCGA-CG-5732      TCGA-CG-5733      TCGA-CG-5734 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-D7-5577      TCGA-D7-5578      TCGA-D7-5579      TCGA-D7-6518 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-D7-6519      TCGA-D7-6520      TCGA-D7-6521      TCGA-D7-6522 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-D7-6524      TCGA-D7-6525      TCGA-D7-6526      TCGA-D7-6527 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-D7-6528      TCGA-D7-6815      TCGA-D7-6817      TCGA-D7-6818 
"SMAD4 WILD-TYPE"   "SMAD4 MUTATED" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-D7-6820      TCGA-D7-6822      TCGA-EQ-5647      TCGA-F1-6177 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-F1-6874      TCGA-F1-6875      TCGA-FP-7735      TCGA-FP-7829 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE"   "SMAD4 MUTATED" 
     TCGA-FP-7916      TCGA-FP-7998      TCGA-FP-8099      TCGA-FP-8209 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-HJ-7597      TCGA-IN-7806      TCGA-IN-7808      TCGA-IP-7968 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-B7-5816      TCGA-B7-5818      TCGA-BR-6452      TCGA-BR-6455 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-BR-6457      TCGA-BR-6458      TCGA-BR-6563      TCGA-BR-6564 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-BR-6565      TCGA-BR-6566      TCGA-BR-6705      TCGA-BR-6706 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-BR-6707      TCGA-BR-6801      TCGA-BR-6802      TCGA-BR-6803 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-BR-6852      TCGA-BR-7196      TCGA-BR-7197      TCGA-BR-7703 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-BR-7707      TCGA-BR-7715      TCGA-BR-7716      TCGA-BR-7717 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-BR-7722      TCGA-BR-7723      TCGA-BR-7851      TCGA-BR-7901 
  "SMAD4 MUTATED" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-BR-7957      TCGA-BR-8059      TCGA-BR-8077      TCGA-BR-8080 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-BR-8081      TCGA-BR-8284      TCGA-BR-8295      TCGA-BR-8296 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-BR-8676      TCGA-BR-8682      TCGA-BR-8690      TCGA-BR-A4IV 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-BR-A4IY      TCGA-BR-A4IZ      TCGA-BR-A4J1      TCGA-BR-A4J4 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-BR-A4J6      TCGA-BR-A4J8      TCGA-BR-A4QI      TCGA-BR-A4QL 
  "SMAD4 MUTATED" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-CD-5798      TCGA-CD-5799      TCGA-CD-5800      TCGA-CD-5801 
"SMAD4 WILD-TYPE"   "SMAD4 MUTATED" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-CD-5802      TCGA-CD-5803      TCGA-CD-5813      TCGA-CG-4300 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-CG-4301      TCGA-CG-4304      TCGA-CG-4305      TCGA-CG-4306 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-CG-4436      TCGA-CG-4437      TCGA-CG-4438      TCGA-CG-4440 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-CG-4441      TCGA-CG-4443      TCGA-CG-4444      TCGA-CG-4449 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-CG-4455      TCGA-CG-4465      TCGA-CG-4466      TCGA-CG-4469 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE"   "SMAD4 MUTATED" 
     TCGA-CG-4477      TCGA-CG-5717      TCGA-CG-5718      TCGA-CG-5719 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE"   "SMAD4 MUTATED" 
     TCGA-CG-5720      TCGA-CG-5721      TCGA-CG-5722      TCGA-CG-5723 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-CG-5724      TCGA-CG-5726      TCGA-CG-5727      TCGA-CG-5728 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-CG-5730      TCGA-CG-5732      TCGA-CG-5733      TCGA-CG-5734 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-D7-5577      TCGA-D7-5578      TCGA-D7-5579      TCGA-D7-6518 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-D7-6519      TCGA-D7-6520      TCGA-D7-6521      TCGA-D7-6522 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-D7-6524      TCGA-D7-6525      TCGA-D7-6526      TCGA-D7-6527 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-D7-6528      TCGA-D7-6815      TCGA-D7-6817      TCGA-D7-6818 
"SMAD4 WILD-TYPE"   "SMAD4 MUTATED" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-D7-6820      TCGA-D7-6822      TCGA-EQ-5647      TCGA-F1-6177 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-F1-6874      TCGA-F1-6875      TCGA-FP-7735      TCGA-FP-7829 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE"   "SMAD4 MUTATED" 
     TCGA-FP-7916      TCGA-FP-7998      TCGA-FP-8099      TCGA-FP-8209 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-HJ-7597      TCGA-IN-7806      TCGA-IN-7808      TCGA-IP-7968 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-B7-5816      TCGA-B7-5818      TCGA-BR-6452      TCGA-BR-6455 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-BR-6457      TCGA-BR-6458      TCGA-BR-6563      TCGA-BR-6564 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-BR-6565      TCGA-BR-6566      TCGA-BR-6705      TCGA-BR-6706 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-BR-6707      TCGA-BR-6801      TCGA-BR-6802      TCGA-BR-6803 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-BR-6852      TCGA-BR-7196      TCGA-BR-7197      TCGA-BR-7703 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-BR-7707      TCGA-BR-7715      TCGA-BR-7716      TCGA-BR-7717 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-BR-7722      TCGA-BR-7723      TCGA-BR-7851      TCGA-BR-7901 
  "SMAD4 MUTATED" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-BR-7957      TCGA-BR-8059      TCGA-BR-8077      TCGA-BR-8080 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-BR-8081      TCGA-BR-8284      TCGA-BR-8295      TCGA-BR-8296 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-BR-8676      TCGA-BR-8682      TCGA-BR-8690      TCGA-BR-A4IV 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-BR-A4IY      TCGA-BR-A4IZ      TCGA-BR-A4J1      TCGA-BR-A4J4 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-BR-A4J6      TCGA-BR-A4J8      TCGA-BR-A4QI      TCGA-BR-A4QL 
  "SMAD4 MUTATED" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-CD-5798      TCGA-CD-5799      TCGA-CD-5800      TCGA-CD-5801 
"SMAD4 WILD-TYPE"   "SMAD4 MUTATED" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-CD-5802      TCGA-CD-5803      TCGA-CD-5813      TCGA-CG-4300 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-CG-4301      TCGA-CG-4304      TCGA-CG-4305      TCGA-CG-4306 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-CG-4436      TCGA-CG-4437      TCGA-CG-4438      TCGA-CG-4440 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-CG-4441      TCGA-CG-4443      TCGA-CG-4444      TCGA-CG-4449 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-CG-4455      TCGA-CG-4465      TCGA-CG-4466      TCGA-CG-4469 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE"   "SMAD4 MUTATED" 
     TCGA-CG-4477      TCGA-CG-5717      TCGA-CG-5718      TCGA-CG-5719 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE"   "SMAD4 MUTATED" 
     TCGA-CG-5720      TCGA-CG-5721      TCGA-CG-5722      TCGA-CG-5723 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-CG-5724      TCGA-CG-5726      TCGA-CG-5727      TCGA-CG-5728 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-CG-5730      TCGA-CG-5732      TCGA-CG-5733      TCGA-CG-5734 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-D7-5577      TCGA-D7-5578      TCGA-D7-5579      TCGA-D7-6518 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-D7-6519      TCGA-D7-6520      TCGA-D7-6521      TCGA-D7-6522 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-D7-6524      TCGA-D7-6525      TCGA-D7-6526      TCGA-D7-6527 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-D7-6528      TCGA-D7-6815      TCGA-D7-6817      TCGA-D7-6818 
"SMAD4 WILD-TYPE"   "SMAD4 MUTATED" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-D7-6820      TCGA-D7-6822      TCGA-EQ-5647      TCGA-F1-6177 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-F1-6874      TCGA-F1-6875      TCGA-FP-7735      TCGA-FP-7829 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE"   "SMAD4 MUTATED" 
     TCGA-FP-7916      TCGA-FP-7998      TCGA-FP-8099      TCGA-FP-8209 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-HJ-7597      TCGA-IN-7806      TCGA-IN-7808      TCGA-IP-7968 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
[1] "hr=" "4.7"
D8V2, continuous
D8V3, binary
                 cls
clus               0  1
  SMAD4 MUTATED    3  8
  SMAD4 WILD-TYPE 60 85
[1] "tbl2"
                 cls
clus              [,1] [,2]
  SMAD4 MUTATED      3    8
  SMAD4 WILD-TYPE   60   85
        clus
vv       SMAD4 MUTATED SMAD4 WILD-TYPE
  FEMALE             3              60
  MALE               8              85
                 vv
clus              STOMACH  ADENOCARCINOMA  DIFFUSE TYPE
  SMAD4 MUTATED                                       0
  SMAD4 WILD-TYPE                                    23
                 vv
clus              STOMACH  ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  SMAD4 MUTATED                                                        6
  SMAD4 WILD-TYPE                                                     72
                 vv
clus              STOMACH  INTESTINAL ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  SMAD4 MUTATED                                                                   3
  SMAD4 WILD-TYPE                                                                27
                 vv
clus              STOMACH  INTESTINAL ADENOCARCINOMA  TUBULAR TYPE
  SMAD4 MUTATED                                                  1
  SMAD4 WILD-TYPE                                                9
                 vv
clus              STOMACH  INTESTINAL ADENOCARCINOMA \302\240MUCINOUS TYPE
  SMAD4 MUTATED                                                          1
  SMAD4 WILD-TYPE                                                        9
                 vv
clus              STOMACH  INTESTINAL ADENOCARCINOMA \302\240PAPILLARY TYPE
  SMAD4 MUTATED                                                           0
  SMAD4 WILD-TYPE                                                         3
                 vv
clus              STOMACH ADENOCARCINOMA  SIGNET RING TYPE
  SMAD4 MUTATED                                          0
  SMAD4 WILD-TYPE                                        1
D8V4, multiclass
D8V5, binary
                 cls
clus                0   1
  SMAD4 MUTATED     0  11
  SMAD4 WILD-TYPE   6 139
[1] "tbl2"
                 cls
clus              [,1] [,2]
  SMAD4 MUTATED      0   11
  SMAD4 WILD-TYPE    6  139
     clus
vv    SMAD4 MUTATED SMAD4 WILD-TYPE
  NO              0               6
  YES            11             139
                 vv
clus               M0  M1  MX
  SMAD4 MUTATED     9   1   1
  SMAD4 WILD-TYPE 123  13   9
D8V6, multiclass
    clus
vv   SMAD4 MUTATED SMAD4 WILD-TYPE
  M0             9             123
  M1             1              13
  MX             1               9
                 vv
clus              N0 N1 N2 N3 N3A NX
  SMAD4 MUTATED    3  6  1  1   0  0
  SMAD4 WILD-TYPE 46 43 24 13   8 11
D8V7, multiclass
                 vv
clus               R0  R1  R2  RX
  SMAD4 MUTATED     6   1   0   3
  SMAD4 WILD-TYPE 100   5  10  21
D8V8, multiclass
    clus
vv   SMAD4 MUTATED SMAD4 WILD-TYPE
  R0             6             100
  R1             1               5
  R2             0              10
  RX             3              21
D8V9, continuous
D8V10, continuous
                 vv
clus              STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB
  SMAD4 MUTATED         0        0        1        2         1         0
  SMAD4 WILD-TYPE       1        5       15       25         6        10
                 vv
clus              STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  SMAD4 MUTATED           0          5          0          0        2
  SMAD4 WILD-TYPE         4         25         12          6       21
D8V11, multiclass

Clustering(9) Variable = RHOA MUTATION ANALYSIS
D9V1, survival
                sevent
clus2             0  1
  RHOA MUTATED    7  2
  RHOA WILD-TYPE 96 15
  RHOA MUTATED RHOA WILD-TYPE 
             9            111 
  RHOA MUTATED RHOA WILD-TYPE 
             2             15 
$`RHOA MUTATED`
TCGA-BR-6563 TCGA-BR-6802 TCGA-BR-7722 TCGA-BR-A4IV TCGA-CG-4465 TCGA-CG-5720 
        0.85         0.76         0.16         0.92         8.98         0.99 
TCGA-D7-6520 TCGA-D7-6521 TCGA-D7-6522 
        9.63         8.19         6.90 

$`RHOA WILD-TYPE`
TCGA-B7-5816 TCGA-B7-5818 TCGA-BR-6452 TCGA-BR-6455 TCGA-BR-6457 TCGA-BR-6458 
        5.62         0.10         0.95         1.41         1.35         1.35 
TCGA-BR-6564 TCGA-BR-6565 TCGA-BR-6566 TCGA-BR-6705 TCGA-BR-6706 TCGA-BR-6707 
        0.82         0.62         0.62         1.71         2.17         0.99 
TCGA-BR-6801 TCGA-BR-6803 TCGA-BR-6852 TCGA-BR-7196 TCGA-BR-7197 TCGA-BR-7703 
        1.12         0.66         0.26         1.22         1.48         0.46 
TCGA-BR-7707 TCGA-BR-7715 TCGA-BR-7716 TCGA-BR-7717 TCGA-BR-7723 TCGA-BR-7851 
        0.13         1.05         0.82         0.69         4.54         0.99 
TCGA-BR-7901 TCGA-BR-7957 TCGA-BR-8059 TCGA-BR-8077 TCGA-BR-8080 TCGA-BR-8081 
        0.95         0.69         0.82         0.69         0.49         0.46 
TCGA-BR-8284 TCGA-BR-8295 TCGA-BR-8296 TCGA-BR-8676 TCGA-BR-8682 TCGA-BR-8690 
        0.72         1.55         1.48         0.89         1.64         0.59 
TCGA-BR-A4IY TCGA-BR-A4IZ TCGA-BR-A4J1 TCGA-BR-A4J4 TCGA-BR-A4J6 TCGA-BR-A4J8 
        0.39         0.79         0.72         0.53         0.13         0.23 
TCGA-BR-A4QI TCGA-BR-A4QL TCGA-CD-5798 TCGA-CD-5799 TCGA-CD-5800 TCGA-CD-5801 
        0.49         2.24         0.82         0.69         0.36         0.49 
TCGA-CD-5802 TCGA-CD-5803 TCGA-CD-5813 TCGA-CG-4300 TCGA-CG-4301 TCGA-CG-4304 
        0.30         0.07         0.39        20.02         3.02        27.02 
TCGA-CG-4305 TCGA-CG-4306 TCGA-CG-4436 TCGA-CG-4437 TCGA-CG-4438 TCGA-CG-4440 
       15.95         1.02         7.96         8.05        54.05         4.01 
TCGA-CG-4441 TCGA-CG-4443 TCGA-CG-4444 TCGA-CG-4449 TCGA-CG-4455 TCGA-CG-4466 
       14.01        29.98        47.05        19.07        12.03        18.94 
TCGA-CG-4469 TCGA-CG-4477 TCGA-CG-5717 TCGA-CG-5718 TCGA-CG-5719 TCGA-CG-5721 
        7.07         1.02         6.94         1.02         1.02         5.98 
TCGA-CG-5722 TCGA-CG-5723 TCGA-CG-5724 TCGA-CG-5726 TCGA-CG-5727 TCGA-CG-5728 
        0.95        70.06        12.03        28.96        31.04        65.10 
TCGA-CG-5730 TCGA-CG-5732 TCGA-CG-5733 TCGA-CG-5734 TCGA-D7-5577 TCGA-D7-5578 
        4.01        55.04        21.07         7.99         8.65         3.58 
TCGA-D7-5579 TCGA-D7-6518 TCGA-D7-6519 TCGA-D7-6524 TCGA-D7-6525 TCGA-D7-6526 
        4.54         9.80        15.65         0.69         5.95         6.61 
TCGA-D7-6527 TCGA-D7-6528 TCGA-D7-6815 TCGA-D7-6817 TCGA-D7-6818 TCGA-D7-6820 
        4.14         1.68         3.65         0.79         4.04         2.93 
TCGA-D7-6822 TCGA-EQ-5647 TCGA-F1-6177 TCGA-F1-6874 TCGA-F1-6875 TCGA-FP-7735 
        4.27         0.62         6.54         2.01        72.23         0.39 
TCGA-FP-7829 TCGA-FP-7916 TCGA-FP-7998 TCGA-FP-8099 TCGA-FP-8209 TCGA-HJ-7597 
        0.20         3.02         3.58         1.02        59.05        26.43 
TCGA-IN-7806 TCGA-IN-7808 TCGA-IP-7968 
        6.87         3.55         2.53 

  RHOA MUTATED RHOA WILD-TYPE 
          0.16           0.07 
  RHOA MUTATED RHOA WILD-TYPE 
          9.63          72.23 
  RHOA MUTATED RHOA WILD-TYPE 
          0.99           1.55 
[1] "0.2 - 9.6 (1.0)"  "0.1 - 72.2 (1.6)"
    TCGA-B7-5816     TCGA-B7-5818     TCGA-BR-6452     TCGA-BR-6455 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-BR-6457     TCGA-BR-6458     TCGA-BR-6563     TCGA-BR-6564 
"RHOA WILD-TYPE" "RHOA WILD-TYPE"   "RHOA MUTATED" "RHOA WILD-TYPE" 
    TCGA-BR-6565     TCGA-BR-6566     TCGA-BR-6705     TCGA-BR-6706 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-BR-6707     TCGA-BR-6801     TCGA-BR-6802     TCGA-BR-6803 
"RHOA WILD-TYPE" "RHOA WILD-TYPE"   "RHOA MUTATED" "RHOA WILD-TYPE" 
    TCGA-BR-6852     TCGA-BR-7196     TCGA-BR-7197     TCGA-BR-7703 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-BR-7707     TCGA-BR-7715     TCGA-BR-7716     TCGA-BR-7717 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-BR-7722     TCGA-BR-7723     TCGA-BR-7851     TCGA-BR-7901 
  "RHOA MUTATED" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-BR-7957     TCGA-BR-8059     TCGA-BR-8077     TCGA-BR-8080 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-BR-8081     TCGA-BR-8284     TCGA-BR-8295     TCGA-BR-8296 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-BR-8676     TCGA-BR-8682     TCGA-BR-8690     TCGA-BR-A4IV 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE"   "RHOA MUTATED" 
    TCGA-BR-A4IY     TCGA-BR-A4IZ     TCGA-BR-A4J1     TCGA-BR-A4J4 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-BR-A4J6     TCGA-BR-A4J8     TCGA-BR-A4QI     TCGA-BR-A4QL 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-CD-5798     TCGA-CD-5799     TCGA-CD-5800     TCGA-CD-5801 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-CD-5802     TCGA-CD-5803     TCGA-CD-5813     TCGA-CG-4300 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-CG-4301     TCGA-CG-4304     TCGA-CG-4305     TCGA-CG-4306 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-CG-4436     TCGA-CG-4437     TCGA-CG-4438     TCGA-CG-4440 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-CG-4441     TCGA-CG-4443     TCGA-CG-4444     TCGA-CG-4449 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-CG-4455     TCGA-CG-4465     TCGA-CG-4466     TCGA-CG-4469 
"RHOA WILD-TYPE"   "RHOA MUTATED" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-CG-4477     TCGA-CG-5717     TCGA-CG-5718     TCGA-CG-5719 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-CG-5720     TCGA-CG-5721     TCGA-CG-5722     TCGA-CG-5723 
  "RHOA MUTATED" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-CG-5724     TCGA-CG-5726     TCGA-CG-5727     TCGA-CG-5728 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-CG-5730     TCGA-CG-5732     TCGA-CG-5733     TCGA-CG-5734 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-D7-5577     TCGA-D7-5578     TCGA-D7-5579     TCGA-D7-6518 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-D7-6519     TCGA-D7-6520     TCGA-D7-6521     TCGA-D7-6522 
"RHOA WILD-TYPE"   "RHOA MUTATED"   "RHOA MUTATED"   "RHOA MUTATED" 
    TCGA-D7-6524     TCGA-D7-6525     TCGA-D7-6526     TCGA-D7-6527 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-D7-6528     TCGA-D7-6815     TCGA-D7-6817     TCGA-D7-6818 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-D7-6820     TCGA-D7-6822     TCGA-EQ-5647     TCGA-F1-6177 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-F1-6874     TCGA-F1-6875     TCGA-FP-7735     TCGA-FP-7829 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-FP-7916     TCGA-FP-7998     TCGA-FP-8099     TCGA-FP-8209 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-HJ-7597     TCGA-IN-7806     TCGA-IN-7808     TCGA-IP-7968 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-B7-5816     TCGA-B7-5818     TCGA-BR-6452     TCGA-BR-6455 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-BR-6457     TCGA-BR-6458     TCGA-BR-6563     TCGA-BR-6564 
"RHOA WILD-TYPE" "RHOA WILD-TYPE"   "RHOA MUTATED" "RHOA WILD-TYPE" 
    TCGA-BR-6565     TCGA-BR-6566     TCGA-BR-6705     TCGA-BR-6706 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-BR-6707     TCGA-BR-6801     TCGA-BR-6802     TCGA-BR-6803 
"RHOA WILD-TYPE" "RHOA WILD-TYPE"   "RHOA MUTATED" "RHOA WILD-TYPE" 
    TCGA-BR-6852     TCGA-BR-7196     TCGA-BR-7197     TCGA-BR-7703 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-BR-7707     TCGA-BR-7715     TCGA-BR-7716     TCGA-BR-7717 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-BR-7722     TCGA-BR-7723     TCGA-BR-7851     TCGA-BR-7901 
  "RHOA MUTATED" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-BR-7957     TCGA-BR-8059     TCGA-BR-8077     TCGA-BR-8080 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-BR-8081     TCGA-BR-8284     TCGA-BR-8295     TCGA-BR-8296 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-BR-8676     TCGA-BR-8682     TCGA-BR-8690     TCGA-BR-A4IV 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE"   "RHOA MUTATED" 
    TCGA-BR-A4IY     TCGA-BR-A4IZ     TCGA-BR-A4J1     TCGA-BR-A4J4 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-BR-A4J6     TCGA-BR-A4J8     TCGA-BR-A4QI     TCGA-BR-A4QL 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-CD-5798     TCGA-CD-5799     TCGA-CD-5800     TCGA-CD-5801 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-CD-5802     TCGA-CD-5803     TCGA-CD-5813     TCGA-CG-4300 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-CG-4301     TCGA-CG-4304     TCGA-CG-4305     TCGA-CG-4306 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-CG-4436     TCGA-CG-4437     TCGA-CG-4438     TCGA-CG-4440 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-CG-4441     TCGA-CG-4443     TCGA-CG-4444     TCGA-CG-4449 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-CG-4455     TCGA-CG-4465     TCGA-CG-4466     TCGA-CG-4469 
"RHOA WILD-TYPE"   "RHOA MUTATED" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-CG-4477     TCGA-CG-5717     TCGA-CG-5718     TCGA-CG-5719 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-CG-5720     TCGA-CG-5721     TCGA-CG-5722     TCGA-CG-5723 
  "RHOA MUTATED" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-CG-5724     TCGA-CG-5726     TCGA-CG-5727     TCGA-CG-5728 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-CG-5730     TCGA-CG-5732     TCGA-CG-5733     TCGA-CG-5734 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-D7-5577     TCGA-D7-5578     TCGA-D7-5579     TCGA-D7-6518 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-D7-6519     TCGA-D7-6520     TCGA-D7-6521     TCGA-D7-6522 
"RHOA WILD-TYPE"   "RHOA MUTATED"   "RHOA MUTATED"   "RHOA MUTATED" 
    TCGA-D7-6524     TCGA-D7-6525     TCGA-D7-6526     TCGA-D7-6527 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-D7-6528     TCGA-D7-6815     TCGA-D7-6817     TCGA-D7-6818 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-D7-6820     TCGA-D7-6822     TCGA-EQ-5647     TCGA-F1-6177 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-F1-6874     TCGA-F1-6875     TCGA-FP-7735     TCGA-FP-7829 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-FP-7916     TCGA-FP-7998     TCGA-FP-8099     TCGA-FP-8209 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-HJ-7597     TCGA-IN-7806     TCGA-IN-7808     TCGA-IP-7968 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-B7-5816     TCGA-B7-5818     TCGA-BR-6452     TCGA-BR-6455 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-BR-6457     TCGA-BR-6458     TCGA-BR-6563     TCGA-BR-6564 
"RHOA WILD-TYPE" "RHOA WILD-TYPE"   "RHOA MUTATED" "RHOA WILD-TYPE" 
    TCGA-BR-6565     TCGA-BR-6566     TCGA-BR-6705     TCGA-BR-6706 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-BR-6707     TCGA-BR-6801     TCGA-BR-6802     TCGA-BR-6803 
"RHOA WILD-TYPE" "RHOA WILD-TYPE"   "RHOA MUTATED" "RHOA WILD-TYPE" 
    TCGA-BR-6852     TCGA-BR-7196     TCGA-BR-7197     TCGA-BR-7703 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-BR-7707     TCGA-BR-7715     TCGA-BR-7716     TCGA-BR-7717 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-BR-7722     TCGA-BR-7723     TCGA-BR-7851     TCGA-BR-7901 
  "RHOA MUTATED" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-BR-7957     TCGA-BR-8059     TCGA-BR-8077     TCGA-BR-8080 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-BR-8081     TCGA-BR-8284     TCGA-BR-8295     TCGA-BR-8296 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-BR-8676     TCGA-BR-8682     TCGA-BR-8690     TCGA-BR-A4IV 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE"   "RHOA MUTATED" 
    TCGA-BR-A4IY     TCGA-BR-A4IZ     TCGA-BR-A4J1     TCGA-BR-A4J4 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-BR-A4J6     TCGA-BR-A4J8     TCGA-BR-A4QI     TCGA-BR-A4QL 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-CD-5798     TCGA-CD-5799     TCGA-CD-5800     TCGA-CD-5801 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-CD-5802     TCGA-CD-5803     TCGA-CD-5813     TCGA-CG-4300 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-CG-4301     TCGA-CG-4304     TCGA-CG-4305     TCGA-CG-4306 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-CG-4436     TCGA-CG-4437     TCGA-CG-4438     TCGA-CG-4440 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-CG-4441     TCGA-CG-4443     TCGA-CG-4444     TCGA-CG-4449 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-CG-4455     TCGA-CG-4465     TCGA-CG-4466     TCGA-CG-4469 
"RHOA WILD-TYPE"   "RHOA MUTATED" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-CG-4477     TCGA-CG-5717     TCGA-CG-5718     TCGA-CG-5719 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-CG-5720     TCGA-CG-5721     TCGA-CG-5722     TCGA-CG-5723 
  "RHOA MUTATED" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-CG-5724     TCGA-CG-5726     TCGA-CG-5727     TCGA-CG-5728 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-CG-5730     TCGA-CG-5732     TCGA-CG-5733     TCGA-CG-5734 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-D7-5577     TCGA-D7-5578     TCGA-D7-5579     TCGA-D7-6518 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-D7-6519     TCGA-D7-6520     TCGA-D7-6521     TCGA-D7-6522 
"RHOA WILD-TYPE"   "RHOA MUTATED"   "RHOA MUTATED"   "RHOA MUTATED" 
    TCGA-D7-6524     TCGA-D7-6525     TCGA-D7-6526     TCGA-D7-6527 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-D7-6528     TCGA-D7-6815     TCGA-D7-6817     TCGA-D7-6818 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-D7-6820     TCGA-D7-6822     TCGA-EQ-5647     TCGA-F1-6177 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-F1-6874     TCGA-F1-6875     TCGA-FP-7735     TCGA-FP-7829 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-FP-7916     TCGA-FP-7998     TCGA-FP-8099     TCGA-FP-8209 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
    TCGA-HJ-7597     TCGA-IN-7806     TCGA-IN-7808     TCGA-IP-7968 
"RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" "RHOA WILD-TYPE" 
[1] "hr=" "3.1"
D9V2, continuous
D9V3, binary
                cls
clus              0  1
  RHOA MUTATED    3  7
  RHOA WILD-TYPE 60 86
[1] "tbl2"
                cls
clus             [,1] [,2]
  RHOA MUTATED      3    7
  RHOA WILD-TYPE   60   86
        clus
vv       RHOA MUTATED RHOA WILD-TYPE
  FEMALE            3             60
  MALE              7             86
                vv
clus             STOMACH  ADENOCARCINOMA  DIFFUSE TYPE
  RHOA MUTATED                                       4
  RHOA WILD-TYPE                                    19
                vv
clus             STOMACH  ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  RHOA MUTATED                                                        5
  RHOA WILD-TYPE                                                     73
                vv
clus             STOMACH  INTESTINAL ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  RHOA MUTATED                                                                   0
  RHOA WILD-TYPE                                                                30
                vv
clus             STOMACH  INTESTINAL ADENOCARCINOMA  TUBULAR TYPE
  RHOA MUTATED                                                  1
  RHOA WILD-TYPE                                                9
                vv
clus             STOMACH  INTESTINAL ADENOCARCINOMA \302\240MUCINOUS TYPE
  RHOA MUTATED                                                          0
  RHOA WILD-TYPE                                                       10
                vv
clus             STOMACH  INTESTINAL ADENOCARCINOMA \302\240PAPILLARY TYPE
  RHOA MUTATED                                                           0
  RHOA WILD-TYPE                                                         3
                vv
clus             STOMACH ADENOCARCINOMA  SIGNET RING TYPE
  RHOA MUTATED                                          0
  RHOA WILD-TYPE                                        1
D9V4, multiclass
D9V5, binary
                cls
clus               0   1
  RHOA MUTATED     0  10
  RHOA WILD-TYPE   6 140
[1] "tbl2"
                cls
clus             [,1] [,2]
  RHOA MUTATED      0   10
  RHOA WILD-TYPE    6  140
     clus
vv    RHOA MUTATED RHOA WILD-TYPE
  NO             0              6
  YES           10            140
                vv
clus              M0  M1  MX
  RHOA MUTATED     9   1   0
  RHOA WILD-TYPE 123  13  10
D9V6, multiclass
    clus
vv   RHOA MUTATED RHOA WILD-TYPE
  M0            9            123
  M1            1             13
  MX            0             10
                vv
clus             N0 N1 N2 N3 N3A NX
  RHOA MUTATED    2  4  3  1   0  0
  RHOA WILD-TYPE 47 45 22 13   8 11
D9V7, multiclass
                vv
clus             R0 R1 R2 RX
  RHOA MUTATED    8  0  1  1
  RHOA WILD-TYPE 98  6  9 23
D9V8, multiclass
    clus
vv   RHOA MUTATED RHOA WILD-TYPE
  R0            8             98
  R1            0              6
  R2            1              9
  RX            1             23
D9V9, continuous
D9V10, continuous
                vv
clus             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB
  RHOA MUTATED         0        0        2        0         0         0
  RHOA WILD-TYPE       1        5       14       27         7        10
                vv
clus             STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  RHOA MUTATED           0          5          1          0        1
  RHOA WILD-TYPE         4         25         11          6       22
D9V11, multiclass

Clustering(10) Variable = MXRA8 MUTATION ANALYSIS
D10V1, survival
                 sevent
clus2              0  1
  MXRA8 MUTATED    4  1
  MXRA8 WILD-TYPE 99 16
  MXRA8 MUTATED MXRA8 WILD-TYPE 
              5             115 
  MXRA8 MUTATED MXRA8 WILD-TYPE 
              1              16 
$`MXRA8 MUTATED`
TCGA-BR-6452 TCGA-BR-A4QL TCGA-CG-4465 TCGA-CG-5721 TCGA-F1-6177 
        0.95         2.24         8.98         5.98         6.54 

$`MXRA8 WILD-TYPE`
TCGA-B7-5816 TCGA-B7-5818 TCGA-BR-6455 TCGA-BR-6457 TCGA-BR-6458 TCGA-BR-6563 
        5.62         0.10         1.41         1.35         1.35         0.85 
TCGA-BR-6564 TCGA-BR-6565 TCGA-BR-6566 TCGA-BR-6705 TCGA-BR-6706 TCGA-BR-6707 
        0.82         0.62         0.62         1.71         2.17         0.99 
TCGA-BR-6801 TCGA-BR-6802 TCGA-BR-6803 TCGA-BR-6852 TCGA-BR-7196 TCGA-BR-7197 
        1.12         0.76         0.66         0.26         1.22         1.48 
TCGA-BR-7703 TCGA-BR-7707 TCGA-BR-7715 TCGA-BR-7716 TCGA-BR-7717 TCGA-BR-7722 
        0.46         0.13         1.05         0.82         0.69         0.16 
TCGA-BR-7723 TCGA-BR-7851 TCGA-BR-7901 TCGA-BR-7957 TCGA-BR-8059 TCGA-BR-8077 
        4.54         0.99         0.95         0.69         0.82         0.69 
TCGA-BR-8080 TCGA-BR-8081 TCGA-BR-8284 TCGA-BR-8295 TCGA-BR-8296 TCGA-BR-8676 
        0.49         0.46         0.72         1.55         1.48         0.89 
TCGA-BR-8682 TCGA-BR-8690 TCGA-BR-A4IV TCGA-BR-A4IY TCGA-BR-A4IZ TCGA-BR-A4J1 
        1.64         0.59         0.92         0.39         0.79         0.72 
TCGA-BR-A4J4 TCGA-BR-A4J6 TCGA-BR-A4J8 TCGA-BR-A4QI TCGA-CD-5798 TCGA-CD-5799 
        0.53         0.13         0.23         0.49         0.82         0.69 
TCGA-CD-5800 TCGA-CD-5801 TCGA-CD-5802 TCGA-CD-5803 TCGA-CD-5813 TCGA-CG-4300 
        0.36         0.49         0.30         0.07         0.39        20.02 
TCGA-CG-4301 TCGA-CG-4304 TCGA-CG-4305 TCGA-CG-4306 TCGA-CG-4436 TCGA-CG-4437 
        3.02        27.02        15.95         1.02         7.96         8.05 
TCGA-CG-4438 TCGA-CG-4440 TCGA-CG-4441 TCGA-CG-4443 TCGA-CG-4444 TCGA-CG-4449 
       54.05         4.01        14.01        29.98        47.05        19.07 
TCGA-CG-4455 TCGA-CG-4466 TCGA-CG-4469 TCGA-CG-4477 TCGA-CG-5717 TCGA-CG-5718 
       12.03        18.94         7.07         1.02         6.94         1.02 
TCGA-CG-5719 TCGA-CG-5720 TCGA-CG-5722 TCGA-CG-5723 TCGA-CG-5724 TCGA-CG-5726 
        1.02         0.99         0.95        70.06        12.03        28.96 
TCGA-CG-5727 TCGA-CG-5728 TCGA-CG-5730 TCGA-CG-5732 TCGA-CG-5733 TCGA-CG-5734 
       31.04        65.10         4.01        55.04        21.07         7.99 
TCGA-D7-5577 TCGA-D7-5578 TCGA-D7-5579 TCGA-D7-6518 TCGA-D7-6519 TCGA-D7-6520 
        8.65         3.58         4.54         9.80        15.65         9.63 
TCGA-D7-6521 TCGA-D7-6522 TCGA-D7-6524 TCGA-D7-6525 TCGA-D7-6526 TCGA-D7-6527 
        8.19         6.90         0.69         5.95         6.61         4.14 
TCGA-D7-6528 TCGA-D7-6815 TCGA-D7-6817 TCGA-D7-6818 TCGA-D7-6820 TCGA-D7-6822 
        1.68         3.65         0.79         4.04         2.93         4.27 
TCGA-EQ-5647 TCGA-F1-6874 TCGA-F1-6875 TCGA-FP-7735 TCGA-FP-7829 TCGA-FP-7916 
        0.62         2.01        72.23         0.39         0.20         3.02 
TCGA-FP-7998 TCGA-FP-8099 TCGA-FP-8209 TCGA-HJ-7597 TCGA-IN-7806 TCGA-IN-7808 
        3.58         1.02        59.05        26.43         6.87         3.55 
TCGA-IP-7968 
        2.53 

  MXRA8 MUTATED MXRA8 WILD-TYPE 
           0.95            0.07 
  MXRA8 MUTATED MXRA8 WILD-TYPE 
           8.98           72.23 
  MXRA8 MUTATED MXRA8 WILD-TYPE 
           5.98            1.48 
[1] "0.9 - 9.0 (6.0)"  "0.1 - 72.2 (1.5)"
     TCGA-B7-5816      TCGA-B7-5818      TCGA-BR-6452      TCGA-BR-6455 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE"   "MXRA8 MUTATED" "MXRA8 WILD-TYPE" 
     TCGA-BR-6457      TCGA-BR-6458      TCGA-BR-6563      TCGA-BR-6564 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-BR-6565      TCGA-BR-6566      TCGA-BR-6705      TCGA-BR-6706 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-BR-6707      TCGA-BR-6801      TCGA-BR-6802      TCGA-BR-6803 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-BR-6852      TCGA-BR-7196      TCGA-BR-7197      TCGA-BR-7703 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-BR-7707      TCGA-BR-7715      TCGA-BR-7716      TCGA-BR-7717 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-BR-7722      TCGA-BR-7723      TCGA-BR-7851      TCGA-BR-7901 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-BR-7957      TCGA-BR-8059      TCGA-BR-8077      TCGA-BR-8080 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-BR-8081      TCGA-BR-8284      TCGA-BR-8295      TCGA-BR-8296 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-BR-8676      TCGA-BR-8682      TCGA-BR-8690      TCGA-BR-A4IV 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-BR-A4IY      TCGA-BR-A4IZ      TCGA-BR-A4J1      TCGA-BR-A4J4 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-BR-A4J6      TCGA-BR-A4J8      TCGA-BR-A4QI      TCGA-BR-A4QL 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE"   "MXRA8 MUTATED" 
     TCGA-CD-5798      TCGA-CD-5799      TCGA-CD-5800      TCGA-CD-5801 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-CD-5802      TCGA-CD-5803      TCGA-CD-5813      TCGA-CG-4300 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-CG-4301      TCGA-CG-4304      TCGA-CG-4305      TCGA-CG-4306 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-CG-4436      TCGA-CG-4437      TCGA-CG-4438      TCGA-CG-4440 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-CG-4441      TCGA-CG-4443      TCGA-CG-4444      TCGA-CG-4449 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-CG-4455      TCGA-CG-4465      TCGA-CG-4466      TCGA-CG-4469 
"MXRA8 WILD-TYPE"   "MXRA8 MUTATED" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-CG-4477      TCGA-CG-5717      TCGA-CG-5718      TCGA-CG-5719 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-CG-5720      TCGA-CG-5721      TCGA-CG-5722      TCGA-CG-5723 
"MXRA8 WILD-TYPE"   "MXRA8 MUTATED" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-CG-5724      TCGA-CG-5726      TCGA-CG-5727      TCGA-CG-5728 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-CG-5730      TCGA-CG-5732      TCGA-CG-5733      TCGA-CG-5734 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-D7-5577      TCGA-D7-5578      TCGA-D7-5579      TCGA-D7-6518 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-D7-6519      TCGA-D7-6520      TCGA-D7-6521      TCGA-D7-6522 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-D7-6524      TCGA-D7-6525      TCGA-D7-6526      TCGA-D7-6527 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-D7-6528      TCGA-D7-6815      TCGA-D7-6817      TCGA-D7-6818 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-D7-6820      TCGA-D7-6822      TCGA-EQ-5647      TCGA-F1-6177 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE"   "MXRA8 MUTATED" 
     TCGA-F1-6874      TCGA-F1-6875      TCGA-FP-7735      TCGA-FP-7829 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-FP-7916      TCGA-FP-7998      TCGA-FP-8099      TCGA-FP-8209 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-HJ-7597      TCGA-IN-7806      TCGA-IN-7808      TCGA-IP-7968 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-B7-5816      TCGA-B7-5818      TCGA-BR-6452      TCGA-BR-6455 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE"   "MXRA8 MUTATED" "MXRA8 WILD-TYPE" 
     TCGA-BR-6457      TCGA-BR-6458      TCGA-BR-6563      TCGA-BR-6564 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-BR-6565      TCGA-BR-6566      TCGA-BR-6705      TCGA-BR-6706 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-BR-6707      TCGA-BR-6801      TCGA-BR-6802      TCGA-BR-6803 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-BR-6852      TCGA-BR-7196      TCGA-BR-7197      TCGA-BR-7703 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-BR-7707      TCGA-BR-7715      TCGA-BR-7716      TCGA-BR-7717 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-BR-7722      TCGA-BR-7723      TCGA-BR-7851      TCGA-BR-7901 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-BR-7957      TCGA-BR-8059      TCGA-BR-8077      TCGA-BR-8080 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-BR-8081      TCGA-BR-8284      TCGA-BR-8295      TCGA-BR-8296 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-BR-8676      TCGA-BR-8682      TCGA-BR-8690      TCGA-BR-A4IV 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-BR-A4IY      TCGA-BR-A4IZ      TCGA-BR-A4J1      TCGA-BR-A4J4 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-BR-A4J6      TCGA-BR-A4J8      TCGA-BR-A4QI      TCGA-BR-A4QL 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE"   "MXRA8 MUTATED" 
     TCGA-CD-5798      TCGA-CD-5799      TCGA-CD-5800      TCGA-CD-5801 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-CD-5802      TCGA-CD-5803      TCGA-CD-5813      TCGA-CG-4300 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-CG-4301      TCGA-CG-4304      TCGA-CG-4305      TCGA-CG-4306 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-CG-4436      TCGA-CG-4437      TCGA-CG-4438      TCGA-CG-4440 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-CG-4441      TCGA-CG-4443      TCGA-CG-4444      TCGA-CG-4449 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-CG-4455      TCGA-CG-4465      TCGA-CG-4466      TCGA-CG-4469 
"MXRA8 WILD-TYPE"   "MXRA8 MUTATED" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-CG-4477      TCGA-CG-5717      TCGA-CG-5718      TCGA-CG-5719 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-CG-5720      TCGA-CG-5721      TCGA-CG-5722      TCGA-CG-5723 
"MXRA8 WILD-TYPE"   "MXRA8 MUTATED" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-CG-5724      TCGA-CG-5726      TCGA-CG-5727      TCGA-CG-5728 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-CG-5730      TCGA-CG-5732      TCGA-CG-5733      TCGA-CG-5734 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-D7-5577      TCGA-D7-5578      TCGA-D7-5579      TCGA-D7-6518 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-D7-6519      TCGA-D7-6520      TCGA-D7-6521      TCGA-D7-6522 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-D7-6524      TCGA-D7-6525      TCGA-D7-6526      TCGA-D7-6527 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-D7-6528      TCGA-D7-6815      TCGA-D7-6817      TCGA-D7-6818 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-D7-6820      TCGA-D7-6822      TCGA-EQ-5647      TCGA-F1-6177 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE"   "MXRA8 MUTATED" 
     TCGA-F1-6874      TCGA-F1-6875      TCGA-FP-7735      TCGA-FP-7829 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-FP-7916      TCGA-FP-7998      TCGA-FP-8099      TCGA-FP-8209 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-HJ-7597      TCGA-IN-7806      TCGA-IN-7808      TCGA-IP-7968 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-B7-5816      TCGA-B7-5818      TCGA-BR-6452      TCGA-BR-6455 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE"   "MXRA8 MUTATED" "MXRA8 WILD-TYPE" 
     TCGA-BR-6457      TCGA-BR-6458      TCGA-BR-6563      TCGA-BR-6564 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-BR-6565      TCGA-BR-6566      TCGA-BR-6705      TCGA-BR-6706 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-BR-6707      TCGA-BR-6801      TCGA-BR-6802      TCGA-BR-6803 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-BR-6852      TCGA-BR-7196      TCGA-BR-7197      TCGA-BR-7703 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-BR-7707      TCGA-BR-7715      TCGA-BR-7716      TCGA-BR-7717 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-BR-7722      TCGA-BR-7723      TCGA-BR-7851      TCGA-BR-7901 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-BR-7957      TCGA-BR-8059      TCGA-BR-8077      TCGA-BR-8080 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-BR-8081      TCGA-BR-8284      TCGA-BR-8295      TCGA-BR-8296 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-BR-8676      TCGA-BR-8682      TCGA-BR-8690      TCGA-BR-A4IV 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-BR-A4IY      TCGA-BR-A4IZ      TCGA-BR-A4J1      TCGA-BR-A4J4 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-BR-A4J6      TCGA-BR-A4J8      TCGA-BR-A4QI      TCGA-BR-A4QL 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE"   "MXRA8 MUTATED" 
     TCGA-CD-5798      TCGA-CD-5799      TCGA-CD-5800      TCGA-CD-5801 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-CD-5802      TCGA-CD-5803      TCGA-CD-5813      TCGA-CG-4300 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-CG-4301      TCGA-CG-4304      TCGA-CG-4305      TCGA-CG-4306 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-CG-4436      TCGA-CG-4437      TCGA-CG-4438      TCGA-CG-4440 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-CG-4441      TCGA-CG-4443      TCGA-CG-4444      TCGA-CG-4449 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-CG-4455      TCGA-CG-4465      TCGA-CG-4466      TCGA-CG-4469 
"MXRA8 WILD-TYPE"   "MXRA8 MUTATED" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-CG-4477      TCGA-CG-5717      TCGA-CG-5718      TCGA-CG-5719 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-CG-5720      TCGA-CG-5721      TCGA-CG-5722      TCGA-CG-5723 
"MXRA8 WILD-TYPE"   "MXRA8 MUTATED" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-CG-5724      TCGA-CG-5726      TCGA-CG-5727      TCGA-CG-5728 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-CG-5730      TCGA-CG-5732      TCGA-CG-5733      TCGA-CG-5734 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-D7-5577      TCGA-D7-5578      TCGA-D7-5579      TCGA-D7-6518 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-D7-6519      TCGA-D7-6520      TCGA-D7-6521      TCGA-D7-6522 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-D7-6524      TCGA-D7-6525      TCGA-D7-6526      TCGA-D7-6527 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-D7-6528      TCGA-D7-6815      TCGA-D7-6817      TCGA-D7-6818 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-D7-6820      TCGA-D7-6822      TCGA-EQ-5647      TCGA-F1-6177 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE"   "MXRA8 MUTATED" 
     TCGA-F1-6874      TCGA-F1-6875      TCGA-FP-7735      TCGA-FP-7829 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-FP-7916      TCGA-FP-7998      TCGA-FP-8099      TCGA-FP-8209 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
     TCGA-HJ-7597      TCGA-IN-7806      TCGA-IN-7808      TCGA-IP-7968 
"MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" "MXRA8 WILD-TYPE" 
[1] "hr=" "2.6"
D10V2, continuous
D10V3, binary
                 cls
clus               0  1
  MXRA8 MUTATED    4  3
  MXRA8 WILD-TYPE 59 90
[1] "tbl2"
                 cls
clus              [,1] [,2]
  MXRA8 MUTATED      4    3
  MXRA8 WILD-TYPE   59   90
        clus
vv       MXRA8 MUTATED MXRA8 WILD-TYPE
  FEMALE             4              59
  MALE               3              90
                 vv
clus              STOMACH  ADENOCARCINOMA  DIFFUSE TYPE
  MXRA8 MUTATED                                       1
  MXRA8 WILD-TYPE                                    22
                 vv
clus              STOMACH  ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  MXRA8 MUTATED                                                        4
  MXRA8 WILD-TYPE                                                     74
                 vv
clus              STOMACH  INTESTINAL ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  MXRA8 MUTATED                                                                   2
  MXRA8 WILD-TYPE                                                                28
                 vv
clus              STOMACH  INTESTINAL ADENOCARCINOMA  TUBULAR TYPE
  MXRA8 MUTATED                                                  0
  MXRA8 WILD-TYPE                                               10
                 vv
clus              STOMACH  INTESTINAL ADENOCARCINOMA \302\240MUCINOUS TYPE
  MXRA8 MUTATED                                                          0
  MXRA8 WILD-TYPE                                                       10
                 vv
clus              STOMACH  INTESTINAL ADENOCARCINOMA \302\240PAPILLARY TYPE
  MXRA8 MUTATED                                                           0
  MXRA8 WILD-TYPE                                                         3
                 vv
clus              STOMACH ADENOCARCINOMA  SIGNET RING TYPE
  MXRA8 MUTATED                                          0
  MXRA8 WILD-TYPE                                        1
D10V4, multiclass
D10V5, binary
                 cls
clus                0   1
  MXRA8 MUTATED     0   7
  MXRA8 WILD-TYPE   6 143
[1] "tbl2"
                 cls
clus              [,1] [,2]
  MXRA8 MUTATED      0    7
  MXRA8 WILD-TYPE    6  143
     clus
vv    MXRA8 MUTATED MXRA8 WILD-TYPE
  NO              0               6
  YES             7             143
                 vv
clus               M0  M1  MX
  MXRA8 MUTATED     4   1   2
  MXRA8 WILD-TYPE 128  13   8
D10V6, multiclass
    clus
vv   MXRA8 MUTATED MXRA8 WILD-TYPE
  M0             4             128
  M1             1              13
  MX             2               8
                 vv
clus              N0 N1 N2 N3 N3A NX
  MXRA8 MUTATED    2  2  0  1   1  1
  MXRA8 WILD-TYPE 47 47 25 13   7 10
D10V7, multiclass
                 vv
clus               R0  R1  R2  RX
  MXRA8 MUTATED     5   0   1   1
  MXRA8 WILD-TYPE 101   6   9  23
D10V8, multiclass
    clus
vv   MXRA8 MUTATED MXRA8 WILD-TYPE
  R0             5             101
  R1             0               6
  R2             1               9
  RX             1              23
D10V9, continuous
D10V10, continuous
                 vv
clus              STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB
  MXRA8 MUTATED         1        0        1        1         0         0
  MXRA8 WILD-TYPE       0        5       15       26         7        10
                 vv
clus              STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  MXRA8 MUTATED           0          0          1          0        2
  MXRA8 WILD-TYPE         4         30         11          6       21
D10V11, multiclass

Clustering(11) Variable = IRF2 MUTATION ANALYSIS
D11V1, survival
                sevent
clus2             0  1
  IRF2 MUTATED    5  1
  IRF2 WILD-TYPE 98 16
  IRF2 MUTATED IRF2 WILD-TYPE 
             6            114 
  IRF2 MUTATED IRF2 WILD-TYPE 
             1             16 
$`IRF2 MUTATED`
TCGA-B7-5816 TCGA-BR-6452 TCGA-BR-7715 TCGA-BR-7851 TCGA-CG-5726 TCGA-D7-6524 
        5.62         0.95         1.05         0.99        28.96         0.69 

$`IRF2 WILD-TYPE`
TCGA-B7-5818 TCGA-BR-6455 TCGA-BR-6457 TCGA-BR-6458 TCGA-BR-6563 TCGA-BR-6564 
        0.10         1.41         1.35         1.35         0.85         0.82 
TCGA-BR-6565 TCGA-BR-6566 TCGA-BR-6705 TCGA-BR-6706 TCGA-BR-6707 TCGA-BR-6801 
        0.62         0.62         1.71         2.17         0.99         1.12 
TCGA-BR-6802 TCGA-BR-6803 TCGA-BR-6852 TCGA-BR-7196 TCGA-BR-7197 TCGA-BR-7703 
        0.76         0.66         0.26         1.22         1.48         0.46 
TCGA-BR-7707 TCGA-BR-7716 TCGA-BR-7717 TCGA-BR-7722 TCGA-BR-7723 TCGA-BR-7901 
        0.13         0.82         0.69         0.16         4.54         0.95 
TCGA-BR-7957 TCGA-BR-8059 TCGA-BR-8077 TCGA-BR-8080 TCGA-BR-8081 TCGA-BR-8284 
        0.69         0.82         0.69         0.49         0.46         0.72 
TCGA-BR-8295 TCGA-BR-8296 TCGA-BR-8676 TCGA-BR-8682 TCGA-BR-8690 TCGA-BR-A4IV 
        1.55         1.48         0.89         1.64         0.59         0.92 
TCGA-BR-A4IY TCGA-BR-A4IZ TCGA-BR-A4J1 TCGA-BR-A4J4 TCGA-BR-A4J6 TCGA-BR-A4J8 
        0.39         0.79         0.72         0.53         0.13         0.23 
TCGA-BR-A4QI TCGA-BR-A4QL TCGA-CD-5798 TCGA-CD-5799 TCGA-CD-5800 TCGA-CD-5801 
        0.49         2.24         0.82         0.69         0.36         0.49 
TCGA-CD-5802 TCGA-CD-5803 TCGA-CD-5813 TCGA-CG-4300 TCGA-CG-4301 TCGA-CG-4304 
        0.30         0.07         0.39        20.02         3.02        27.02 
TCGA-CG-4305 TCGA-CG-4306 TCGA-CG-4436 TCGA-CG-4437 TCGA-CG-4438 TCGA-CG-4440 
       15.95         1.02         7.96         8.05        54.05         4.01 
TCGA-CG-4441 TCGA-CG-4443 TCGA-CG-4444 TCGA-CG-4449 TCGA-CG-4455 TCGA-CG-4465 
       14.01        29.98        47.05        19.07        12.03         8.98 
TCGA-CG-4466 TCGA-CG-4469 TCGA-CG-4477 TCGA-CG-5717 TCGA-CG-5718 TCGA-CG-5719 
       18.94         7.07         1.02         6.94         1.02         1.02 
TCGA-CG-5720 TCGA-CG-5721 TCGA-CG-5722 TCGA-CG-5723 TCGA-CG-5724 TCGA-CG-5727 
        0.99         5.98         0.95        70.06        12.03        31.04 
TCGA-CG-5728 TCGA-CG-5730 TCGA-CG-5732 TCGA-CG-5733 TCGA-CG-5734 TCGA-D7-5577 
       65.10         4.01        55.04        21.07         7.99         8.65 
TCGA-D7-5578 TCGA-D7-5579 TCGA-D7-6518 TCGA-D7-6519 TCGA-D7-6520 TCGA-D7-6521 
        3.58         4.54         9.80        15.65         9.63         8.19 
TCGA-D7-6522 TCGA-D7-6525 TCGA-D7-6526 TCGA-D7-6527 TCGA-D7-6528 TCGA-D7-6815 
        6.90         5.95         6.61         4.14         1.68         3.65 
TCGA-D7-6817 TCGA-D7-6818 TCGA-D7-6820 TCGA-D7-6822 TCGA-EQ-5647 TCGA-F1-6177 
        0.79         4.04         2.93         4.27         0.62         6.54 
TCGA-F1-6874 TCGA-F1-6875 TCGA-FP-7735 TCGA-FP-7829 TCGA-FP-7916 TCGA-FP-7998 
        2.01        72.23         0.39         0.20         3.02         3.58 
TCGA-FP-8099 TCGA-FP-8209 TCGA-HJ-7597 TCGA-IN-7806 TCGA-IN-7808 TCGA-IP-7968 
        1.02        59.05        26.43         6.87         3.55         2.53 

  IRF2 MUTATED IRF2 WILD-TYPE 
          0.69           0.07 
  IRF2 MUTATED IRF2 WILD-TYPE 
         28.96          72.23 
  IRF2 MUTATED IRF2 WILD-TYPE 
         1.020          1.595 
[1] "0.7 - 29.0 (1.0)" "0.1 - 72.2 (1.6)"
    TCGA-B7-5816     TCGA-B7-5818     TCGA-BR-6452     TCGA-BR-6455 
  "IRF2 MUTATED" "IRF2 WILD-TYPE"   "IRF2 MUTATED" "IRF2 WILD-TYPE" 
    TCGA-BR-6457     TCGA-BR-6458     TCGA-BR-6563     TCGA-BR-6564 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-BR-6565     TCGA-BR-6566     TCGA-BR-6705     TCGA-BR-6706 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-BR-6707     TCGA-BR-6801     TCGA-BR-6802     TCGA-BR-6803 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-BR-6852     TCGA-BR-7196     TCGA-BR-7197     TCGA-BR-7703 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-BR-7707     TCGA-BR-7715     TCGA-BR-7716     TCGA-BR-7717 
"IRF2 WILD-TYPE"   "IRF2 MUTATED" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-BR-7722     TCGA-BR-7723     TCGA-BR-7851     TCGA-BR-7901 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE"   "IRF2 MUTATED" "IRF2 WILD-TYPE" 
    TCGA-BR-7957     TCGA-BR-8059     TCGA-BR-8077     TCGA-BR-8080 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-BR-8081     TCGA-BR-8284     TCGA-BR-8295     TCGA-BR-8296 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-BR-8676     TCGA-BR-8682     TCGA-BR-8690     TCGA-BR-A4IV 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-BR-A4IY     TCGA-BR-A4IZ     TCGA-BR-A4J1     TCGA-BR-A4J4 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-BR-A4J6     TCGA-BR-A4J8     TCGA-BR-A4QI     TCGA-BR-A4QL 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-CD-5798     TCGA-CD-5799     TCGA-CD-5800     TCGA-CD-5801 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-CD-5802     TCGA-CD-5803     TCGA-CD-5813     TCGA-CG-4300 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-CG-4301     TCGA-CG-4304     TCGA-CG-4305     TCGA-CG-4306 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-CG-4436     TCGA-CG-4437     TCGA-CG-4438     TCGA-CG-4440 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-CG-4441     TCGA-CG-4443     TCGA-CG-4444     TCGA-CG-4449 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-CG-4455     TCGA-CG-4465     TCGA-CG-4466     TCGA-CG-4469 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-CG-4477     TCGA-CG-5717     TCGA-CG-5718     TCGA-CG-5719 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-CG-5720     TCGA-CG-5721     TCGA-CG-5722     TCGA-CG-5723 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-CG-5724     TCGA-CG-5726     TCGA-CG-5727     TCGA-CG-5728 
"IRF2 WILD-TYPE"   "IRF2 MUTATED" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-CG-5730     TCGA-CG-5732     TCGA-CG-5733     TCGA-CG-5734 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-D7-5577     TCGA-D7-5578     TCGA-D7-5579     TCGA-D7-6518 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-D7-6519     TCGA-D7-6520     TCGA-D7-6521     TCGA-D7-6522 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-D7-6524     TCGA-D7-6525     TCGA-D7-6526     TCGA-D7-6527 
  "IRF2 MUTATED" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-D7-6528     TCGA-D7-6815     TCGA-D7-6817     TCGA-D7-6818 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-D7-6820     TCGA-D7-6822     TCGA-EQ-5647     TCGA-F1-6177 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-F1-6874     TCGA-F1-6875     TCGA-FP-7735     TCGA-FP-7829 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-FP-7916     TCGA-FP-7998     TCGA-FP-8099     TCGA-FP-8209 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-HJ-7597     TCGA-IN-7806     TCGA-IN-7808     TCGA-IP-7968 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-B7-5816     TCGA-B7-5818     TCGA-BR-6452     TCGA-BR-6455 
  "IRF2 MUTATED" "IRF2 WILD-TYPE"   "IRF2 MUTATED" "IRF2 WILD-TYPE" 
    TCGA-BR-6457     TCGA-BR-6458     TCGA-BR-6563     TCGA-BR-6564 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-BR-6565     TCGA-BR-6566     TCGA-BR-6705     TCGA-BR-6706 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-BR-6707     TCGA-BR-6801     TCGA-BR-6802     TCGA-BR-6803 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-BR-6852     TCGA-BR-7196     TCGA-BR-7197     TCGA-BR-7703 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-BR-7707     TCGA-BR-7715     TCGA-BR-7716     TCGA-BR-7717 
"IRF2 WILD-TYPE"   "IRF2 MUTATED" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-BR-7722     TCGA-BR-7723     TCGA-BR-7851     TCGA-BR-7901 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE"   "IRF2 MUTATED" "IRF2 WILD-TYPE" 
    TCGA-BR-7957     TCGA-BR-8059     TCGA-BR-8077     TCGA-BR-8080 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-BR-8081     TCGA-BR-8284     TCGA-BR-8295     TCGA-BR-8296 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-BR-8676     TCGA-BR-8682     TCGA-BR-8690     TCGA-BR-A4IV 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-BR-A4IY     TCGA-BR-A4IZ     TCGA-BR-A4J1     TCGA-BR-A4J4 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-BR-A4J6     TCGA-BR-A4J8     TCGA-BR-A4QI     TCGA-BR-A4QL 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-CD-5798     TCGA-CD-5799     TCGA-CD-5800     TCGA-CD-5801 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-CD-5802     TCGA-CD-5803     TCGA-CD-5813     TCGA-CG-4300 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-CG-4301     TCGA-CG-4304     TCGA-CG-4305     TCGA-CG-4306 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-CG-4436     TCGA-CG-4437     TCGA-CG-4438     TCGA-CG-4440 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-CG-4441     TCGA-CG-4443     TCGA-CG-4444     TCGA-CG-4449 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-CG-4455     TCGA-CG-4465     TCGA-CG-4466     TCGA-CG-4469 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-CG-4477     TCGA-CG-5717     TCGA-CG-5718     TCGA-CG-5719 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-CG-5720     TCGA-CG-5721     TCGA-CG-5722     TCGA-CG-5723 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-CG-5724     TCGA-CG-5726     TCGA-CG-5727     TCGA-CG-5728 
"IRF2 WILD-TYPE"   "IRF2 MUTATED" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-CG-5730     TCGA-CG-5732     TCGA-CG-5733     TCGA-CG-5734 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-D7-5577     TCGA-D7-5578     TCGA-D7-5579     TCGA-D7-6518 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-D7-6519     TCGA-D7-6520     TCGA-D7-6521     TCGA-D7-6522 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-D7-6524     TCGA-D7-6525     TCGA-D7-6526     TCGA-D7-6527 
  "IRF2 MUTATED" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-D7-6528     TCGA-D7-6815     TCGA-D7-6817     TCGA-D7-6818 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-D7-6820     TCGA-D7-6822     TCGA-EQ-5647     TCGA-F1-6177 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-F1-6874     TCGA-F1-6875     TCGA-FP-7735     TCGA-FP-7829 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-FP-7916     TCGA-FP-7998     TCGA-FP-8099     TCGA-FP-8209 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-HJ-7597     TCGA-IN-7806     TCGA-IN-7808     TCGA-IP-7968 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-B7-5816     TCGA-B7-5818     TCGA-BR-6452     TCGA-BR-6455 
  "IRF2 MUTATED" "IRF2 WILD-TYPE"   "IRF2 MUTATED" "IRF2 WILD-TYPE" 
    TCGA-BR-6457     TCGA-BR-6458     TCGA-BR-6563     TCGA-BR-6564 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-BR-6565     TCGA-BR-6566     TCGA-BR-6705     TCGA-BR-6706 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-BR-6707     TCGA-BR-6801     TCGA-BR-6802     TCGA-BR-6803 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-BR-6852     TCGA-BR-7196     TCGA-BR-7197     TCGA-BR-7703 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-BR-7707     TCGA-BR-7715     TCGA-BR-7716     TCGA-BR-7717 
"IRF2 WILD-TYPE"   "IRF2 MUTATED" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-BR-7722     TCGA-BR-7723     TCGA-BR-7851     TCGA-BR-7901 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE"   "IRF2 MUTATED" "IRF2 WILD-TYPE" 
    TCGA-BR-7957     TCGA-BR-8059     TCGA-BR-8077     TCGA-BR-8080 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-BR-8081     TCGA-BR-8284     TCGA-BR-8295     TCGA-BR-8296 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-BR-8676     TCGA-BR-8682     TCGA-BR-8690     TCGA-BR-A4IV 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-BR-A4IY     TCGA-BR-A4IZ     TCGA-BR-A4J1     TCGA-BR-A4J4 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-BR-A4J6     TCGA-BR-A4J8     TCGA-BR-A4QI     TCGA-BR-A4QL 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-CD-5798     TCGA-CD-5799     TCGA-CD-5800     TCGA-CD-5801 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-CD-5802     TCGA-CD-5803     TCGA-CD-5813     TCGA-CG-4300 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-CG-4301     TCGA-CG-4304     TCGA-CG-4305     TCGA-CG-4306 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-CG-4436     TCGA-CG-4437     TCGA-CG-4438     TCGA-CG-4440 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-CG-4441     TCGA-CG-4443     TCGA-CG-4444     TCGA-CG-4449 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-CG-4455     TCGA-CG-4465     TCGA-CG-4466     TCGA-CG-4469 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-CG-4477     TCGA-CG-5717     TCGA-CG-5718     TCGA-CG-5719 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-CG-5720     TCGA-CG-5721     TCGA-CG-5722     TCGA-CG-5723 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-CG-5724     TCGA-CG-5726     TCGA-CG-5727     TCGA-CG-5728 
"IRF2 WILD-TYPE"   "IRF2 MUTATED" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-CG-5730     TCGA-CG-5732     TCGA-CG-5733     TCGA-CG-5734 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-D7-5577     TCGA-D7-5578     TCGA-D7-5579     TCGA-D7-6518 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-D7-6519     TCGA-D7-6520     TCGA-D7-6521     TCGA-D7-6522 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-D7-6524     TCGA-D7-6525     TCGA-D7-6526     TCGA-D7-6527 
  "IRF2 MUTATED" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-D7-6528     TCGA-D7-6815     TCGA-D7-6817     TCGA-D7-6818 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-D7-6820     TCGA-D7-6822     TCGA-EQ-5647     TCGA-F1-6177 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-F1-6874     TCGA-F1-6875     TCGA-FP-7735     TCGA-FP-7829 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-FP-7916     TCGA-FP-7998     TCGA-FP-8099     TCGA-FP-8209 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
    TCGA-HJ-7597     TCGA-IN-7806     TCGA-IN-7808     TCGA-IP-7968 
"IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" "IRF2 WILD-TYPE" 
[1] "hr=" "1.2"
D11V2, continuous
D11V3, binary
                cls
clus              0  1
  IRF2 MUTATED    6  5
  IRF2 WILD-TYPE 57 88
[1] "tbl2"
                cls
clus             [,1] [,2]
  IRF2 MUTATED      6    5
  IRF2 WILD-TYPE   57   88
        clus
vv       IRF2 MUTATED IRF2 WILD-TYPE
  FEMALE            6             57
  MALE              5             88
                vv
clus             STOMACH  ADENOCARCINOMA  DIFFUSE TYPE
  IRF2 MUTATED                                       2
  IRF2 WILD-TYPE                                    21
                vv
clus             STOMACH  ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  IRF2 MUTATED                                                        7
  IRF2 WILD-TYPE                                                     71
                vv
clus             STOMACH  INTESTINAL ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  IRF2 MUTATED                                                                   2
  IRF2 WILD-TYPE                                                                28
                vv
clus             STOMACH  INTESTINAL ADENOCARCINOMA  TUBULAR TYPE
  IRF2 MUTATED                                                  0
  IRF2 WILD-TYPE                                               10
                vv
clus             STOMACH  INTESTINAL ADENOCARCINOMA \302\240MUCINOUS TYPE
  IRF2 MUTATED                                                          0
  IRF2 WILD-TYPE                                                       10
                vv
clus             STOMACH  INTESTINAL ADENOCARCINOMA \302\240PAPILLARY TYPE
  IRF2 MUTATED                                                           0
  IRF2 WILD-TYPE                                                         3
                vv
clus             STOMACH ADENOCARCINOMA  SIGNET RING TYPE
  IRF2 MUTATED                                          0
  IRF2 WILD-TYPE                                        1
D11V4, multiclass
D11V5, binary
                cls
clus               0   1
  IRF2 MUTATED     0  11
  IRF2 WILD-TYPE   6 139
[1] "tbl2"
                cls
clus             [,1] [,2]
  IRF2 MUTATED      0   11
  IRF2 WILD-TYPE    6  139
     clus
vv    IRF2 MUTATED IRF2 WILD-TYPE
  NO             0              6
  YES           11            139
                vv
clus              M0  M1  MX
  IRF2 MUTATED    10   0   1
  IRF2 WILD-TYPE 122  14   9
D11V6, multiclass
    clus
vv   IRF2 MUTATED IRF2 WILD-TYPE
  M0           10            122
  M1            0             14
  MX            1              9
                vv
clus             N0 N1 N2 N3 N3A NX
  IRF2 MUTATED    5  3  1  0   0  2
  IRF2 WILD-TYPE 44 46 24 14   8  9
D11V7, multiclass
                vv
clus              R0  R1  R2  RX
  IRF2 MUTATED     5   1   0   5
  IRF2 WILD-TYPE 101   5  10  19
D11V8, multiclass
    clus
vv   IRF2 MUTATED IRF2 WILD-TYPE
  R0            5            101
  R1            1              5
  R2            0             10
  RX            5             19
D11V9, continuous
D11V10, continuous
                vv
clus             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB
  IRF2 MUTATED         0        1        0        3         1         0
  IRF2 WILD-TYPE       1        4       16       24         6        10
                vv
clus             STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  IRF2 MUTATED           0          2          0          0        1
  IRF2 WILD-TYPE         4         28         12          6       22
D11V11, multiclass

Clustering(12) Variable = CDH1 MUTATION ANALYSIS
D12V1, survival
                sevent
clus2             0  1
  CDH1 MUTATED   10  0
  CDH1 WILD-TYPE 93 17
  CDH1 MUTATED CDH1 WILD-TYPE 
            10            110 
  CDH1 MUTATED CDH1 WILD-TYPE 
             0             17 
$`CDH1 MUTATED`
TCGA-BR-6452 TCGA-BR-6566 TCGA-BR-6803 TCGA-BR-A4IV TCGA-CD-5799 TCGA-CD-5813 
        0.95         0.62         0.66         0.92         0.69         0.39 
TCGA-D7-6518 TCGA-D7-6522 TCGA-F1-6874 TCGA-IN-7808 
        9.80         6.90         2.01         3.55 

$`CDH1 WILD-TYPE`
TCGA-B7-5816 TCGA-B7-5818 TCGA-BR-6455 TCGA-BR-6457 TCGA-BR-6458 TCGA-BR-6563 
        5.62         0.10         1.41         1.35         1.35         0.85 
TCGA-BR-6564 TCGA-BR-6565 TCGA-BR-6705 TCGA-BR-6706 TCGA-BR-6707 TCGA-BR-6801 
        0.82         0.62         1.71         2.17         0.99         1.12 
TCGA-BR-6802 TCGA-BR-6852 TCGA-BR-7196 TCGA-BR-7197 TCGA-BR-7703 TCGA-BR-7707 
        0.76         0.26         1.22         1.48         0.46         0.13 
TCGA-BR-7715 TCGA-BR-7716 TCGA-BR-7717 TCGA-BR-7722 TCGA-BR-7723 TCGA-BR-7851 
        1.05         0.82         0.69         0.16         4.54         0.99 
TCGA-BR-7901 TCGA-BR-7957 TCGA-BR-8059 TCGA-BR-8077 TCGA-BR-8080 TCGA-BR-8081 
        0.95         0.69         0.82         0.69         0.49         0.46 
TCGA-BR-8284 TCGA-BR-8295 TCGA-BR-8296 TCGA-BR-8676 TCGA-BR-8682 TCGA-BR-8690 
        0.72         1.55         1.48         0.89         1.64         0.59 
TCGA-BR-A4IY TCGA-BR-A4IZ TCGA-BR-A4J1 TCGA-BR-A4J4 TCGA-BR-A4J6 TCGA-BR-A4J8 
        0.39         0.79         0.72         0.53         0.13         0.23 
TCGA-BR-A4QI TCGA-BR-A4QL TCGA-CD-5798 TCGA-CD-5800 TCGA-CD-5801 TCGA-CD-5802 
        0.49         2.24         0.82         0.36         0.49         0.30 
TCGA-CD-5803 TCGA-CG-4300 TCGA-CG-4301 TCGA-CG-4304 TCGA-CG-4305 TCGA-CG-4306 
        0.07        20.02         3.02        27.02        15.95         1.02 
TCGA-CG-4436 TCGA-CG-4437 TCGA-CG-4438 TCGA-CG-4440 TCGA-CG-4441 TCGA-CG-4443 
        7.96         8.05        54.05         4.01        14.01        29.98 
TCGA-CG-4444 TCGA-CG-4449 TCGA-CG-4455 TCGA-CG-4465 TCGA-CG-4466 TCGA-CG-4469 
       47.05        19.07        12.03         8.98        18.94         7.07 
TCGA-CG-4477 TCGA-CG-5717 TCGA-CG-5718 TCGA-CG-5719 TCGA-CG-5720 TCGA-CG-5721 
        1.02         6.94         1.02         1.02         0.99         5.98 
TCGA-CG-5722 TCGA-CG-5723 TCGA-CG-5724 TCGA-CG-5726 TCGA-CG-5727 TCGA-CG-5728 
        0.95        70.06        12.03        28.96        31.04        65.10 
TCGA-CG-5730 TCGA-CG-5732 TCGA-CG-5733 TCGA-CG-5734 TCGA-D7-5577 TCGA-D7-5578 
        4.01        55.04        21.07         7.99         8.65         3.58 
TCGA-D7-5579 TCGA-D7-6519 TCGA-D7-6520 TCGA-D7-6521 TCGA-D7-6524 TCGA-D7-6525 
        4.54        15.65         9.63         8.19         0.69         5.95 
TCGA-D7-6526 TCGA-D7-6527 TCGA-D7-6528 TCGA-D7-6815 TCGA-D7-6817 TCGA-D7-6818 
        6.61         4.14         1.68         3.65         0.79         4.04 
TCGA-D7-6820 TCGA-D7-6822 TCGA-EQ-5647 TCGA-F1-6177 TCGA-F1-6875 TCGA-FP-7735 
        2.93         4.27         0.62         6.54        72.23         0.39 
TCGA-FP-7829 TCGA-FP-7916 TCGA-FP-7998 TCGA-FP-8099 TCGA-FP-8209 TCGA-HJ-7597 
        0.20         3.02         3.58         1.02        59.05        26.43 
TCGA-IN-7806 TCGA-IP-7968 
        6.87         2.53 

  CDH1 MUTATED CDH1 WILD-TYPE 
          0.39           0.07 
  CDH1 MUTATED CDH1 WILD-TYPE 
          9.80          72.23 
  CDH1 MUTATED CDH1 WILD-TYPE 
         0.935          1.595 
[1] "0.4 - 9.8 (0.9)"  "0.1 - 72.2 (1.6)"
    TCGA-B7-5816     TCGA-B7-5818     TCGA-BR-6452     TCGA-BR-6455 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE"   "CDH1 MUTATED" "CDH1 WILD-TYPE" 
    TCGA-BR-6457     TCGA-BR-6458     TCGA-BR-6563     TCGA-BR-6564 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-BR-6565     TCGA-BR-6566     TCGA-BR-6705     TCGA-BR-6706 
"CDH1 WILD-TYPE"   "CDH1 MUTATED" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-BR-6707     TCGA-BR-6801     TCGA-BR-6802     TCGA-BR-6803 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE"   "CDH1 MUTATED" 
    TCGA-BR-6852     TCGA-BR-7196     TCGA-BR-7197     TCGA-BR-7703 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-BR-7707     TCGA-BR-7715     TCGA-BR-7716     TCGA-BR-7717 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-BR-7722     TCGA-BR-7723     TCGA-BR-7851     TCGA-BR-7901 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-BR-7957     TCGA-BR-8059     TCGA-BR-8077     TCGA-BR-8080 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-BR-8081     TCGA-BR-8284     TCGA-BR-8295     TCGA-BR-8296 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-BR-8676     TCGA-BR-8682     TCGA-BR-8690     TCGA-BR-A4IV 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE"   "CDH1 MUTATED" 
    TCGA-BR-A4IY     TCGA-BR-A4IZ     TCGA-BR-A4J1     TCGA-BR-A4J4 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-BR-A4J6     TCGA-BR-A4J8     TCGA-BR-A4QI     TCGA-BR-A4QL 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-CD-5798     TCGA-CD-5799     TCGA-CD-5800     TCGA-CD-5801 
"CDH1 WILD-TYPE"   "CDH1 MUTATED" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-CD-5802     TCGA-CD-5803     TCGA-CD-5813     TCGA-CG-4300 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE"   "CDH1 MUTATED" "CDH1 WILD-TYPE" 
    TCGA-CG-4301     TCGA-CG-4304     TCGA-CG-4305     TCGA-CG-4306 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-CG-4436     TCGA-CG-4437     TCGA-CG-4438     TCGA-CG-4440 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-CG-4441     TCGA-CG-4443     TCGA-CG-4444     TCGA-CG-4449 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-CG-4455     TCGA-CG-4465     TCGA-CG-4466     TCGA-CG-4469 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-CG-4477     TCGA-CG-5717     TCGA-CG-5718     TCGA-CG-5719 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-CG-5720     TCGA-CG-5721     TCGA-CG-5722     TCGA-CG-5723 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-CG-5724     TCGA-CG-5726     TCGA-CG-5727     TCGA-CG-5728 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-CG-5730     TCGA-CG-5732     TCGA-CG-5733     TCGA-CG-5734 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-D7-5577     TCGA-D7-5578     TCGA-D7-5579     TCGA-D7-6518 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE"   "CDH1 MUTATED" 
    TCGA-D7-6519     TCGA-D7-6520     TCGA-D7-6521     TCGA-D7-6522 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE"   "CDH1 MUTATED" 
    TCGA-D7-6524     TCGA-D7-6525     TCGA-D7-6526     TCGA-D7-6527 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-D7-6528     TCGA-D7-6815     TCGA-D7-6817     TCGA-D7-6818 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-D7-6820     TCGA-D7-6822     TCGA-EQ-5647     TCGA-F1-6177 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-F1-6874     TCGA-F1-6875     TCGA-FP-7735     TCGA-FP-7829 
  "CDH1 MUTATED" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-FP-7916     TCGA-FP-7998     TCGA-FP-8099     TCGA-FP-8209 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-HJ-7597     TCGA-IN-7806     TCGA-IN-7808     TCGA-IP-7968 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE"   "CDH1 MUTATED" "CDH1 WILD-TYPE" 
    TCGA-B7-5816     TCGA-B7-5818     TCGA-BR-6452     TCGA-BR-6455 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE"   "CDH1 MUTATED" "CDH1 WILD-TYPE" 
    TCGA-BR-6457     TCGA-BR-6458     TCGA-BR-6563     TCGA-BR-6564 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-BR-6565     TCGA-BR-6566     TCGA-BR-6705     TCGA-BR-6706 
"CDH1 WILD-TYPE"   "CDH1 MUTATED" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-BR-6707     TCGA-BR-6801     TCGA-BR-6802     TCGA-BR-6803 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE"   "CDH1 MUTATED" 
    TCGA-BR-6852     TCGA-BR-7196     TCGA-BR-7197     TCGA-BR-7703 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-BR-7707     TCGA-BR-7715     TCGA-BR-7716     TCGA-BR-7717 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-BR-7722     TCGA-BR-7723     TCGA-BR-7851     TCGA-BR-7901 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-BR-7957     TCGA-BR-8059     TCGA-BR-8077     TCGA-BR-8080 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-BR-8081     TCGA-BR-8284     TCGA-BR-8295     TCGA-BR-8296 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-BR-8676     TCGA-BR-8682     TCGA-BR-8690     TCGA-BR-A4IV 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE"   "CDH1 MUTATED" 
    TCGA-BR-A4IY     TCGA-BR-A4IZ     TCGA-BR-A4J1     TCGA-BR-A4J4 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-BR-A4J6     TCGA-BR-A4J8     TCGA-BR-A4QI     TCGA-BR-A4QL 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-CD-5798     TCGA-CD-5799     TCGA-CD-5800     TCGA-CD-5801 
"CDH1 WILD-TYPE"   "CDH1 MUTATED" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-CD-5802     TCGA-CD-5803     TCGA-CD-5813     TCGA-CG-4300 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE"   "CDH1 MUTATED" "CDH1 WILD-TYPE" 
    TCGA-CG-4301     TCGA-CG-4304     TCGA-CG-4305     TCGA-CG-4306 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-CG-4436     TCGA-CG-4437     TCGA-CG-4438     TCGA-CG-4440 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-CG-4441     TCGA-CG-4443     TCGA-CG-4444     TCGA-CG-4449 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-CG-4455     TCGA-CG-4465     TCGA-CG-4466     TCGA-CG-4469 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-CG-4477     TCGA-CG-5717     TCGA-CG-5718     TCGA-CG-5719 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-CG-5720     TCGA-CG-5721     TCGA-CG-5722     TCGA-CG-5723 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-CG-5724     TCGA-CG-5726     TCGA-CG-5727     TCGA-CG-5728 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-CG-5730     TCGA-CG-5732     TCGA-CG-5733     TCGA-CG-5734 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-D7-5577     TCGA-D7-5578     TCGA-D7-5579     TCGA-D7-6518 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE"   "CDH1 MUTATED" 
    TCGA-D7-6519     TCGA-D7-6520     TCGA-D7-6521     TCGA-D7-6522 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE"   "CDH1 MUTATED" 
    TCGA-D7-6524     TCGA-D7-6525     TCGA-D7-6526     TCGA-D7-6527 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-D7-6528     TCGA-D7-6815     TCGA-D7-6817     TCGA-D7-6818 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-D7-6820     TCGA-D7-6822     TCGA-EQ-5647     TCGA-F1-6177 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-F1-6874     TCGA-F1-6875     TCGA-FP-7735     TCGA-FP-7829 
  "CDH1 MUTATED" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-FP-7916     TCGA-FP-7998     TCGA-FP-8099     TCGA-FP-8209 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-HJ-7597     TCGA-IN-7806     TCGA-IN-7808     TCGA-IP-7968 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE"   "CDH1 MUTATED" "CDH1 WILD-TYPE" 
    TCGA-B7-5816     TCGA-B7-5818     TCGA-BR-6452     TCGA-BR-6455 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE"   "CDH1 MUTATED" "CDH1 WILD-TYPE" 
    TCGA-BR-6457     TCGA-BR-6458     TCGA-BR-6563     TCGA-BR-6564 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-BR-6565     TCGA-BR-6566     TCGA-BR-6705     TCGA-BR-6706 
"CDH1 WILD-TYPE"   "CDH1 MUTATED" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-BR-6707     TCGA-BR-6801     TCGA-BR-6802     TCGA-BR-6803 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE"   "CDH1 MUTATED" 
    TCGA-BR-6852     TCGA-BR-7196     TCGA-BR-7197     TCGA-BR-7703 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-BR-7707     TCGA-BR-7715     TCGA-BR-7716     TCGA-BR-7717 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-BR-7722     TCGA-BR-7723     TCGA-BR-7851     TCGA-BR-7901 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-BR-7957     TCGA-BR-8059     TCGA-BR-8077     TCGA-BR-8080 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-BR-8081     TCGA-BR-8284     TCGA-BR-8295     TCGA-BR-8296 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-BR-8676     TCGA-BR-8682     TCGA-BR-8690     TCGA-BR-A4IV 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE"   "CDH1 MUTATED" 
    TCGA-BR-A4IY     TCGA-BR-A4IZ     TCGA-BR-A4J1     TCGA-BR-A4J4 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-BR-A4J6     TCGA-BR-A4J8     TCGA-BR-A4QI     TCGA-BR-A4QL 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-CD-5798     TCGA-CD-5799     TCGA-CD-5800     TCGA-CD-5801 
"CDH1 WILD-TYPE"   "CDH1 MUTATED" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-CD-5802     TCGA-CD-5803     TCGA-CD-5813     TCGA-CG-4300 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE"   "CDH1 MUTATED" "CDH1 WILD-TYPE" 
    TCGA-CG-4301     TCGA-CG-4304     TCGA-CG-4305     TCGA-CG-4306 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-CG-4436     TCGA-CG-4437     TCGA-CG-4438     TCGA-CG-4440 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-CG-4441     TCGA-CG-4443     TCGA-CG-4444     TCGA-CG-4449 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-CG-4455     TCGA-CG-4465     TCGA-CG-4466     TCGA-CG-4469 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-CG-4477     TCGA-CG-5717     TCGA-CG-5718     TCGA-CG-5719 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-CG-5720     TCGA-CG-5721     TCGA-CG-5722     TCGA-CG-5723 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-CG-5724     TCGA-CG-5726     TCGA-CG-5727     TCGA-CG-5728 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-CG-5730     TCGA-CG-5732     TCGA-CG-5733     TCGA-CG-5734 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-D7-5577     TCGA-D7-5578     TCGA-D7-5579     TCGA-D7-6518 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE"   "CDH1 MUTATED" 
    TCGA-D7-6519     TCGA-D7-6520     TCGA-D7-6521     TCGA-D7-6522 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE"   "CDH1 MUTATED" 
    TCGA-D7-6524     TCGA-D7-6525     TCGA-D7-6526     TCGA-D7-6527 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-D7-6528     TCGA-D7-6815     TCGA-D7-6817     TCGA-D7-6818 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-D7-6820     TCGA-D7-6822     TCGA-EQ-5647     TCGA-F1-6177 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-F1-6874     TCGA-F1-6875     TCGA-FP-7735     TCGA-FP-7829 
  "CDH1 MUTATED" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-FP-7916     TCGA-FP-7998     TCGA-FP-8099     TCGA-FP-8209 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-HJ-7597     TCGA-IN-7806     TCGA-IN-7808     TCGA-IP-7968 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE"   "CDH1 MUTATED" "CDH1 WILD-TYPE" 
[1] "hr="     "2.6e+07"
D12V2, continuous
D12V3, binary
                cls
clus              0  1
  CDH1 MUTATED    6  8
  CDH1 WILD-TYPE 57 85
[1] "tbl2"
                cls
clus             [,1] [,2]
  CDH1 MUTATED      6    8
  CDH1 WILD-TYPE   57   85
        clus
vv       CDH1 MUTATED CDH1 WILD-TYPE
  FEMALE            6             57
  MALE              8             85
                vv
clus             STOMACH  ADENOCARCINOMA  DIFFUSE TYPE
  CDH1 MUTATED                                       6
  CDH1 WILD-TYPE                                    17
                vv
clus             STOMACH  ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  CDH1 MUTATED                                                        5
  CDH1 WILD-TYPE                                                     73
                vv
clus             STOMACH  INTESTINAL ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  CDH1 MUTATED                                                                   2
  CDH1 WILD-TYPE                                                                28
                vv
clus             STOMACH  INTESTINAL ADENOCARCINOMA  TUBULAR TYPE
  CDH1 MUTATED                                                  0
  CDH1 WILD-TYPE                                               10
                vv
clus             STOMACH  INTESTINAL ADENOCARCINOMA \302\240MUCINOUS TYPE
  CDH1 MUTATED                                                          1
  CDH1 WILD-TYPE                                                        9
                vv
clus             STOMACH  INTESTINAL ADENOCARCINOMA \302\240PAPILLARY TYPE
  CDH1 MUTATED                                                           0
  CDH1 WILD-TYPE                                                         3
                vv
clus             STOMACH ADENOCARCINOMA  SIGNET RING TYPE
  CDH1 MUTATED                                          0
  CDH1 WILD-TYPE                                        1
D12V4, multiclass
D12V5, binary
                cls
clus               0   1
  CDH1 MUTATED     0  14
  CDH1 WILD-TYPE   6 136
[1] "tbl2"
                cls
clus             [,1] [,2]
  CDH1 MUTATED      0   14
  CDH1 WILD-TYPE    6  136
     clus
vv    CDH1 MUTATED CDH1 WILD-TYPE
  NO             0              6
  YES           14            136
                vv
clus              M0  M1  MX
  CDH1 MUTATED    12   2   0
  CDH1 WILD-TYPE 120  12  10
D12V6, multiclass
    clus
vv   CDH1 MUTATED CDH1 WILD-TYPE
  M0           12            120
  M1            2             12
  MX            0             10
                vv
clus             N0 N1 N2 N3 N3A NX
  CDH1 MUTATED    6  3  2  2   0  1
  CDH1 WILD-TYPE 43 46 23 12   8 10
D12V7, multiclass
                vv
clus              R0  R1  R2  RX
  CDH1 MUTATED     6   1   1   3
  CDH1 WILD-TYPE 100   5   9  21
D12V8, multiclass
    clus
vv   CDH1 MUTATED CDH1 WILD-TYPE
  R0            6            100
  R1            1              5
  R2            1              9
  RX            3             21
D12V9, continuous
D12V10, continuous
                vv
clus             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB
  CDH1 MUTATED         0        0        2        6         0         0
  CDH1 WILD-TYPE       1        5       14       21         7        10
                vv
clus             STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  CDH1 MUTATED           1          0          1          0        2
  CDH1 WILD-TYPE         3         30         11          6       21
D12V11, multiclass

Clustering(13) Variable = PTEN MUTATION ANALYSIS
D13V1, survival
                sevent
clus2             0  1
  PTEN MUTATED    6  0
  PTEN WILD-TYPE 97 17
  PTEN MUTATED PTEN WILD-TYPE 
             6            114 
  PTEN MUTATED PTEN WILD-TYPE 
             0             17 
$`PTEN MUTATED`
TCGA-BR-6452 TCGA-BR-6707 TCGA-BR-7851 TCGA-BR-8284 TCGA-D7-5577 TCGA-FP-7735 
        0.95         0.99         0.99         0.72         8.65         0.39 

$`PTEN WILD-TYPE`
TCGA-B7-5816 TCGA-B7-5818 TCGA-BR-6455 TCGA-BR-6457 TCGA-BR-6458 TCGA-BR-6563 
        5.62         0.10         1.41         1.35         1.35         0.85 
TCGA-BR-6564 TCGA-BR-6565 TCGA-BR-6566 TCGA-BR-6705 TCGA-BR-6706 TCGA-BR-6801 
        0.82         0.62         0.62         1.71         2.17         1.12 
TCGA-BR-6802 TCGA-BR-6803 TCGA-BR-6852 TCGA-BR-7196 TCGA-BR-7197 TCGA-BR-7703 
        0.76         0.66         0.26         1.22         1.48         0.46 
TCGA-BR-7707 TCGA-BR-7715 TCGA-BR-7716 TCGA-BR-7717 TCGA-BR-7722 TCGA-BR-7723 
        0.13         1.05         0.82         0.69         0.16         4.54 
TCGA-BR-7901 TCGA-BR-7957 TCGA-BR-8059 TCGA-BR-8077 TCGA-BR-8080 TCGA-BR-8081 
        0.95         0.69         0.82         0.69         0.49         0.46 
TCGA-BR-8295 TCGA-BR-8296 TCGA-BR-8676 TCGA-BR-8682 TCGA-BR-8690 TCGA-BR-A4IV 
        1.55         1.48         0.89         1.64         0.59         0.92 
TCGA-BR-A4IY TCGA-BR-A4IZ TCGA-BR-A4J1 TCGA-BR-A4J4 TCGA-BR-A4J6 TCGA-BR-A4J8 
        0.39         0.79         0.72         0.53         0.13         0.23 
TCGA-BR-A4QI TCGA-BR-A4QL TCGA-CD-5798 TCGA-CD-5799 TCGA-CD-5800 TCGA-CD-5801 
        0.49         2.24         0.82         0.69         0.36         0.49 
TCGA-CD-5802 TCGA-CD-5803 TCGA-CD-5813 TCGA-CG-4300 TCGA-CG-4301 TCGA-CG-4304 
        0.30         0.07         0.39        20.02         3.02        27.02 
TCGA-CG-4305 TCGA-CG-4306 TCGA-CG-4436 TCGA-CG-4437 TCGA-CG-4438 TCGA-CG-4440 
       15.95         1.02         7.96         8.05        54.05         4.01 
TCGA-CG-4441 TCGA-CG-4443 TCGA-CG-4444 TCGA-CG-4449 TCGA-CG-4455 TCGA-CG-4465 
       14.01        29.98        47.05        19.07        12.03         8.98 
TCGA-CG-4466 TCGA-CG-4469 TCGA-CG-4477 TCGA-CG-5717 TCGA-CG-5718 TCGA-CG-5719 
       18.94         7.07         1.02         6.94         1.02         1.02 
TCGA-CG-5720 TCGA-CG-5721 TCGA-CG-5722 TCGA-CG-5723 TCGA-CG-5724 TCGA-CG-5726 
        0.99         5.98         0.95        70.06        12.03        28.96 
TCGA-CG-5727 TCGA-CG-5728 TCGA-CG-5730 TCGA-CG-5732 TCGA-CG-5733 TCGA-CG-5734 
       31.04        65.10         4.01        55.04        21.07         7.99 
TCGA-D7-5578 TCGA-D7-5579 TCGA-D7-6518 TCGA-D7-6519 TCGA-D7-6520 TCGA-D7-6521 
        3.58         4.54         9.80        15.65         9.63         8.19 
TCGA-D7-6522 TCGA-D7-6524 TCGA-D7-6525 TCGA-D7-6526 TCGA-D7-6527 TCGA-D7-6528 
        6.90         0.69         5.95         6.61         4.14         1.68 
TCGA-D7-6815 TCGA-D7-6817 TCGA-D7-6818 TCGA-D7-6820 TCGA-D7-6822 TCGA-EQ-5647 
        3.65         0.79         4.04         2.93         4.27         0.62 
TCGA-F1-6177 TCGA-F1-6874 TCGA-F1-6875 TCGA-FP-7829 TCGA-FP-7916 TCGA-FP-7998 
        6.54         2.01        72.23         0.20         3.02         3.58 
TCGA-FP-8099 TCGA-FP-8209 TCGA-HJ-7597 TCGA-IN-7806 TCGA-IN-7808 TCGA-IP-7968 
        1.02        59.05        26.43         6.87         3.55         2.53 

  PTEN MUTATED PTEN WILD-TYPE 
          0.39           0.07 
  PTEN MUTATED PTEN WILD-TYPE 
          8.65          72.23 
  PTEN MUTATED PTEN WILD-TYPE 
          0.97           1.66 
[1] "0.4 - 8.7 (1.0)"  "0.1 - 72.2 (1.7)"
    TCGA-B7-5816     TCGA-B7-5818     TCGA-BR-6452     TCGA-BR-6455 
"PTEN WILD-TYPE" "PTEN WILD-TYPE"   "PTEN MUTATED" "PTEN WILD-TYPE" 
    TCGA-BR-6457     TCGA-BR-6458     TCGA-BR-6563     TCGA-BR-6564 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-BR-6565     TCGA-BR-6566     TCGA-BR-6705     TCGA-BR-6706 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-BR-6707     TCGA-BR-6801     TCGA-BR-6802     TCGA-BR-6803 
  "PTEN MUTATED" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-BR-6852     TCGA-BR-7196     TCGA-BR-7197     TCGA-BR-7703 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-BR-7707     TCGA-BR-7715     TCGA-BR-7716     TCGA-BR-7717 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-BR-7722     TCGA-BR-7723     TCGA-BR-7851     TCGA-BR-7901 
"PTEN WILD-TYPE" "PTEN WILD-TYPE"   "PTEN MUTATED" "PTEN WILD-TYPE" 
    TCGA-BR-7957     TCGA-BR-8059     TCGA-BR-8077     TCGA-BR-8080 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-BR-8081     TCGA-BR-8284     TCGA-BR-8295     TCGA-BR-8296 
"PTEN WILD-TYPE"   "PTEN MUTATED" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-BR-8676     TCGA-BR-8682     TCGA-BR-8690     TCGA-BR-A4IV 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-BR-A4IY     TCGA-BR-A4IZ     TCGA-BR-A4J1     TCGA-BR-A4J4 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-BR-A4J6     TCGA-BR-A4J8     TCGA-BR-A4QI     TCGA-BR-A4QL 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CD-5798     TCGA-CD-5799     TCGA-CD-5800     TCGA-CD-5801 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CD-5802     TCGA-CD-5803     TCGA-CD-5813     TCGA-CG-4300 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CG-4301     TCGA-CG-4304     TCGA-CG-4305     TCGA-CG-4306 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CG-4436     TCGA-CG-4437     TCGA-CG-4438     TCGA-CG-4440 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CG-4441     TCGA-CG-4443     TCGA-CG-4444     TCGA-CG-4449 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CG-4455     TCGA-CG-4465     TCGA-CG-4466     TCGA-CG-4469 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CG-4477     TCGA-CG-5717     TCGA-CG-5718     TCGA-CG-5719 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CG-5720     TCGA-CG-5721     TCGA-CG-5722     TCGA-CG-5723 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CG-5724     TCGA-CG-5726     TCGA-CG-5727     TCGA-CG-5728 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CG-5730     TCGA-CG-5732     TCGA-CG-5733     TCGA-CG-5734 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-D7-5577     TCGA-D7-5578     TCGA-D7-5579     TCGA-D7-6518 
  "PTEN MUTATED" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-D7-6519     TCGA-D7-6520     TCGA-D7-6521     TCGA-D7-6522 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-D7-6524     TCGA-D7-6525     TCGA-D7-6526     TCGA-D7-6527 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-D7-6528     TCGA-D7-6815     TCGA-D7-6817     TCGA-D7-6818 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-D7-6820     TCGA-D7-6822     TCGA-EQ-5647     TCGA-F1-6177 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-F1-6874     TCGA-F1-6875     TCGA-FP-7735     TCGA-FP-7829 
"PTEN WILD-TYPE" "PTEN WILD-TYPE"   "PTEN MUTATED" "PTEN WILD-TYPE" 
    TCGA-FP-7916     TCGA-FP-7998     TCGA-FP-8099     TCGA-FP-8209 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-HJ-7597     TCGA-IN-7806     TCGA-IN-7808     TCGA-IP-7968 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-B7-5816     TCGA-B7-5818     TCGA-BR-6452     TCGA-BR-6455 
"PTEN WILD-TYPE" "PTEN WILD-TYPE"   "PTEN MUTATED" "PTEN WILD-TYPE" 
    TCGA-BR-6457     TCGA-BR-6458     TCGA-BR-6563     TCGA-BR-6564 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-BR-6565     TCGA-BR-6566     TCGA-BR-6705     TCGA-BR-6706 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-BR-6707     TCGA-BR-6801     TCGA-BR-6802     TCGA-BR-6803 
  "PTEN MUTATED" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-BR-6852     TCGA-BR-7196     TCGA-BR-7197     TCGA-BR-7703 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-BR-7707     TCGA-BR-7715     TCGA-BR-7716     TCGA-BR-7717 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-BR-7722     TCGA-BR-7723     TCGA-BR-7851     TCGA-BR-7901 
"PTEN WILD-TYPE" "PTEN WILD-TYPE"   "PTEN MUTATED" "PTEN WILD-TYPE" 
    TCGA-BR-7957     TCGA-BR-8059     TCGA-BR-8077     TCGA-BR-8080 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-BR-8081     TCGA-BR-8284     TCGA-BR-8295     TCGA-BR-8296 
"PTEN WILD-TYPE"   "PTEN MUTATED" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-BR-8676     TCGA-BR-8682     TCGA-BR-8690     TCGA-BR-A4IV 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-BR-A4IY     TCGA-BR-A4IZ     TCGA-BR-A4J1     TCGA-BR-A4J4 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-BR-A4J6     TCGA-BR-A4J8     TCGA-BR-A4QI     TCGA-BR-A4QL 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CD-5798     TCGA-CD-5799     TCGA-CD-5800     TCGA-CD-5801 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CD-5802     TCGA-CD-5803     TCGA-CD-5813     TCGA-CG-4300 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CG-4301     TCGA-CG-4304     TCGA-CG-4305     TCGA-CG-4306 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CG-4436     TCGA-CG-4437     TCGA-CG-4438     TCGA-CG-4440 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CG-4441     TCGA-CG-4443     TCGA-CG-4444     TCGA-CG-4449 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CG-4455     TCGA-CG-4465     TCGA-CG-4466     TCGA-CG-4469 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CG-4477     TCGA-CG-5717     TCGA-CG-5718     TCGA-CG-5719 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CG-5720     TCGA-CG-5721     TCGA-CG-5722     TCGA-CG-5723 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CG-5724     TCGA-CG-5726     TCGA-CG-5727     TCGA-CG-5728 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CG-5730     TCGA-CG-5732     TCGA-CG-5733     TCGA-CG-5734 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-D7-5577     TCGA-D7-5578     TCGA-D7-5579     TCGA-D7-6518 
  "PTEN MUTATED" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-D7-6519     TCGA-D7-6520     TCGA-D7-6521     TCGA-D7-6522 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-D7-6524     TCGA-D7-6525     TCGA-D7-6526     TCGA-D7-6527 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-D7-6528     TCGA-D7-6815     TCGA-D7-6817     TCGA-D7-6818 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-D7-6820     TCGA-D7-6822     TCGA-EQ-5647     TCGA-F1-6177 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-F1-6874     TCGA-F1-6875     TCGA-FP-7735     TCGA-FP-7829 
"PTEN WILD-TYPE" "PTEN WILD-TYPE"   "PTEN MUTATED" "PTEN WILD-TYPE" 
    TCGA-FP-7916     TCGA-FP-7998     TCGA-FP-8099     TCGA-FP-8209 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-HJ-7597     TCGA-IN-7806     TCGA-IN-7808     TCGA-IP-7968 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-B7-5816     TCGA-B7-5818     TCGA-BR-6452     TCGA-BR-6455 
"PTEN WILD-TYPE" "PTEN WILD-TYPE"   "PTEN MUTATED" "PTEN WILD-TYPE" 
    TCGA-BR-6457     TCGA-BR-6458     TCGA-BR-6563     TCGA-BR-6564 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-BR-6565     TCGA-BR-6566     TCGA-BR-6705     TCGA-BR-6706 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-BR-6707     TCGA-BR-6801     TCGA-BR-6802     TCGA-BR-6803 
  "PTEN MUTATED" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-BR-6852     TCGA-BR-7196     TCGA-BR-7197     TCGA-BR-7703 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-BR-7707     TCGA-BR-7715     TCGA-BR-7716     TCGA-BR-7717 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-BR-7722     TCGA-BR-7723     TCGA-BR-7851     TCGA-BR-7901 
"PTEN WILD-TYPE" "PTEN WILD-TYPE"   "PTEN MUTATED" "PTEN WILD-TYPE" 
    TCGA-BR-7957     TCGA-BR-8059     TCGA-BR-8077     TCGA-BR-8080 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-BR-8081     TCGA-BR-8284     TCGA-BR-8295     TCGA-BR-8296 
"PTEN WILD-TYPE"   "PTEN MUTATED" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-BR-8676     TCGA-BR-8682     TCGA-BR-8690     TCGA-BR-A4IV 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-BR-A4IY     TCGA-BR-A4IZ     TCGA-BR-A4J1     TCGA-BR-A4J4 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-BR-A4J6     TCGA-BR-A4J8     TCGA-BR-A4QI     TCGA-BR-A4QL 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CD-5798     TCGA-CD-5799     TCGA-CD-5800     TCGA-CD-5801 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CD-5802     TCGA-CD-5803     TCGA-CD-5813     TCGA-CG-4300 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CG-4301     TCGA-CG-4304     TCGA-CG-4305     TCGA-CG-4306 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CG-4436     TCGA-CG-4437     TCGA-CG-4438     TCGA-CG-4440 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CG-4441     TCGA-CG-4443     TCGA-CG-4444     TCGA-CG-4449 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CG-4455     TCGA-CG-4465     TCGA-CG-4466     TCGA-CG-4469 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CG-4477     TCGA-CG-5717     TCGA-CG-5718     TCGA-CG-5719 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CG-5720     TCGA-CG-5721     TCGA-CG-5722     TCGA-CG-5723 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CG-5724     TCGA-CG-5726     TCGA-CG-5727     TCGA-CG-5728 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CG-5730     TCGA-CG-5732     TCGA-CG-5733     TCGA-CG-5734 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-D7-5577     TCGA-D7-5578     TCGA-D7-5579     TCGA-D7-6518 
  "PTEN MUTATED" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-D7-6519     TCGA-D7-6520     TCGA-D7-6521     TCGA-D7-6522 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-D7-6524     TCGA-D7-6525     TCGA-D7-6526     TCGA-D7-6527 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-D7-6528     TCGA-D7-6815     TCGA-D7-6817     TCGA-D7-6818 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-D7-6820     TCGA-D7-6822     TCGA-EQ-5647     TCGA-F1-6177 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-F1-6874     TCGA-F1-6875     TCGA-FP-7735     TCGA-FP-7829 
"PTEN WILD-TYPE" "PTEN WILD-TYPE"   "PTEN MUTATED" "PTEN WILD-TYPE" 
    TCGA-FP-7916     TCGA-FP-7998     TCGA-FP-8099     TCGA-FP-8209 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-HJ-7597     TCGA-IN-7806     TCGA-IN-7808     TCGA-IP-7968 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
[1] "hr="     "2.6e+07"
D13V2, continuous
D13V3, binary
                cls
clus              0  1
  PTEN MUTATED    8  3
  PTEN WILD-TYPE 55 90
[1] "tbl2"
                cls
clus             [,1] [,2]
  PTEN MUTATED      8    3
  PTEN WILD-TYPE   55   90
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  FEMALE            8             55
  MALE              3             90
                vv
clus             STOMACH  ADENOCARCINOMA  DIFFUSE TYPE
  PTEN MUTATED                                       0
  PTEN WILD-TYPE                                    23
                vv
clus             STOMACH  ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  PTEN MUTATED                                                        8
  PTEN WILD-TYPE                                                     70
                vv
clus             STOMACH  INTESTINAL ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  PTEN MUTATED                                                                   2
  PTEN WILD-TYPE                                                                28
                vv
clus             STOMACH  INTESTINAL ADENOCARCINOMA  TUBULAR TYPE
  PTEN MUTATED                                                  1
  PTEN WILD-TYPE                                                9
                vv
clus             STOMACH  INTESTINAL ADENOCARCINOMA \302\240MUCINOUS TYPE
  PTEN MUTATED                                                          0
  PTEN WILD-TYPE                                                       10
                vv
clus             STOMACH  INTESTINAL ADENOCARCINOMA \302\240PAPILLARY TYPE
  PTEN MUTATED                                                           0
  PTEN WILD-TYPE                                                         3
                vv
clus             STOMACH ADENOCARCINOMA  SIGNET RING TYPE
  PTEN MUTATED                                          0
  PTEN WILD-TYPE                                        1
D13V4, multiclass
D13V5, binary
                cls
clus               0   1
  PTEN MUTATED     0  11
  PTEN WILD-TYPE   6 139
[1] "tbl2"
                cls
clus             [,1] [,2]
  PTEN MUTATED      0   11
  PTEN WILD-TYPE    6  139
     clus
vv    PTEN MUTATED PTEN WILD-TYPE
  NO             0              6
  YES           11            139
                vv
clus              M0  M1  MX
  PTEN MUTATED    10   0   1
  PTEN WILD-TYPE 122  14   9
D13V6, multiclass
    clus
vv   PTEN MUTATED PTEN WILD-TYPE
  M0           10            122
  M1            0             14
  MX            1              9
                vv
clus             N0 N1 N2 N3 N3A NX
  PTEN MUTATED    4  3  0  2   0  2
  PTEN WILD-TYPE 45 46 25 12   8  9
D13V7, multiclass
                vv
clus              R0  R1  R2  RX
  PTEN MUTATED     6   0   0   5
  PTEN WILD-TYPE 100   6  10  19
D13V8, multiclass
    clus
vv   PTEN MUTATED PTEN WILD-TYPE
  R0            6            100
  R1            0              6
  R2            0             10
  RX            5             19
D13V9, continuous
D13V10, continuous
                vv
clus             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB
  PTEN MUTATED         0        0        1        3         1         0
  PTEN WILD-TYPE       1        5       15       24         6        10
                vv
clus             STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  PTEN MUTATED           1          2          0          0        0
  PTEN WILD-TYPE         3         28         12          6       23
D13V11, multiclass

Clustering(14) Variable = B2M MUTATION ANALYSIS
D14V1, survival
               sevent
clus2            0  1
  B2M MUTATED    6  0
  B2M WILD-TYPE 97 17
  B2M MUTATED B2M WILD-TYPE 
            6           114 
  B2M MUTATED B2M WILD-TYPE 
            0            17 
$`B2M MUTATED`
TCGA-BR-6566 TCGA-BR-6852 TCGA-BR-7707 TCGA-BR-A4QL TCGA-CG-5721 TCGA-F1-6177 
        0.62         0.26         0.13         2.24         5.98         6.54 

$`B2M WILD-TYPE`
TCGA-B7-5816 TCGA-B7-5818 TCGA-BR-6452 TCGA-BR-6455 TCGA-BR-6457 TCGA-BR-6458 
        5.62         0.10         0.95         1.41         1.35         1.35 
TCGA-BR-6563 TCGA-BR-6564 TCGA-BR-6565 TCGA-BR-6705 TCGA-BR-6706 TCGA-BR-6707 
        0.85         0.82         0.62         1.71         2.17         0.99 
TCGA-BR-6801 TCGA-BR-6802 TCGA-BR-6803 TCGA-BR-7196 TCGA-BR-7197 TCGA-BR-7703 
        1.12         0.76         0.66         1.22         1.48         0.46 
TCGA-BR-7715 TCGA-BR-7716 TCGA-BR-7717 TCGA-BR-7722 TCGA-BR-7723 TCGA-BR-7851 
        1.05         0.82         0.69         0.16         4.54         0.99 
TCGA-BR-7901 TCGA-BR-7957 TCGA-BR-8059 TCGA-BR-8077 TCGA-BR-8080 TCGA-BR-8081 
        0.95         0.69         0.82         0.69         0.49         0.46 
TCGA-BR-8284 TCGA-BR-8295 TCGA-BR-8296 TCGA-BR-8676 TCGA-BR-8682 TCGA-BR-8690 
        0.72         1.55         1.48         0.89         1.64         0.59 
TCGA-BR-A4IV TCGA-BR-A4IY TCGA-BR-A4IZ TCGA-BR-A4J1 TCGA-BR-A4J4 TCGA-BR-A4J6 
        0.92         0.39         0.79         0.72         0.53         0.13 
TCGA-BR-A4J8 TCGA-BR-A4QI TCGA-CD-5798 TCGA-CD-5799 TCGA-CD-5800 TCGA-CD-5801 
        0.23         0.49         0.82         0.69         0.36         0.49 
TCGA-CD-5802 TCGA-CD-5803 TCGA-CD-5813 TCGA-CG-4300 TCGA-CG-4301 TCGA-CG-4304 
        0.30         0.07         0.39        20.02         3.02        27.02 
TCGA-CG-4305 TCGA-CG-4306 TCGA-CG-4436 TCGA-CG-4437 TCGA-CG-4438 TCGA-CG-4440 
       15.95         1.02         7.96         8.05        54.05         4.01 
TCGA-CG-4441 TCGA-CG-4443 TCGA-CG-4444 TCGA-CG-4449 TCGA-CG-4455 TCGA-CG-4465 
       14.01        29.98        47.05        19.07        12.03         8.98 
TCGA-CG-4466 TCGA-CG-4469 TCGA-CG-4477 TCGA-CG-5717 TCGA-CG-5718 TCGA-CG-5719 
       18.94         7.07         1.02         6.94         1.02         1.02 
TCGA-CG-5720 TCGA-CG-5722 TCGA-CG-5723 TCGA-CG-5724 TCGA-CG-5726 TCGA-CG-5727 
        0.99         0.95        70.06        12.03        28.96        31.04 
TCGA-CG-5728 TCGA-CG-5730 TCGA-CG-5732 TCGA-CG-5733 TCGA-CG-5734 TCGA-D7-5577 
       65.10         4.01        55.04        21.07         7.99         8.65 
TCGA-D7-5578 TCGA-D7-5579 TCGA-D7-6518 TCGA-D7-6519 TCGA-D7-6520 TCGA-D7-6521 
        3.58         4.54         9.80        15.65         9.63         8.19 
TCGA-D7-6522 TCGA-D7-6524 TCGA-D7-6525 TCGA-D7-6526 TCGA-D7-6527 TCGA-D7-6528 
        6.90         0.69         5.95         6.61         4.14         1.68 
TCGA-D7-6815 TCGA-D7-6817 TCGA-D7-6818 TCGA-D7-6820 TCGA-D7-6822 TCGA-EQ-5647 
        3.65         0.79         4.04         2.93         4.27         0.62 
TCGA-F1-6874 TCGA-F1-6875 TCGA-FP-7735 TCGA-FP-7829 TCGA-FP-7916 TCGA-FP-7998 
        2.01        72.23         0.39         0.20         3.02         3.58 
TCGA-FP-8099 TCGA-FP-8209 TCGA-HJ-7597 TCGA-IN-7806 TCGA-IN-7808 TCGA-IP-7968 
        1.02        59.05        26.43         6.87         3.55         2.53 

  B2M MUTATED B2M WILD-TYPE 
         0.13          0.07 
  B2M MUTATED B2M WILD-TYPE 
         6.54         72.23 
  B2M MUTATED B2M WILD-TYPE 
        1.430         1.515 
[1] "0.1 - 6.5 (1.4)"  "0.1 - 72.2 (1.5)"
   TCGA-B7-5816    TCGA-B7-5818    TCGA-BR-6452    TCGA-BR-6455    TCGA-BR-6457 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-BR-6458    TCGA-BR-6563    TCGA-BR-6564    TCGA-BR-6565    TCGA-BR-6566 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE"   "B2M MUTATED" 
   TCGA-BR-6705    TCGA-BR-6706    TCGA-BR-6707    TCGA-BR-6801    TCGA-BR-6802 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-BR-6803    TCGA-BR-6852    TCGA-BR-7196    TCGA-BR-7197    TCGA-BR-7703 
"B2M WILD-TYPE"   "B2M MUTATED" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-BR-7707    TCGA-BR-7715    TCGA-BR-7716    TCGA-BR-7717    TCGA-BR-7722 
  "B2M MUTATED" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-BR-7723    TCGA-BR-7851    TCGA-BR-7901    TCGA-BR-7957    TCGA-BR-8059 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-BR-8077    TCGA-BR-8080    TCGA-BR-8081    TCGA-BR-8284    TCGA-BR-8295 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-BR-8296    TCGA-BR-8676    TCGA-BR-8682    TCGA-BR-8690    TCGA-BR-A4IV 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-BR-A4IY    TCGA-BR-A4IZ    TCGA-BR-A4J1    TCGA-BR-A4J4    TCGA-BR-A4J6 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-BR-A4J8    TCGA-BR-A4QI    TCGA-BR-A4QL    TCGA-CD-5798    TCGA-CD-5799 
"B2M WILD-TYPE" "B2M WILD-TYPE"   "B2M MUTATED" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CD-5800    TCGA-CD-5801    TCGA-CD-5802    TCGA-CD-5803    TCGA-CD-5813 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CG-4300    TCGA-CG-4301    TCGA-CG-4304    TCGA-CG-4305    TCGA-CG-4306 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CG-4436    TCGA-CG-4437    TCGA-CG-4438    TCGA-CG-4440    TCGA-CG-4441 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CG-4443    TCGA-CG-4444    TCGA-CG-4449    TCGA-CG-4455    TCGA-CG-4465 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CG-4466    TCGA-CG-4469    TCGA-CG-4477    TCGA-CG-5717    TCGA-CG-5718 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CG-5719    TCGA-CG-5720    TCGA-CG-5721    TCGA-CG-5722    TCGA-CG-5723 
"B2M WILD-TYPE" "B2M WILD-TYPE"   "B2M MUTATED" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CG-5724    TCGA-CG-5726    TCGA-CG-5727    TCGA-CG-5728    TCGA-CG-5730 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CG-5732    TCGA-CG-5733    TCGA-CG-5734    TCGA-D7-5577    TCGA-D7-5578 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-D7-5579    TCGA-D7-6518    TCGA-D7-6519    TCGA-D7-6520    TCGA-D7-6521 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-D7-6522    TCGA-D7-6524    TCGA-D7-6525    TCGA-D7-6526    TCGA-D7-6527 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-D7-6528    TCGA-D7-6815    TCGA-D7-6817    TCGA-D7-6818    TCGA-D7-6820 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-D7-6822    TCGA-EQ-5647    TCGA-F1-6177    TCGA-F1-6874    TCGA-F1-6875 
"B2M WILD-TYPE" "B2M WILD-TYPE"   "B2M MUTATED" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-FP-7735    TCGA-FP-7829    TCGA-FP-7916    TCGA-FP-7998    TCGA-FP-8099 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-FP-8209    TCGA-HJ-7597    TCGA-IN-7806    TCGA-IN-7808    TCGA-IP-7968 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-B7-5816    TCGA-B7-5818    TCGA-BR-6452    TCGA-BR-6455    TCGA-BR-6457 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-BR-6458    TCGA-BR-6563    TCGA-BR-6564    TCGA-BR-6565    TCGA-BR-6566 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE"   "B2M MUTATED" 
   TCGA-BR-6705    TCGA-BR-6706    TCGA-BR-6707    TCGA-BR-6801    TCGA-BR-6802 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-BR-6803    TCGA-BR-6852    TCGA-BR-7196    TCGA-BR-7197    TCGA-BR-7703 
"B2M WILD-TYPE"   "B2M MUTATED" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-BR-7707    TCGA-BR-7715    TCGA-BR-7716    TCGA-BR-7717    TCGA-BR-7722 
  "B2M MUTATED" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-BR-7723    TCGA-BR-7851    TCGA-BR-7901    TCGA-BR-7957    TCGA-BR-8059 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-BR-8077    TCGA-BR-8080    TCGA-BR-8081    TCGA-BR-8284    TCGA-BR-8295 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-BR-8296    TCGA-BR-8676    TCGA-BR-8682    TCGA-BR-8690    TCGA-BR-A4IV 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-BR-A4IY    TCGA-BR-A4IZ    TCGA-BR-A4J1    TCGA-BR-A4J4    TCGA-BR-A4J6 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-BR-A4J8    TCGA-BR-A4QI    TCGA-BR-A4QL    TCGA-CD-5798    TCGA-CD-5799 
"B2M WILD-TYPE" "B2M WILD-TYPE"   "B2M MUTATED" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CD-5800    TCGA-CD-5801    TCGA-CD-5802    TCGA-CD-5803    TCGA-CD-5813 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CG-4300    TCGA-CG-4301    TCGA-CG-4304    TCGA-CG-4305    TCGA-CG-4306 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CG-4436    TCGA-CG-4437    TCGA-CG-4438    TCGA-CG-4440    TCGA-CG-4441 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CG-4443    TCGA-CG-4444    TCGA-CG-4449    TCGA-CG-4455    TCGA-CG-4465 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CG-4466    TCGA-CG-4469    TCGA-CG-4477    TCGA-CG-5717    TCGA-CG-5718 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CG-5719    TCGA-CG-5720    TCGA-CG-5721    TCGA-CG-5722    TCGA-CG-5723 
"B2M WILD-TYPE" "B2M WILD-TYPE"   "B2M MUTATED" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CG-5724    TCGA-CG-5726    TCGA-CG-5727    TCGA-CG-5728    TCGA-CG-5730 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CG-5732    TCGA-CG-5733    TCGA-CG-5734    TCGA-D7-5577    TCGA-D7-5578 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-D7-5579    TCGA-D7-6518    TCGA-D7-6519    TCGA-D7-6520    TCGA-D7-6521 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-D7-6522    TCGA-D7-6524    TCGA-D7-6525    TCGA-D7-6526    TCGA-D7-6527 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-D7-6528    TCGA-D7-6815    TCGA-D7-6817    TCGA-D7-6818    TCGA-D7-6820 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-D7-6822    TCGA-EQ-5647    TCGA-F1-6177    TCGA-F1-6874    TCGA-F1-6875 
"B2M WILD-TYPE" "B2M WILD-TYPE"   "B2M MUTATED" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-FP-7735    TCGA-FP-7829    TCGA-FP-7916    TCGA-FP-7998    TCGA-FP-8099 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-FP-8209    TCGA-HJ-7597    TCGA-IN-7806    TCGA-IN-7808    TCGA-IP-7968 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-B7-5816    TCGA-B7-5818    TCGA-BR-6452    TCGA-BR-6455    TCGA-BR-6457 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-BR-6458    TCGA-BR-6563    TCGA-BR-6564    TCGA-BR-6565    TCGA-BR-6566 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE"   "B2M MUTATED" 
   TCGA-BR-6705    TCGA-BR-6706    TCGA-BR-6707    TCGA-BR-6801    TCGA-BR-6802 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-BR-6803    TCGA-BR-6852    TCGA-BR-7196    TCGA-BR-7197    TCGA-BR-7703 
"B2M WILD-TYPE"   "B2M MUTATED" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-BR-7707    TCGA-BR-7715    TCGA-BR-7716    TCGA-BR-7717    TCGA-BR-7722 
  "B2M MUTATED" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-BR-7723    TCGA-BR-7851    TCGA-BR-7901    TCGA-BR-7957    TCGA-BR-8059 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-BR-8077    TCGA-BR-8080    TCGA-BR-8081    TCGA-BR-8284    TCGA-BR-8295 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-BR-8296    TCGA-BR-8676    TCGA-BR-8682    TCGA-BR-8690    TCGA-BR-A4IV 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-BR-A4IY    TCGA-BR-A4IZ    TCGA-BR-A4J1    TCGA-BR-A4J4    TCGA-BR-A4J6 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-BR-A4J8    TCGA-BR-A4QI    TCGA-BR-A4QL    TCGA-CD-5798    TCGA-CD-5799 
"B2M WILD-TYPE" "B2M WILD-TYPE"   "B2M MUTATED" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CD-5800    TCGA-CD-5801    TCGA-CD-5802    TCGA-CD-5803    TCGA-CD-5813 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CG-4300    TCGA-CG-4301    TCGA-CG-4304    TCGA-CG-4305    TCGA-CG-4306 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CG-4436    TCGA-CG-4437    TCGA-CG-4438    TCGA-CG-4440    TCGA-CG-4441 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CG-4443    TCGA-CG-4444    TCGA-CG-4449    TCGA-CG-4455    TCGA-CG-4465 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CG-4466    TCGA-CG-4469    TCGA-CG-4477    TCGA-CG-5717    TCGA-CG-5718 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CG-5719    TCGA-CG-5720    TCGA-CG-5721    TCGA-CG-5722    TCGA-CG-5723 
"B2M WILD-TYPE" "B2M WILD-TYPE"   "B2M MUTATED" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CG-5724    TCGA-CG-5726    TCGA-CG-5727    TCGA-CG-5728    TCGA-CG-5730 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CG-5732    TCGA-CG-5733    TCGA-CG-5734    TCGA-D7-5577    TCGA-D7-5578 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-D7-5579    TCGA-D7-6518    TCGA-D7-6519    TCGA-D7-6520    TCGA-D7-6521 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-D7-6522    TCGA-D7-6524    TCGA-D7-6525    TCGA-D7-6526    TCGA-D7-6527 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-D7-6528    TCGA-D7-6815    TCGA-D7-6817    TCGA-D7-6818    TCGA-D7-6820 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-D7-6822    TCGA-EQ-5647    TCGA-F1-6177    TCGA-F1-6874    TCGA-F1-6875 
"B2M WILD-TYPE" "B2M WILD-TYPE"   "B2M MUTATED" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-FP-7735    TCGA-FP-7829    TCGA-FP-7916    TCGA-FP-7998    TCGA-FP-8099 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-FP-8209    TCGA-HJ-7597    TCGA-IN-7806    TCGA-IN-7808    TCGA-IP-7968 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
[1] "hr="     "9500000"
D14V2, continuous
D14V3, binary
               cls
clus             0  1
  B2M MUTATED    4  2
  B2M WILD-TYPE 59 91
[1] "tbl2"
               cls
clus            [,1] [,2]
  B2M MUTATED      4    2
  B2M WILD-TYPE   59   91
        clus
vv       B2M MUTATED B2M WILD-TYPE
  FEMALE           4            59
  MALE             2            91
               vv
clus            STOMACH  ADENOCARCINOMA  DIFFUSE TYPE
  B2M MUTATED                                       0
  B2M WILD-TYPE                                    23
               vv
clus            STOMACH  ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  B2M MUTATED                                                        5
  B2M WILD-TYPE                                                     73
               vv
clus            STOMACH  INTESTINAL ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  B2M MUTATED                                                                   1
  B2M WILD-TYPE                                                                29
               vv
clus            STOMACH  INTESTINAL ADENOCARCINOMA  TUBULAR TYPE
  B2M MUTATED                                                  0
  B2M WILD-TYPE                                               10
               vv
clus            STOMACH  INTESTINAL ADENOCARCINOMA \302\240MUCINOUS TYPE
  B2M MUTATED                                                          0
  B2M WILD-TYPE                                                       10
               vv
clus            STOMACH  INTESTINAL ADENOCARCINOMA \302\240PAPILLARY TYPE
  B2M MUTATED                                                           0
  B2M WILD-TYPE                                                         3
               vv
clus            STOMACH ADENOCARCINOMA  SIGNET RING TYPE
  B2M MUTATED                                          0
  B2M WILD-TYPE                                        1
D14V4, multiclass
D14V5, binary
               cls
clus              0   1
  B2M MUTATED     0   6
  B2M WILD-TYPE   6 144
[1] "tbl2"
               cls
clus            [,1] [,2]
  B2M MUTATED      0    6
  B2M WILD-TYPE    6  144
     clus
vv    B2M MUTATED B2M WILD-TYPE
  NO            0             6
  YES           6           144
               vv
clus             M0  M1  MX
  B2M MUTATED     5   0   1
  B2M WILD-TYPE 127  14   9
D14V6, multiclass
    clus
vv   B2M MUTATED B2M WILD-TYPE
  M0           5           127
  M1           0            14
  MX           1             9
               vv
clus            N0 N1 N2 N3 N3A NX
  B2M MUTATED    3  2  0  0   1  0
  B2M WILD-TYPE 46 47 25 14   7 11
D14V7, multiclass
               vv
clus             R0  R1  R2  RX
  B2M MUTATED     6   0   0   0
  B2M WILD-TYPE 100   6  10  24
D14V8, multiclass
    clus
vv   B2M MUTATED B2M WILD-TYPE
  R0           6           100
  R1           0             6
  R2           0            10
  RX           0            24
D14V9, continuous
D14V10, continuous
               vv
clus            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB
  B2M MUTATED         1        1        0        2         0         0
  B2M WILD-TYPE       0        4       16       25         7        10
               vv
clus            STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  B2M MUTATED           0          0          1          0        1
  B2M WILD-TYPE         4         30         11          6       22
D14V11, multiclass

Clustering(15) Variable = FBXW7 MUTATION ANALYSIS
D15V1, survival
                 sevent
clus2              0  1
  FBXW7 MUTATED    5  1
  FBXW7 WILD-TYPE 98 16
  FBXW7 MUTATED FBXW7 WILD-TYPE 
              6             114 
  FBXW7 MUTATED FBXW7 WILD-TYPE 
              1              16 
$`FBXW7 MUTATED`
TCGA-BR-6852 TCGA-BR-7851 TCGA-BR-A4QL TCGA-CG-5721 TCGA-CG-5723 TCGA-CG-5733 
        0.26         0.99         2.24         5.98        70.06        21.07 

$`FBXW7 WILD-TYPE`
TCGA-B7-5816 TCGA-B7-5818 TCGA-BR-6452 TCGA-BR-6455 TCGA-BR-6457 TCGA-BR-6458 
        5.62         0.10         0.95         1.41         1.35         1.35 
TCGA-BR-6563 TCGA-BR-6564 TCGA-BR-6565 TCGA-BR-6566 TCGA-BR-6705 TCGA-BR-6706 
        0.85         0.82         0.62         0.62         1.71         2.17 
TCGA-BR-6707 TCGA-BR-6801 TCGA-BR-6802 TCGA-BR-6803 TCGA-BR-7196 TCGA-BR-7197 
        0.99         1.12         0.76         0.66         1.22         1.48 
TCGA-BR-7703 TCGA-BR-7707 TCGA-BR-7715 TCGA-BR-7716 TCGA-BR-7717 TCGA-BR-7722 
        0.46         0.13         1.05         0.82         0.69         0.16 
TCGA-BR-7723 TCGA-BR-7901 TCGA-BR-7957 TCGA-BR-8059 TCGA-BR-8077 TCGA-BR-8080 
        4.54         0.95         0.69         0.82         0.69         0.49 
TCGA-BR-8081 TCGA-BR-8284 TCGA-BR-8295 TCGA-BR-8296 TCGA-BR-8676 TCGA-BR-8682 
        0.46         0.72         1.55         1.48         0.89         1.64 
TCGA-BR-8690 TCGA-BR-A4IV TCGA-BR-A4IY TCGA-BR-A4IZ TCGA-BR-A4J1 TCGA-BR-A4J4 
        0.59         0.92         0.39         0.79         0.72         0.53 
TCGA-BR-A4J6 TCGA-BR-A4J8 TCGA-BR-A4QI TCGA-CD-5798 TCGA-CD-5799 TCGA-CD-5800 
        0.13         0.23         0.49         0.82         0.69         0.36 
TCGA-CD-5801 TCGA-CD-5802 TCGA-CD-5803 TCGA-CD-5813 TCGA-CG-4300 TCGA-CG-4301 
        0.49         0.30         0.07         0.39        20.02         3.02 
TCGA-CG-4304 TCGA-CG-4305 TCGA-CG-4306 TCGA-CG-4436 TCGA-CG-4437 TCGA-CG-4438 
       27.02        15.95         1.02         7.96         8.05        54.05 
TCGA-CG-4440 TCGA-CG-4441 TCGA-CG-4443 TCGA-CG-4444 TCGA-CG-4449 TCGA-CG-4455 
        4.01        14.01        29.98        47.05        19.07        12.03 
TCGA-CG-4465 TCGA-CG-4466 TCGA-CG-4469 TCGA-CG-4477 TCGA-CG-5717 TCGA-CG-5718 
        8.98        18.94         7.07         1.02         6.94         1.02 
TCGA-CG-5719 TCGA-CG-5720 TCGA-CG-5722 TCGA-CG-5724 TCGA-CG-5726 TCGA-CG-5727 
        1.02         0.99         0.95        12.03        28.96        31.04 
TCGA-CG-5728 TCGA-CG-5730 TCGA-CG-5732 TCGA-CG-5734 TCGA-D7-5577 TCGA-D7-5578 
       65.10         4.01        55.04         7.99         8.65         3.58 
TCGA-D7-5579 TCGA-D7-6518 TCGA-D7-6519 TCGA-D7-6520 TCGA-D7-6521 TCGA-D7-6522 
        4.54         9.80        15.65         9.63         8.19         6.90 
TCGA-D7-6524 TCGA-D7-6525 TCGA-D7-6526 TCGA-D7-6527 TCGA-D7-6528 TCGA-D7-6815 
        0.69         5.95         6.61         4.14         1.68         3.65 
TCGA-D7-6817 TCGA-D7-6818 TCGA-D7-6820 TCGA-D7-6822 TCGA-EQ-5647 TCGA-F1-6177 
        0.79         4.04         2.93         4.27         0.62         6.54 
TCGA-F1-6874 TCGA-F1-6875 TCGA-FP-7735 TCGA-FP-7829 TCGA-FP-7916 TCGA-FP-7998 
        2.01        72.23         0.39         0.20         3.02         3.58 
TCGA-FP-8099 TCGA-FP-8209 TCGA-HJ-7597 TCGA-IN-7806 TCGA-IN-7808 TCGA-IP-7968 
        1.02        59.05        26.43         6.87         3.55         2.53 

  FBXW7 MUTATED FBXW7 WILD-TYPE 
           0.26            0.07 
  FBXW7 MUTATED FBXW7 WILD-TYPE 
          70.06           72.23 
  FBXW7 MUTATED FBXW7 WILD-TYPE 
           4.11            1.48 
[1] "0.3 - 70.1 (4.1)" "0.1 - 72.2 (1.5)"
     TCGA-B7-5816      TCGA-B7-5818      TCGA-BR-6452      TCGA-BR-6455 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-BR-6457      TCGA-BR-6458      TCGA-BR-6563      TCGA-BR-6564 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-BR-6565      TCGA-BR-6566      TCGA-BR-6705      TCGA-BR-6706 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-BR-6707      TCGA-BR-6801      TCGA-BR-6802      TCGA-BR-6803 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-BR-6852      TCGA-BR-7196      TCGA-BR-7197      TCGA-BR-7703 
  "FBXW7 MUTATED" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-BR-7707      TCGA-BR-7715      TCGA-BR-7716      TCGA-BR-7717 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-BR-7722      TCGA-BR-7723      TCGA-BR-7851      TCGA-BR-7901 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE"   "FBXW7 MUTATED" "FBXW7 WILD-TYPE" 
     TCGA-BR-7957      TCGA-BR-8059      TCGA-BR-8077      TCGA-BR-8080 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-BR-8081      TCGA-BR-8284      TCGA-BR-8295      TCGA-BR-8296 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-BR-8676      TCGA-BR-8682      TCGA-BR-8690      TCGA-BR-A4IV 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-BR-A4IY      TCGA-BR-A4IZ      TCGA-BR-A4J1      TCGA-BR-A4J4 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-BR-A4J6      TCGA-BR-A4J8      TCGA-BR-A4QI      TCGA-BR-A4QL 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE"   "FBXW7 MUTATED" 
     TCGA-CD-5798      TCGA-CD-5799      TCGA-CD-5800      TCGA-CD-5801 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-CD-5802      TCGA-CD-5803      TCGA-CD-5813      TCGA-CG-4300 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-CG-4301      TCGA-CG-4304      TCGA-CG-4305      TCGA-CG-4306 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-CG-4436      TCGA-CG-4437      TCGA-CG-4438      TCGA-CG-4440 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-CG-4441      TCGA-CG-4443      TCGA-CG-4444      TCGA-CG-4449 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-CG-4455      TCGA-CG-4465      TCGA-CG-4466      TCGA-CG-4469 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-CG-4477      TCGA-CG-5717      TCGA-CG-5718      TCGA-CG-5719 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-CG-5720      TCGA-CG-5721      TCGA-CG-5722      TCGA-CG-5723 
"FBXW7 WILD-TYPE"   "FBXW7 MUTATED" "FBXW7 WILD-TYPE"   "FBXW7 MUTATED" 
     TCGA-CG-5724      TCGA-CG-5726      TCGA-CG-5727      TCGA-CG-5728 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-CG-5730      TCGA-CG-5732      TCGA-CG-5733      TCGA-CG-5734 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE"   "FBXW7 MUTATED" "FBXW7 WILD-TYPE" 
     TCGA-D7-5577      TCGA-D7-5578      TCGA-D7-5579      TCGA-D7-6518 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-D7-6519      TCGA-D7-6520      TCGA-D7-6521      TCGA-D7-6522 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-D7-6524      TCGA-D7-6525      TCGA-D7-6526      TCGA-D7-6527 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-D7-6528      TCGA-D7-6815      TCGA-D7-6817      TCGA-D7-6818 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-D7-6820      TCGA-D7-6822      TCGA-EQ-5647      TCGA-F1-6177 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-F1-6874      TCGA-F1-6875      TCGA-FP-7735      TCGA-FP-7829 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-FP-7916      TCGA-FP-7998      TCGA-FP-8099      TCGA-FP-8209 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-HJ-7597      TCGA-IN-7806      TCGA-IN-7808      TCGA-IP-7968 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-B7-5816      TCGA-B7-5818      TCGA-BR-6452      TCGA-BR-6455 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-BR-6457      TCGA-BR-6458      TCGA-BR-6563      TCGA-BR-6564 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-BR-6565      TCGA-BR-6566      TCGA-BR-6705      TCGA-BR-6706 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-BR-6707      TCGA-BR-6801      TCGA-BR-6802      TCGA-BR-6803 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-BR-6852      TCGA-BR-7196      TCGA-BR-7197      TCGA-BR-7703 
  "FBXW7 MUTATED" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-BR-7707      TCGA-BR-7715      TCGA-BR-7716      TCGA-BR-7717 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-BR-7722      TCGA-BR-7723      TCGA-BR-7851      TCGA-BR-7901 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE"   "FBXW7 MUTATED" "FBXW7 WILD-TYPE" 
     TCGA-BR-7957      TCGA-BR-8059      TCGA-BR-8077      TCGA-BR-8080 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-BR-8081      TCGA-BR-8284      TCGA-BR-8295      TCGA-BR-8296 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-BR-8676      TCGA-BR-8682      TCGA-BR-8690      TCGA-BR-A4IV 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-BR-A4IY      TCGA-BR-A4IZ      TCGA-BR-A4J1      TCGA-BR-A4J4 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-BR-A4J6      TCGA-BR-A4J8      TCGA-BR-A4QI      TCGA-BR-A4QL 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE"   "FBXW7 MUTATED" 
     TCGA-CD-5798      TCGA-CD-5799      TCGA-CD-5800      TCGA-CD-5801 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-CD-5802      TCGA-CD-5803      TCGA-CD-5813      TCGA-CG-4300 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-CG-4301      TCGA-CG-4304      TCGA-CG-4305      TCGA-CG-4306 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-CG-4436      TCGA-CG-4437      TCGA-CG-4438      TCGA-CG-4440 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-CG-4441      TCGA-CG-4443      TCGA-CG-4444      TCGA-CG-4449 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-CG-4455      TCGA-CG-4465      TCGA-CG-4466      TCGA-CG-4469 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-CG-4477      TCGA-CG-5717      TCGA-CG-5718      TCGA-CG-5719 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-CG-5720      TCGA-CG-5721      TCGA-CG-5722      TCGA-CG-5723 
"FBXW7 WILD-TYPE"   "FBXW7 MUTATED" "FBXW7 WILD-TYPE"   "FBXW7 MUTATED" 
     TCGA-CG-5724      TCGA-CG-5726      TCGA-CG-5727      TCGA-CG-5728 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-CG-5730      TCGA-CG-5732      TCGA-CG-5733      TCGA-CG-5734 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE"   "FBXW7 MUTATED" "FBXW7 WILD-TYPE" 
     TCGA-D7-5577      TCGA-D7-5578      TCGA-D7-5579      TCGA-D7-6518 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-D7-6519      TCGA-D7-6520      TCGA-D7-6521      TCGA-D7-6522 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-D7-6524      TCGA-D7-6525      TCGA-D7-6526      TCGA-D7-6527 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-D7-6528      TCGA-D7-6815      TCGA-D7-6817      TCGA-D7-6818 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-D7-6820      TCGA-D7-6822      TCGA-EQ-5647      TCGA-F1-6177 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-F1-6874      TCGA-F1-6875      TCGA-FP-7735      TCGA-FP-7829 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-FP-7916      TCGA-FP-7998      TCGA-FP-8099      TCGA-FP-8209 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-HJ-7597      TCGA-IN-7806      TCGA-IN-7808      TCGA-IP-7968 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-B7-5816      TCGA-B7-5818      TCGA-BR-6452      TCGA-BR-6455 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-BR-6457      TCGA-BR-6458      TCGA-BR-6563      TCGA-BR-6564 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-BR-6565      TCGA-BR-6566      TCGA-BR-6705      TCGA-BR-6706 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-BR-6707      TCGA-BR-6801      TCGA-BR-6802      TCGA-BR-6803 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-BR-6852      TCGA-BR-7196      TCGA-BR-7197      TCGA-BR-7703 
  "FBXW7 MUTATED" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-BR-7707      TCGA-BR-7715      TCGA-BR-7716      TCGA-BR-7717 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-BR-7722      TCGA-BR-7723      TCGA-BR-7851      TCGA-BR-7901 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE"   "FBXW7 MUTATED" "FBXW7 WILD-TYPE" 
     TCGA-BR-7957      TCGA-BR-8059      TCGA-BR-8077      TCGA-BR-8080 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-BR-8081      TCGA-BR-8284      TCGA-BR-8295      TCGA-BR-8296 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-BR-8676      TCGA-BR-8682      TCGA-BR-8690      TCGA-BR-A4IV 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-BR-A4IY      TCGA-BR-A4IZ      TCGA-BR-A4J1      TCGA-BR-A4J4 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-BR-A4J6      TCGA-BR-A4J8      TCGA-BR-A4QI      TCGA-BR-A4QL 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE"   "FBXW7 MUTATED" 
     TCGA-CD-5798      TCGA-CD-5799      TCGA-CD-5800      TCGA-CD-5801 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-CD-5802      TCGA-CD-5803      TCGA-CD-5813      TCGA-CG-4300 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-CG-4301      TCGA-CG-4304      TCGA-CG-4305      TCGA-CG-4306 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-CG-4436      TCGA-CG-4437      TCGA-CG-4438      TCGA-CG-4440 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-CG-4441      TCGA-CG-4443      TCGA-CG-4444      TCGA-CG-4449 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-CG-4455      TCGA-CG-4465      TCGA-CG-4466      TCGA-CG-4469 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-CG-4477      TCGA-CG-5717      TCGA-CG-5718      TCGA-CG-5719 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-CG-5720      TCGA-CG-5721      TCGA-CG-5722      TCGA-CG-5723 
"FBXW7 WILD-TYPE"   "FBXW7 MUTATED" "FBXW7 WILD-TYPE"   "FBXW7 MUTATED" 
     TCGA-CG-5724      TCGA-CG-5726      TCGA-CG-5727      TCGA-CG-5728 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-CG-5730      TCGA-CG-5732      TCGA-CG-5733      TCGA-CG-5734 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE"   "FBXW7 MUTATED" "FBXW7 WILD-TYPE" 
     TCGA-D7-5577      TCGA-D7-5578      TCGA-D7-5579      TCGA-D7-6518 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-D7-6519      TCGA-D7-6520      TCGA-D7-6521      TCGA-D7-6522 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-D7-6524      TCGA-D7-6525      TCGA-D7-6526      TCGA-D7-6527 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-D7-6528      TCGA-D7-6815      TCGA-D7-6817      TCGA-D7-6818 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-D7-6820      TCGA-D7-6822      TCGA-EQ-5647      TCGA-F1-6177 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-F1-6874      TCGA-F1-6875      TCGA-FP-7735      TCGA-FP-7829 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-FP-7916      TCGA-FP-7998      TCGA-FP-8099      TCGA-FP-8209 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-HJ-7597      TCGA-IN-7806      TCGA-IN-7808      TCGA-IP-7968 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
[1] "hr=" "1.6"
D15V2, continuous
D15V3, binary
                 cls
clus               0  1
  FBXW7 MUTATED    6  5
  FBXW7 WILD-TYPE 57 88
[1] "tbl2"
                 cls
clus              [,1] [,2]
  FBXW7 MUTATED      6    5
  FBXW7 WILD-TYPE   57   88
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  FEMALE             6              57
  MALE               5              88
                 vv
clus              STOMACH  ADENOCARCINOMA  DIFFUSE TYPE
  FBXW7 MUTATED                                       0
  FBXW7 WILD-TYPE                                    23
                 vv
clus              STOMACH  ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  FBXW7 MUTATED                                                        7
  FBXW7 WILD-TYPE                                                     71
                 vv
clus              STOMACH  INTESTINAL ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  FBXW7 MUTATED                                                                   3
  FBXW7 WILD-TYPE                                                                27
                 vv
clus              STOMACH  INTESTINAL ADENOCARCINOMA  TUBULAR TYPE
  FBXW7 MUTATED                                                  0
  FBXW7 WILD-TYPE                                               10
                 vv
clus              STOMACH  INTESTINAL ADENOCARCINOMA \302\240MUCINOUS TYPE
  FBXW7 MUTATED                                                          1
  FBXW7 WILD-TYPE                                                        9
                 vv
clus              STOMACH  INTESTINAL ADENOCARCINOMA \302\240PAPILLARY TYPE
  FBXW7 MUTATED                                                           0
  FBXW7 WILD-TYPE                                                         3
                 vv
clus              STOMACH ADENOCARCINOMA  SIGNET RING TYPE
  FBXW7 MUTATED                                          0
  FBXW7 WILD-TYPE                                        1
D15V4, multiclass
D15V5, binary
                 cls
clus                0   1
  FBXW7 MUTATED     1  10
  FBXW7 WILD-TYPE   5 140
[1] "tbl2"
                 cls
clus              [,1] [,2]
  FBXW7 MUTATED      1   10
  FBXW7 WILD-TYPE    5  140
     clus
vv    FBXW7 MUTATED FBXW7 WILD-TYPE
  NO              1               5
  YES            10             140
                 vv
clus               M0  M1  MX
  FBXW7 MUTATED    11   0   0
  FBXW7 WILD-TYPE 121  14  10
D15V6, multiclass
    clus
vv   FBXW7 MUTATED FBXW7 WILD-TYPE
  M0            11             121
  M1             0              14
  MX             0              10
                 vv
clus              N0 N1 N2 N3 N3A NX
  FBXW7 MUTATED    2  5  1  0   1  2
  FBXW7 WILD-TYPE 47 44 24 14   7  9
D15V7, multiclass
                 vv
clus              R0 R1 R2 RX
  FBXW7 MUTATED    7  0  0  4
  FBXW7 WILD-TYPE 99  6 10 20
D15V8, multiclass
    clus
vv   FBXW7 MUTATED FBXW7 WILD-TYPE
  R0             7              99
  R1             0               6
  R2             0              10
  RX             4              20
D15V9, continuous
D15V10, continuous
                 vv
clus              STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB
  FBXW7 MUTATED         0        0        0        4         0         0
  FBXW7 WILD-TYPE       1        5       16       23         7        10
                 vv
clus              STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  FBXW7 MUTATED           0          1          1          0        1
  FBXW7 WILD-TYPE         4         29         11          6       22
D15V11, multiclass

Clustering(16) Variable = PTH2 MUTATION ANALYSIS
D16V1, survival
                sevent
clus2              0   1
  PTH2 MUTATED     3   0
  PTH2 WILD-TYPE 100  17
  PTH2 MUTATED PTH2 WILD-TYPE 
             3            117 
  PTH2 MUTATED PTH2 WILD-TYPE 
             0             17 
$`PTH2 MUTATED`
TCGA-BR-6706 TCGA-BR-A4QL TCGA-D7-6519 
        2.17         2.24        15.65 

$`PTH2 WILD-TYPE`
TCGA-B7-5816 TCGA-B7-5818 TCGA-BR-6452 TCGA-BR-6455 TCGA-BR-6457 TCGA-BR-6458 
        5.62         0.10         0.95         1.41         1.35         1.35 
TCGA-BR-6563 TCGA-BR-6564 TCGA-BR-6565 TCGA-BR-6566 TCGA-BR-6705 TCGA-BR-6707 
        0.85         0.82         0.62         0.62         1.71         0.99 
TCGA-BR-6801 TCGA-BR-6802 TCGA-BR-6803 TCGA-BR-6852 TCGA-BR-7196 TCGA-BR-7197 
        1.12         0.76         0.66         0.26         1.22         1.48 
TCGA-BR-7703 TCGA-BR-7707 TCGA-BR-7715 TCGA-BR-7716 TCGA-BR-7717 TCGA-BR-7722 
        0.46         0.13         1.05         0.82         0.69         0.16 
TCGA-BR-7723 TCGA-BR-7851 TCGA-BR-7901 TCGA-BR-7957 TCGA-BR-8059 TCGA-BR-8077 
        4.54         0.99         0.95         0.69         0.82         0.69 
TCGA-BR-8080 TCGA-BR-8081 TCGA-BR-8284 TCGA-BR-8295 TCGA-BR-8296 TCGA-BR-8676 
        0.49         0.46         0.72         1.55         1.48         0.89 
TCGA-BR-8682 TCGA-BR-8690 TCGA-BR-A4IV TCGA-BR-A4IY TCGA-BR-A4IZ TCGA-BR-A4J1 
        1.64         0.59         0.92         0.39         0.79         0.72 
TCGA-BR-A4J4 TCGA-BR-A4J6 TCGA-BR-A4J8 TCGA-BR-A4QI TCGA-CD-5798 TCGA-CD-5799 
        0.53         0.13         0.23         0.49         0.82         0.69 
TCGA-CD-5800 TCGA-CD-5801 TCGA-CD-5802 TCGA-CD-5803 TCGA-CD-5813 TCGA-CG-4300 
        0.36         0.49         0.30         0.07         0.39        20.02 
TCGA-CG-4301 TCGA-CG-4304 TCGA-CG-4305 TCGA-CG-4306 TCGA-CG-4436 TCGA-CG-4437 
        3.02        27.02        15.95         1.02         7.96         8.05 
TCGA-CG-4438 TCGA-CG-4440 TCGA-CG-4441 TCGA-CG-4443 TCGA-CG-4444 TCGA-CG-4449 
       54.05         4.01        14.01        29.98        47.05        19.07 
TCGA-CG-4455 TCGA-CG-4465 TCGA-CG-4466 TCGA-CG-4469 TCGA-CG-4477 TCGA-CG-5717 
       12.03         8.98        18.94         7.07         1.02         6.94 
TCGA-CG-5718 TCGA-CG-5719 TCGA-CG-5720 TCGA-CG-5721 TCGA-CG-5722 TCGA-CG-5723 
        1.02         1.02         0.99         5.98         0.95        70.06 
TCGA-CG-5724 TCGA-CG-5726 TCGA-CG-5727 TCGA-CG-5728 TCGA-CG-5730 TCGA-CG-5732 
       12.03        28.96        31.04        65.10         4.01        55.04 
TCGA-CG-5733 TCGA-CG-5734 TCGA-D7-5577 TCGA-D7-5578 TCGA-D7-5579 TCGA-D7-6518 
       21.07         7.99         8.65         3.58         4.54         9.80 
TCGA-D7-6520 TCGA-D7-6521 TCGA-D7-6522 TCGA-D7-6524 TCGA-D7-6525 TCGA-D7-6526 
        9.63         8.19         6.90         0.69         5.95         6.61 
TCGA-D7-6527 TCGA-D7-6528 TCGA-D7-6815 TCGA-D7-6817 TCGA-D7-6818 TCGA-D7-6820 
        4.14         1.68         3.65         0.79         4.04         2.93 
TCGA-D7-6822 TCGA-EQ-5647 TCGA-F1-6177 TCGA-F1-6874 TCGA-F1-6875 TCGA-FP-7735 
        4.27         0.62         6.54         2.01        72.23         0.39 
TCGA-FP-7829 TCGA-FP-7916 TCGA-FP-7998 TCGA-FP-8099 TCGA-FP-8209 TCGA-HJ-7597 
        0.20         3.02         3.58         1.02        59.05        26.43 
TCGA-IN-7806 TCGA-IN-7808 TCGA-IP-7968 
        6.87         3.55         2.53 

  PTH2 MUTATED PTH2 WILD-TYPE 
          2.17           0.07 
  PTH2 MUTATED PTH2 WILD-TYPE 
         15.65          72.23 
  PTH2 MUTATED PTH2 WILD-TYPE 
          2.24           1.48 
[1] "2.2 - 15.7 (2.2)" "0.1 - 72.2 (1.5)"
    TCGA-B7-5816     TCGA-B7-5818     TCGA-BR-6452     TCGA-BR-6455 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-BR-6457     TCGA-BR-6458     TCGA-BR-6563     TCGA-BR-6564 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-BR-6565     TCGA-BR-6566     TCGA-BR-6705     TCGA-BR-6706 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE"   "PTH2 MUTATED" 
    TCGA-BR-6707     TCGA-BR-6801     TCGA-BR-6802     TCGA-BR-6803 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-BR-6852     TCGA-BR-7196     TCGA-BR-7197     TCGA-BR-7703 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-BR-7707     TCGA-BR-7715     TCGA-BR-7716     TCGA-BR-7717 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-BR-7722     TCGA-BR-7723     TCGA-BR-7851     TCGA-BR-7901 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-BR-7957     TCGA-BR-8059     TCGA-BR-8077     TCGA-BR-8080 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-BR-8081     TCGA-BR-8284     TCGA-BR-8295     TCGA-BR-8296 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-BR-8676     TCGA-BR-8682     TCGA-BR-8690     TCGA-BR-A4IV 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-BR-A4IY     TCGA-BR-A4IZ     TCGA-BR-A4J1     TCGA-BR-A4J4 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-BR-A4J6     TCGA-BR-A4J8     TCGA-BR-A4QI     TCGA-BR-A4QL 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE"   "PTH2 MUTATED" 
    TCGA-CD-5798     TCGA-CD-5799     TCGA-CD-5800     TCGA-CD-5801 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-CD-5802     TCGA-CD-5803     TCGA-CD-5813     TCGA-CG-4300 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-CG-4301     TCGA-CG-4304     TCGA-CG-4305     TCGA-CG-4306 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-CG-4436     TCGA-CG-4437     TCGA-CG-4438     TCGA-CG-4440 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-CG-4441     TCGA-CG-4443     TCGA-CG-4444     TCGA-CG-4449 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-CG-4455     TCGA-CG-4465     TCGA-CG-4466     TCGA-CG-4469 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-CG-4477     TCGA-CG-5717     TCGA-CG-5718     TCGA-CG-5719 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-CG-5720     TCGA-CG-5721     TCGA-CG-5722     TCGA-CG-5723 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-CG-5724     TCGA-CG-5726     TCGA-CG-5727     TCGA-CG-5728 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-CG-5730     TCGA-CG-5732     TCGA-CG-5733     TCGA-CG-5734 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-D7-5577     TCGA-D7-5578     TCGA-D7-5579     TCGA-D7-6518 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-D7-6519     TCGA-D7-6520     TCGA-D7-6521     TCGA-D7-6522 
  "PTH2 MUTATED" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-D7-6524     TCGA-D7-6525     TCGA-D7-6526     TCGA-D7-6527 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-D7-6528     TCGA-D7-6815     TCGA-D7-6817     TCGA-D7-6818 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-D7-6820     TCGA-D7-6822     TCGA-EQ-5647     TCGA-F1-6177 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-F1-6874     TCGA-F1-6875     TCGA-FP-7735     TCGA-FP-7829 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-FP-7916     TCGA-FP-7998     TCGA-FP-8099     TCGA-FP-8209 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-HJ-7597     TCGA-IN-7806     TCGA-IN-7808     TCGA-IP-7968 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-B7-5816     TCGA-B7-5818     TCGA-BR-6452     TCGA-BR-6455 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-BR-6457     TCGA-BR-6458     TCGA-BR-6563     TCGA-BR-6564 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-BR-6565     TCGA-BR-6566     TCGA-BR-6705     TCGA-BR-6706 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE"   "PTH2 MUTATED" 
    TCGA-BR-6707     TCGA-BR-6801     TCGA-BR-6802     TCGA-BR-6803 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-BR-6852     TCGA-BR-7196     TCGA-BR-7197     TCGA-BR-7703 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-BR-7707     TCGA-BR-7715     TCGA-BR-7716     TCGA-BR-7717 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-BR-7722     TCGA-BR-7723     TCGA-BR-7851     TCGA-BR-7901 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-BR-7957     TCGA-BR-8059     TCGA-BR-8077     TCGA-BR-8080 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-BR-8081     TCGA-BR-8284     TCGA-BR-8295     TCGA-BR-8296 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-BR-8676     TCGA-BR-8682     TCGA-BR-8690     TCGA-BR-A4IV 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-BR-A4IY     TCGA-BR-A4IZ     TCGA-BR-A4J1     TCGA-BR-A4J4 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-BR-A4J6     TCGA-BR-A4J8     TCGA-BR-A4QI     TCGA-BR-A4QL 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE"   "PTH2 MUTATED" 
    TCGA-CD-5798     TCGA-CD-5799     TCGA-CD-5800     TCGA-CD-5801 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-CD-5802     TCGA-CD-5803     TCGA-CD-5813     TCGA-CG-4300 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-CG-4301     TCGA-CG-4304     TCGA-CG-4305     TCGA-CG-4306 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-CG-4436     TCGA-CG-4437     TCGA-CG-4438     TCGA-CG-4440 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-CG-4441     TCGA-CG-4443     TCGA-CG-4444     TCGA-CG-4449 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-CG-4455     TCGA-CG-4465     TCGA-CG-4466     TCGA-CG-4469 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-CG-4477     TCGA-CG-5717     TCGA-CG-5718     TCGA-CG-5719 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-CG-5720     TCGA-CG-5721     TCGA-CG-5722     TCGA-CG-5723 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-CG-5724     TCGA-CG-5726     TCGA-CG-5727     TCGA-CG-5728 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-CG-5730     TCGA-CG-5732     TCGA-CG-5733     TCGA-CG-5734 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-D7-5577     TCGA-D7-5578     TCGA-D7-5579     TCGA-D7-6518 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-D7-6519     TCGA-D7-6520     TCGA-D7-6521     TCGA-D7-6522 
  "PTH2 MUTATED" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-D7-6524     TCGA-D7-6525     TCGA-D7-6526     TCGA-D7-6527 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-D7-6528     TCGA-D7-6815     TCGA-D7-6817     TCGA-D7-6818 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-D7-6820     TCGA-D7-6822     TCGA-EQ-5647     TCGA-F1-6177 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-F1-6874     TCGA-F1-6875     TCGA-FP-7735     TCGA-FP-7829 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-FP-7916     TCGA-FP-7998     TCGA-FP-8099     TCGA-FP-8209 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-HJ-7597     TCGA-IN-7806     TCGA-IN-7808     TCGA-IP-7968 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-B7-5816     TCGA-B7-5818     TCGA-BR-6452     TCGA-BR-6455 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-BR-6457     TCGA-BR-6458     TCGA-BR-6563     TCGA-BR-6564 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-BR-6565     TCGA-BR-6566     TCGA-BR-6705     TCGA-BR-6706 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE"   "PTH2 MUTATED" 
    TCGA-BR-6707     TCGA-BR-6801     TCGA-BR-6802     TCGA-BR-6803 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-BR-6852     TCGA-BR-7196     TCGA-BR-7197     TCGA-BR-7703 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-BR-7707     TCGA-BR-7715     TCGA-BR-7716     TCGA-BR-7717 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-BR-7722     TCGA-BR-7723     TCGA-BR-7851     TCGA-BR-7901 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-BR-7957     TCGA-BR-8059     TCGA-BR-8077     TCGA-BR-8080 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-BR-8081     TCGA-BR-8284     TCGA-BR-8295     TCGA-BR-8296 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-BR-8676     TCGA-BR-8682     TCGA-BR-8690     TCGA-BR-A4IV 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-BR-A4IY     TCGA-BR-A4IZ     TCGA-BR-A4J1     TCGA-BR-A4J4 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-BR-A4J6     TCGA-BR-A4J8     TCGA-BR-A4QI     TCGA-BR-A4QL 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE"   "PTH2 MUTATED" 
    TCGA-CD-5798     TCGA-CD-5799     TCGA-CD-5800     TCGA-CD-5801 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-CD-5802     TCGA-CD-5803     TCGA-CD-5813     TCGA-CG-4300 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-CG-4301     TCGA-CG-4304     TCGA-CG-4305     TCGA-CG-4306 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-CG-4436     TCGA-CG-4437     TCGA-CG-4438     TCGA-CG-4440 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-CG-4441     TCGA-CG-4443     TCGA-CG-4444     TCGA-CG-4449 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-CG-4455     TCGA-CG-4465     TCGA-CG-4466     TCGA-CG-4469 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-CG-4477     TCGA-CG-5717     TCGA-CG-5718     TCGA-CG-5719 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-CG-5720     TCGA-CG-5721     TCGA-CG-5722     TCGA-CG-5723 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-CG-5724     TCGA-CG-5726     TCGA-CG-5727     TCGA-CG-5728 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-CG-5730     TCGA-CG-5732     TCGA-CG-5733     TCGA-CG-5734 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-D7-5577     TCGA-D7-5578     TCGA-D7-5579     TCGA-D7-6518 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-D7-6519     TCGA-D7-6520     TCGA-D7-6521     TCGA-D7-6522 
  "PTH2 MUTATED" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-D7-6524     TCGA-D7-6525     TCGA-D7-6526     TCGA-D7-6527 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-D7-6528     TCGA-D7-6815     TCGA-D7-6817     TCGA-D7-6818 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-D7-6820     TCGA-D7-6822     TCGA-EQ-5647     TCGA-F1-6177 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-F1-6874     TCGA-F1-6875     TCGA-FP-7735     TCGA-FP-7829 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-FP-7916     TCGA-FP-7998     TCGA-FP-8099     TCGA-FP-8209 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
    TCGA-HJ-7597     TCGA-IN-7806     TCGA-IN-7808     TCGA-IP-7968 
"PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" "PTH2 WILD-TYPE" 
[1] "hr="     "2.6e+07"
D16V2, continuous
D16V3, binary
                cls
clus              0  1
  PTH2 MUTATED    3  1
  PTH2 WILD-TYPE 60 92
[1] "tbl2"
                cls
clus             [,1] [,2]
  PTH2 MUTATED      3    1
  PTH2 WILD-TYPE   60   92
        clus
vv       PTH2 MUTATED PTH2 WILD-TYPE
  FEMALE            3             60
  MALE              1             92
                vv
clus             STOMACH  ADENOCARCINOMA  DIFFUSE TYPE
  PTH2 MUTATED                                       1
  PTH2 WILD-TYPE                                    22
                vv
clus             STOMACH  ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  PTH2 MUTATED                                                        3
  PTH2 WILD-TYPE                                                     75
                vv
clus             STOMACH  INTESTINAL ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  PTH2 MUTATED                                                                   0
  PTH2 WILD-TYPE                                                                30
                vv
clus             STOMACH  INTESTINAL ADENOCARCINOMA  TUBULAR TYPE
  PTH2 MUTATED                                                  0
  PTH2 WILD-TYPE                                               10
                vv
clus             STOMACH  INTESTINAL ADENOCARCINOMA \302\240MUCINOUS TYPE
  PTH2 MUTATED                                                          0
  PTH2 WILD-TYPE                                                       10
                vv
clus             STOMACH  INTESTINAL ADENOCARCINOMA \302\240PAPILLARY TYPE
  PTH2 MUTATED                                                           0
  PTH2 WILD-TYPE                                                         3
                vv
clus             STOMACH ADENOCARCINOMA  SIGNET RING TYPE
  PTH2 MUTATED                                          0
  PTH2 WILD-TYPE                                        1
D16V4, multiclass
D16V5, binary
                cls
clus               0   1
  PTH2 MUTATED     0   4
  PTH2 WILD-TYPE   6 146
[1] "tbl2"
                cls
clus             [,1] [,2]
  PTH2 MUTATED      0    4
  PTH2 WILD-TYPE    6  146
     clus
vv    PTH2 MUTATED PTH2 WILD-TYPE
  NO             0              6
  YES            4            146
                vv
clus              M0  M1  MX
  PTH2 MUTATED     4   0   0
  PTH2 WILD-TYPE 128  14  10
D16V6, multiclass
    clus
vv   PTH2 MUTATED PTH2 WILD-TYPE
  M0            4            128
  M1            0             14
  MX            0             10
                vv
clus             N0 N1 N2 N3 N3A NX
  PTH2 MUTATED    0  3  0  0   1  0
  PTH2 WILD-TYPE 49 46 25 14   7 11
D16V7, multiclass
                vv
clus              R0  R1  R2  RX
  PTH2 MUTATED     4   0   0   0
  PTH2 WILD-TYPE 102   6  10  24
D16V8, multiclass
    clus
vv   PTH2 MUTATED PTH2 WILD-TYPE
  R0            4            102
  R1            0              6
  R2            0             10
  RX            0             24
D16V9, continuous
D16V10, continuous
                vv
clus             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB
  PTH2 MUTATED         0        0        0        0         0         1
  PTH2 WILD-TYPE       1        5       16       27         7         9
                vv
clus             STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  PTH2 MUTATED           0          1          2          0        0
  PTH2 WILD-TYPE         4         29         10          6       23
D16V11, multiclass

Clustering(17) Variable = FAM46D MUTATION ANALYSIS
D17V1, survival
                  sevent
clus2               0  1
  FAM46D MUTATED    4  0
  FAM46D WILD-TYPE 99 17
  FAM46D MUTATED FAM46D WILD-TYPE 
               4              116 
  FAM46D MUTATED FAM46D WILD-TYPE 
               0               17 
$`FAM46D MUTATED`
TCGA-BR-6563 TCGA-CG-4444 TCGA-D7-6822 TCGA-F1-6874 
        0.85        47.05         4.27         2.01 

$`FAM46D WILD-TYPE`
TCGA-B7-5816 TCGA-B7-5818 TCGA-BR-6452 TCGA-BR-6455 TCGA-BR-6457 TCGA-BR-6458 
        5.62         0.10         0.95         1.41         1.35         1.35 
TCGA-BR-6564 TCGA-BR-6565 TCGA-BR-6566 TCGA-BR-6705 TCGA-BR-6706 TCGA-BR-6707 
        0.82         0.62         0.62         1.71         2.17         0.99 
TCGA-BR-6801 TCGA-BR-6802 TCGA-BR-6803 TCGA-BR-6852 TCGA-BR-7196 TCGA-BR-7197 
        1.12         0.76         0.66         0.26         1.22         1.48 
TCGA-BR-7703 TCGA-BR-7707 TCGA-BR-7715 TCGA-BR-7716 TCGA-BR-7717 TCGA-BR-7722 
        0.46         0.13         1.05         0.82         0.69         0.16 
TCGA-BR-7723 TCGA-BR-7851 TCGA-BR-7901 TCGA-BR-7957 TCGA-BR-8059 TCGA-BR-8077 
        4.54         0.99         0.95         0.69         0.82         0.69 
TCGA-BR-8080 TCGA-BR-8081 TCGA-BR-8284 TCGA-BR-8295 TCGA-BR-8296 TCGA-BR-8676 
        0.49         0.46         0.72         1.55         1.48         0.89 
TCGA-BR-8682 TCGA-BR-8690 TCGA-BR-A4IV TCGA-BR-A4IY TCGA-BR-A4IZ TCGA-BR-A4J1 
        1.64         0.59         0.92         0.39         0.79         0.72 
TCGA-BR-A4J4 TCGA-BR-A4J6 TCGA-BR-A4J8 TCGA-BR-A4QI TCGA-BR-A4QL TCGA-CD-5798 
        0.53         0.13         0.23         0.49         2.24         0.82 
TCGA-CD-5799 TCGA-CD-5800 TCGA-CD-5801 TCGA-CD-5802 TCGA-CD-5803 TCGA-CD-5813 
        0.69         0.36         0.49         0.30         0.07         0.39 
TCGA-CG-4300 TCGA-CG-4301 TCGA-CG-4304 TCGA-CG-4305 TCGA-CG-4306 TCGA-CG-4436 
       20.02         3.02        27.02        15.95         1.02         7.96 
TCGA-CG-4437 TCGA-CG-4438 TCGA-CG-4440 TCGA-CG-4441 TCGA-CG-4443 TCGA-CG-4449 
        8.05        54.05         4.01        14.01        29.98        19.07 
TCGA-CG-4455 TCGA-CG-4465 TCGA-CG-4466 TCGA-CG-4469 TCGA-CG-4477 TCGA-CG-5717 
       12.03         8.98        18.94         7.07         1.02         6.94 
TCGA-CG-5718 TCGA-CG-5719 TCGA-CG-5720 TCGA-CG-5721 TCGA-CG-5722 TCGA-CG-5723 
        1.02         1.02         0.99         5.98         0.95        70.06 
TCGA-CG-5724 TCGA-CG-5726 TCGA-CG-5727 TCGA-CG-5728 TCGA-CG-5730 TCGA-CG-5732 
       12.03        28.96        31.04        65.10         4.01        55.04 
TCGA-CG-5733 TCGA-CG-5734 TCGA-D7-5577 TCGA-D7-5578 TCGA-D7-5579 TCGA-D7-6518 
       21.07         7.99         8.65         3.58         4.54         9.80 
TCGA-D7-6519 TCGA-D7-6520 TCGA-D7-6521 TCGA-D7-6522 TCGA-D7-6524 TCGA-D7-6525 
       15.65         9.63         8.19         6.90         0.69         5.95 
TCGA-D7-6526 TCGA-D7-6527 TCGA-D7-6528 TCGA-D7-6815 TCGA-D7-6817 TCGA-D7-6818 
        6.61         4.14         1.68         3.65         0.79         4.04 
TCGA-D7-6820 TCGA-EQ-5647 TCGA-F1-6177 TCGA-F1-6875 TCGA-FP-7735 TCGA-FP-7829 
        2.93         0.62         6.54        72.23         0.39         0.20 
TCGA-FP-7916 TCGA-FP-7998 TCGA-FP-8099 TCGA-FP-8209 TCGA-HJ-7597 TCGA-IN-7806 
        3.02         3.58         1.02        59.05        26.43         6.87 
TCGA-IN-7808 TCGA-IP-7968 
        3.55         2.53 

  FAM46D MUTATED FAM46D WILD-TYPE 
            0.85             0.07 
  FAM46D MUTATED FAM46D WILD-TYPE 
           47.05            72.23 
  FAM46D MUTATED FAM46D WILD-TYPE 
            3.14             1.48 
[1] "0.8 - 47.0 (3.1)" "0.1 - 72.2 (1.5)"
      TCGA-B7-5816       TCGA-B7-5818       TCGA-BR-6452       TCGA-BR-6455 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-BR-6457       TCGA-BR-6458       TCGA-BR-6563       TCGA-BR-6564 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE"   "FAM46D MUTATED" "FAM46D WILD-TYPE" 
      TCGA-BR-6565       TCGA-BR-6566       TCGA-BR-6705       TCGA-BR-6706 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-BR-6707       TCGA-BR-6801       TCGA-BR-6802       TCGA-BR-6803 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-BR-6852       TCGA-BR-7196       TCGA-BR-7197       TCGA-BR-7703 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-BR-7707       TCGA-BR-7715       TCGA-BR-7716       TCGA-BR-7717 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-BR-7722       TCGA-BR-7723       TCGA-BR-7851       TCGA-BR-7901 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-BR-7957       TCGA-BR-8059       TCGA-BR-8077       TCGA-BR-8080 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-BR-8081       TCGA-BR-8284       TCGA-BR-8295       TCGA-BR-8296 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-BR-8676       TCGA-BR-8682       TCGA-BR-8690       TCGA-BR-A4IV 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-BR-A4IY       TCGA-BR-A4IZ       TCGA-BR-A4J1       TCGA-BR-A4J4 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-BR-A4J6       TCGA-BR-A4J8       TCGA-BR-A4QI       TCGA-BR-A4QL 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-CD-5798       TCGA-CD-5799       TCGA-CD-5800       TCGA-CD-5801 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-CD-5802       TCGA-CD-5803       TCGA-CD-5813       TCGA-CG-4300 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-CG-4301       TCGA-CG-4304       TCGA-CG-4305       TCGA-CG-4306 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-CG-4436       TCGA-CG-4437       TCGA-CG-4438       TCGA-CG-4440 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-CG-4441       TCGA-CG-4443       TCGA-CG-4444       TCGA-CG-4449 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE"   "FAM46D MUTATED" "FAM46D WILD-TYPE" 
      TCGA-CG-4455       TCGA-CG-4465       TCGA-CG-4466       TCGA-CG-4469 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-CG-4477       TCGA-CG-5717       TCGA-CG-5718       TCGA-CG-5719 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-CG-5720       TCGA-CG-5721       TCGA-CG-5722       TCGA-CG-5723 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-CG-5724       TCGA-CG-5726       TCGA-CG-5727       TCGA-CG-5728 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-CG-5730       TCGA-CG-5732       TCGA-CG-5733       TCGA-CG-5734 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-D7-5577       TCGA-D7-5578       TCGA-D7-5579       TCGA-D7-6518 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-D7-6519       TCGA-D7-6520       TCGA-D7-6521       TCGA-D7-6522 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-D7-6524       TCGA-D7-6525       TCGA-D7-6526       TCGA-D7-6527 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-D7-6528       TCGA-D7-6815       TCGA-D7-6817       TCGA-D7-6818 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-D7-6820       TCGA-D7-6822       TCGA-EQ-5647       TCGA-F1-6177 
"FAM46D WILD-TYPE"   "FAM46D MUTATED" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-F1-6874       TCGA-F1-6875       TCGA-FP-7735       TCGA-FP-7829 
  "FAM46D MUTATED" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-FP-7916       TCGA-FP-7998       TCGA-FP-8099       TCGA-FP-8209 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-HJ-7597       TCGA-IN-7806       TCGA-IN-7808       TCGA-IP-7968 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-B7-5816       TCGA-B7-5818       TCGA-BR-6452       TCGA-BR-6455 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-BR-6457       TCGA-BR-6458       TCGA-BR-6563       TCGA-BR-6564 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE"   "FAM46D MUTATED" "FAM46D WILD-TYPE" 
      TCGA-BR-6565       TCGA-BR-6566       TCGA-BR-6705       TCGA-BR-6706 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-BR-6707       TCGA-BR-6801       TCGA-BR-6802       TCGA-BR-6803 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-BR-6852       TCGA-BR-7196       TCGA-BR-7197       TCGA-BR-7703 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-BR-7707       TCGA-BR-7715       TCGA-BR-7716       TCGA-BR-7717 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-BR-7722       TCGA-BR-7723       TCGA-BR-7851       TCGA-BR-7901 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-BR-7957       TCGA-BR-8059       TCGA-BR-8077       TCGA-BR-8080 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-BR-8081       TCGA-BR-8284       TCGA-BR-8295       TCGA-BR-8296 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-BR-8676       TCGA-BR-8682       TCGA-BR-8690       TCGA-BR-A4IV 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-BR-A4IY       TCGA-BR-A4IZ       TCGA-BR-A4J1       TCGA-BR-A4J4 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-BR-A4J6       TCGA-BR-A4J8       TCGA-BR-A4QI       TCGA-BR-A4QL 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-CD-5798       TCGA-CD-5799       TCGA-CD-5800       TCGA-CD-5801 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-CD-5802       TCGA-CD-5803       TCGA-CD-5813       TCGA-CG-4300 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-CG-4301       TCGA-CG-4304       TCGA-CG-4305       TCGA-CG-4306 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-CG-4436       TCGA-CG-4437       TCGA-CG-4438       TCGA-CG-4440 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-CG-4441       TCGA-CG-4443       TCGA-CG-4444       TCGA-CG-4449 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE"   "FAM46D MUTATED" "FAM46D WILD-TYPE" 
      TCGA-CG-4455       TCGA-CG-4465       TCGA-CG-4466       TCGA-CG-4469 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-CG-4477       TCGA-CG-5717       TCGA-CG-5718       TCGA-CG-5719 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-CG-5720       TCGA-CG-5721       TCGA-CG-5722       TCGA-CG-5723 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-CG-5724       TCGA-CG-5726       TCGA-CG-5727       TCGA-CG-5728 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-CG-5730       TCGA-CG-5732       TCGA-CG-5733       TCGA-CG-5734 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-D7-5577       TCGA-D7-5578       TCGA-D7-5579       TCGA-D7-6518 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-D7-6519       TCGA-D7-6520       TCGA-D7-6521       TCGA-D7-6522 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-D7-6524       TCGA-D7-6525       TCGA-D7-6526       TCGA-D7-6527 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-D7-6528       TCGA-D7-6815       TCGA-D7-6817       TCGA-D7-6818 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-D7-6820       TCGA-D7-6822       TCGA-EQ-5647       TCGA-F1-6177 
"FAM46D WILD-TYPE"   "FAM46D MUTATED" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-F1-6874       TCGA-F1-6875       TCGA-FP-7735       TCGA-FP-7829 
  "FAM46D MUTATED" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-FP-7916       TCGA-FP-7998       TCGA-FP-8099       TCGA-FP-8209 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-HJ-7597       TCGA-IN-7806       TCGA-IN-7808       TCGA-IP-7968 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-B7-5816       TCGA-B7-5818       TCGA-BR-6452       TCGA-BR-6455 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-BR-6457       TCGA-BR-6458       TCGA-BR-6563       TCGA-BR-6564 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE"   "FAM46D MUTATED" "FAM46D WILD-TYPE" 
      TCGA-BR-6565       TCGA-BR-6566       TCGA-BR-6705       TCGA-BR-6706 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-BR-6707       TCGA-BR-6801       TCGA-BR-6802       TCGA-BR-6803 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-BR-6852       TCGA-BR-7196       TCGA-BR-7197       TCGA-BR-7703 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-BR-7707       TCGA-BR-7715       TCGA-BR-7716       TCGA-BR-7717 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-BR-7722       TCGA-BR-7723       TCGA-BR-7851       TCGA-BR-7901 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-BR-7957       TCGA-BR-8059       TCGA-BR-8077       TCGA-BR-8080 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-BR-8081       TCGA-BR-8284       TCGA-BR-8295       TCGA-BR-8296 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-BR-8676       TCGA-BR-8682       TCGA-BR-8690       TCGA-BR-A4IV 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-BR-A4IY       TCGA-BR-A4IZ       TCGA-BR-A4J1       TCGA-BR-A4J4 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-BR-A4J6       TCGA-BR-A4J8       TCGA-BR-A4QI       TCGA-BR-A4QL 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-CD-5798       TCGA-CD-5799       TCGA-CD-5800       TCGA-CD-5801 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-CD-5802       TCGA-CD-5803       TCGA-CD-5813       TCGA-CG-4300 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-CG-4301       TCGA-CG-4304       TCGA-CG-4305       TCGA-CG-4306 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-CG-4436       TCGA-CG-4437       TCGA-CG-4438       TCGA-CG-4440 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-CG-4441       TCGA-CG-4443       TCGA-CG-4444       TCGA-CG-4449 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE"   "FAM46D MUTATED" "FAM46D WILD-TYPE" 
      TCGA-CG-4455       TCGA-CG-4465       TCGA-CG-4466       TCGA-CG-4469 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-CG-4477       TCGA-CG-5717       TCGA-CG-5718       TCGA-CG-5719 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-CG-5720       TCGA-CG-5721       TCGA-CG-5722       TCGA-CG-5723 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-CG-5724       TCGA-CG-5726       TCGA-CG-5727       TCGA-CG-5728 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-CG-5730       TCGA-CG-5732       TCGA-CG-5733       TCGA-CG-5734 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-D7-5577       TCGA-D7-5578       TCGA-D7-5579       TCGA-D7-6518 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-D7-6519       TCGA-D7-6520       TCGA-D7-6521       TCGA-D7-6522 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-D7-6524       TCGA-D7-6525       TCGA-D7-6526       TCGA-D7-6527 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-D7-6528       TCGA-D7-6815       TCGA-D7-6817       TCGA-D7-6818 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-D7-6820       TCGA-D7-6822       TCGA-EQ-5647       TCGA-F1-6177 
"FAM46D WILD-TYPE"   "FAM46D MUTATED" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-F1-6874       TCGA-F1-6875       TCGA-FP-7735       TCGA-FP-7829 
  "FAM46D MUTATED" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-FP-7916       TCGA-FP-7998       TCGA-FP-8099       TCGA-FP-8209 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
      TCGA-HJ-7597       TCGA-IN-7806       TCGA-IN-7808       TCGA-IP-7968 
"FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" "FAM46D WILD-TYPE" 
[1] "hr="     "7.2e+07"
D17V2, continuous
D17V3, binary
                  cls
clus                0  1
  FAM46D MUTATED    1  4
  FAM46D WILD-TYPE 62 89
[1] "tbl2"
                  cls
clus               [,1] [,2]
  FAM46D MUTATED      1    4
  FAM46D WILD-TYPE   62   89
        clus
vv       FAM46D MUTATED FAM46D WILD-TYPE
  FEMALE              1               62
  MALE                4               89
                  vv
clus               STOMACH  ADENOCARCINOMA  DIFFUSE TYPE
  FAM46D MUTATED                                       1
  FAM46D WILD-TYPE                                    22
                  vv
clus               STOMACH  ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  FAM46D MUTATED                                                        2
  FAM46D WILD-TYPE                                                     76
                  vv
clus               STOMACH  INTESTINAL ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  FAM46D MUTATED                                                                   1
  FAM46D WILD-TYPE                                                                29
                  vv
clus               STOMACH  INTESTINAL ADENOCARCINOMA  TUBULAR TYPE
  FAM46D MUTATED                                                  1
  FAM46D WILD-TYPE                                                9
                  vv
clus               STOMACH  INTESTINAL ADENOCARCINOMA \302\240MUCINOUS TYPE
  FAM46D MUTATED                                                          0
  FAM46D WILD-TYPE                                                       10
                  vv
clus               STOMACH  INTESTINAL ADENOCARCINOMA \302\240PAPILLARY TYPE
  FAM46D MUTATED                                                           0
  FAM46D WILD-TYPE                                                         3
                  vv
clus               STOMACH ADENOCARCINOMA  SIGNET RING TYPE
  FAM46D MUTATED                                          0
  FAM46D WILD-TYPE                                        1
D17V4, multiclass
D17V5, binary
                  cls
clus                 0   1
  FAM46D MUTATED     0   5
  FAM46D WILD-TYPE   6 145
[1] "tbl2"
                  cls
clus               [,1] [,2]
  FAM46D MUTATED      0    5
  FAM46D WILD-TYPE    6  145
     clus
vv    FAM46D MUTATED FAM46D WILD-TYPE
  NO               0                6
  YES              5              145
                  vv
clus                M0  M1  MX
  FAM46D MUTATED     5   0   0
  FAM46D WILD-TYPE 127  14  10
D17V6, multiclass
    clus
vv   FAM46D MUTATED FAM46D WILD-TYPE
  M0              5              127
  M1              0               14
  MX              0               10
                  vv
clus               N0 N1 N2 N3 N3A NX
  FAM46D MUTATED    2  2  1  0   0  0
  FAM46D WILD-TYPE 47 47 24 14   8 11
D17V7, multiclass
                  vv
clus                R0  R1  R2  RX
  FAM46D MUTATED     5   0   0   0
  FAM46D WILD-TYPE 101   6  10  24
D17V8, multiclass
    clus
vv   FAM46D MUTATED FAM46D WILD-TYPE
  R0              5              101
  R1              0                6
  R2              0               10
  RX              0               24
D17V9, continuous
D17V10, continuous
                  vv
clus               STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB
  FAM46D MUTATED         0        0        2        0         1         0
  FAM46D WILD-TYPE       1        5       14       27         6        10
                  vv
clus               STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  FAM46D MUTATED           0          2          0          0        0
  FAM46D WILD-TYPE         4         28         12          6       23
D17V11, multiclass

Clustering(18) Variable = RNF43 MUTATION ANALYSIS
D18V1, survival
                 sevent
clus2               0   1
  RNF43 MUTATED     0   4
  RNF43 WILD-TYPE 103  13
  RNF43 MUTATED RNF43 WILD-TYPE 
              4             116 
  RNF43 MUTATED RNF43 WILD-TYPE 
              4              13 
$`RNF43 MUTATED`
TCGA-CG-4469 TCGA-CG-5720 TCGA-CG-5733 TCGA-HJ-7597 
        7.07         0.99        21.07        26.43 

$`RNF43 WILD-TYPE`
TCGA-B7-5816 TCGA-B7-5818 TCGA-BR-6452 TCGA-BR-6455 TCGA-BR-6457 TCGA-BR-6458 
        5.62         0.10         0.95         1.41         1.35         1.35 
TCGA-BR-6563 TCGA-BR-6564 TCGA-BR-6565 TCGA-BR-6566 TCGA-BR-6705 TCGA-BR-6706 
        0.85         0.82         0.62         0.62         1.71         2.17 
TCGA-BR-6707 TCGA-BR-6801 TCGA-BR-6802 TCGA-BR-6803 TCGA-BR-6852 TCGA-BR-7196 
        0.99         1.12         0.76         0.66         0.26         1.22 
TCGA-BR-7197 TCGA-BR-7703 TCGA-BR-7707 TCGA-BR-7715 TCGA-BR-7716 TCGA-BR-7717 
        1.48         0.46         0.13         1.05         0.82         0.69 
TCGA-BR-7722 TCGA-BR-7723 TCGA-BR-7851 TCGA-BR-7901 TCGA-BR-7957 TCGA-BR-8059 
        0.16         4.54         0.99         0.95         0.69         0.82 
TCGA-BR-8077 TCGA-BR-8080 TCGA-BR-8081 TCGA-BR-8284 TCGA-BR-8295 TCGA-BR-8296 
        0.69         0.49         0.46         0.72         1.55         1.48 
TCGA-BR-8676 TCGA-BR-8682 TCGA-BR-8690 TCGA-BR-A4IV TCGA-BR-A4IY TCGA-BR-A4IZ 
        0.89         1.64         0.59         0.92         0.39         0.79 
TCGA-BR-A4J1 TCGA-BR-A4J4 TCGA-BR-A4J6 TCGA-BR-A4J8 TCGA-BR-A4QI TCGA-BR-A4QL 
        0.72         0.53         0.13         0.23         0.49         2.24 
TCGA-CD-5798 TCGA-CD-5799 TCGA-CD-5800 TCGA-CD-5801 TCGA-CD-5802 TCGA-CD-5803 
        0.82         0.69         0.36         0.49         0.30         0.07 
TCGA-CD-5813 TCGA-CG-4300 TCGA-CG-4301 TCGA-CG-4304 TCGA-CG-4305 TCGA-CG-4306 
        0.39        20.02         3.02        27.02        15.95         1.02 
TCGA-CG-4436 TCGA-CG-4437 TCGA-CG-4438 TCGA-CG-4440 TCGA-CG-4441 TCGA-CG-4443 
        7.96         8.05        54.05         4.01        14.01        29.98 
TCGA-CG-4444 TCGA-CG-4449 TCGA-CG-4455 TCGA-CG-4465 TCGA-CG-4466 TCGA-CG-4477 
       47.05        19.07        12.03         8.98        18.94         1.02 
TCGA-CG-5717 TCGA-CG-5718 TCGA-CG-5719 TCGA-CG-5721 TCGA-CG-5722 TCGA-CG-5723 
        6.94         1.02         1.02         5.98         0.95        70.06 
TCGA-CG-5724 TCGA-CG-5726 TCGA-CG-5727 TCGA-CG-5728 TCGA-CG-5730 TCGA-CG-5732 
       12.03        28.96        31.04        65.10         4.01        55.04 
TCGA-CG-5734 TCGA-D7-5577 TCGA-D7-5578 TCGA-D7-5579 TCGA-D7-6518 TCGA-D7-6519 
        7.99         8.65         3.58         4.54         9.80        15.65 
TCGA-D7-6520 TCGA-D7-6521 TCGA-D7-6522 TCGA-D7-6524 TCGA-D7-6525 TCGA-D7-6526 
        9.63         8.19         6.90         0.69         5.95         6.61 
TCGA-D7-6527 TCGA-D7-6528 TCGA-D7-6815 TCGA-D7-6817 TCGA-D7-6818 TCGA-D7-6820 
        4.14         1.68         3.65         0.79         4.04         2.93 
TCGA-D7-6822 TCGA-EQ-5647 TCGA-F1-6177 TCGA-F1-6874 TCGA-F1-6875 TCGA-FP-7735 
        4.27         0.62         6.54         2.01        72.23         0.39 
TCGA-FP-7829 TCGA-FP-7916 TCGA-FP-7998 TCGA-FP-8099 TCGA-FP-8209 TCGA-IN-7806 
        0.20         3.02         3.58         1.02        59.05         6.87 
TCGA-IN-7808 TCGA-IP-7968 
        3.55         2.53 

  RNF43 MUTATED RNF43 WILD-TYPE 
           0.99            0.07 
  RNF43 MUTATED RNF43 WILD-TYPE 
          26.43           72.23 
  RNF43 MUTATED RNF43 WILD-TYPE 
          14.07            1.48 
[1] "1.0 - 26.4 (14.1)" "0.1 - 72.2 (1.5)" 
     TCGA-B7-5816      TCGA-B7-5818      TCGA-BR-6452      TCGA-BR-6455 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-BR-6457      TCGA-BR-6458      TCGA-BR-6563      TCGA-BR-6564 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-BR-6565      TCGA-BR-6566      TCGA-BR-6705      TCGA-BR-6706 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-BR-6707      TCGA-BR-6801      TCGA-BR-6802      TCGA-BR-6803 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-BR-6852      TCGA-BR-7196      TCGA-BR-7197      TCGA-BR-7703 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-BR-7707      TCGA-BR-7715      TCGA-BR-7716      TCGA-BR-7717 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-BR-7722      TCGA-BR-7723      TCGA-BR-7851      TCGA-BR-7901 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-BR-7957      TCGA-BR-8059      TCGA-BR-8077      TCGA-BR-8080 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-BR-8081      TCGA-BR-8284      TCGA-BR-8295      TCGA-BR-8296 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-BR-8676      TCGA-BR-8682      TCGA-BR-8690      TCGA-BR-A4IV 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-BR-A4IY      TCGA-BR-A4IZ      TCGA-BR-A4J1      TCGA-BR-A4J4 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-BR-A4J6      TCGA-BR-A4J8      TCGA-BR-A4QI      TCGA-BR-A4QL 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-CD-5798      TCGA-CD-5799      TCGA-CD-5800      TCGA-CD-5801 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-CD-5802      TCGA-CD-5803      TCGA-CD-5813      TCGA-CG-4300 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-CG-4301      TCGA-CG-4304      TCGA-CG-4305      TCGA-CG-4306 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-CG-4436      TCGA-CG-4437      TCGA-CG-4438      TCGA-CG-4440 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-CG-4441      TCGA-CG-4443      TCGA-CG-4444      TCGA-CG-4449 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-CG-4455      TCGA-CG-4465      TCGA-CG-4466      TCGA-CG-4469 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE"   "RNF43 MUTATED" 
     TCGA-CG-4477      TCGA-CG-5717      TCGA-CG-5718      TCGA-CG-5719 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-CG-5720      TCGA-CG-5721      TCGA-CG-5722      TCGA-CG-5723 
  "RNF43 MUTATED" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-CG-5724      TCGA-CG-5726      TCGA-CG-5727      TCGA-CG-5728 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-CG-5730      TCGA-CG-5732      TCGA-CG-5733      TCGA-CG-5734 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE"   "RNF43 MUTATED" "RNF43 WILD-TYPE" 
     TCGA-D7-5577      TCGA-D7-5578      TCGA-D7-5579      TCGA-D7-6518 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-D7-6519      TCGA-D7-6520      TCGA-D7-6521      TCGA-D7-6522 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-D7-6524      TCGA-D7-6525      TCGA-D7-6526      TCGA-D7-6527 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-D7-6528      TCGA-D7-6815      TCGA-D7-6817      TCGA-D7-6818 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-D7-6820      TCGA-D7-6822      TCGA-EQ-5647      TCGA-F1-6177 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-F1-6874      TCGA-F1-6875      TCGA-FP-7735      TCGA-FP-7829 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-FP-7916      TCGA-FP-7998      TCGA-FP-8099      TCGA-FP-8209 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-HJ-7597      TCGA-IN-7806      TCGA-IN-7808      TCGA-IP-7968 
  "RNF43 MUTATED" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-B7-5816      TCGA-B7-5818      TCGA-BR-6452      TCGA-BR-6455 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-BR-6457      TCGA-BR-6458      TCGA-BR-6563      TCGA-BR-6564 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-BR-6565      TCGA-BR-6566      TCGA-BR-6705      TCGA-BR-6706 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-BR-6707      TCGA-BR-6801      TCGA-BR-6802      TCGA-BR-6803 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-BR-6852      TCGA-BR-7196      TCGA-BR-7197      TCGA-BR-7703 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-BR-7707      TCGA-BR-7715      TCGA-BR-7716      TCGA-BR-7717 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-BR-7722      TCGA-BR-7723      TCGA-BR-7851      TCGA-BR-7901 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-BR-7957      TCGA-BR-8059      TCGA-BR-8077      TCGA-BR-8080 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-BR-8081      TCGA-BR-8284      TCGA-BR-8295      TCGA-BR-8296 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-BR-8676      TCGA-BR-8682      TCGA-BR-8690      TCGA-BR-A4IV 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-BR-A4IY      TCGA-BR-A4IZ      TCGA-BR-A4J1      TCGA-BR-A4J4 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-BR-A4J6      TCGA-BR-A4J8      TCGA-BR-A4QI      TCGA-BR-A4QL 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-CD-5798      TCGA-CD-5799      TCGA-CD-5800      TCGA-CD-5801 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-CD-5802      TCGA-CD-5803      TCGA-CD-5813      TCGA-CG-4300 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-CG-4301      TCGA-CG-4304      TCGA-CG-4305      TCGA-CG-4306 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-CG-4436      TCGA-CG-4437      TCGA-CG-4438      TCGA-CG-4440 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-CG-4441      TCGA-CG-4443      TCGA-CG-4444      TCGA-CG-4449 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-CG-4455      TCGA-CG-4465      TCGA-CG-4466      TCGA-CG-4469 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE"   "RNF43 MUTATED" 
     TCGA-CG-4477      TCGA-CG-5717      TCGA-CG-5718      TCGA-CG-5719 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-CG-5720      TCGA-CG-5721      TCGA-CG-5722      TCGA-CG-5723 
  "RNF43 MUTATED" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-CG-5724      TCGA-CG-5726      TCGA-CG-5727      TCGA-CG-5728 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-CG-5730      TCGA-CG-5732      TCGA-CG-5733      TCGA-CG-5734 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE"   "RNF43 MUTATED" "RNF43 WILD-TYPE" 
     TCGA-D7-5577      TCGA-D7-5578      TCGA-D7-5579      TCGA-D7-6518 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-D7-6519      TCGA-D7-6520      TCGA-D7-6521      TCGA-D7-6522 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-D7-6524      TCGA-D7-6525      TCGA-D7-6526      TCGA-D7-6527 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-D7-6528      TCGA-D7-6815      TCGA-D7-6817      TCGA-D7-6818 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-D7-6820      TCGA-D7-6822      TCGA-EQ-5647      TCGA-F1-6177 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-F1-6874      TCGA-F1-6875      TCGA-FP-7735      TCGA-FP-7829 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-FP-7916      TCGA-FP-7998      TCGA-FP-8099      TCGA-FP-8209 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-HJ-7597      TCGA-IN-7806      TCGA-IN-7808      TCGA-IP-7968 
  "RNF43 MUTATED" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-B7-5816      TCGA-B7-5818      TCGA-BR-6452      TCGA-BR-6455 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-BR-6457      TCGA-BR-6458      TCGA-BR-6563      TCGA-BR-6564 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-BR-6565      TCGA-BR-6566      TCGA-BR-6705      TCGA-BR-6706 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-BR-6707      TCGA-BR-6801      TCGA-BR-6802      TCGA-BR-6803 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-BR-6852      TCGA-BR-7196      TCGA-BR-7197      TCGA-BR-7703 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-BR-7707      TCGA-BR-7715      TCGA-BR-7716      TCGA-BR-7717 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-BR-7722      TCGA-BR-7723      TCGA-BR-7851      TCGA-BR-7901 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-BR-7957      TCGA-BR-8059      TCGA-BR-8077      TCGA-BR-8080 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-BR-8081      TCGA-BR-8284      TCGA-BR-8295      TCGA-BR-8296 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-BR-8676      TCGA-BR-8682      TCGA-BR-8690      TCGA-BR-A4IV 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-BR-A4IY      TCGA-BR-A4IZ      TCGA-BR-A4J1      TCGA-BR-A4J4 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-BR-A4J6      TCGA-BR-A4J8      TCGA-BR-A4QI      TCGA-BR-A4QL 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-CD-5798      TCGA-CD-5799      TCGA-CD-5800      TCGA-CD-5801 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-CD-5802      TCGA-CD-5803      TCGA-CD-5813      TCGA-CG-4300 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-CG-4301      TCGA-CG-4304      TCGA-CG-4305      TCGA-CG-4306 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-CG-4436      TCGA-CG-4437      TCGA-CG-4438      TCGA-CG-4440 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-CG-4441      TCGA-CG-4443      TCGA-CG-4444      TCGA-CG-4449 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-CG-4455      TCGA-CG-4465      TCGA-CG-4466      TCGA-CG-4469 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE"   "RNF43 MUTATED" 
     TCGA-CG-4477      TCGA-CG-5717      TCGA-CG-5718      TCGA-CG-5719 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-CG-5720      TCGA-CG-5721      TCGA-CG-5722      TCGA-CG-5723 
  "RNF43 MUTATED" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-CG-5724      TCGA-CG-5726      TCGA-CG-5727      TCGA-CG-5728 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-CG-5730      TCGA-CG-5732      TCGA-CG-5733      TCGA-CG-5734 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE"   "RNF43 MUTATED" "RNF43 WILD-TYPE" 
     TCGA-D7-5577      TCGA-D7-5578      TCGA-D7-5579      TCGA-D7-6518 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-D7-6519      TCGA-D7-6520      TCGA-D7-6521      TCGA-D7-6522 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-D7-6524      TCGA-D7-6525      TCGA-D7-6526      TCGA-D7-6527 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-D7-6528      TCGA-D7-6815      TCGA-D7-6817      TCGA-D7-6818 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-D7-6820      TCGA-D7-6822      TCGA-EQ-5647      TCGA-F1-6177 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-F1-6874      TCGA-F1-6875      TCGA-FP-7735      TCGA-FP-7829 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-FP-7916      TCGA-FP-7998      TCGA-FP-8099      TCGA-FP-8209 
"RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
     TCGA-HJ-7597      TCGA-IN-7806      TCGA-IN-7808      TCGA-IP-7968 
  "RNF43 MUTATED" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" "RNF43 WILD-TYPE" 
[1] "hr=" "4.5"
D18V2, continuous
D18V3, binary
                 cls
clus               0  1
  RNF43 MUTATED    4  2
  RNF43 WILD-TYPE 59 91
[1] "tbl2"
                 cls
clus              [,1] [,2]
  RNF43 MUTATED      4    2
  RNF43 WILD-TYPE   59   91
        clus
vv       RNF43 MUTATED RNF43 WILD-TYPE
  FEMALE             4              59
  MALE               2              91
                 vv
clus              STOMACH  ADENOCARCINOMA  DIFFUSE TYPE
  RNF43 MUTATED                                       0
  RNF43 WILD-TYPE                                    23
                 vv
clus              STOMACH  ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  RNF43 MUTATED                                                        3
  RNF43 WILD-TYPE                                                     75
                 vv
clus              STOMACH  INTESTINAL ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  RNF43 MUTATED                                                                   2
  RNF43 WILD-TYPE                                                                28
                 vv
clus              STOMACH  INTESTINAL ADENOCARCINOMA  TUBULAR TYPE
  RNF43 MUTATED                                                  0
  RNF43 WILD-TYPE                                               10
                 vv
clus              STOMACH  INTESTINAL ADENOCARCINOMA \302\240MUCINOUS TYPE
  RNF43 MUTATED                                                          0
  RNF43 WILD-TYPE                                                       10
                 vv
clus              STOMACH  INTESTINAL ADENOCARCINOMA \302\240PAPILLARY TYPE
  RNF43 MUTATED                                                           0
  RNF43 WILD-TYPE                                                         3
                 vv
clus              STOMACH ADENOCARCINOMA  SIGNET RING TYPE
  RNF43 MUTATED                                          1
  RNF43 WILD-TYPE                                        0
D18V4, multiclass
D18V5, binary
                 cls
clus                0   1
  RNF43 MUTATED     0   6
  RNF43 WILD-TYPE   6 144
[1] "tbl2"
                 cls
clus              [,1] [,2]
  RNF43 MUTATED      0    6
  RNF43 WILD-TYPE    6  144
     clus
vv    RNF43 MUTATED RNF43 WILD-TYPE
  NO              0               6
  YES             6             144
                 vv
clus               M0  M1  MX
  RNF43 MUTATED     5   0   1
  RNF43 WILD-TYPE 127  14   9
D18V6, multiclass
    clus
vv   RNF43 MUTATED RNF43 WILD-TYPE
  M0             5             127
  M1             0              14
  MX             1               9
                 vv
clus              N0 N1 N2 N3 N3A NX
  RNF43 MUTATED    2  0  2  1   0  1
  RNF43 WILD-TYPE 47 49 23 13   8 10
D18V7, multiclass
                 vv
clus               R0  R1  R2  RX
  RNF43 MUTATED     3   1   0   2
  RNF43 WILD-TYPE 103   5  10  22
D18V8, multiclass
    clus
vv   RNF43 MUTATED RNF43 WILD-TYPE
  R0             3             103
  R1             1               5
  R2             0              10
  RX             2              22
D18V9, continuous
D18V10, continuous
                 vv
clus              STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB
  RNF43 MUTATED         0        0        2        0         0         0
  RNF43 WILD-TYPE       1        5       14       27         7        10
                 vv
clus              STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  RNF43 MUTATED           0          1          0          0        2
  RNF43 WILD-TYPE         4         29         12          6       21
D18V11, multiclass

Clustering(19) Variable = APC MUTATION ANALYSIS
D19V1, survival
               sevent
clus2            0  1
  APC MUTATED   11  6
  APC WILD-TYPE 92 11
  APC MUTATED APC WILD-TYPE 
           17           103 
  APC MUTATED APC WILD-TYPE 
            6            11 
$`APC MUTATED`
TCGA-BR-6452 TCGA-BR-6563 TCGA-BR-6565 TCGA-BR-6566 TCGA-BR-7197 TCGA-BR-7703 
        0.95         0.85         0.62         0.62         1.48         0.46 
TCGA-BR-8081 TCGA-CG-4306 TCGA-CG-4465 TCGA-CG-4469 TCGA-CG-5718 TCGA-CG-5721 
        0.46         1.02         8.98         7.07         1.02         5.98 
TCGA-CG-5726 TCGA-CG-5733 TCGA-D7-6528 TCGA-F1-6875 TCGA-FP-7735 
       28.96        21.07         1.68        72.23         0.39 

$`APC WILD-TYPE`
TCGA-B7-5816 TCGA-B7-5818 TCGA-BR-6455 TCGA-BR-6457 TCGA-BR-6458 TCGA-BR-6564 
        5.62         0.10         1.41         1.35         1.35         0.82 
TCGA-BR-6705 TCGA-BR-6706 TCGA-BR-6707 TCGA-BR-6801 TCGA-BR-6802 TCGA-BR-6803 
        1.71         2.17         0.99         1.12         0.76         0.66 
TCGA-BR-6852 TCGA-BR-7196 TCGA-BR-7707 TCGA-BR-7715 TCGA-BR-7716 TCGA-BR-7717 
        0.26         1.22         0.13         1.05         0.82         0.69 
TCGA-BR-7722 TCGA-BR-7723 TCGA-BR-7851 TCGA-BR-7901 TCGA-BR-7957 TCGA-BR-8059 
        0.16         4.54         0.99         0.95         0.69         0.82 
TCGA-BR-8077 TCGA-BR-8080 TCGA-BR-8284 TCGA-BR-8295 TCGA-BR-8296 TCGA-BR-8676 
        0.69         0.49         0.72         1.55         1.48         0.89 
TCGA-BR-8682 TCGA-BR-8690 TCGA-BR-A4IV TCGA-BR-A4IY TCGA-BR-A4IZ TCGA-BR-A4J1 
        1.64         0.59         0.92         0.39         0.79         0.72 
TCGA-BR-A4J4 TCGA-BR-A4J6 TCGA-BR-A4J8 TCGA-BR-A4QI TCGA-BR-A4QL TCGA-CD-5798 
        0.53         0.13         0.23         0.49         2.24         0.82 
TCGA-CD-5799 TCGA-CD-5800 TCGA-CD-5801 TCGA-CD-5802 TCGA-CD-5803 TCGA-CD-5813 
        0.69         0.36         0.49         0.30         0.07         0.39 
TCGA-CG-4300 TCGA-CG-4301 TCGA-CG-4304 TCGA-CG-4305 TCGA-CG-4436 TCGA-CG-4437 
       20.02         3.02        27.02        15.95         7.96         8.05 
TCGA-CG-4438 TCGA-CG-4440 TCGA-CG-4441 TCGA-CG-4443 TCGA-CG-4444 TCGA-CG-4449 
       54.05         4.01        14.01        29.98        47.05        19.07 
TCGA-CG-4455 TCGA-CG-4466 TCGA-CG-4477 TCGA-CG-5717 TCGA-CG-5719 TCGA-CG-5720 
       12.03        18.94         1.02         6.94         1.02         0.99 
TCGA-CG-5722 TCGA-CG-5723 TCGA-CG-5724 TCGA-CG-5727 TCGA-CG-5728 TCGA-CG-5730 
        0.95        70.06        12.03        31.04        65.10         4.01 
TCGA-CG-5732 TCGA-CG-5734 TCGA-D7-5577 TCGA-D7-5578 TCGA-D7-5579 TCGA-D7-6518 
       55.04         7.99         8.65         3.58         4.54         9.80 
TCGA-D7-6519 TCGA-D7-6520 TCGA-D7-6521 TCGA-D7-6522 TCGA-D7-6524 TCGA-D7-6525 
       15.65         9.63         8.19         6.90         0.69         5.95 
TCGA-D7-6526 TCGA-D7-6527 TCGA-D7-6815 TCGA-D7-6817 TCGA-D7-6818 TCGA-D7-6820 
        6.61         4.14         3.65         0.79         4.04         2.93 
TCGA-D7-6822 TCGA-EQ-5647 TCGA-F1-6177 TCGA-F1-6874 TCGA-FP-7829 TCGA-FP-7916 
        4.27         0.62         6.54         2.01         0.20         3.02 
TCGA-FP-7998 TCGA-FP-8099 TCGA-FP-8209 TCGA-HJ-7597 TCGA-IN-7806 TCGA-IN-7808 
        3.58         1.02        59.05        26.43         6.87         3.55 
TCGA-IP-7968 
        2.53 

  APC MUTATED APC WILD-TYPE 
         0.39          0.07 
  APC MUTATED APC WILD-TYPE 
        72.23         70.06 
  APC MUTATED APC WILD-TYPE 
         1.02          1.64 
[1] "0.4 - 72.2 (1.0)" "0.1 - 70.1 (1.6)"
   TCGA-B7-5816    TCGA-B7-5818    TCGA-BR-6452    TCGA-BR-6455    TCGA-BR-6457 
"APC WILD-TYPE" "APC WILD-TYPE"   "APC MUTATED" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-BR-6458    TCGA-BR-6563    TCGA-BR-6564    TCGA-BR-6565    TCGA-BR-6566 
"APC WILD-TYPE"   "APC MUTATED" "APC WILD-TYPE"   "APC MUTATED"   "APC MUTATED" 
   TCGA-BR-6705    TCGA-BR-6706    TCGA-BR-6707    TCGA-BR-6801    TCGA-BR-6802 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-BR-6803    TCGA-BR-6852    TCGA-BR-7196    TCGA-BR-7197    TCGA-BR-7703 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE"   "APC MUTATED"   "APC MUTATED" 
   TCGA-BR-7707    TCGA-BR-7715    TCGA-BR-7716    TCGA-BR-7717    TCGA-BR-7722 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-BR-7723    TCGA-BR-7851    TCGA-BR-7901    TCGA-BR-7957    TCGA-BR-8059 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-BR-8077    TCGA-BR-8080    TCGA-BR-8081    TCGA-BR-8284    TCGA-BR-8295 
"APC WILD-TYPE" "APC WILD-TYPE"   "APC MUTATED" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-BR-8296    TCGA-BR-8676    TCGA-BR-8682    TCGA-BR-8690    TCGA-BR-A4IV 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-BR-A4IY    TCGA-BR-A4IZ    TCGA-BR-A4J1    TCGA-BR-A4J4    TCGA-BR-A4J6 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-BR-A4J8    TCGA-BR-A4QI    TCGA-BR-A4QL    TCGA-CD-5798    TCGA-CD-5799 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-CD-5800    TCGA-CD-5801    TCGA-CD-5802    TCGA-CD-5803    TCGA-CD-5813 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-CG-4300    TCGA-CG-4301    TCGA-CG-4304    TCGA-CG-4305    TCGA-CG-4306 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE"   "APC MUTATED" 
   TCGA-CG-4436    TCGA-CG-4437    TCGA-CG-4438    TCGA-CG-4440    TCGA-CG-4441 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-CG-4443    TCGA-CG-4444    TCGA-CG-4449    TCGA-CG-4455    TCGA-CG-4465 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE"   "APC MUTATED" 
   TCGA-CG-4466    TCGA-CG-4469    TCGA-CG-4477    TCGA-CG-5717    TCGA-CG-5718 
"APC WILD-TYPE"   "APC MUTATED" "APC WILD-TYPE" "APC WILD-TYPE"   "APC MUTATED" 
   TCGA-CG-5719    TCGA-CG-5720    TCGA-CG-5721    TCGA-CG-5722    TCGA-CG-5723 
"APC WILD-TYPE" "APC WILD-TYPE"   "APC MUTATED" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-CG-5724    TCGA-CG-5726    TCGA-CG-5727    TCGA-CG-5728    TCGA-CG-5730 
"APC WILD-TYPE"   "APC MUTATED" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-CG-5732    TCGA-CG-5733    TCGA-CG-5734    TCGA-D7-5577    TCGA-D7-5578 
"APC WILD-TYPE"   "APC MUTATED" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-D7-5579    TCGA-D7-6518    TCGA-D7-6519    TCGA-D7-6520    TCGA-D7-6521 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-D7-6522    TCGA-D7-6524    TCGA-D7-6525    TCGA-D7-6526    TCGA-D7-6527 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-D7-6528    TCGA-D7-6815    TCGA-D7-6817    TCGA-D7-6818    TCGA-D7-6820 
  "APC MUTATED" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-D7-6822    TCGA-EQ-5647    TCGA-F1-6177    TCGA-F1-6874    TCGA-F1-6875 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE"   "APC MUTATED" 
   TCGA-FP-7735    TCGA-FP-7829    TCGA-FP-7916    TCGA-FP-7998    TCGA-FP-8099 
  "APC MUTATED" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-FP-8209    TCGA-HJ-7597    TCGA-IN-7806    TCGA-IN-7808    TCGA-IP-7968 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-B7-5816    TCGA-B7-5818    TCGA-BR-6452    TCGA-BR-6455    TCGA-BR-6457 
"APC WILD-TYPE" "APC WILD-TYPE"   "APC MUTATED" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-BR-6458    TCGA-BR-6563    TCGA-BR-6564    TCGA-BR-6565    TCGA-BR-6566 
"APC WILD-TYPE"   "APC MUTATED" "APC WILD-TYPE"   "APC MUTATED"   "APC MUTATED" 
   TCGA-BR-6705    TCGA-BR-6706    TCGA-BR-6707    TCGA-BR-6801    TCGA-BR-6802 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-BR-6803    TCGA-BR-6852    TCGA-BR-7196    TCGA-BR-7197    TCGA-BR-7703 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE"   "APC MUTATED"   "APC MUTATED" 
   TCGA-BR-7707    TCGA-BR-7715    TCGA-BR-7716    TCGA-BR-7717    TCGA-BR-7722 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-BR-7723    TCGA-BR-7851    TCGA-BR-7901    TCGA-BR-7957    TCGA-BR-8059 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-BR-8077    TCGA-BR-8080    TCGA-BR-8081    TCGA-BR-8284    TCGA-BR-8295 
"APC WILD-TYPE" "APC WILD-TYPE"   "APC MUTATED" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-BR-8296    TCGA-BR-8676    TCGA-BR-8682    TCGA-BR-8690    TCGA-BR-A4IV 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-BR-A4IY    TCGA-BR-A4IZ    TCGA-BR-A4J1    TCGA-BR-A4J4    TCGA-BR-A4J6 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-BR-A4J8    TCGA-BR-A4QI    TCGA-BR-A4QL    TCGA-CD-5798    TCGA-CD-5799 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-CD-5800    TCGA-CD-5801    TCGA-CD-5802    TCGA-CD-5803    TCGA-CD-5813 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-CG-4300    TCGA-CG-4301    TCGA-CG-4304    TCGA-CG-4305    TCGA-CG-4306 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE"   "APC MUTATED" 
   TCGA-CG-4436    TCGA-CG-4437    TCGA-CG-4438    TCGA-CG-4440    TCGA-CG-4441 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-CG-4443    TCGA-CG-4444    TCGA-CG-4449    TCGA-CG-4455    TCGA-CG-4465 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE"   "APC MUTATED" 
   TCGA-CG-4466    TCGA-CG-4469    TCGA-CG-4477    TCGA-CG-5717    TCGA-CG-5718 
"APC WILD-TYPE"   "APC MUTATED" "APC WILD-TYPE" "APC WILD-TYPE"   "APC MUTATED" 
   TCGA-CG-5719    TCGA-CG-5720    TCGA-CG-5721    TCGA-CG-5722    TCGA-CG-5723 
"APC WILD-TYPE" "APC WILD-TYPE"   "APC MUTATED" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-CG-5724    TCGA-CG-5726    TCGA-CG-5727    TCGA-CG-5728    TCGA-CG-5730 
"APC WILD-TYPE"   "APC MUTATED" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-CG-5732    TCGA-CG-5733    TCGA-CG-5734    TCGA-D7-5577    TCGA-D7-5578 
"APC WILD-TYPE"   "APC MUTATED" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-D7-5579    TCGA-D7-6518    TCGA-D7-6519    TCGA-D7-6520    TCGA-D7-6521 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-D7-6522    TCGA-D7-6524    TCGA-D7-6525    TCGA-D7-6526    TCGA-D7-6527 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-D7-6528    TCGA-D7-6815    TCGA-D7-6817    TCGA-D7-6818    TCGA-D7-6820 
  "APC MUTATED" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-D7-6822    TCGA-EQ-5647    TCGA-F1-6177    TCGA-F1-6874    TCGA-F1-6875 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE"   "APC MUTATED" 
   TCGA-FP-7735    TCGA-FP-7829    TCGA-FP-7916    TCGA-FP-7998    TCGA-FP-8099 
  "APC MUTATED" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-FP-8209    TCGA-HJ-7597    TCGA-IN-7806    TCGA-IN-7808    TCGA-IP-7968 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-B7-5816    TCGA-B7-5818    TCGA-BR-6452    TCGA-BR-6455    TCGA-BR-6457 
"APC WILD-TYPE" "APC WILD-TYPE"   "APC MUTATED" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-BR-6458    TCGA-BR-6563    TCGA-BR-6564    TCGA-BR-6565    TCGA-BR-6566 
"APC WILD-TYPE"   "APC MUTATED" "APC WILD-TYPE"   "APC MUTATED"   "APC MUTATED" 
   TCGA-BR-6705    TCGA-BR-6706    TCGA-BR-6707    TCGA-BR-6801    TCGA-BR-6802 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-BR-6803    TCGA-BR-6852    TCGA-BR-7196    TCGA-BR-7197    TCGA-BR-7703 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE"   "APC MUTATED"   "APC MUTATED" 
   TCGA-BR-7707    TCGA-BR-7715    TCGA-BR-7716    TCGA-BR-7717    TCGA-BR-7722 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-BR-7723    TCGA-BR-7851    TCGA-BR-7901    TCGA-BR-7957    TCGA-BR-8059 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-BR-8077    TCGA-BR-8080    TCGA-BR-8081    TCGA-BR-8284    TCGA-BR-8295 
"APC WILD-TYPE" "APC WILD-TYPE"   "APC MUTATED" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-BR-8296    TCGA-BR-8676    TCGA-BR-8682    TCGA-BR-8690    TCGA-BR-A4IV 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-BR-A4IY    TCGA-BR-A4IZ    TCGA-BR-A4J1    TCGA-BR-A4J4    TCGA-BR-A4J6 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-BR-A4J8    TCGA-BR-A4QI    TCGA-BR-A4QL    TCGA-CD-5798    TCGA-CD-5799 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-CD-5800    TCGA-CD-5801    TCGA-CD-5802    TCGA-CD-5803    TCGA-CD-5813 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-CG-4300    TCGA-CG-4301    TCGA-CG-4304    TCGA-CG-4305    TCGA-CG-4306 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE"   "APC MUTATED" 
   TCGA-CG-4436    TCGA-CG-4437    TCGA-CG-4438    TCGA-CG-4440    TCGA-CG-4441 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-CG-4443    TCGA-CG-4444    TCGA-CG-4449    TCGA-CG-4455    TCGA-CG-4465 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE"   "APC MUTATED" 
   TCGA-CG-4466    TCGA-CG-4469    TCGA-CG-4477    TCGA-CG-5717    TCGA-CG-5718 
"APC WILD-TYPE"   "APC MUTATED" "APC WILD-TYPE" "APC WILD-TYPE"   "APC MUTATED" 
   TCGA-CG-5719    TCGA-CG-5720    TCGA-CG-5721    TCGA-CG-5722    TCGA-CG-5723 
"APC WILD-TYPE" "APC WILD-TYPE"   "APC MUTATED" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-CG-5724    TCGA-CG-5726    TCGA-CG-5727    TCGA-CG-5728    TCGA-CG-5730 
"APC WILD-TYPE"   "APC MUTATED" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-CG-5732    TCGA-CG-5733    TCGA-CG-5734    TCGA-D7-5577    TCGA-D7-5578 
"APC WILD-TYPE"   "APC MUTATED" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-D7-5579    TCGA-D7-6518    TCGA-D7-6519    TCGA-D7-6520    TCGA-D7-6521 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-D7-6522    TCGA-D7-6524    TCGA-D7-6525    TCGA-D7-6526    TCGA-D7-6527 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-D7-6528    TCGA-D7-6815    TCGA-D7-6817    TCGA-D7-6818    TCGA-D7-6820 
  "APC MUTATED" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-D7-6822    TCGA-EQ-5647    TCGA-F1-6177    TCGA-F1-6874    TCGA-F1-6875 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE"   "APC MUTATED" 
   TCGA-FP-7735    TCGA-FP-7829    TCGA-FP-7916    TCGA-FP-7998    TCGA-FP-8099 
  "APC MUTATED" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
   TCGA-FP-8209    TCGA-HJ-7597    TCGA-IN-7806    TCGA-IN-7808    TCGA-IP-7968 
"APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" "APC WILD-TYPE" 
[1] "hr=" "2.3"
D19V2, continuous
D19V3, binary
               cls
clus             0  1
  APC MUTATED   10 15
  APC WILD-TYPE 53 78
[1] "tbl2"
               cls
clus            [,1] [,2]
  APC MUTATED     10   15
  APC WILD-TYPE   53   78
        clus
vv       APC MUTATED APC WILD-TYPE
  FEMALE          10            53
  MALE            15            78
               vv
clus            STOMACH  ADENOCARCINOMA  DIFFUSE TYPE
  APC MUTATED                                       2
  APC WILD-TYPE                                    21
               vv
clus            STOMACH  ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  APC MUTATED                                                       15
  APC WILD-TYPE                                                     63
               vv
clus            STOMACH  INTESTINAL ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  APC MUTATED                                                                   6
  APC WILD-TYPE                                                                24
               vv
clus            STOMACH  INTESTINAL ADENOCARCINOMA  TUBULAR TYPE
  APC MUTATED                                                  1
  APC WILD-TYPE                                                9
               vv
clus            STOMACH  INTESTINAL ADENOCARCINOMA \302\240MUCINOUS TYPE
  APC MUTATED                                                          0
  APC WILD-TYPE                                                       10
               vv
clus            STOMACH  INTESTINAL ADENOCARCINOMA \302\240PAPILLARY TYPE
  APC MUTATED                                                           1
  APC WILD-TYPE                                                         2
               vv
clus            STOMACH ADENOCARCINOMA  SIGNET RING TYPE
  APC MUTATED                                          0
  APC WILD-TYPE                                        1
D19V4, multiclass
D19V5, binary
               cls
clus              0   1
  APC MUTATED     0  25
  APC WILD-TYPE   6 125
[1] "tbl2"
               cls
clus            [,1] [,2]
  APC MUTATED      0   25
  APC WILD-TYPE    6  125
     clus
vv    APC MUTATED APC WILD-TYPE
  NO            0             6
  YES          25           125
               vv
clus             M0  M1  MX
  APC MUTATED    21   2   2
  APC WILD-TYPE 111  12   8
D19V6, multiclass
    clus
vv   APC MUTATED APC WILD-TYPE
  M0          21           111
  M1           2            12
  MX           2             8
               vv
clus            N0 N1 N2 N3 N3A NX
  APC MUTATED   13  6  2  2   1  1
  APC WILD-TYPE 36 43 23 12   7 10
D19V7, multiclass
               vv
clus            R0 R1 R2 RX
  APC MUTATED   16  1  2  6
  APC WILD-TYPE 90  5  8 18
D19V8, multiclass
    clus
vv   APC MUTATED APC WILD-TYPE
  R0          16            90
  R1           1             5
  R2           2             8
  RX           6            18
D19V9, continuous
D19V10, continuous
               vv
clus            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB
  APC MUTATED         0        3        4        5         0         0
  APC WILD-TYPE       1        2       12       22         7        10
               vv
clus            STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  APC MUTATED           1          4          0          1        4
  APC WILD-TYPE         3         26         12          5       19
D19V11, multiclass

Clustering(20) Variable = MAP2K7 MUTATION ANALYSIS
D20V1, survival
                  sevent
clus2               0  1
  MAP2K7 MUTATED    4  2
  MAP2K7 WILD-TYPE 99 15
  MAP2K7 MUTATED MAP2K7 WILD-TYPE 
               6              114 
  MAP2K7 MUTATED MAP2K7 WILD-TYPE 
               2               15 
$`MAP2K7 MUTATED`
TCGA-BR-6452 TCGA-BR-7707 TCGA-BR-A4IY TCGA-CG-5718 TCGA-CG-5724 TCGA-CG-5733 
        0.95         0.13         0.39         1.02        12.03        21.07 

$`MAP2K7 WILD-TYPE`
TCGA-B7-5816 TCGA-B7-5818 TCGA-BR-6455 TCGA-BR-6457 TCGA-BR-6458 TCGA-BR-6563 
        5.62         0.10         1.41         1.35         1.35         0.85 
TCGA-BR-6564 TCGA-BR-6565 TCGA-BR-6566 TCGA-BR-6705 TCGA-BR-6706 TCGA-BR-6707 
        0.82         0.62         0.62         1.71         2.17         0.99 
TCGA-BR-6801 TCGA-BR-6802 TCGA-BR-6803 TCGA-BR-6852 TCGA-BR-7196 TCGA-BR-7197 
        1.12         0.76         0.66         0.26         1.22         1.48 
TCGA-BR-7703 TCGA-BR-7715 TCGA-BR-7716 TCGA-BR-7717 TCGA-BR-7722 TCGA-BR-7723 
        0.46         1.05         0.82         0.69         0.16         4.54 
TCGA-BR-7851 TCGA-BR-7901 TCGA-BR-7957 TCGA-BR-8059 TCGA-BR-8077 TCGA-BR-8080 
        0.99         0.95         0.69         0.82         0.69         0.49 
TCGA-BR-8081 TCGA-BR-8284 TCGA-BR-8295 TCGA-BR-8296 TCGA-BR-8676 TCGA-BR-8682 
        0.46         0.72         1.55         1.48         0.89         1.64 
TCGA-BR-8690 TCGA-BR-A4IV TCGA-BR-A4IZ TCGA-BR-A4J1 TCGA-BR-A4J4 TCGA-BR-A4J6 
        0.59         0.92         0.79         0.72         0.53         0.13 
TCGA-BR-A4J8 TCGA-BR-A4QI TCGA-BR-A4QL TCGA-CD-5798 TCGA-CD-5799 TCGA-CD-5800 
        0.23         0.49         2.24         0.82         0.69         0.36 
TCGA-CD-5801 TCGA-CD-5802 TCGA-CD-5803 TCGA-CD-5813 TCGA-CG-4300 TCGA-CG-4301 
        0.49         0.30         0.07         0.39        20.02         3.02 
TCGA-CG-4304 TCGA-CG-4305 TCGA-CG-4306 TCGA-CG-4436 TCGA-CG-4437 TCGA-CG-4438 
       27.02        15.95         1.02         7.96         8.05        54.05 
TCGA-CG-4440 TCGA-CG-4441 TCGA-CG-4443 TCGA-CG-4444 TCGA-CG-4449 TCGA-CG-4455 
        4.01        14.01        29.98        47.05        19.07        12.03 
TCGA-CG-4465 TCGA-CG-4466 TCGA-CG-4469 TCGA-CG-4477 TCGA-CG-5717 TCGA-CG-5719 
        8.98        18.94         7.07         1.02         6.94         1.02 
TCGA-CG-5720 TCGA-CG-5721 TCGA-CG-5722 TCGA-CG-5723 TCGA-CG-5726 TCGA-CG-5727 
        0.99         5.98         0.95        70.06        28.96        31.04 
TCGA-CG-5728 TCGA-CG-5730 TCGA-CG-5732 TCGA-CG-5734 TCGA-D7-5577 TCGA-D7-5578 
       65.10         4.01        55.04         7.99         8.65         3.58 
TCGA-D7-5579 TCGA-D7-6518 TCGA-D7-6519 TCGA-D7-6520 TCGA-D7-6521 TCGA-D7-6522 
        4.54         9.80        15.65         9.63         8.19         6.90 
TCGA-D7-6524 TCGA-D7-6525 TCGA-D7-6526 TCGA-D7-6527 TCGA-D7-6528 TCGA-D7-6815 
        0.69         5.95         6.61         4.14         1.68         3.65 
TCGA-D7-6817 TCGA-D7-6818 TCGA-D7-6820 TCGA-D7-6822 TCGA-EQ-5647 TCGA-F1-6177 
        0.79         4.04         2.93         4.27         0.62         6.54 
TCGA-F1-6874 TCGA-F1-6875 TCGA-FP-7735 TCGA-FP-7829 TCGA-FP-7916 TCGA-FP-7998 
        2.01        72.23         0.39         0.20         3.02         3.58 
TCGA-FP-8099 TCGA-FP-8209 TCGA-HJ-7597 TCGA-IN-7806 TCGA-IN-7808 TCGA-IP-7968 
        1.02        59.05        26.43         6.87         3.55         2.53 

  MAP2K7 MUTATED MAP2K7 WILD-TYPE 
            0.13             0.07 
  MAP2K7 MUTATED MAP2K7 WILD-TYPE 
           21.07            72.23 
  MAP2K7 MUTATED MAP2K7 WILD-TYPE 
           0.985            1.595 
[1] "0.1 - 21.1 (1.0)" "0.1 - 72.2 (1.6)"
      TCGA-B7-5816       TCGA-B7-5818       TCGA-BR-6452       TCGA-BR-6455 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE"   "MAP2K7 MUTATED" "MAP2K7 WILD-TYPE" 
      TCGA-BR-6457       TCGA-BR-6458       TCGA-BR-6563       TCGA-BR-6564 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-BR-6565       TCGA-BR-6566       TCGA-BR-6705       TCGA-BR-6706 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-BR-6707       TCGA-BR-6801       TCGA-BR-6802       TCGA-BR-6803 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-BR-6852       TCGA-BR-7196       TCGA-BR-7197       TCGA-BR-7703 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-BR-7707       TCGA-BR-7715       TCGA-BR-7716       TCGA-BR-7717 
  "MAP2K7 MUTATED" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-BR-7722       TCGA-BR-7723       TCGA-BR-7851       TCGA-BR-7901 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-BR-7957       TCGA-BR-8059       TCGA-BR-8077       TCGA-BR-8080 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-BR-8081       TCGA-BR-8284       TCGA-BR-8295       TCGA-BR-8296 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-BR-8676       TCGA-BR-8682       TCGA-BR-8690       TCGA-BR-A4IV 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-BR-A4IY       TCGA-BR-A4IZ       TCGA-BR-A4J1       TCGA-BR-A4J4 
  "MAP2K7 MUTATED" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-BR-A4J6       TCGA-BR-A4J8       TCGA-BR-A4QI       TCGA-BR-A4QL 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-CD-5798       TCGA-CD-5799       TCGA-CD-5800       TCGA-CD-5801 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-CD-5802       TCGA-CD-5803       TCGA-CD-5813       TCGA-CG-4300 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-CG-4301       TCGA-CG-4304       TCGA-CG-4305       TCGA-CG-4306 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-CG-4436       TCGA-CG-4437       TCGA-CG-4438       TCGA-CG-4440 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-CG-4441       TCGA-CG-4443       TCGA-CG-4444       TCGA-CG-4449 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-CG-4455       TCGA-CG-4465       TCGA-CG-4466       TCGA-CG-4469 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-CG-4477       TCGA-CG-5717       TCGA-CG-5718       TCGA-CG-5719 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE"   "MAP2K7 MUTATED" "MAP2K7 WILD-TYPE" 
      TCGA-CG-5720       TCGA-CG-5721       TCGA-CG-5722       TCGA-CG-5723 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-CG-5724       TCGA-CG-5726       TCGA-CG-5727       TCGA-CG-5728 
  "MAP2K7 MUTATED" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-CG-5730       TCGA-CG-5732       TCGA-CG-5733       TCGA-CG-5734 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE"   "MAP2K7 MUTATED" "MAP2K7 WILD-TYPE" 
      TCGA-D7-5577       TCGA-D7-5578       TCGA-D7-5579       TCGA-D7-6518 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-D7-6519       TCGA-D7-6520       TCGA-D7-6521       TCGA-D7-6522 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-D7-6524       TCGA-D7-6525       TCGA-D7-6526       TCGA-D7-6527 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-D7-6528       TCGA-D7-6815       TCGA-D7-6817       TCGA-D7-6818 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-D7-6820       TCGA-D7-6822       TCGA-EQ-5647       TCGA-F1-6177 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-F1-6874       TCGA-F1-6875       TCGA-FP-7735       TCGA-FP-7829 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-FP-7916       TCGA-FP-7998       TCGA-FP-8099       TCGA-FP-8209 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-HJ-7597       TCGA-IN-7806       TCGA-IN-7808       TCGA-IP-7968 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-B7-5816       TCGA-B7-5818       TCGA-BR-6452       TCGA-BR-6455 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE"   "MAP2K7 MUTATED" "MAP2K7 WILD-TYPE" 
      TCGA-BR-6457       TCGA-BR-6458       TCGA-BR-6563       TCGA-BR-6564 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-BR-6565       TCGA-BR-6566       TCGA-BR-6705       TCGA-BR-6706 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-BR-6707       TCGA-BR-6801       TCGA-BR-6802       TCGA-BR-6803 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-BR-6852       TCGA-BR-7196       TCGA-BR-7197       TCGA-BR-7703 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-BR-7707       TCGA-BR-7715       TCGA-BR-7716       TCGA-BR-7717 
  "MAP2K7 MUTATED" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-BR-7722       TCGA-BR-7723       TCGA-BR-7851       TCGA-BR-7901 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-BR-7957       TCGA-BR-8059       TCGA-BR-8077       TCGA-BR-8080 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-BR-8081       TCGA-BR-8284       TCGA-BR-8295       TCGA-BR-8296 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-BR-8676       TCGA-BR-8682       TCGA-BR-8690       TCGA-BR-A4IV 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-BR-A4IY       TCGA-BR-A4IZ       TCGA-BR-A4J1       TCGA-BR-A4J4 
  "MAP2K7 MUTATED" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-BR-A4J6       TCGA-BR-A4J8       TCGA-BR-A4QI       TCGA-BR-A4QL 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-CD-5798       TCGA-CD-5799       TCGA-CD-5800       TCGA-CD-5801 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-CD-5802       TCGA-CD-5803       TCGA-CD-5813       TCGA-CG-4300 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-CG-4301       TCGA-CG-4304       TCGA-CG-4305       TCGA-CG-4306 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-CG-4436       TCGA-CG-4437       TCGA-CG-4438       TCGA-CG-4440 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-CG-4441       TCGA-CG-4443       TCGA-CG-4444       TCGA-CG-4449 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-CG-4455       TCGA-CG-4465       TCGA-CG-4466       TCGA-CG-4469 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-CG-4477       TCGA-CG-5717       TCGA-CG-5718       TCGA-CG-5719 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE"   "MAP2K7 MUTATED" "MAP2K7 WILD-TYPE" 
      TCGA-CG-5720       TCGA-CG-5721       TCGA-CG-5722       TCGA-CG-5723 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-CG-5724       TCGA-CG-5726       TCGA-CG-5727       TCGA-CG-5728 
  "MAP2K7 MUTATED" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-CG-5730       TCGA-CG-5732       TCGA-CG-5733       TCGA-CG-5734 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE"   "MAP2K7 MUTATED" "MAP2K7 WILD-TYPE" 
      TCGA-D7-5577       TCGA-D7-5578       TCGA-D7-5579       TCGA-D7-6518 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-D7-6519       TCGA-D7-6520       TCGA-D7-6521       TCGA-D7-6522 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-D7-6524       TCGA-D7-6525       TCGA-D7-6526       TCGA-D7-6527 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-D7-6528       TCGA-D7-6815       TCGA-D7-6817       TCGA-D7-6818 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-D7-6820       TCGA-D7-6822       TCGA-EQ-5647       TCGA-F1-6177 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-F1-6874       TCGA-F1-6875       TCGA-FP-7735       TCGA-FP-7829 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-FP-7916       TCGA-FP-7998       TCGA-FP-8099       TCGA-FP-8209 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-HJ-7597       TCGA-IN-7806       TCGA-IN-7808       TCGA-IP-7968 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-B7-5816       TCGA-B7-5818       TCGA-BR-6452       TCGA-BR-6455 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE"   "MAP2K7 MUTATED" "MAP2K7 WILD-TYPE" 
      TCGA-BR-6457       TCGA-BR-6458       TCGA-BR-6563       TCGA-BR-6564 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-BR-6565       TCGA-BR-6566       TCGA-BR-6705       TCGA-BR-6706 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-BR-6707       TCGA-BR-6801       TCGA-BR-6802       TCGA-BR-6803 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-BR-6852       TCGA-BR-7196       TCGA-BR-7197       TCGA-BR-7703 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-BR-7707       TCGA-BR-7715       TCGA-BR-7716       TCGA-BR-7717 
  "MAP2K7 MUTATED" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-BR-7722       TCGA-BR-7723       TCGA-BR-7851       TCGA-BR-7901 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-BR-7957       TCGA-BR-8059       TCGA-BR-8077       TCGA-BR-8080 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-BR-8081       TCGA-BR-8284       TCGA-BR-8295       TCGA-BR-8296 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-BR-8676       TCGA-BR-8682       TCGA-BR-8690       TCGA-BR-A4IV 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-BR-A4IY       TCGA-BR-A4IZ       TCGA-BR-A4J1       TCGA-BR-A4J4 
  "MAP2K7 MUTATED" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-BR-A4J6       TCGA-BR-A4J8       TCGA-BR-A4QI       TCGA-BR-A4QL 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-CD-5798       TCGA-CD-5799       TCGA-CD-5800       TCGA-CD-5801 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-CD-5802       TCGA-CD-5803       TCGA-CD-5813       TCGA-CG-4300 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-CG-4301       TCGA-CG-4304       TCGA-CG-4305       TCGA-CG-4306 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-CG-4436       TCGA-CG-4437       TCGA-CG-4438       TCGA-CG-4440 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-CG-4441       TCGA-CG-4443       TCGA-CG-4444       TCGA-CG-4449 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-CG-4455       TCGA-CG-4465       TCGA-CG-4466       TCGA-CG-4469 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-CG-4477       TCGA-CG-5717       TCGA-CG-5718       TCGA-CG-5719 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE"   "MAP2K7 MUTATED" "MAP2K7 WILD-TYPE" 
      TCGA-CG-5720       TCGA-CG-5721       TCGA-CG-5722       TCGA-CG-5723 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-CG-5724       TCGA-CG-5726       TCGA-CG-5727       TCGA-CG-5728 
  "MAP2K7 MUTATED" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-CG-5730       TCGA-CG-5732       TCGA-CG-5733       TCGA-CG-5734 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE"   "MAP2K7 MUTATED" "MAP2K7 WILD-TYPE" 
      TCGA-D7-5577       TCGA-D7-5578       TCGA-D7-5579       TCGA-D7-6518 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-D7-6519       TCGA-D7-6520       TCGA-D7-6521       TCGA-D7-6522 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-D7-6524       TCGA-D7-6525       TCGA-D7-6526       TCGA-D7-6527 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-D7-6528       TCGA-D7-6815       TCGA-D7-6817       TCGA-D7-6818 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-D7-6820       TCGA-D7-6822       TCGA-EQ-5647       TCGA-F1-6177 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-F1-6874       TCGA-F1-6875       TCGA-FP-7735       TCGA-FP-7829 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-FP-7916       TCGA-FP-7998       TCGA-FP-8099       TCGA-FP-8209 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
      TCGA-HJ-7597       TCGA-IN-7806       TCGA-IN-7808       TCGA-IP-7968 
"MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" "MAP2K7 WILD-TYPE" 
[1] "hr=" "2.8"
D20V2, continuous
D20V3, binary
                  cls
clus                0  1
  MAP2K7 MUTATED    6  3
  MAP2K7 WILD-TYPE 57 90
[1] "tbl2"
                  cls
clus               [,1] [,2]
  MAP2K7 MUTATED      6    3
  MAP2K7 WILD-TYPE   57   90
        clus
vv       MAP2K7 MUTATED MAP2K7 WILD-TYPE
  FEMALE              6               57
  MALE                3               90
                  vv
clus               STOMACH  ADENOCARCINOMA  DIFFUSE TYPE
  MAP2K7 MUTATED                                       1
  MAP2K7 WILD-TYPE                                    22
                  vv
clus               STOMACH  ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  MAP2K7 MUTATED                                                        5
  MAP2K7 WILD-TYPE                                                     73
                  vv
clus               STOMACH  INTESTINAL ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  MAP2K7 MUTATED                                                                   3
  MAP2K7 WILD-TYPE                                                                27
                  vv
clus               STOMACH  INTESTINAL ADENOCARCINOMA  TUBULAR TYPE
  MAP2K7 MUTATED                                                  0
  MAP2K7 WILD-TYPE                                               10
                  vv
clus               STOMACH  INTESTINAL ADENOCARCINOMA \302\240MUCINOUS TYPE
  MAP2K7 MUTATED                                                          0
  MAP2K7 WILD-TYPE                                                       10
                  vv
clus               STOMACH  INTESTINAL ADENOCARCINOMA \302\240PAPILLARY TYPE
  MAP2K7 MUTATED                                                           0
  MAP2K7 WILD-TYPE                                                         3
                  vv
clus               STOMACH ADENOCARCINOMA  SIGNET RING TYPE
  MAP2K7 MUTATED                                          0
  MAP2K7 WILD-TYPE                                        1
D20V4, multiclass
D20V5, binary
                  cls
clus                 0   1
  MAP2K7 MUTATED     0   9
  MAP2K7 WILD-TYPE   6 141
[1] "tbl2"
                  cls
clus               [,1] [,2]
  MAP2K7 MUTATED      0    9
  MAP2K7 WILD-TYPE    6  141
     clus
vv    MAP2K7 MUTATED MAP2K7 WILD-TYPE
  NO               0                6
  YES              9              141
                  vv
clus                M0  M1  MX
  MAP2K7 MUTATED     8   1   0
  MAP2K7 WILD-TYPE 124  13  10
D20V6, multiclass
    clus
vv   MAP2K7 MUTATED MAP2K7 WILD-TYPE
  M0              8              124
  M1              1               13
  MX              0               10
                  vv
clus               N0 N1 N2 N3 N3A NX
  MAP2K7 MUTATED    4  1  2  1   0  1
  MAP2K7 WILD-TYPE 45 48 23 13   8 10
D20V7, multiclass
                  vv
clus                R0  R1  R2  RX
  MAP2K7 MUTATED     6   0   1   2
  MAP2K7 WILD-TYPE 100   6   9  22
D20V8, multiclass
    clus
vv   MAP2K7 MUTATED MAP2K7 WILD-TYPE
  R0              6              100
  R1              0                6
  R2              1                9
  RX              2               22
D20V9, continuous
D20V10, continuous
                  vv
clus               STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB
  MAP2K7 MUTATED         0        1        1        2         0         1
  MAP2K7 WILD-TYPE       1        4       15       25         7         9
                  vv
clus               STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  MAP2K7 MUTATED           0          1          0          0        2
  MAP2K7 WILD-TYPE         4         29         12          6       21
D20V11, multiclass

Clustering(21) Variable = WSB2 MUTATION ANALYSIS
D21V1, survival
                sevent
clus2             0  1
  WSB2 MUTATED    5  0
  WSB2 WILD-TYPE 98 17
  WSB2 MUTATED WSB2 WILD-TYPE 
             5            115 
  WSB2 MUTATED WSB2 WILD-TYPE 
             0             17 
$`WSB2 MUTATED`
TCGA-BR-6452 TCGA-BR-7703 TCGA-CG-4437 TCGA-CG-5723 TCGA-F1-6177 
        0.95         0.46         8.05        70.06         6.54 

$`WSB2 WILD-TYPE`
TCGA-B7-5816 TCGA-B7-5818 TCGA-BR-6455 TCGA-BR-6457 TCGA-BR-6458 TCGA-BR-6563 
        5.62         0.10         1.41         1.35         1.35         0.85 
TCGA-BR-6564 TCGA-BR-6565 TCGA-BR-6566 TCGA-BR-6705 TCGA-BR-6706 TCGA-BR-6707 
        0.82         0.62         0.62         1.71         2.17         0.99 
TCGA-BR-6801 TCGA-BR-6802 TCGA-BR-6803 TCGA-BR-6852 TCGA-BR-7196 TCGA-BR-7197 
        1.12         0.76         0.66         0.26         1.22         1.48 
TCGA-BR-7707 TCGA-BR-7715 TCGA-BR-7716 TCGA-BR-7717 TCGA-BR-7722 TCGA-BR-7723 
        0.13         1.05         0.82         0.69         0.16         4.54 
TCGA-BR-7851 TCGA-BR-7901 TCGA-BR-7957 TCGA-BR-8059 TCGA-BR-8077 TCGA-BR-8080 
        0.99         0.95         0.69         0.82         0.69         0.49 
TCGA-BR-8081 TCGA-BR-8284 TCGA-BR-8295 TCGA-BR-8296 TCGA-BR-8676 TCGA-BR-8682 
        0.46         0.72         1.55         1.48         0.89         1.64 
TCGA-BR-8690 TCGA-BR-A4IV TCGA-BR-A4IY TCGA-BR-A4IZ TCGA-BR-A4J1 TCGA-BR-A4J4 
        0.59         0.92         0.39         0.79         0.72         0.53 
TCGA-BR-A4J6 TCGA-BR-A4J8 TCGA-BR-A4QI TCGA-BR-A4QL TCGA-CD-5798 TCGA-CD-5799 
        0.13         0.23         0.49         2.24         0.82         0.69 
TCGA-CD-5800 TCGA-CD-5801 TCGA-CD-5802 TCGA-CD-5803 TCGA-CD-5813 TCGA-CG-4300 
        0.36         0.49         0.30         0.07         0.39        20.02 
TCGA-CG-4301 TCGA-CG-4304 TCGA-CG-4305 TCGA-CG-4306 TCGA-CG-4436 TCGA-CG-4438 
        3.02        27.02        15.95         1.02         7.96        54.05 
TCGA-CG-4440 TCGA-CG-4441 TCGA-CG-4443 TCGA-CG-4444 TCGA-CG-4449 TCGA-CG-4455 
        4.01        14.01        29.98        47.05        19.07        12.03 
TCGA-CG-4465 TCGA-CG-4466 TCGA-CG-4469 TCGA-CG-4477 TCGA-CG-5717 TCGA-CG-5718 
        8.98        18.94         7.07         1.02         6.94         1.02 
TCGA-CG-5719 TCGA-CG-5720 TCGA-CG-5721 TCGA-CG-5722 TCGA-CG-5724 TCGA-CG-5726 
        1.02         0.99         5.98         0.95        12.03        28.96 
TCGA-CG-5727 TCGA-CG-5728 TCGA-CG-5730 TCGA-CG-5732 TCGA-CG-5733 TCGA-CG-5734 
       31.04        65.10         4.01        55.04        21.07         7.99 
TCGA-D7-5577 TCGA-D7-5578 TCGA-D7-5579 TCGA-D7-6518 TCGA-D7-6519 TCGA-D7-6520 
        8.65         3.58         4.54         9.80        15.65         9.63 
TCGA-D7-6521 TCGA-D7-6522 TCGA-D7-6524 TCGA-D7-6525 TCGA-D7-6526 TCGA-D7-6527 
        8.19         6.90         0.69         5.95         6.61         4.14 
TCGA-D7-6528 TCGA-D7-6815 TCGA-D7-6817 TCGA-D7-6818 TCGA-D7-6820 TCGA-D7-6822 
        1.68         3.65         0.79         4.04         2.93         4.27 
TCGA-EQ-5647 TCGA-F1-6874 TCGA-F1-6875 TCGA-FP-7735 TCGA-FP-7829 TCGA-FP-7916 
        0.62         2.01        72.23         0.39         0.20         3.02 
TCGA-FP-7998 TCGA-FP-8099 TCGA-FP-8209 TCGA-HJ-7597 TCGA-IN-7806 TCGA-IN-7808 
        3.58         1.02        59.05        26.43         6.87         3.55 
TCGA-IP-7968 
        2.53 

  WSB2 MUTATED WSB2 WILD-TYPE 
          0.46           0.07 
  WSB2 MUTATED WSB2 WILD-TYPE 
         70.06          72.23 
  WSB2 MUTATED WSB2 WILD-TYPE 
          6.54           1.48 
[1] "0.5 - 70.1 (6.5)" "0.1 - 72.2 (1.5)"
    TCGA-B7-5816     TCGA-B7-5818     TCGA-BR-6452     TCGA-BR-6455 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE"   "WSB2 MUTATED" "WSB2 WILD-TYPE" 
    TCGA-BR-6457     TCGA-BR-6458     TCGA-BR-6563     TCGA-BR-6564 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-BR-6565     TCGA-BR-6566     TCGA-BR-6705     TCGA-BR-6706 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-BR-6707     TCGA-BR-6801     TCGA-BR-6802     TCGA-BR-6803 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-BR-6852     TCGA-BR-7196     TCGA-BR-7197     TCGA-BR-7703 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE"   "WSB2 MUTATED" 
    TCGA-BR-7707     TCGA-BR-7715     TCGA-BR-7716     TCGA-BR-7717 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-BR-7722     TCGA-BR-7723     TCGA-BR-7851     TCGA-BR-7901 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-BR-7957     TCGA-BR-8059     TCGA-BR-8077     TCGA-BR-8080 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-BR-8081     TCGA-BR-8284     TCGA-BR-8295     TCGA-BR-8296 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-BR-8676     TCGA-BR-8682     TCGA-BR-8690     TCGA-BR-A4IV 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-BR-A4IY     TCGA-BR-A4IZ     TCGA-BR-A4J1     TCGA-BR-A4J4 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-BR-A4J6     TCGA-BR-A4J8     TCGA-BR-A4QI     TCGA-BR-A4QL 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-CD-5798     TCGA-CD-5799     TCGA-CD-5800     TCGA-CD-5801 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-CD-5802     TCGA-CD-5803     TCGA-CD-5813     TCGA-CG-4300 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-CG-4301     TCGA-CG-4304     TCGA-CG-4305     TCGA-CG-4306 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-CG-4436     TCGA-CG-4437     TCGA-CG-4438     TCGA-CG-4440 
"WSB2 WILD-TYPE"   "WSB2 MUTATED" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-CG-4441     TCGA-CG-4443     TCGA-CG-4444     TCGA-CG-4449 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-CG-4455     TCGA-CG-4465     TCGA-CG-4466     TCGA-CG-4469 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-CG-4477     TCGA-CG-5717     TCGA-CG-5718     TCGA-CG-5719 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-CG-5720     TCGA-CG-5721     TCGA-CG-5722     TCGA-CG-5723 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE"   "WSB2 MUTATED" 
    TCGA-CG-5724     TCGA-CG-5726     TCGA-CG-5727     TCGA-CG-5728 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-CG-5730     TCGA-CG-5732     TCGA-CG-5733     TCGA-CG-5734 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-D7-5577     TCGA-D7-5578     TCGA-D7-5579     TCGA-D7-6518 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-D7-6519     TCGA-D7-6520     TCGA-D7-6521     TCGA-D7-6522 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-D7-6524     TCGA-D7-6525     TCGA-D7-6526     TCGA-D7-6527 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-D7-6528     TCGA-D7-6815     TCGA-D7-6817     TCGA-D7-6818 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-D7-6820     TCGA-D7-6822     TCGA-EQ-5647     TCGA-F1-6177 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE"   "WSB2 MUTATED" 
    TCGA-F1-6874     TCGA-F1-6875     TCGA-FP-7735     TCGA-FP-7829 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-FP-7916     TCGA-FP-7998     TCGA-FP-8099     TCGA-FP-8209 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-HJ-7597     TCGA-IN-7806     TCGA-IN-7808     TCGA-IP-7968 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-B7-5816     TCGA-B7-5818     TCGA-BR-6452     TCGA-BR-6455 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE"   "WSB2 MUTATED" "WSB2 WILD-TYPE" 
    TCGA-BR-6457     TCGA-BR-6458     TCGA-BR-6563     TCGA-BR-6564 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-BR-6565     TCGA-BR-6566     TCGA-BR-6705     TCGA-BR-6706 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-BR-6707     TCGA-BR-6801     TCGA-BR-6802     TCGA-BR-6803 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-BR-6852     TCGA-BR-7196     TCGA-BR-7197     TCGA-BR-7703 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE"   "WSB2 MUTATED" 
    TCGA-BR-7707     TCGA-BR-7715     TCGA-BR-7716     TCGA-BR-7717 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-BR-7722     TCGA-BR-7723     TCGA-BR-7851     TCGA-BR-7901 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-BR-7957     TCGA-BR-8059     TCGA-BR-8077     TCGA-BR-8080 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-BR-8081     TCGA-BR-8284     TCGA-BR-8295     TCGA-BR-8296 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-BR-8676     TCGA-BR-8682     TCGA-BR-8690     TCGA-BR-A4IV 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-BR-A4IY     TCGA-BR-A4IZ     TCGA-BR-A4J1     TCGA-BR-A4J4 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-BR-A4J6     TCGA-BR-A4J8     TCGA-BR-A4QI     TCGA-BR-A4QL 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-CD-5798     TCGA-CD-5799     TCGA-CD-5800     TCGA-CD-5801 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-CD-5802     TCGA-CD-5803     TCGA-CD-5813     TCGA-CG-4300 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-CG-4301     TCGA-CG-4304     TCGA-CG-4305     TCGA-CG-4306 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-CG-4436     TCGA-CG-4437     TCGA-CG-4438     TCGA-CG-4440 
"WSB2 WILD-TYPE"   "WSB2 MUTATED" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-CG-4441     TCGA-CG-4443     TCGA-CG-4444     TCGA-CG-4449 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-CG-4455     TCGA-CG-4465     TCGA-CG-4466     TCGA-CG-4469 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-CG-4477     TCGA-CG-5717     TCGA-CG-5718     TCGA-CG-5719 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-CG-5720     TCGA-CG-5721     TCGA-CG-5722     TCGA-CG-5723 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE"   "WSB2 MUTATED" 
    TCGA-CG-5724     TCGA-CG-5726     TCGA-CG-5727     TCGA-CG-5728 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-CG-5730     TCGA-CG-5732     TCGA-CG-5733     TCGA-CG-5734 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-D7-5577     TCGA-D7-5578     TCGA-D7-5579     TCGA-D7-6518 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-D7-6519     TCGA-D7-6520     TCGA-D7-6521     TCGA-D7-6522 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-D7-6524     TCGA-D7-6525     TCGA-D7-6526     TCGA-D7-6527 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-D7-6528     TCGA-D7-6815     TCGA-D7-6817     TCGA-D7-6818 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-D7-6820     TCGA-D7-6822     TCGA-EQ-5647     TCGA-F1-6177 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE"   "WSB2 MUTATED" 
    TCGA-F1-6874     TCGA-F1-6875     TCGA-FP-7735     TCGA-FP-7829 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-FP-7916     TCGA-FP-7998     TCGA-FP-8099     TCGA-FP-8209 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-HJ-7597     TCGA-IN-7806     TCGA-IN-7808     TCGA-IP-7968 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-B7-5816     TCGA-B7-5818     TCGA-BR-6452     TCGA-BR-6455 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE"   "WSB2 MUTATED" "WSB2 WILD-TYPE" 
    TCGA-BR-6457     TCGA-BR-6458     TCGA-BR-6563     TCGA-BR-6564 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-BR-6565     TCGA-BR-6566     TCGA-BR-6705     TCGA-BR-6706 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-BR-6707     TCGA-BR-6801     TCGA-BR-6802     TCGA-BR-6803 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-BR-6852     TCGA-BR-7196     TCGA-BR-7197     TCGA-BR-7703 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE"   "WSB2 MUTATED" 
    TCGA-BR-7707     TCGA-BR-7715     TCGA-BR-7716     TCGA-BR-7717 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-BR-7722     TCGA-BR-7723     TCGA-BR-7851     TCGA-BR-7901 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-BR-7957     TCGA-BR-8059     TCGA-BR-8077     TCGA-BR-8080 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-BR-8081     TCGA-BR-8284     TCGA-BR-8295     TCGA-BR-8296 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-BR-8676     TCGA-BR-8682     TCGA-BR-8690     TCGA-BR-A4IV 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-BR-A4IY     TCGA-BR-A4IZ     TCGA-BR-A4J1     TCGA-BR-A4J4 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-BR-A4J6     TCGA-BR-A4J8     TCGA-BR-A4QI     TCGA-BR-A4QL 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-CD-5798     TCGA-CD-5799     TCGA-CD-5800     TCGA-CD-5801 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-CD-5802     TCGA-CD-5803     TCGA-CD-5813     TCGA-CG-4300 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-CG-4301     TCGA-CG-4304     TCGA-CG-4305     TCGA-CG-4306 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-CG-4436     TCGA-CG-4437     TCGA-CG-4438     TCGA-CG-4440 
"WSB2 WILD-TYPE"   "WSB2 MUTATED" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-CG-4441     TCGA-CG-4443     TCGA-CG-4444     TCGA-CG-4449 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-CG-4455     TCGA-CG-4465     TCGA-CG-4466     TCGA-CG-4469 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-CG-4477     TCGA-CG-5717     TCGA-CG-5718     TCGA-CG-5719 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-CG-5720     TCGA-CG-5721     TCGA-CG-5722     TCGA-CG-5723 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE"   "WSB2 MUTATED" 
    TCGA-CG-5724     TCGA-CG-5726     TCGA-CG-5727     TCGA-CG-5728 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-CG-5730     TCGA-CG-5732     TCGA-CG-5733     TCGA-CG-5734 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-D7-5577     TCGA-D7-5578     TCGA-D7-5579     TCGA-D7-6518 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-D7-6519     TCGA-D7-6520     TCGA-D7-6521     TCGA-D7-6522 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-D7-6524     TCGA-D7-6525     TCGA-D7-6526     TCGA-D7-6527 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-D7-6528     TCGA-D7-6815     TCGA-D7-6817     TCGA-D7-6818 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-D7-6820     TCGA-D7-6822     TCGA-EQ-5647     TCGA-F1-6177 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE"   "WSB2 MUTATED" 
    TCGA-F1-6874     TCGA-F1-6875     TCGA-FP-7735     TCGA-FP-7829 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-FP-7916     TCGA-FP-7998     TCGA-FP-8099     TCGA-FP-8209 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
    TCGA-HJ-7597     TCGA-IN-7806     TCGA-IN-7808     TCGA-IP-7968 
"WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" "WSB2 WILD-TYPE" 
[1] "hr="     "7.9e+07"
D21V2, continuous
D21V3, binary
                cls
clus              0  1
  WSB2 MUTATED    1  5
  WSB2 WILD-TYPE 62 88
[1] "tbl2"
                cls
clus             [,1] [,2]
  WSB2 MUTATED      1    5
  WSB2 WILD-TYPE   62   88
        clus
vv       WSB2 MUTATED WSB2 WILD-TYPE
  FEMALE            1             62
  MALE              5             88
                vv
clus             STOMACH  ADENOCARCINOMA  DIFFUSE TYPE
  WSB2 MUTATED                                       0
  WSB2 WILD-TYPE                                    23
                vv
clus             STOMACH  ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  WSB2 MUTATED                                                        3
  WSB2 WILD-TYPE                                                     75
                vv
clus             STOMACH  INTESTINAL ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  WSB2 MUTATED                                                                   2
  WSB2 WILD-TYPE                                                                28
                vv
clus             STOMACH  INTESTINAL ADENOCARCINOMA  TUBULAR TYPE
  WSB2 MUTATED                                                  0
  WSB2 WILD-TYPE                                               10
                vv
clus             STOMACH  INTESTINAL ADENOCARCINOMA \302\240MUCINOUS TYPE
  WSB2 MUTATED                                                          0
  WSB2 WILD-TYPE                                                       10
                vv
clus             STOMACH  INTESTINAL ADENOCARCINOMA \302\240PAPILLARY TYPE
  WSB2 MUTATED                                                           1
  WSB2 WILD-TYPE                                                         2
                vv
clus             STOMACH ADENOCARCINOMA  SIGNET RING TYPE
  WSB2 MUTATED                                          0
  WSB2 WILD-TYPE                                        1
D21V4, multiclass
D21V5, binary
                cls
clus               0   1
  WSB2 MUTATED     0   6
  WSB2 WILD-TYPE   6 144
[1] "tbl2"
                cls
clus             [,1] [,2]
  WSB2 MUTATED      0    6
  WSB2 WILD-TYPE    6  144
     clus
vv    WSB2 MUTATED WSB2 WILD-TYPE
  NO             0              6
  YES            6            144
                vv
clus              M0  M1  MX
  WSB2 MUTATED     5   0   1
  WSB2 WILD-TYPE 127  14   9
D21V6, multiclass
    clus
vv   WSB2 MUTATED WSB2 WILD-TYPE
  M0            5            127
  M1            0             14
  MX            1              9
                vv
clus             N0 N1 N2 N3 N3A NX
  WSB2 MUTATED    3  3  0  0   0  0
  WSB2 WILD-TYPE 46 46 25 14   8 11
D21V7, multiclass
                vv
clus              R0  R1  R2  RX
  WSB2 MUTATED     6   0   0   0
  WSB2 WILD-TYPE 100   6  10  24
D21V8, multiclass
    clus
vv   WSB2 MUTATED WSB2 WILD-TYPE
  R0            6            100
  R1            0              6
  R2            0             10
  RX            0             24
D21V9, continuous
D21V10, continuous
                vv
clus             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB
  WSB2 MUTATED         1        1        1        3         0         0
  WSB2 WILD-TYPE       0        4       15       24         7        10
                vv
clus             STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  WSB2 MUTATED           0          0          0          0        0
  WSB2 WILD-TYPE         4         30         12          6       23
D21V11, multiclass

Clustering(22) Variable = BCOR MUTATION ANALYSIS
D22V1, survival
                sevent
clus2             0  1
  BCOR MUTATED    7  2
  BCOR WILD-TYPE 96 15
  BCOR MUTATED BCOR WILD-TYPE 
             9            111 
  BCOR MUTATED BCOR WILD-TYPE 
             2             15 
$`BCOR MUTATED`
TCGA-B7-5816 TCGA-BR-6455 TCGA-BR-6707 TCGA-BR-7196 TCGA-BR-7707 TCGA-CG-4306 
        5.62         1.41         0.99         1.22         0.13         1.02 
TCGA-CG-4455 TCGA-CG-5721 TCGA-CG-5724 
       12.03         5.98        12.03 

$`BCOR WILD-TYPE`
TCGA-B7-5818 TCGA-BR-6452 TCGA-BR-6457 TCGA-BR-6458 TCGA-BR-6563 TCGA-BR-6564 
        0.10         0.95         1.35         1.35         0.85         0.82 
TCGA-BR-6565 TCGA-BR-6566 TCGA-BR-6705 TCGA-BR-6706 TCGA-BR-6801 TCGA-BR-6802 
        0.62         0.62         1.71         2.17         1.12         0.76 
TCGA-BR-6803 TCGA-BR-6852 TCGA-BR-7197 TCGA-BR-7703 TCGA-BR-7715 TCGA-BR-7716 
        0.66         0.26         1.48         0.46         1.05         0.82 
TCGA-BR-7717 TCGA-BR-7722 TCGA-BR-7723 TCGA-BR-7851 TCGA-BR-7901 TCGA-BR-7957 
        0.69         0.16         4.54         0.99         0.95         0.69 
TCGA-BR-8059 TCGA-BR-8077 TCGA-BR-8080 TCGA-BR-8081 TCGA-BR-8284 TCGA-BR-8295 
        0.82         0.69         0.49         0.46         0.72         1.55 
TCGA-BR-8296 TCGA-BR-8676 TCGA-BR-8682 TCGA-BR-8690 TCGA-BR-A4IV TCGA-BR-A4IY 
        1.48         0.89         1.64         0.59         0.92         0.39 
TCGA-BR-A4IZ TCGA-BR-A4J1 TCGA-BR-A4J4 TCGA-BR-A4J6 TCGA-BR-A4J8 TCGA-BR-A4QI 
        0.79         0.72         0.53         0.13         0.23         0.49 
TCGA-BR-A4QL TCGA-CD-5798 TCGA-CD-5799 TCGA-CD-5800 TCGA-CD-5801 TCGA-CD-5802 
        2.24         0.82         0.69         0.36         0.49         0.30 
TCGA-CD-5803 TCGA-CD-5813 TCGA-CG-4300 TCGA-CG-4301 TCGA-CG-4304 TCGA-CG-4305 
        0.07         0.39        20.02         3.02        27.02        15.95 
TCGA-CG-4436 TCGA-CG-4437 TCGA-CG-4438 TCGA-CG-4440 TCGA-CG-4441 TCGA-CG-4443 
        7.96         8.05        54.05         4.01        14.01        29.98 
TCGA-CG-4444 TCGA-CG-4449 TCGA-CG-4465 TCGA-CG-4466 TCGA-CG-4469 TCGA-CG-4477 
       47.05        19.07         8.98        18.94         7.07         1.02 
TCGA-CG-5717 TCGA-CG-5718 TCGA-CG-5719 TCGA-CG-5720 TCGA-CG-5722 TCGA-CG-5723 
        6.94         1.02         1.02         0.99         0.95        70.06 
TCGA-CG-5726 TCGA-CG-5727 TCGA-CG-5728 TCGA-CG-5730 TCGA-CG-5732 TCGA-CG-5733 
       28.96        31.04        65.10         4.01        55.04        21.07 
TCGA-CG-5734 TCGA-D7-5577 TCGA-D7-5578 TCGA-D7-5579 TCGA-D7-6518 TCGA-D7-6519 
        7.99         8.65         3.58         4.54         9.80        15.65 
TCGA-D7-6520 TCGA-D7-6521 TCGA-D7-6522 TCGA-D7-6524 TCGA-D7-6525 TCGA-D7-6526 
        9.63         8.19         6.90         0.69         5.95         6.61 
TCGA-D7-6527 TCGA-D7-6528 TCGA-D7-6815 TCGA-D7-6817 TCGA-D7-6818 TCGA-D7-6820 
        4.14         1.68         3.65         0.79         4.04         2.93 
TCGA-D7-6822 TCGA-EQ-5647 TCGA-F1-6177 TCGA-F1-6874 TCGA-F1-6875 TCGA-FP-7735 
        4.27         0.62         6.54         2.01        72.23         0.39 
TCGA-FP-7829 TCGA-FP-7916 TCGA-FP-7998 TCGA-FP-8099 TCGA-FP-8209 TCGA-HJ-7597 
        0.20         3.02         3.58         1.02        59.05        26.43 
TCGA-IN-7806 TCGA-IN-7808 TCGA-IP-7968 
        6.87         3.55         2.53 

  BCOR MUTATED BCOR WILD-TYPE 
          0.13           0.07 
  BCOR MUTATED BCOR WILD-TYPE 
         12.03          72.23 
  BCOR MUTATED BCOR WILD-TYPE 
          1.41           1.55 
[1] "0.1 - 12.0 (1.4)" "0.1 - 72.2 (1.6)"
    TCGA-B7-5816     TCGA-B7-5818     TCGA-BR-6452     TCGA-BR-6455 
  "BCOR MUTATED" "BCOR WILD-TYPE" "BCOR WILD-TYPE"   "BCOR MUTATED" 
    TCGA-BR-6457     TCGA-BR-6458     TCGA-BR-6563     TCGA-BR-6564 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-BR-6565     TCGA-BR-6566     TCGA-BR-6705     TCGA-BR-6706 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-BR-6707     TCGA-BR-6801     TCGA-BR-6802     TCGA-BR-6803 
  "BCOR MUTATED" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-BR-6852     TCGA-BR-7196     TCGA-BR-7197     TCGA-BR-7703 
"BCOR WILD-TYPE"   "BCOR MUTATED" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-BR-7707     TCGA-BR-7715     TCGA-BR-7716     TCGA-BR-7717 
  "BCOR MUTATED" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-BR-7722     TCGA-BR-7723     TCGA-BR-7851     TCGA-BR-7901 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-BR-7957     TCGA-BR-8059     TCGA-BR-8077     TCGA-BR-8080 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-BR-8081     TCGA-BR-8284     TCGA-BR-8295     TCGA-BR-8296 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-BR-8676     TCGA-BR-8682     TCGA-BR-8690     TCGA-BR-A4IV 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-BR-A4IY     TCGA-BR-A4IZ     TCGA-BR-A4J1     TCGA-BR-A4J4 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-BR-A4J6     TCGA-BR-A4J8     TCGA-BR-A4QI     TCGA-BR-A4QL 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-CD-5798     TCGA-CD-5799     TCGA-CD-5800     TCGA-CD-5801 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-CD-5802     TCGA-CD-5803     TCGA-CD-5813     TCGA-CG-4300 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-CG-4301     TCGA-CG-4304     TCGA-CG-4305     TCGA-CG-4306 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE"   "BCOR MUTATED" 
    TCGA-CG-4436     TCGA-CG-4437     TCGA-CG-4438     TCGA-CG-4440 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-CG-4441     TCGA-CG-4443     TCGA-CG-4444     TCGA-CG-4449 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-CG-4455     TCGA-CG-4465     TCGA-CG-4466     TCGA-CG-4469 
  "BCOR MUTATED" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-CG-4477     TCGA-CG-5717     TCGA-CG-5718     TCGA-CG-5719 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-CG-5720     TCGA-CG-5721     TCGA-CG-5722     TCGA-CG-5723 
"BCOR WILD-TYPE"   "BCOR MUTATED" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-CG-5724     TCGA-CG-5726     TCGA-CG-5727     TCGA-CG-5728 
  "BCOR MUTATED" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-CG-5730     TCGA-CG-5732     TCGA-CG-5733     TCGA-CG-5734 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-D7-5577     TCGA-D7-5578     TCGA-D7-5579     TCGA-D7-6518 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-D7-6519     TCGA-D7-6520     TCGA-D7-6521     TCGA-D7-6522 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-D7-6524     TCGA-D7-6525     TCGA-D7-6526     TCGA-D7-6527 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-D7-6528     TCGA-D7-6815     TCGA-D7-6817     TCGA-D7-6818 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-D7-6820     TCGA-D7-6822     TCGA-EQ-5647     TCGA-F1-6177 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-F1-6874     TCGA-F1-6875     TCGA-FP-7735     TCGA-FP-7829 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-FP-7916     TCGA-FP-7998     TCGA-FP-8099     TCGA-FP-8209 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-HJ-7597     TCGA-IN-7806     TCGA-IN-7808     TCGA-IP-7968 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-B7-5816     TCGA-B7-5818     TCGA-BR-6452     TCGA-BR-6455 
  "BCOR MUTATED" "BCOR WILD-TYPE" "BCOR WILD-TYPE"   "BCOR MUTATED" 
    TCGA-BR-6457     TCGA-BR-6458     TCGA-BR-6563     TCGA-BR-6564 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-BR-6565     TCGA-BR-6566     TCGA-BR-6705     TCGA-BR-6706 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-BR-6707     TCGA-BR-6801     TCGA-BR-6802     TCGA-BR-6803 
  "BCOR MUTATED" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-BR-6852     TCGA-BR-7196     TCGA-BR-7197     TCGA-BR-7703 
"BCOR WILD-TYPE"   "BCOR MUTATED" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-BR-7707     TCGA-BR-7715     TCGA-BR-7716     TCGA-BR-7717 
  "BCOR MUTATED" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-BR-7722     TCGA-BR-7723     TCGA-BR-7851     TCGA-BR-7901 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-BR-7957     TCGA-BR-8059     TCGA-BR-8077     TCGA-BR-8080 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-BR-8081     TCGA-BR-8284     TCGA-BR-8295     TCGA-BR-8296 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-BR-8676     TCGA-BR-8682     TCGA-BR-8690     TCGA-BR-A4IV 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-BR-A4IY     TCGA-BR-A4IZ     TCGA-BR-A4J1     TCGA-BR-A4J4 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-BR-A4J6     TCGA-BR-A4J8     TCGA-BR-A4QI     TCGA-BR-A4QL 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-CD-5798     TCGA-CD-5799     TCGA-CD-5800     TCGA-CD-5801 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-CD-5802     TCGA-CD-5803     TCGA-CD-5813     TCGA-CG-4300 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-CG-4301     TCGA-CG-4304     TCGA-CG-4305     TCGA-CG-4306 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE"   "BCOR MUTATED" 
    TCGA-CG-4436     TCGA-CG-4437     TCGA-CG-4438     TCGA-CG-4440 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-CG-4441     TCGA-CG-4443     TCGA-CG-4444     TCGA-CG-4449 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-CG-4455     TCGA-CG-4465     TCGA-CG-4466     TCGA-CG-4469 
  "BCOR MUTATED" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-CG-4477     TCGA-CG-5717     TCGA-CG-5718     TCGA-CG-5719 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-CG-5720     TCGA-CG-5721     TCGA-CG-5722     TCGA-CG-5723 
"BCOR WILD-TYPE"   "BCOR MUTATED" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-CG-5724     TCGA-CG-5726     TCGA-CG-5727     TCGA-CG-5728 
  "BCOR MUTATED" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-CG-5730     TCGA-CG-5732     TCGA-CG-5733     TCGA-CG-5734 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-D7-5577     TCGA-D7-5578     TCGA-D7-5579     TCGA-D7-6518 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-D7-6519     TCGA-D7-6520     TCGA-D7-6521     TCGA-D7-6522 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-D7-6524     TCGA-D7-6525     TCGA-D7-6526     TCGA-D7-6527 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-D7-6528     TCGA-D7-6815     TCGA-D7-6817     TCGA-D7-6818 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-D7-6820     TCGA-D7-6822     TCGA-EQ-5647     TCGA-F1-6177 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-F1-6874     TCGA-F1-6875     TCGA-FP-7735     TCGA-FP-7829 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-FP-7916     TCGA-FP-7998     TCGA-FP-8099     TCGA-FP-8209 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-HJ-7597     TCGA-IN-7806     TCGA-IN-7808     TCGA-IP-7968 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-B7-5816     TCGA-B7-5818     TCGA-BR-6452     TCGA-BR-6455 
  "BCOR MUTATED" "BCOR WILD-TYPE" "BCOR WILD-TYPE"   "BCOR MUTATED" 
    TCGA-BR-6457     TCGA-BR-6458     TCGA-BR-6563     TCGA-BR-6564 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-BR-6565     TCGA-BR-6566     TCGA-BR-6705     TCGA-BR-6706 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-BR-6707     TCGA-BR-6801     TCGA-BR-6802     TCGA-BR-6803 
  "BCOR MUTATED" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-BR-6852     TCGA-BR-7196     TCGA-BR-7197     TCGA-BR-7703 
"BCOR WILD-TYPE"   "BCOR MUTATED" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-BR-7707     TCGA-BR-7715     TCGA-BR-7716     TCGA-BR-7717 
  "BCOR MUTATED" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-BR-7722     TCGA-BR-7723     TCGA-BR-7851     TCGA-BR-7901 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-BR-7957     TCGA-BR-8059     TCGA-BR-8077     TCGA-BR-8080 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-BR-8081     TCGA-BR-8284     TCGA-BR-8295     TCGA-BR-8296 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-BR-8676     TCGA-BR-8682     TCGA-BR-8690     TCGA-BR-A4IV 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-BR-A4IY     TCGA-BR-A4IZ     TCGA-BR-A4J1     TCGA-BR-A4J4 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-BR-A4J6     TCGA-BR-A4J8     TCGA-BR-A4QI     TCGA-BR-A4QL 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-CD-5798     TCGA-CD-5799     TCGA-CD-5800     TCGA-CD-5801 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-CD-5802     TCGA-CD-5803     TCGA-CD-5813     TCGA-CG-4300 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-CG-4301     TCGA-CG-4304     TCGA-CG-4305     TCGA-CG-4306 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE"   "BCOR MUTATED" 
    TCGA-CG-4436     TCGA-CG-4437     TCGA-CG-4438     TCGA-CG-4440 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-CG-4441     TCGA-CG-4443     TCGA-CG-4444     TCGA-CG-4449 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-CG-4455     TCGA-CG-4465     TCGA-CG-4466     TCGA-CG-4469 
  "BCOR MUTATED" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-CG-4477     TCGA-CG-5717     TCGA-CG-5718     TCGA-CG-5719 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-CG-5720     TCGA-CG-5721     TCGA-CG-5722     TCGA-CG-5723 
"BCOR WILD-TYPE"   "BCOR MUTATED" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-CG-5724     TCGA-CG-5726     TCGA-CG-5727     TCGA-CG-5728 
  "BCOR MUTATED" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-CG-5730     TCGA-CG-5732     TCGA-CG-5733     TCGA-CG-5734 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-D7-5577     TCGA-D7-5578     TCGA-D7-5579     TCGA-D7-6518 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-D7-6519     TCGA-D7-6520     TCGA-D7-6521     TCGA-D7-6522 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-D7-6524     TCGA-D7-6525     TCGA-D7-6526     TCGA-D7-6527 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-D7-6528     TCGA-D7-6815     TCGA-D7-6817     TCGA-D7-6818 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-D7-6820     TCGA-D7-6822     TCGA-EQ-5647     TCGA-F1-6177 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-F1-6874     TCGA-F1-6875     TCGA-FP-7735     TCGA-FP-7829 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-FP-7916     TCGA-FP-7998     TCGA-FP-8099     TCGA-FP-8209 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
    TCGA-HJ-7597     TCGA-IN-7806     TCGA-IN-7808     TCGA-IP-7968 
"BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" "BCOR WILD-TYPE" 
[1] "hr=" "2.7"
D22V2, continuous
D22V3, binary
                cls
clus              0  1
  BCOR MUTATED    4  9
  BCOR WILD-TYPE 59 84
[1] "tbl2"
                cls
clus             [,1] [,2]
  BCOR MUTATED      4    9
  BCOR WILD-TYPE   59   84
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  FEMALE            4             59
  MALE              9             84
                vv
clus             STOMACH  ADENOCARCINOMA  DIFFUSE TYPE
  BCOR MUTATED                                       2
  BCOR WILD-TYPE                                    21
                vv
clus             STOMACH  ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  BCOR MUTATED                                                        8
  BCOR WILD-TYPE                                                     70
                vv
clus             STOMACH  INTESTINAL ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  BCOR MUTATED                                                                   2
  BCOR WILD-TYPE                                                                28
                vv
clus             STOMACH  INTESTINAL ADENOCARCINOMA  TUBULAR TYPE
  BCOR MUTATED                                                  0
  BCOR WILD-TYPE                                               10
                vv
clus             STOMACH  INTESTINAL ADENOCARCINOMA \302\240MUCINOUS TYPE
  BCOR MUTATED                                                          1
  BCOR WILD-TYPE                                                        9
                vv
clus             STOMACH  INTESTINAL ADENOCARCINOMA \302\240PAPILLARY TYPE
  BCOR MUTATED                                                           0
  BCOR WILD-TYPE                                                         3
                vv
clus             STOMACH ADENOCARCINOMA  SIGNET RING TYPE
  BCOR MUTATED                                          0
  BCOR WILD-TYPE                                        1
D22V4, multiclass
D22V5, binary
                cls
clus               0   1
  BCOR MUTATED     0  13
  BCOR WILD-TYPE   6 137
[1] "tbl2"
                cls
clus             [,1] [,2]
  BCOR MUTATED      0   13
  BCOR WILD-TYPE    6  137
     clus
vv    BCOR MUTATED BCOR WILD-TYPE
  NO             0              6
  YES           13            137
                vv
clus              M0  M1  MX
  BCOR MUTATED     9   3   1
  BCOR WILD-TYPE 123  11   9
D22V6, multiclass
    clus
vv   BCOR MUTATED BCOR WILD-TYPE
  M0            9            123
  M1            3             11
  MX            1              9
                vv
clus             N0 N1 N2 N3 N3A NX
  BCOR MUTATED    5  5  2  1   0  0
  BCOR WILD-TYPE 44 44 23 13   8 11
D22V7, multiclass
                vv
clus             R0 R1 R2 RX
  BCOR MUTATED    8  0  2  3
  BCOR WILD-TYPE 98  6  8 21
D22V8, multiclass
    clus
vv   BCOR MUTATED BCOR WILD-TYPE
  R0            8             98
  R1            0              6
  R2            2              8
  RX            3             21
D22V9, continuous
D22V10, continuous
                vv
clus             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB
  BCOR MUTATED         0        1        1        2         0         0
  BCOR WILD-TYPE       1        4       15       25         7        10
                vv
clus             STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  BCOR MUTATED           1          4          0          0        4
  BCOR WILD-TYPE         3         26         12          6       19
D22V11, multiclass

Clustering(23) Variable = TRPS1 MUTATION ANALYSIS
D23V1, survival
                 sevent
clus2              0  1
  TRPS1 MUTATED   15  1
  TRPS1 WILD-TYPE 88 16
  TRPS1 MUTATED TRPS1 WILD-TYPE 
             16             104 
  TRPS1 MUTATED TRPS1 WILD-TYPE 
              1              16 
$`TRPS1 MUTATED`
TCGA-B7-5816 TCGA-BR-6452 TCGA-BR-6563 TCGA-BR-7715 TCGA-BR-7716 TCGA-BR-7901 
        5.62         0.95         0.85         1.05         0.82         0.95 
TCGA-BR-8690 TCGA-BR-A4QI TCGA-CG-4300 TCGA-CG-4466 TCGA-CG-5721 TCGA-CG-5728 
        0.59         0.49        20.02        18.94         5.98        65.10 
TCGA-CG-5732 TCGA-D7-5577 TCGA-F1-6177 TCGA-FP-7829 
       55.04         8.65         6.54         0.20 

$`TRPS1 WILD-TYPE`
TCGA-B7-5818 TCGA-BR-6455 TCGA-BR-6457 TCGA-BR-6458 TCGA-BR-6564 TCGA-BR-6565 
        0.10         1.41         1.35         1.35         0.82         0.62 
TCGA-BR-6566 TCGA-BR-6705 TCGA-BR-6706 TCGA-BR-6707 TCGA-BR-6801 TCGA-BR-6802 
        0.62         1.71         2.17         0.99         1.12         0.76 
TCGA-BR-6803 TCGA-BR-6852 TCGA-BR-7196 TCGA-BR-7197 TCGA-BR-7703 TCGA-BR-7707 
        0.66         0.26         1.22         1.48         0.46         0.13 
TCGA-BR-7717 TCGA-BR-7722 TCGA-BR-7723 TCGA-BR-7851 TCGA-BR-7957 TCGA-BR-8059 
        0.69         0.16         4.54         0.99         0.69         0.82 
TCGA-BR-8077 TCGA-BR-8080 TCGA-BR-8081 TCGA-BR-8284 TCGA-BR-8295 TCGA-BR-8296 
        0.69         0.49         0.46         0.72         1.55         1.48 
TCGA-BR-8676 TCGA-BR-8682 TCGA-BR-A4IV TCGA-BR-A4IY TCGA-BR-A4IZ TCGA-BR-A4J1 
        0.89         1.64         0.92         0.39         0.79         0.72 
TCGA-BR-A4J4 TCGA-BR-A4J6 TCGA-BR-A4J8 TCGA-BR-A4QL TCGA-CD-5798 TCGA-CD-5799 
        0.53         0.13         0.23         2.24         0.82         0.69 
TCGA-CD-5800 TCGA-CD-5801 TCGA-CD-5802 TCGA-CD-5803 TCGA-CD-5813 TCGA-CG-4301 
        0.36         0.49         0.30         0.07         0.39         3.02 
TCGA-CG-4304 TCGA-CG-4305 TCGA-CG-4306 TCGA-CG-4436 TCGA-CG-4437 TCGA-CG-4438 
       27.02        15.95         1.02         7.96         8.05        54.05 
TCGA-CG-4440 TCGA-CG-4441 TCGA-CG-4443 TCGA-CG-4444 TCGA-CG-4449 TCGA-CG-4455 
        4.01        14.01        29.98        47.05        19.07        12.03 
TCGA-CG-4465 TCGA-CG-4469 TCGA-CG-4477 TCGA-CG-5717 TCGA-CG-5718 TCGA-CG-5719 
        8.98         7.07         1.02         6.94         1.02         1.02 
TCGA-CG-5720 TCGA-CG-5722 TCGA-CG-5723 TCGA-CG-5724 TCGA-CG-5726 TCGA-CG-5727 
        0.99         0.95        70.06        12.03        28.96        31.04 
TCGA-CG-5730 TCGA-CG-5733 TCGA-CG-5734 TCGA-D7-5578 TCGA-D7-5579 TCGA-D7-6518 
        4.01        21.07         7.99         3.58         4.54         9.80 
TCGA-D7-6519 TCGA-D7-6520 TCGA-D7-6521 TCGA-D7-6522 TCGA-D7-6524 TCGA-D7-6525 
       15.65         9.63         8.19         6.90         0.69         5.95 
TCGA-D7-6526 TCGA-D7-6527 TCGA-D7-6528 TCGA-D7-6815 TCGA-D7-6817 TCGA-D7-6818 
        6.61         4.14         1.68         3.65         0.79         4.04 
TCGA-D7-6820 TCGA-D7-6822 TCGA-EQ-5647 TCGA-F1-6874 TCGA-F1-6875 TCGA-FP-7735 
        2.93         4.27         0.62         2.01        72.23         0.39 
TCGA-FP-7916 TCGA-FP-7998 TCGA-FP-8099 TCGA-FP-8209 TCGA-HJ-7597 TCGA-IN-7806 
        3.02         3.58         1.02        59.05        26.43         6.87 
TCGA-IN-7808 TCGA-IP-7968 
        3.55         2.53 

  TRPS1 MUTATED TRPS1 WILD-TYPE 
           0.20            0.07 
  TRPS1 MUTATED TRPS1 WILD-TYPE 
          65.10           72.23 
  TRPS1 MUTATED TRPS1 WILD-TYPE 
          3.335           1.515 
[1] "0.2 - 65.1 (3.3)" "0.1 - 72.2 (1.5)"
     TCGA-B7-5816      TCGA-B7-5818      TCGA-BR-6452      TCGA-BR-6455 
  "TRPS1 MUTATED" "TRPS1 WILD-TYPE"   "TRPS1 MUTATED" "TRPS1 WILD-TYPE" 
     TCGA-BR-6457      TCGA-BR-6458      TCGA-BR-6563      TCGA-BR-6564 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE"   "TRPS1 MUTATED" "TRPS1 WILD-TYPE" 
     TCGA-BR-6565      TCGA-BR-6566      TCGA-BR-6705      TCGA-BR-6706 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-BR-6707      TCGA-BR-6801      TCGA-BR-6802      TCGA-BR-6803 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-BR-6852      TCGA-BR-7196      TCGA-BR-7197      TCGA-BR-7703 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-BR-7707      TCGA-BR-7715      TCGA-BR-7716      TCGA-BR-7717 
"TRPS1 WILD-TYPE"   "TRPS1 MUTATED"   "TRPS1 MUTATED" "TRPS1 WILD-TYPE" 
     TCGA-BR-7722      TCGA-BR-7723      TCGA-BR-7851      TCGA-BR-7901 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE"   "TRPS1 MUTATED" 
     TCGA-BR-7957      TCGA-BR-8059      TCGA-BR-8077      TCGA-BR-8080 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-BR-8081      TCGA-BR-8284      TCGA-BR-8295      TCGA-BR-8296 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-BR-8676      TCGA-BR-8682      TCGA-BR-8690      TCGA-BR-A4IV 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE"   "TRPS1 MUTATED" "TRPS1 WILD-TYPE" 
     TCGA-BR-A4IY      TCGA-BR-A4IZ      TCGA-BR-A4J1      TCGA-BR-A4J4 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-BR-A4J6      TCGA-BR-A4J8      TCGA-BR-A4QI      TCGA-BR-A4QL 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE"   "TRPS1 MUTATED" "TRPS1 WILD-TYPE" 
     TCGA-CD-5798      TCGA-CD-5799      TCGA-CD-5800      TCGA-CD-5801 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-CD-5802      TCGA-CD-5803      TCGA-CD-5813      TCGA-CG-4300 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE"   "TRPS1 MUTATED" 
     TCGA-CG-4301      TCGA-CG-4304      TCGA-CG-4305      TCGA-CG-4306 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-CG-4436      TCGA-CG-4437      TCGA-CG-4438      TCGA-CG-4440 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-CG-4441      TCGA-CG-4443      TCGA-CG-4444      TCGA-CG-4449 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-CG-4455      TCGA-CG-4465      TCGA-CG-4466      TCGA-CG-4469 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE"   "TRPS1 MUTATED" "TRPS1 WILD-TYPE" 
     TCGA-CG-4477      TCGA-CG-5717      TCGA-CG-5718      TCGA-CG-5719 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-CG-5720      TCGA-CG-5721      TCGA-CG-5722      TCGA-CG-5723 
"TRPS1 WILD-TYPE"   "TRPS1 MUTATED" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-CG-5724      TCGA-CG-5726      TCGA-CG-5727      TCGA-CG-5728 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE"   "TRPS1 MUTATED" 
     TCGA-CG-5730      TCGA-CG-5732      TCGA-CG-5733      TCGA-CG-5734 
"TRPS1 WILD-TYPE"   "TRPS1 MUTATED" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-D7-5577      TCGA-D7-5578      TCGA-D7-5579      TCGA-D7-6518 
  "TRPS1 MUTATED" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-D7-6519      TCGA-D7-6520      TCGA-D7-6521      TCGA-D7-6522 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-D7-6524      TCGA-D7-6525      TCGA-D7-6526      TCGA-D7-6527 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-D7-6528      TCGA-D7-6815      TCGA-D7-6817      TCGA-D7-6818 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-D7-6820      TCGA-D7-6822      TCGA-EQ-5647      TCGA-F1-6177 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE"   "TRPS1 MUTATED" 
     TCGA-F1-6874      TCGA-F1-6875      TCGA-FP-7735      TCGA-FP-7829 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE"   "TRPS1 MUTATED" 
     TCGA-FP-7916      TCGA-FP-7998      TCGA-FP-8099      TCGA-FP-8209 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-HJ-7597      TCGA-IN-7806      TCGA-IN-7808      TCGA-IP-7968 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-B7-5816      TCGA-B7-5818      TCGA-BR-6452      TCGA-BR-6455 
  "TRPS1 MUTATED" "TRPS1 WILD-TYPE"   "TRPS1 MUTATED" "TRPS1 WILD-TYPE" 
     TCGA-BR-6457      TCGA-BR-6458      TCGA-BR-6563      TCGA-BR-6564 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE"   "TRPS1 MUTATED" "TRPS1 WILD-TYPE" 
     TCGA-BR-6565      TCGA-BR-6566      TCGA-BR-6705      TCGA-BR-6706 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-BR-6707      TCGA-BR-6801      TCGA-BR-6802      TCGA-BR-6803 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-BR-6852      TCGA-BR-7196      TCGA-BR-7197      TCGA-BR-7703 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-BR-7707      TCGA-BR-7715      TCGA-BR-7716      TCGA-BR-7717 
"TRPS1 WILD-TYPE"   "TRPS1 MUTATED"   "TRPS1 MUTATED" "TRPS1 WILD-TYPE" 
     TCGA-BR-7722      TCGA-BR-7723      TCGA-BR-7851      TCGA-BR-7901 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE"   "TRPS1 MUTATED" 
     TCGA-BR-7957      TCGA-BR-8059      TCGA-BR-8077      TCGA-BR-8080 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-BR-8081      TCGA-BR-8284      TCGA-BR-8295      TCGA-BR-8296 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-BR-8676      TCGA-BR-8682      TCGA-BR-8690      TCGA-BR-A4IV 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE"   "TRPS1 MUTATED" "TRPS1 WILD-TYPE" 
     TCGA-BR-A4IY      TCGA-BR-A4IZ      TCGA-BR-A4J1      TCGA-BR-A4J4 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-BR-A4J6      TCGA-BR-A4J8      TCGA-BR-A4QI      TCGA-BR-A4QL 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE"   "TRPS1 MUTATED" "TRPS1 WILD-TYPE" 
     TCGA-CD-5798      TCGA-CD-5799      TCGA-CD-5800      TCGA-CD-5801 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-CD-5802      TCGA-CD-5803      TCGA-CD-5813      TCGA-CG-4300 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE"   "TRPS1 MUTATED" 
     TCGA-CG-4301      TCGA-CG-4304      TCGA-CG-4305      TCGA-CG-4306 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-CG-4436      TCGA-CG-4437      TCGA-CG-4438      TCGA-CG-4440 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-CG-4441      TCGA-CG-4443      TCGA-CG-4444      TCGA-CG-4449 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-CG-4455      TCGA-CG-4465      TCGA-CG-4466      TCGA-CG-4469 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE"   "TRPS1 MUTATED" "TRPS1 WILD-TYPE" 
     TCGA-CG-4477      TCGA-CG-5717      TCGA-CG-5718      TCGA-CG-5719 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-CG-5720      TCGA-CG-5721      TCGA-CG-5722      TCGA-CG-5723 
"TRPS1 WILD-TYPE"   "TRPS1 MUTATED" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-CG-5724      TCGA-CG-5726      TCGA-CG-5727      TCGA-CG-5728 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE"   "TRPS1 MUTATED" 
     TCGA-CG-5730      TCGA-CG-5732      TCGA-CG-5733      TCGA-CG-5734 
"TRPS1 WILD-TYPE"   "TRPS1 MUTATED" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-D7-5577      TCGA-D7-5578      TCGA-D7-5579      TCGA-D7-6518 
  "TRPS1 MUTATED" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-D7-6519      TCGA-D7-6520      TCGA-D7-6521      TCGA-D7-6522 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-D7-6524      TCGA-D7-6525      TCGA-D7-6526      TCGA-D7-6527 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-D7-6528      TCGA-D7-6815      TCGA-D7-6817      TCGA-D7-6818 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-D7-6820      TCGA-D7-6822      TCGA-EQ-5647      TCGA-F1-6177 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE"   "TRPS1 MUTATED" 
     TCGA-F1-6874      TCGA-F1-6875      TCGA-FP-7735      TCGA-FP-7829 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE"   "TRPS1 MUTATED" 
     TCGA-FP-7916      TCGA-FP-7998      TCGA-FP-8099      TCGA-FP-8209 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-HJ-7597      TCGA-IN-7806      TCGA-IN-7808      TCGA-IP-7968 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-B7-5816      TCGA-B7-5818      TCGA-BR-6452      TCGA-BR-6455 
  "TRPS1 MUTATED" "TRPS1 WILD-TYPE"   "TRPS1 MUTATED" "TRPS1 WILD-TYPE" 
     TCGA-BR-6457      TCGA-BR-6458      TCGA-BR-6563      TCGA-BR-6564 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE"   "TRPS1 MUTATED" "TRPS1 WILD-TYPE" 
     TCGA-BR-6565      TCGA-BR-6566      TCGA-BR-6705      TCGA-BR-6706 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-BR-6707      TCGA-BR-6801      TCGA-BR-6802      TCGA-BR-6803 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-BR-6852      TCGA-BR-7196      TCGA-BR-7197      TCGA-BR-7703 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-BR-7707      TCGA-BR-7715      TCGA-BR-7716      TCGA-BR-7717 
"TRPS1 WILD-TYPE"   "TRPS1 MUTATED"   "TRPS1 MUTATED" "TRPS1 WILD-TYPE" 
     TCGA-BR-7722      TCGA-BR-7723      TCGA-BR-7851      TCGA-BR-7901 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE"   "TRPS1 MUTATED" 
     TCGA-BR-7957      TCGA-BR-8059      TCGA-BR-8077      TCGA-BR-8080 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-BR-8081      TCGA-BR-8284      TCGA-BR-8295      TCGA-BR-8296 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-BR-8676      TCGA-BR-8682      TCGA-BR-8690      TCGA-BR-A4IV 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE"   "TRPS1 MUTATED" "TRPS1 WILD-TYPE" 
     TCGA-BR-A4IY      TCGA-BR-A4IZ      TCGA-BR-A4J1      TCGA-BR-A4J4 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-BR-A4J6      TCGA-BR-A4J8      TCGA-BR-A4QI      TCGA-BR-A4QL 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE"   "TRPS1 MUTATED" "TRPS1 WILD-TYPE" 
     TCGA-CD-5798      TCGA-CD-5799      TCGA-CD-5800      TCGA-CD-5801 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-CD-5802      TCGA-CD-5803      TCGA-CD-5813      TCGA-CG-4300 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE"   "TRPS1 MUTATED" 
     TCGA-CG-4301      TCGA-CG-4304      TCGA-CG-4305      TCGA-CG-4306 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-CG-4436      TCGA-CG-4437      TCGA-CG-4438      TCGA-CG-4440 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-CG-4441      TCGA-CG-4443      TCGA-CG-4444      TCGA-CG-4449 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-CG-4455      TCGA-CG-4465      TCGA-CG-4466      TCGA-CG-4469 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE"   "TRPS1 MUTATED" "TRPS1 WILD-TYPE" 
     TCGA-CG-4477      TCGA-CG-5717      TCGA-CG-5718      TCGA-CG-5719 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-CG-5720      TCGA-CG-5721      TCGA-CG-5722      TCGA-CG-5723 
"TRPS1 WILD-TYPE"   "TRPS1 MUTATED" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-CG-5724      TCGA-CG-5726      TCGA-CG-5727      TCGA-CG-5728 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE"   "TRPS1 MUTATED" 
     TCGA-CG-5730      TCGA-CG-5732      TCGA-CG-5733      TCGA-CG-5734 
"TRPS1 WILD-TYPE"   "TRPS1 MUTATED" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-D7-5577      TCGA-D7-5578      TCGA-D7-5579      TCGA-D7-6518 
  "TRPS1 MUTATED" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-D7-6519      TCGA-D7-6520      TCGA-D7-6521      TCGA-D7-6522 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-D7-6524      TCGA-D7-6525      TCGA-D7-6526      TCGA-D7-6527 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-D7-6528      TCGA-D7-6815      TCGA-D7-6817      TCGA-D7-6818 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-D7-6820      TCGA-D7-6822      TCGA-EQ-5647      TCGA-F1-6177 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE"   "TRPS1 MUTATED" 
     TCGA-F1-6874      TCGA-F1-6875      TCGA-FP-7735      TCGA-FP-7829 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE"   "TRPS1 MUTATED" 
     TCGA-FP-7916      TCGA-FP-7998      TCGA-FP-8099      TCGA-FP-8209 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
     TCGA-HJ-7597      TCGA-IN-7806      TCGA-IN-7808      TCGA-IP-7968 
"TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" "TRPS1 WILD-TYPE" 
[1] "hr=" "3.1"
D23V2, continuous
D23V3, binary
                 cls
clus               0  1
  TRPS1 MUTATED   12 10
  TRPS1 WILD-TYPE 51 83
[1] "tbl2"
                 cls
clus              [,1] [,2]
  TRPS1 MUTATED     12   10
  TRPS1 WILD-TYPE   51   83
        clus
vv       TRPS1 MUTATED TRPS1 WILD-TYPE
  FEMALE            12              51
  MALE              10              83
                 vv
clus              STOMACH  ADENOCARCINOMA  DIFFUSE TYPE
  TRPS1 MUTATED                                       1
  TRPS1 WILD-TYPE                                    22
                 vv
clus              STOMACH  ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  TRPS1 MUTATED                                                       14
  TRPS1 WILD-TYPE                                                     64
                 vv
clus              STOMACH  INTESTINAL ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  TRPS1 MUTATED                                                                   5
  TRPS1 WILD-TYPE                                                                25
                 vv
clus              STOMACH  INTESTINAL ADENOCARCINOMA  TUBULAR TYPE
  TRPS1 MUTATED                                                  1
  TRPS1 WILD-TYPE                                                9
                 vv
clus              STOMACH  INTESTINAL ADENOCARCINOMA \302\240MUCINOUS TYPE
  TRPS1 MUTATED                                                          1
  TRPS1 WILD-TYPE                                                        9
                 vv
clus              STOMACH  INTESTINAL ADENOCARCINOMA \302\240PAPILLARY TYPE
  TRPS1 MUTATED                                                           0
  TRPS1 WILD-TYPE                                                         3
                 vv
clus              STOMACH ADENOCARCINOMA  SIGNET RING TYPE
  TRPS1 MUTATED                                          0
  TRPS1 WILD-TYPE                                        1
D23V4, multiclass
D23V5, binary
                 cls
clus                0   1
  TRPS1 MUTATED     0  22
  TRPS1 WILD-TYPE   6 128
[1] "tbl2"
                 cls
clus              [,1] [,2]
  TRPS1 MUTATED      0   22
  TRPS1 WILD-TYPE    6  128
     clus
vv    TRPS1 MUTATED TRPS1 WILD-TYPE
  NO              0               6
  YES            22             128
                 vv
clus               M0  M1  MX
  TRPS1 MUTATED    20   0   2
  TRPS1 WILD-TYPE 112  14   8
D23V6, multiclass
    clus
vv   TRPS1 MUTATED TRPS1 WILD-TYPE
  M0            20             112
  M1             0              14
  MX             2               8
                 vv
clus              N0 N1 N2 N3 N3A NX
  TRPS1 MUTATED    7  8  2  2   1  2
  TRPS1 WILD-TYPE 42 41 23 12   7  9
D23V7, multiclass
                 vv
clus              R0 R1 R2 RX
  TRPS1 MUTATED   17  0  0  5
  TRPS1 WILD-TYPE 89  6 10 19
D23V8, multiclass
    clus
vv   TRPS1 MUTATED TRPS1 WILD-TYPE
  R0            17              89
  R1             0               6
  R2             0              10
  RX             5              19
D23V9, continuous
D23V10, continuous
                 vv
clus              STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB
  TRPS1 MUTATED         1        0        3        1         2         0
  TRPS1 WILD-TYPE       0        5       13       26         5        10
                 vv
clus              STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  TRPS1 MUTATED           0          6          2          0        4
  TRPS1 WILD-TYPE         4         24         10          6       19
D23V11, multiclass

Clustering(24) Variable = IAPP MUTATION ANALYSIS
D24V1, survival
                sevent
clus2              0   1
  IAPP MUTATED     2   0
  IAPP WILD-TYPE 101  17
  IAPP MUTATED IAPP WILD-TYPE 
             2            118 
  IAPP MUTATED IAPP WILD-TYPE 
             0             17 
$`IAPP MUTATED`
TCGA-CG-4466 TCGA-D7-6522 
       18.94         6.90 

$`IAPP WILD-TYPE`
TCGA-B7-5816 TCGA-B7-5818 TCGA-BR-6452 TCGA-BR-6455 TCGA-BR-6457 TCGA-BR-6458 
        5.62         0.10         0.95         1.41         1.35         1.35 
TCGA-BR-6563 TCGA-BR-6564 TCGA-BR-6565 TCGA-BR-6566 TCGA-BR-6705 TCGA-BR-6706 
        0.85         0.82         0.62         0.62         1.71         2.17 
TCGA-BR-6707 TCGA-BR-6801 TCGA-BR-6802 TCGA-BR-6803 TCGA-BR-6852 TCGA-BR-7196 
        0.99         1.12         0.76         0.66         0.26         1.22 
TCGA-BR-7197 TCGA-BR-7703 TCGA-BR-7707 TCGA-BR-7715 TCGA-BR-7716 TCGA-BR-7717 
        1.48         0.46         0.13         1.05         0.82         0.69 
TCGA-BR-7722 TCGA-BR-7723 TCGA-BR-7851 TCGA-BR-7901 TCGA-BR-7957 TCGA-BR-8059 
        0.16         4.54         0.99         0.95         0.69         0.82 
TCGA-BR-8077 TCGA-BR-8080 TCGA-BR-8081 TCGA-BR-8284 TCGA-BR-8295 TCGA-BR-8296 
        0.69         0.49         0.46         0.72         1.55         1.48 
TCGA-BR-8676 TCGA-BR-8682 TCGA-BR-8690 TCGA-BR-A4IV TCGA-BR-A4IY TCGA-BR-A4IZ 
        0.89         1.64         0.59         0.92         0.39         0.79 
TCGA-BR-A4J1 TCGA-BR-A4J4 TCGA-BR-A4J6 TCGA-BR-A4J8 TCGA-BR-A4QI TCGA-BR-A4QL 
        0.72         0.53         0.13         0.23         0.49         2.24 
TCGA-CD-5798 TCGA-CD-5799 TCGA-CD-5800 TCGA-CD-5801 TCGA-CD-5802 TCGA-CD-5803 
        0.82         0.69         0.36         0.49         0.30         0.07 
TCGA-CD-5813 TCGA-CG-4300 TCGA-CG-4301 TCGA-CG-4304 TCGA-CG-4305 TCGA-CG-4306 
        0.39        20.02         3.02        27.02        15.95         1.02 
TCGA-CG-4436 TCGA-CG-4437 TCGA-CG-4438 TCGA-CG-4440 TCGA-CG-4441 TCGA-CG-4443 
        7.96         8.05        54.05         4.01        14.01        29.98 
TCGA-CG-4444 TCGA-CG-4449 TCGA-CG-4455 TCGA-CG-4465 TCGA-CG-4469 TCGA-CG-4477 
       47.05        19.07        12.03         8.98         7.07         1.02 
TCGA-CG-5717 TCGA-CG-5718 TCGA-CG-5719 TCGA-CG-5720 TCGA-CG-5721 TCGA-CG-5722 
        6.94         1.02         1.02         0.99         5.98         0.95 
TCGA-CG-5723 TCGA-CG-5724 TCGA-CG-5726 TCGA-CG-5727 TCGA-CG-5728 TCGA-CG-5730 
       70.06        12.03        28.96        31.04        65.10         4.01 
TCGA-CG-5732 TCGA-CG-5733 TCGA-CG-5734 TCGA-D7-5577 TCGA-D7-5578 TCGA-D7-5579 
       55.04        21.07         7.99         8.65         3.58         4.54 
TCGA-D7-6518 TCGA-D7-6519 TCGA-D7-6520 TCGA-D7-6521 TCGA-D7-6524 TCGA-D7-6525 
        9.80        15.65         9.63         8.19         0.69         5.95 
TCGA-D7-6526 TCGA-D7-6527 TCGA-D7-6528 TCGA-D7-6815 TCGA-D7-6817 TCGA-D7-6818 
        6.61         4.14         1.68         3.65         0.79         4.04 
TCGA-D7-6820 TCGA-D7-6822 TCGA-EQ-5647 TCGA-F1-6177 TCGA-F1-6874 TCGA-F1-6875 
        2.93         4.27         0.62         6.54         2.01        72.23 
TCGA-FP-7735 TCGA-FP-7829 TCGA-FP-7916 TCGA-FP-7998 TCGA-FP-8099 TCGA-FP-8209 
        0.39         0.20         3.02         3.58         1.02        59.05 
TCGA-HJ-7597 TCGA-IN-7806 TCGA-IN-7808 TCGA-IP-7968 
       26.43         6.87         3.55         2.53 

  IAPP MUTATED IAPP WILD-TYPE 
          6.90           0.07 
  IAPP MUTATED IAPP WILD-TYPE 
         18.94          72.23 
  IAPP MUTATED IAPP WILD-TYPE 
         12.92           1.48 
[1] "6.9 - 18.9 (12.9)" "0.1 - 72.2 (1.5)" 
    TCGA-B7-5816     TCGA-B7-5818     TCGA-BR-6452     TCGA-BR-6455 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-BR-6457     TCGA-BR-6458     TCGA-BR-6563     TCGA-BR-6564 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-BR-6565     TCGA-BR-6566     TCGA-BR-6705     TCGA-BR-6706 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-BR-6707     TCGA-BR-6801     TCGA-BR-6802     TCGA-BR-6803 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-BR-6852     TCGA-BR-7196     TCGA-BR-7197     TCGA-BR-7703 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-BR-7707     TCGA-BR-7715     TCGA-BR-7716     TCGA-BR-7717 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-BR-7722     TCGA-BR-7723     TCGA-BR-7851     TCGA-BR-7901 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-BR-7957     TCGA-BR-8059     TCGA-BR-8077     TCGA-BR-8080 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-BR-8081     TCGA-BR-8284     TCGA-BR-8295     TCGA-BR-8296 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-BR-8676     TCGA-BR-8682     TCGA-BR-8690     TCGA-BR-A4IV 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-BR-A4IY     TCGA-BR-A4IZ     TCGA-BR-A4J1     TCGA-BR-A4J4 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-BR-A4J6     TCGA-BR-A4J8     TCGA-BR-A4QI     TCGA-BR-A4QL 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-CD-5798     TCGA-CD-5799     TCGA-CD-5800     TCGA-CD-5801 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-CD-5802     TCGA-CD-5803     TCGA-CD-5813     TCGA-CG-4300 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-CG-4301     TCGA-CG-4304     TCGA-CG-4305     TCGA-CG-4306 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-CG-4436     TCGA-CG-4437     TCGA-CG-4438     TCGA-CG-4440 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-CG-4441     TCGA-CG-4443     TCGA-CG-4444     TCGA-CG-4449 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-CG-4455     TCGA-CG-4465     TCGA-CG-4466     TCGA-CG-4469 
"IAPP WILD-TYPE" "IAPP WILD-TYPE"   "IAPP MUTATED" "IAPP WILD-TYPE" 
    TCGA-CG-4477     TCGA-CG-5717     TCGA-CG-5718     TCGA-CG-5719 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-CG-5720     TCGA-CG-5721     TCGA-CG-5722     TCGA-CG-5723 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-CG-5724     TCGA-CG-5726     TCGA-CG-5727     TCGA-CG-5728 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-CG-5730     TCGA-CG-5732     TCGA-CG-5733     TCGA-CG-5734 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-D7-5577     TCGA-D7-5578     TCGA-D7-5579     TCGA-D7-6518 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-D7-6519     TCGA-D7-6520     TCGA-D7-6521     TCGA-D7-6522 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE"   "IAPP MUTATED" 
    TCGA-D7-6524     TCGA-D7-6525     TCGA-D7-6526     TCGA-D7-6527 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-D7-6528     TCGA-D7-6815     TCGA-D7-6817     TCGA-D7-6818 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-D7-6820     TCGA-D7-6822     TCGA-EQ-5647     TCGA-F1-6177 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-F1-6874     TCGA-F1-6875     TCGA-FP-7735     TCGA-FP-7829 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-FP-7916     TCGA-FP-7998     TCGA-FP-8099     TCGA-FP-8209 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-HJ-7597     TCGA-IN-7806     TCGA-IN-7808     TCGA-IP-7968 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-B7-5816     TCGA-B7-5818     TCGA-BR-6452     TCGA-BR-6455 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-BR-6457     TCGA-BR-6458     TCGA-BR-6563     TCGA-BR-6564 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-BR-6565     TCGA-BR-6566     TCGA-BR-6705     TCGA-BR-6706 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-BR-6707     TCGA-BR-6801     TCGA-BR-6802     TCGA-BR-6803 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-BR-6852     TCGA-BR-7196     TCGA-BR-7197     TCGA-BR-7703 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-BR-7707     TCGA-BR-7715     TCGA-BR-7716     TCGA-BR-7717 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-BR-7722     TCGA-BR-7723     TCGA-BR-7851     TCGA-BR-7901 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-BR-7957     TCGA-BR-8059     TCGA-BR-8077     TCGA-BR-8080 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-BR-8081     TCGA-BR-8284     TCGA-BR-8295     TCGA-BR-8296 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-BR-8676     TCGA-BR-8682     TCGA-BR-8690     TCGA-BR-A4IV 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-BR-A4IY     TCGA-BR-A4IZ     TCGA-BR-A4J1     TCGA-BR-A4J4 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-BR-A4J6     TCGA-BR-A4J8     TCGA-BR-A4QI     TCGA-BR-A4QL 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-CD-5798     TCGA-CD-5799     TCGA-CD-5800     TCGA-CD-5801 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-CD-5802     TCGA-CD-5803     TCGA-CD-5813     TCGA-CG-4300 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-CG-4301     TCGA-CG-4304     TCGA-CG-4305     TCGA-CG-4306 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-CG-4436     TCGA-CG-4437     TCGA-CG-4438     TCGA-CG-4440 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-CG-4441     TCGA-CG-4443     TCGA-CG-4444     TCGA-CG-4449 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-CG-4455     TCGA-CG-4465     TCGA-CG-4466     TCGA-CG-4469 
"IAPP WILD-TYPE" "IAPP WILD-TYPE"   "IAPP MUTATED" "IAPP WILD-TYPE" 
    TCGA-CG-4477     TCGA-CG-5717     TCGA-CG-5718     TCGA-CG-5719 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-CG-5720     TCGA-CG-5721     TCGA-CG-5722     TCGA-CG-5723 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-CG-5724     TCGA-CG-5726     TCGA-CG-5727     TCGA-CG-5728 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-CG-5730     TCGA-CG-5732     TCGA-CG-5733     TCGA-CG-5734 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-D7-5577     TCGA-D7-5578     TCGA-D7-5579     TCGA-D7-6518 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-D7-6519     TCGA-D7-6520     TCGA-D7-6521     TCGA-D7-6522 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE"   "IAPP MUTATED" 
    TCGA-D7-6524     TCGA-D7-6525     TCGA-D7-6526     TCGA-D7-6527 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-D7-6528     TCGA-D7-6815     TCGA-D7-6817     TCGA-D7-6818 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-D7-6820     TCGA-D7-6822     TCGA-EQ-5647     TCGA-F1-6177 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-F1-6874     TCGA-F1-6875     TCGA-FP-7735     TCGA-FP-7829 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-FP-7916     TCGA-FP-7998     TCGA-FP-8099     TCGA-FP-8209 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-HJ-7597     TCGA-IN-7806     TCGA-IN-7808     TCGA-IP-7968 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-B7-5816     TCGA-B7-5818     TCGA-BR-6452     TCGA-BR-6455 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-BR-6457     TCGA-BR-6458     TCGA-BR-6563     TCGA-BR-6564 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-BR-6565     TCGA-BR-6566     TCGA-BR-6705     TCGA-BR-6706 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-BR-6707     TCGA-BR-6801     TCGA-BR-6802     TCGA-BR-6803 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-BR-6852     TCGA-BR-7196     TCGA-BR-7197     TCGA-BR-7703 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-BR-7707     TCGA-BR-7715     TCGA-BR-7716     TCGA-BR-7717 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-BR-7722     TCGA-BR-7723     TCGA-BR-7851     TCGA-BR-7901 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-BR-7957     TCGA-BR-8059     TCGA-BR-8077     TCGA-BR-8080 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-BR-8081     TCGA-BR-8284     TCGA-BR-8295     TCGA-BR-8296 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-BR-8676     TCGA-BR-8682     TCGA-BR-8690     TCGA-BR-A4IV 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-BR-A4IY     TCGA-BR-A4IZ     TCGA-BR-A4J1     TCGA-BR-A4J4 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-BR-A4J6     TCGA-BR-A4J8     TCGA-BR-A4QI     TCGA-BR-A4QL 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-CD-5798     TCGA-CD-5799     TCGA-CD-5800     TCGA-CD-5801 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-CD-5802     TCGA-CD-5803     TCGA-CD-5813     TCGA-CG-4300 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-CG-4301     TCGA-CG-4304     TCGA-CG-4305     TCGA-CG-4306 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-CG-4436     TCGA-CG-4437     TCGA-CG-4438     TCGA-CG-4440 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-CG-4441     TCGA-CG-4443     TCGA-CG-4444     TCGA-CG-4449 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-CG-4455     TCGA-CG-4465     TCGA-CG-4466     TCGA-CG-4469 
"IAPP WILD-TYPE" "IAPP WILD-TYPE"   "IAPP MUTATED" "IAPP WILD-TYPE" 
    TCGA-CG-4477     TCGA-CG-5717     TCGA-CG-5718     TCGA-CG-5719 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-CG-5720     TCGA-CG-5721     TCGA-CG-5722     TCGA-CG-5723 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-CG-5724     TCGA-CG-5726     TCGA-CG-5727     TCGA-CG-5728 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-CG-5730     TCGA-CG-5732     TCGA-CG-5733     TCGA-CG-5734 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-D7-5577     TCGA-D7-5578     TCGA-D7-5579     TCGA-D7-6518 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-D7-6519     TCGA-D7-6520     TCGA-D7-6521     TCGA-D7-6522 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE"   "IAPP MUTATED" 
    TCGA-D7-6524     TCGA-D7-6525     TCGA-D7-6526     TCGA-D7-6527 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-D7-6528     TCGA-D7-6815     TCGA-D7-6817     TCGA-D7-6818 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-D7-6820     TCGA-D7-6822     TCGA-EQ-5647     TCGA-F1-6177 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-F1-6874     TCGA-F1-6875     TCGA-FP-7735     TCGA-FP-7829 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-FP-7916     TCGA-FP-7998     TCGA-FP-8099     TCGA-FP-8209 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-HJ-7597     TCGA-IN-7806     TCGA-IN-7808     TCGA-IP-7968 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
[1] "Remove cluster labels:" "IAPP MUTATED"          
clus
  IAPP MUTATED IAPP WILD-TYPE 
             2            118 
    TCGA-B7-5816     TCGA-B7-5818     TCGA-BR-6452     TCGA-BR-6455 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-BR-6457     TCGA-BR-6458     TCGA-BR-6563     TCGA-BR-6564 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-BR-6565     TCGA-BR-6566     TCGA-BR-6705     TCGA-BR-6706 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-BR-6707     TCGA-BR-6801     TCGA-BR-6802     TCGA-BR-6803 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-BR-6852     TCGA-BR-7196     TCGA-BR-7197     TCGA-BR-7703 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-BR-7707     TCGA-BR-7715     TCGA-BR-7716     TCGA-BR-7717 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-BR-7722     TCGA-BR-7723     TCGA-BR-7851     TCGA-BR-7901 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-BR-7957     TCGA-BR-8059     TCGA-BR-8077     TCGA-BR-8080 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-BR-8081     TCGA-BR-8284     TCGA-BR-8295     TCGA-BR-8296 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-BR-8676     TCGA-BR-8682     TCGA-BR-8690     TCGA-BR-A4IV 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-BR-A4IY     TCGA-BR-A4IZ     TCGA-BR-A4J1     TCGA-BR-A4J4 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-BR-A4J6     TCGA-BR-A4J8     TCGA-BR-A4QI     TCGA-BR-A4QL 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-CD-5798     TCGA-CD-5799     TCGA-CD-5800     TCGA-CD-5801 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-CD-5802     TCGA-CD-5803     TCGA-CD-5813     TCGA-CG-4300 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-CG-4301     TCGA-CG-4304     TCGA-CG-4305     TCGA-CG-4306 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-CG-4436     TCGA-CG-4437     TCGA-CG-4438     TCGA-CG-4440 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-CG-4441     TCGA-CG-4443     TCGA-CG-4444     TCGA-CG-4449 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-CG-4455     TCGA-CG-4465     TCGA-CG-4469     TCGA-CG-4477 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-CG-5717     TCGA-CG-5718     TCGA-CG-5719     TCGA-CG-5720 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-CG-5721     TCGA-CG-5722     TCGA-CG-5723     TCGA-CG-5724 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-CG-5726     TCGA-CG-5727     TCGA-CG-5728     TCGA-CG-5730 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-CG-5732     TCGA-CG-5733     TCGA-CG-5734     TCGA-D7-5577 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-D7-5578     TCGA-D7-5579     TCGA-D7-6518     TCGA-D7-6519 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-D7-6520     TCGA-D7-6521     TCGA-D7-6524     TCGA-D7-6525 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-D7-6526     TCGA-D7-6527     TCGA-D7-6528     TCGA-D7-6815 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-D7-6817     TCGA-D7-6818     TCGA-D7-6820     TCGA-D7-6822 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-EQ-5647     TCGA-F1-6177     TCGA-F1-6874     TCGA-F1-6875 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-FP-7735     TCGA-FP-7829     TCGA-FP-7916     TCGA-FP-7998 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-FP-8099     TCGA-FP-8209     TCGA-HJ-7597     TCGA-IN-7806 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" "IAPP WILD-TYPE" 
    TCGA-IN-7808     TCGA-IP-7968 
"IAPP WILD-TYPE" "IAPP WILD-TYPE" 
D24V2, continuous
D24V3, binary
                cls
clus              0  1
  IAPP MUTATED    1  3
  IAPP WILD-TYPE 62 90
[1] "tbl2"
                cls
clus             [,1] [,2]
  IAPP MUTATED      1    3
  IAPP WILD-TYPE   62   90
        clus
vv       IAPP MUTATED IAPP WILD-TYPE
  FEMALE            1             62
  MALE              3             90
                vv
clus             STOMACH  ADENOCARCINOMA  DIFFUSE TYPE
  IAPP MUTATED                                       1
  IAPP WILD-TYPE                                    22
                vv
clus             STOMACH  ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  IAPP MUTATED                                                        2
  IAPP WILD-TYPE                                                     76
                vv
clus             STOMACH  INTESTINAL ADENOCARCINOMA  NOT OTHERWISE SPECIFIED (NOS)
  IAPP MUTATED                                                                   1
  IAPP WILD-TYPE                                                                29
                vv
clus             STOMACH  INTESTINAL ADENOCARCINOMA  TUBULAR TYPE
  IAPP MUTATED                                                  0
  IAPP WILD-TYPE                                               10
                vv
clus             STOMACH  INTESTINAL ADENOCARCINOMA \302\240MUCINOUS TYPE
  IAPP MUTATED                                                          0
  IAPP WILD-TYPE                                                       10
                vv
clus             STOMACH  INTESTINAL ADENOCARCINOMA \302\240PAPILLARY TYPE
  IAPP MUTATED                                                           0
  IAPP WILD-TYPE                                                         3
                vv
clus             STOMACH ADENOCARCINOMA  SIGNET RING TYPE
  IAPP MUTATED                                          0
  IAPP WILD-TYPE                                        1
D24V4, multiclass
D24V5, binary
                cls
clus               0   1
  IAPP MUTATED     0   4
  IAPP WILD-TYPE   6 146
[1] "tbl2"
                cls
clus             [,1] [,2]
  IAPP MUTATED      0    4
  IAPP WILD-TYPE    6  146
     clus
vv    IAPP MUTATED IAPP WILD-TYPE
  NO             0              6
  YES            4            146
                vv
clus              M0  M1  MX
  IAPP MUTATED     3   0   1
  IAPP WILD-TYPE 129  14   9
D24V6, multiclass
    clus
vv   IAPP MUTATED IAPP WILD-TYPE
  M0            3            129
  M1            0             14
  MX            1              9
                vv
clus             N0 N1 N2 N3 N3A NX
  IAPP MUTATED    2  2  0  0   0  0
  IAPP WILD-TYPE 47 47 25 14   8 11
D24V7, multiclass
                vv
clus              R0  R1  R2  RX
  IAPP MUTATED     2   0   0   2
  IAPP WILD-TYPE 104   6  10  22
D24V8, multiclass
    clus
vv   IAPP MUTATED IAPP WILD-TYPE
  R0            2            104
  R1            0              6
  R2            0             10
  RX            2             22
D24V9, continuous
D24V10, continuous
                vv
clus             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB
  IAPP MUTATED         0        0        2        0         0         0
  IAPP WILD-TYPE       1        5       14       27         7        10
                vv
clus             STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  IAPP MUTATED           0          1          0          0        0
  IAPP WILD-TYPE         4         29         12          6       23
D24V11, multiclass
                                    V1.D 
                         "Time to Death" 
                                      V2 
                                   "AGE" 
                                      V3 
                                "GENDER" 
                                      V4 
                     "HISTOLOGICAL.TYPE" 
                                      V5 
"RADIATIONS.RADIATION.REGIMENINDICATION" 
                                      V6 
                    "DISTANT.METASTASIS" 
                                      V7 
                 "LYMPH.NODE.METASTASIS" 
                                      V8 
             "COMPLETENESS.OF.RESECTION" 
                                      V9 
                 "NUMBER.OF.LYMPH.NODES" 
                                     V10 
                       "TUMOR.STAGECODE" 
                                     V11 
                 "NEOPLASM.DISEASESTAGE" 
> q(save="no")
