[1] "ofn"        "-oTTHCA-TP"
[1] "opt"       "-OPMUTSIG"
[1] "tl" ""  
[1] "dx" ""  
[1] "opt"    "MUTSIG"
[1] "dx" ""  
[1] "cfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/Append_Data/THCA-TP/22507188/THCA-TP.merged_data.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/THCA-TP/22815544/transformed.cor.cli.txt"

nPatients in clinical file=503, in cluster file=496, common to both=492
[1] "Reduce the number of clustering variables from 38 to 36."
[1]  36 492
[1] "BRAF MUTATION ANALYSIS"
[1] 3
  BRAF MUTATED BRAF WILD-TYPE 
           290            202 
  BRAF MUTATED BRAF WILD-TYPE 
           290            202 
[1] "NRAS MUTATION ANALYSIS"
[1] 3
  NRAS MUTATED NRAS WILD-TYPE 
            40            452 
  NRAS MUTATED NRAS WILD-TYPE 
            40            452 
[1] "HRAS MUTATION ANALYSIS"
[1] 3
  HRAS MUTATED HRAS WILD-TYPE 
            16            476 
  HRAS MUTATED HRAS WILD-TYPE 
            16            476 
[1] "NUDT11 MUTATION ANALYSIS"
[1] 3
  NUDT11 MUTATED NUDT11 WILD-TYPE 
              10              482 
  NUDT11 MUTATED NUDT11 WILD-TYPE 
              10              482 
[1] "RPTN MUTATION ANALYSIS"
[1] 3
  RPTN MUTATED RPTN WILD-TYPE 
            10            482 
  RPTN MUTATED RPTN WILD-TYPE 
            10            482 
[1] "EMG1 MUTATION ANALYSIS"
[1] 3
  EMG1 MUTATED EMG1 WILD-TYPE 
            11            481 
  EMG1 MUTATED EMG1 WILD-TYPE 
            11            481 
[1] "FAM47C MUTATION ANALYSIS"
[1] 3
  FAM47C MUTATED FAM47C WILD-TYPE 
              14              478 
  FAM47C MUTATED FAM47C WILD-TYPE 
              14              478 
[1] "EIF1AX MUTATION ANALYSIS"
[1] 3
  EIF1AX MUTATED EIF1AX WILD-TYPE 
               7              485 
  EIF1AX MUTATED EIF1AX WILD-TYPE 
               7              485 
[1] "DLX6 MUTATION ANALYSIS"
[1] 3
  DLX6 MUTATED DLX6 WILD-TYPE 
             7            485 
  DLX6 MUTATED DLX6 WILD-TYPE 
             7            485 
[1] "GPR44 MUTATION ANALYSIS"
[1] 3
  GPR44 MUTATED GPR44 WILD-TYPE 
              4             488 
  GPR44 MUTATED GPR44 WILD-TYPE 
              4             488 
[1] "TMEM184A MUTATION ANALYSIS"
[1] 3
  TMEM184A MUTATED TMEM184A WILD-TYPE 
                 5                487 
  TMEM184A MUTATED TMEM184A WILD-TYPE 
                 5                487 
[1] "NUP93 MUTATION ANALYSIS"
[1] 3
  NUP93 MUTATED NUP93 WILD-TYPE 
              4             488 
  NUP93 MUTATED NUP93 WILD-TYPE 
              4             488 
[1] "GAGE2A MUTATION ANALYSIS"
[1] 3
  GAGE2A MUTATED GAGE2A WILD-TYPE 
               4              488 
  GAGE2A MUTATED GAGE2A WILD-TYPE 
               4              488 
[1] "ABL1 MUTATION ANALYSIS"
[1] 3
  ABL1 MUTATED ABL1 WILD-TYPE 
             5            487 
  ABL1 MUTATED ABL1 WILD-TYPE 
             5            487 
[1] "LMTK2 MUTATION ANALYSIS"
[1] 3
  LMTK2 MUTATED LMTK2 WILD-TYPE 
              4             488 
  LMTK2 MUTATED LMTK2 WILD-TYPE 
              4             488 
[1] "SRPX MUTATION ANALYSIS"
[1] 3
  SRPX MUTATED SRPX WILD-TYPE 
             4            488 
  SRPX MUTATED SRPX WILD-TYPE 
             4            488 
[1] "PPM1D MUTATION ANALYSIS"
[1] 3
  PPM1D MUTATED PPM1D WILD-TYPE 
              6             486 
  PPM1D MUTATED PPM1D WILD-TYPE 
              6             486 
[1] "TG MUTATION ANALYSIS"
[1] 3
  TG MUTATED TG WILD-TYPE 
          20          472 
  TG MUTATED TG WILD-TYPE 
          20          472 
[1] "PTCD1 MUTATION ANALYSIS"
[1] 3
  PTCD1 MUTATED PTCD1 WILD-TYPE 
              3             489 
  PTCD1 MUTATED PTCD1 WILD-TYPE 
              3             489 
[1] "TSC22D1 MUTATION ANALYSIS"
[1] 3
  TSC22D1 MUTATED TSC22D1 WILD-TYPE 
                4               488 
  TSC22D1 MUTATED TSC22D1 WILD-TYPE 
                4               488 
[1] "AKT1 MUTATION ANALYSIS"
[1] 3
  AKT1 MUTATED AKT1 WILD-TYPE 
             5            487 
  AKT1 MUTATED AKT1 WILD-TYPE 
             5            487 
[1] "ZNF878 MUTATION ANALYSIS"
[1] 3
  ZNF878 MUTATED ZNF878 WILD-TYPE 
               3              489 
  ZNF878 MUTATED ZNF878 WILD-TYPE 
               3              489 
[1] "RBM10 MUTATION ANALYSIS"
[1] 3
  RBM10 MUTATED RBM10 WILD-TYPE 
              4             488 
  RBM10 MUTATED RBM10 WILD-TYPE 
              4             488 
[1] "EP400 MUTATION ANALYSIS"
[1] 3
  EP400 MUTATED EP400 WILD-TYPE 
              3             489 
  EP400 MUTATED EP400 WILD-TYPE 
              3             489 
[1] "ABCD1 MUTATION ANALYSIS"
[1] 3
  ABCD1 MUTATED ABCD1 WILD-TYPE 
              4             488 
  ABCD1 MUTATED ABCD1 WILD-TYPE 
              4             488 
[1] "MYH10 MUTATION ANALYSIS"
[1] 3
  MYH10 MUTATED MYH10 WILD-TYPE 
              4             488 
  MYH10 MUTATED MYH10 WILD-TYPE 
              4             488 
[1] "NLRP6 MUTATION ANALYSIS"
[1] 3
  NLRP6 MUTATED NLRP6 WILD-TYPE 
              4             488 
  NLRP6 MUTATED NLRP6 WILD-TYPE 
              4             488 
[1] "IGSF3 MUTATION ANALYSIS"
[1] 3
  IGSF3 MUTATED IGSF3 WILD-TYPE 
              4             488 
  IGSF3 MUTATED IGSF3 WILD-TYPE 
              4             488 
[1] "PRMT8 MUTATION ANALYSIS"
[1] 3
  PRMT8 MUTATED PRMT8 WILD-TYPE 
              3             489 
  PRMT8 MUTATED PRMT8 WILD-TYPE 
              3             489 
[1] "ARMCX3 MUTATION ANALYSIS"
[1] 3
  ARMCX3 MUTATED ARMCX3 WILD-TYPE 
               3              489 
  ARMCX3 MUTATED ARMCX3 WILD-TYPE 
               3              489 
[1] "RYR1 MUTATION ANALYSIS"
[1] 3
  RYR1 MUTATED RYR1 WILD-TYPE 
             7            485 
  RYR1 MUTATED RYR1 WILD-TYPE 
             7            485 
[1] "TNRC18 MUTATION ANALYSIS"
[1] 3
  TNRC18 MUTATED TNRC18 WILD-TYPE 
               4              488 
  TNRC18 MUTATED TNRC18 WILD-TYPE 
               4              488 
[1] "TMEM90B MUTATION ANALYSIS"
[1] 3
  TMEM90B MUTATED TMEM90B WILD-TYPE 
                3               489 
  TMEM90B MUTATED TMEM90B WILD-TYPE 
                3               489 
[1] "ZC3H11A MUTATION ANALYSIS"
[1] 3
  ZC3H11A MUTATED ZC3H11A WILD-TYPE 
                3               489 
  ZC3H11A MUTATED ZC3H11A WILD-TYPE 
                3               489 
[1] "RANBP9 MUTATION ANALYSIS"
[1] 3
  RANBP9 MUTATED RANBP9 WILD-TYPE 
               3              489 
  RANBP9 MUTATED RANBP9 WILD-TYPE 
               3              489 
[1] "DGCR8 MUTATION ANALYSIS"
[1] 3
  DGCR8 MUTATED DGCR8 WILD-TYPE 
              3             489 
  DGCR8 MUTATED DGCR8 WILD-TYPE 
              3             489 
[1] "data2feature, selection=ALL"
 [1] "YEARS_TO_BIRTH"                      
 [2] "VITAL_STATUS"                        
 [3] "DAYS_TO_DEATH"                       
 [4] "DAYS_TO_LAST_FOLLOWUP"               
 [5] "TUMOR_TISSUE_SITE"                   
 [6] "PATHOLOGIC_STAGE"                    
 [7] "PATHOLOGY_T_STAGE"                   
 [8] "PATHOLOGY_N_STAGE"                   
 [9] "PATHOLOGY_M_STAGE"                   
[10] "GENDER"                              
[11] "DATE_OF_INITIAL_PATHOLOGIC_DIAGNOSIS"
[12] "RADIATION_THERAPY"                   
[13] "HISTOLOGICAL_TYPE"                   
[14] "RADIATION_EXPOSURE"                  
[15] "EXTRATHYROIDAL_EXTENSION"            
[16] "RESIDUAL_TUMOR"                      
[17] "NUMBER_OF_LYMPH_NODES"               
[18] "MULTIFOCALITY"                       
[19] "TUMOR_SIZE"                          
[20] "RACE"                                
[21] "ETHNICITY"                           

Input Data has 21 rows and 492 columns.

[1] "Last Follow UP"
Variable 1:'YEARS_TO_BIRTH':	nDistinctValues=72,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'VITAL_STATUS':	nDistinctValues=2,	numeric=TRUE,	binary=TRUE,	exclude=FALSE.
Variable 3:'DAYS_TO_DEATH':	nDistinctValues=14,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
[1] "exclude grep('DAYS_?TO', vnms) to deal with survival parameters seperately"
Variable 4:'DAYS_TO_LAST_FOLLOWUP':	nDistinctValues=431,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
[1] "exclude grep('FOLLOWUP', vnms) to deal with survival parameters seperately"
Variable 5:'TUMOR_TISSUE_SITE':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "TUMOR_TISSUE_SITE is excluded in the analysis because there is no more than two cases of (unique non-NA values)"
Variable 6:'PATHOLOGIC_STAGE':	nDistinctValues=6,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'PATHOLOGY_T_STAGE':	nDistinctValues=8,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'PATHOLOGY_N_STAGE':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 9:'PATHOLOGY_M_STAGE':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 10:'GENDER':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 11:'DATE_OF_INITIAL_PATHOLOGIC_DIAGNOSIS':	nDistinctValues=19,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
[1] "exclude grep('DATE', vnms) to deal with survival parameters seperately"
Variable 12:'RADIATION_THERAPY':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 13:'HISTOLOGICAL_TYPE':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 14:'RADIATION_EXPOSURE':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 15:'EXTRATHYROIDAL_EXTENSION':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 16:'RESIDUAL_TUMOR':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 17:'NUMBER_OF_LYMPH_NODES':	nDistinctValues=29,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 18:'MULTIFOCALITY':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 19:'TUMOR_SIZE':	nDistinctValues=61,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 20:'RACE':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 21:'ETHNICITY':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
[1] "## **** detect survival parameters (defined in index such as ind_OS, ind_MFS, ind_RFS, ind_RFS, ind_BCR and ind_d2ssd) *** ##"
[1] "detected survival parameters using [ind_OS, overall_survival]"
[1] "survival parameters accumulated so far"
[1] "DAYS_TO_DEATH_OR_LAST_FUP" "VITAL_STATUS"             
[1] "detected survival parameters using [ind_OS, curated_overall_survival]"
[1] "survival parameters accumulated so far"
[1] "DAYS_TO_DEATH_OR_LAST_FUP" "VITAL_STATUS"             
[1] "detected survival parameters using [ind_TCGAOS]"
[1] "survival parameters accumulated so far"
[1] "DAYS_TO_DEATH_OR_LAST_FUP" "VITAL_STATUS"             
[1] "detected survivial parameters using [ind_MFS]"
[1] "survival parameters accumulated so far"
[1] "DAYS_TO_DEATH_OR_LAST_FUP" "VITAL_STATUS"             
[1] "detected survival parameters using [ind_RFS]"
[1] "survival parameters accumulated so far"
[1] "DAYS_TO_DEATH_OR_LAST_FUP" "VITAL_STATUS"             
[1] "detected survival parameters using [ind_BCR]"
[1] "survival parameters accumulated so far"
[1] "DAYS_TO_DEATH_OR_LAST_FUP" "VITAL_STATUS"             
[1] "detected survival parameters using [ind_Progression]"
[1] "survival parameters accumulated so far"
[1] "DAYS_TO_DEATH_OR_LAST_FUP" "VITAL_STATUS"             
[1] "detected survival parameters using [index_additional_survival_time]"
[1] "survival parameters accumulated so far"
[1] "DAYS_TO_DEATH_OR_LAST_FUP" "VITAL_STATUS"             
[1] "detected survival parameters using condition: [is.null(surv.mat)&&(selection=='SURV')]"
[1] "survival parameters accumulated so far"
[1] "DAYS_TO_DEATH_OR_LAST_FUP" "VITAL_STATUS"             
[1] "************ conversion from categorical data to rank data ********** "
[1] "PATHOLOGY_T_STAGE is converted to numeric rank data using modified categoies"
[1] "PATHOLOGY_N_STAGE is converted to numeric rank data using modified categoies"
[1] "PATHOLOGY_M_STAGE is converted to rank data using modified categoies"
[1] "****** SUMMARY ***** "
Output Data has 492 columns, 1 survival variables, and 16 non-survival variables.
[1] "* survival variables: "
[1] "DAYS_TO_DEATH_OR_LAST_FUP" "VITAL_STATUS"             
[1] "* non-survival variables: "
 [1] "YEARS_TO_BIRTH"           "PATHOLOGIC_STAGE"        
 [3] "PATHOLOGY_T_STAGE"        "PATHOLOGY_N_STAGE"       
 [5] "PATHOLOGY_M_STAGE"        "GENDER"                  
 [7] "RADIATION_THERAPY"        "HISTOLOGICAL_TYPE"       
 [9] "RADIATION_EXPOSURE"       "EXTRATHYROIDAL_EXTENSION"
[11] "RESIDUAL_TUMOR"           "NUMBER_OF_LYMPH_NODES"   
[13] "MULTIFOCALITY"            "TUMOR_SIZE"              
[15] "RACE"                     "ETHNICITY"               
YEARS_TO_BIRTH, nv=72, binary=FALSE, numeric=TRUE
PATHOLOGIC_STAGE, nv=6, binary=FALSE, numeric=FALSE
PATHOLOGY_T_STAGE, nv=4, binary=FALSE, numeric=TRUE
[1] "grepl('PATHOLOGY.T',vnm)"
vv
 T1  T2  T3  T4 
141 162 164  23 
[1] "table(vv)"
vv
 T1  T2  T3  T4 
141 162 164  23 
$ClinVariableName
[1] "PATHOLOGY_T_STAGE"

$Table
vv
 T1  T2  T3  T4 
141 162 164  23 

$nClasses
[1] 4

$ClinVariableType
[1] "multiclass(4)"


 T1  T2  T3  T4 
141 162 164  23 
PATHOLOGY_N_STAGE, nv=2, binary=FALSE, numeric=TRUE
PATHOLOGY_M_STAGE, nv=2, binary=FALSE, numeric=TRUE
GENDER, nv=2, binary=FALSE, numeric=FALSE
RADIATION_THERAPY, nv=2, binary=FALSE, numeric=FALSE
HISTOLOGICAL_TYPE, nv=4, binary=FALSE, numeric=FALSE
RADIATION_EXPOSURE, nv=2, binary=FALSE, numeric=FALSE
EXTRATHYROIDAL_EXTENSION, nv=4, binary=FALSE, numeric=FALSE
RESIDUAL_TUMOR, nv=4, binary=FALSE, numeric=FALSE
NUMBER_OF_LYMPH_NODES, nv=29, binary=FALSE, numeric=TRUE
MULTIFOCALITY, nv=2, binary=FALSE, numeric=FALSE
TUMOR_SIZE, nv=61, binary=FALSE, numeric=TRUE
RACE, nv=4, binary=FALSE, numeric=FALSE
ETHNICITY, nv=2, binary=FALSE, numeric=FALSE

Clustering(1) Variable = BRAF MUTATION ANALYSIS
D1V1, survival
                sevent
clus2              0   1
  BRAF MUTATED   282   7
  BRAF WILD-TYPE 195   7
  BRAF MUTATED BRAF WILD-TYPE 
           289            202 
  BRAF MUTATED BRAF WILD-TYPE 
             7              7 
$`BRAF MUTATED`
TCGA-BJ-A290 TCGA-DE-A0XZ TCGA-DJ-A13L TCGA-DJ-A2PR TCGA-DJ-A3UU TCGA-DJ-A3UW 
       30.21        35.84         9.96        27.45        23.44        59.57 
TCGA-DJ-A3V4 TCGA-DJ-A3VI TCGA-E3-A3E5 TCGA-EL-A3CR TCGA-EL-A3D0 TCGA-EL-A3GQ 
       42.54         3.12        39.95         7.66       139.86        50.24 
TCGA-EL-A3H8 TCGA-EL-A3MY TCGA-EL-A3N3 TCGA-ET-A3BO TCGA-ET-A3BV TCGA-J8-A3NZ 
      150.48        17.52       178.29        50.40        75.42        17.23 
TCGA-L6-A4ET TCGA-4C-A93U TCGA-BJ-A0Z3 TCGA-BJ-A0Z9 TCGA-BJ-A0ZB TCGA-BJ-A0ZH 
       21.83         4.24        16.34        41.33         4.01        15.12 
TCGA-BJ-A18Z TCGA-BJ-A28R TCGA-BJ-A28X TCGA-BJ-A2NA TCGA-BJ-A3EZ TCGA-BJ-A3PR 
       41.52        42.15        30.97        18.97        16.01        36.39 
TCGA-BJ-A3PU TCGA-BJ-A45H TCGA-BJ-A45I TCGA-BJ-A45J TCGA-BJ-A4O8 TCGA-BJ-A4O9 
       18.64        28.44        15.45        21.63        19.43        23.47 
TCGA-CE-A3ME TCGA-CE-A483 TCGA-DE-A0Y3 TCGA-DE-A4MA TCGA-DE-A4MB TCGA-DE-A4MC 
       12.46        15.02        50.17        30.12        11.57        30.02 
TCGA-DE-A4MD TCGA-DE-A69J TCGA-DE-A7U5 TCGA-DJ-A13O TCGA-DJ-A13P TCGA-DJ-A13T 
       25.12        14.70         2.76        38.17       169.32        56.19 
TCGA-DJ-A13U TCGA-DJ-A13V TCGA-DJ-A13X TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QF 
       52.27        43.17         8.32        48.07       135.91        30.61 
TCGA-DJ-A1QH TCGA-DJ-A1QI TCGA-DJ-A1QM TCGA-DJ-A1QN TCGA-DJ-A1QO TCGA-DJ-A1QQ 
       42.51        14.96         6.02        42.58        47.41        17.56 
TCGA-DJ-A2PN TCGA-DJ-A2PQ TCGA-DJ-A2PS TCGA-DJ-A2PT TCGA-DJ-A2PU TCGA-DJ-A2PV 
       10.09        35.41        26.20        38.83        33.96        31.99 
TCGA-DJ-A2PW TCGA-DJ-A2PY TCGA-DJ-A2PZ TCGA-DJ-A2Q3 TCGA-DJ-A2Q4 TCGA-DJ-A2Q5 
       34.85         8.78         8.42        40.24        33.93        37.48 
TCGA-DJ-A2Q6 TCGA-DJ-A2Q7 TCGA-DJ-A2QA TCGA-DJ-A2QC TCGA-DJ-A3UK TCGA-DJ-A3UM 
       36.46        35.11        33.53        39.95        36.92        31.04 
TCGA-DJ-A3UN TCGA-DJ-A3UO TCGA-DJ-A3UQ TCGA-DJ-A3UR TCGA-DJ-A3UX TCGA-DJ-A3UY 
       32.42        31.46        19.56        36.33        11.34        35.87 
TCGA-DJ-A3V0 TCGA-DJ-A3V2 TCGA-DJ-A3V5 TCGA-DJ-A3V7 TCGA-DJ-A3V8 TCGA-DJ-A3V9 
       36.99        20.22        19.20        23.21        21.27        20.48 
TCGA-DJ-A3VA TCGA-DJ-A3VB TCGA-DJ-A3VD TCGA-DJ-A3VE TCGA-DJ-A3VF TCGA-DJ-A3VJ 
       24.82        22.92        40.70        18.97         9.60        36.43 
TCGA-DJ-A3VL TCGA-DJ-A4UL TCGA-DJ-A4UW TCGA-DJ-A4V2 TCGA-DJ-A4V4 TCGA-DO-A1K0 
       23.44        30.87        26.93         3.12        15.81        21.53 
TCGA-E3-A3DY TCGA-E3-A3E1 TCGA-E3-A3E2 TCGA-E3-A3E3 TCGA-E8-A242 TCGA-E8-A2EA 
       92.55        80.52        63.19        52.44        31.23        35.67 
TCGA-E8-A2JQ TCGA-E8-A3X7 TCGA-E8-A413 TCGA-E8-A414 TCGA-E8-A415 TCGA-E8-A417 
       11.70        31.27        29.98        31.50        31.04        30.84 
TCGA-E8-A419 TCGA-E8-A433 TCGA-E8-A434 TCGA-E8-A436 TCGA-E8-A437 TCGA-E8-A44K 
       25.45        31.27        31.33        14.96        39.88        31.00 
TCGA-EL-A3CL TCGA-EL-A3CM TCGA-EL-A3CN TCGA-EL-A3CP TCGA-EL-A3CT TCGA-EL-A3CU 
       31.66        26.73       155.54       158.83        60.95       157.15 
TCGA-EL-A3CV TCGA-EL-A3D1 TCGA-EL-A3D6 TCGA-EL-A3GP TCGA-EL-A3GR TCGA-EL-A3GS 
       37.94        98.53       108.36        49.51       115.10        65.39 
TCGA-EL-A3GU TCGA-EL-A3GV TCGA-EL-A3GX TCGA-EL-A3GY TCGA-EL-A3GZ TCGA-EL-A3H4 
      136.01        50.37       147.75       101.13       139.99        49.71 
TCGA-EL-A3H5 TCGA-EL-A3H7 TCGA-EL-A3MW TCGA-EL-A3MX TCGA-EL-A3MZ TCGA-EL-A3N2 
       83.57       139.00       108.66        57.63        52.50        29.65 
TCGA-EL-A3T1 TCGA-EL-A3T3 TCGA-EL-A3T6 TCGA-EL-A3T7 TCGA-EL-A3T8 TCGA-EL-A3TA 
      129.57       132.07        98.24        41.29       107.47        66.90 
TCGA-EL-A3ZG TCGA-EL-A3ZL TCGA-EL-A3ZM TCGA-EL-A3ZO TCGA-EL-A3ZQ TCGA-EL-A3ZT 
       89.56        62.30        36.03        72.69        61.22        59.44 
TCGA-EL-A4JW TCGA-EL-A4JX TCGA-EL-A4JZ TCGA-EL-A4K0 TCGA-EL-A4K1 TCGA-EL-A4K4 
       34.72        45.96        61.02        31.04        34.39        53.36 
TCGA-EL-A4K7 TCGA-EL-A4K9 TCGA-EL-A4KG TCGA-EL-A4KH TCGA-EM-A1CT TCGA-EM-A1CU 
       41.13        47.84        24.30        27.06        18.18        20.91 
TCGA-EM-A1CV TCGA-EM-A22I TCGA-EM-A22M TCGA-EM-A22O TCGA-EM-A22P TCGA-EM-A2CS 
       48.49        14.73        14.53        44.19        41.29        27.65 
TCGA-EM-A2OX TCGA-EM-A2OZ TCGA-EM-A2P0 TCGA-EM-A2P1 TCGA-EM-A2P3 TCGA-EM-A3AK 
       19.73        33.96        17.59        17.46        14.60        15.68 
TCGA-EM-A3AR TCGA-EM-A3FJ TCGA-EM-A3FK TCGA-EM-A3FM TCGA-EM-A3FO TCGA-EM-A3O3 
       37.25        27.95        23.77        21.01        17.49        14.50 
TCGA-EM-A3O7 TCGA-EM-A3O8 TCGA-EM-A3SU TCGA-EM-A3SX TCGA-EM-A3SZ TCGA-EM-A4FF 
        7.33        12.53        29.95        29.85        12.79        84.59 
TCGA-EM-A4FM TCGA-EM-A4FN TCGA-EM-A4FO TCGA-EM-A4FQ TCGA-EM-A4FV TCGA-ET-A25G 
        5.33        26.37        26.37        22.45        24.46        81.93 
TCGA-ET-A25J TCGA-ET-A25K TCGA-ET-A25O TCGA-ET-A25R TCGA-ET-A2MY TCGA-ET-A2MZ 
       77.56        70.42        65.29        63.45        58.75        37.25 
TCGA-ET-A2N0 TCGA-ET-A2N4 TCGA-ET-A39J TCGA-ET-A39K TCGA-ET-A39M TCGA-ET-A39O 
       52.60         2.66       106.09       107.41        84.89       100.57 
TCGA-ET-A39P TCGA-ET-A39S TCGA-ET-A39T TCGA-ET-A3BP TCGA-ET-A3BQ TCGA-ET-A3BS 
       95.34        55.10        98.20        79.10        76.64         5.79 
TCGA-ET-A3BT TCGA-ET-A3BU TCGA-ET-A3BW TCGA-ET-A3BX TCGA-ET-A3DO TCGA-ET-A3DP 
       87.62        77.82        46.65        52.47       116.78        94.59 
TCGA-ET-A3DT TCGA-ET-A3DU TCGA-ET-A3DW TCGA-ET-A40Q TCGA-ET-A4KQ TCGA-FE-A22Z 
       43.73        62.83        24.72        46.26        31.40        73.74 
TCGA-FE-A230 TCGA-FE-A231 TCGA-FE-A232 TCGA-FE-A233 TCGA-FE-A234 TCGA-FE-A235 
       71.44        31.59        79.69        24.69        68.22       117.40 
TCGA-FE-A236 TCGA-FE-A237 TCGA-FE-A23A TCGA-FE-A3PB TCGA-FE-A3PC TCGA-FK-A3SB 
       66.77       112.80        81.83        85.15        85.68         4.11 
TCGA-FK-A3SH TCGA-FY-A3BL TCGA-FY-A3I4 TCGA-FY-A3ON TCGA-FY-A3R7 TCGA-FY-A3R8 
       48.10        20.42        17.82        19.56        16.27        15.68 
TCGA-FY-A3RA TCGA-FY-A3TY TCGA-FY-A3YR TCGA-FY-A40K TCGA-FY-A40L TCGA-FY-A4B3 
       18.08        23.31        17.36        15.16        23.87        14.04 
TCGA-FY-A4B4 TCGA-GE-A2C6 TCGA-H2-A26U TCGA-H2-A3RI TCGA-H2-A421 TCGA-H2-A422 
       21.60        12.53        17.00        11.01        20.05        18.61 
TCGA-IM-A3EB TCGA-IM-A3ED TCGA-IM-A3U2 TCGA-IM-A3U3 TCGA-IM-A41Y TCGA-IM-A420 
       48.92        47.41        18.51        16.90        21.83         8.22 
TCGA-IM-A4EB TCGA-J8-A3O2 TCGA-J8-A3YD TCGA-J8-A3YE TCGA-J8-A3YF TCGA-J8-A3YG 
       25.64        11.24        31.82        27.85        24.69        22.29 
TCGA-J8-A3YH TCGA-J8-A42S TCGA-J8-A4HY TCGA-KS-A41F TCGA-KS-A41J TCGA-KS-A4I1 
        5.75         2.47         0.20       143.57        15.68        26.70 
TCGA-KS-A4I3 TCGA-KS-A4I5 TCGA-KS-A4I7 TCGA-KS-A4I9 TCGA-KS-A4IB TCGA-KS-A4IC 
       43.69        18.64        32.45        87.39        84.72        35.28 
TCGA-L6-A4EP TCGA-L6-A4EQ TCGA-L6-A4EU TCGA-MK-A4N6 TCGA-MK-A4N7 TCGA-MK-A4N9 
       33.40        40.37         9.50        36.10        32.45        30.21 
TCGA-E8-A418 
        3.02 

$`BRAF WILD-TYPE`
TCGA-BJ-A45K TCGA-CE-A13K TCGA-DJ-A3VK TCGA-EL-A3CS TCGA-EL-A3CY TCGA-EL-A3D5 
       23.18        12.66        24.76        45.53         4.18        57.11 
TCGA-EL-A3H2 TCGA-EM-A3AQ TCGA-FK-A3SD TCGA-FY-A76V TCGA-J8-A4HW TCGA-MK-A84Z 
       33.50        29.72         1.05         1.68         2.60        23.93 
TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0ZA TCGA-BJ-A0ZC TCGA-BJ-A0ZE 
       24.79        13.78        49.78        18.87        11.57        16.73 
TCGA-BJ-A0ZG TCGA-BJ-A0ZJ TCGA-BJ-A18Y TCGA-BJ-A191 TCGA-BJ-A192 TCGA-BJ-A28S 
       25.48        42.08        51.39         4.83        44.35        21.04 
TCGA-BJ-A28T TCGA-BJ-A28V TCGA-BJ-A28Z TCGA-BJ-A2N7 TCGA-BJ-A2N8 TCGA-BJ-A2N9 
       35.54        32.45        11.08        18.38        16.57        20.48 
TCGA-BJ-A2P4 TCGA-BJ-A3F0 TCGA-BJ-A3PT TCGA-BJ-A45D TCGA-BJ-A45E TCGA-BJ-A45F 
       12.82        13.94        23.31        10.88        21.01         3.45 
TCGA-BJ-A45G TCGA-CE-A27D TCGA-CE-A3MD TCGA-CE-A481 TCGA-CE-A482 TCGA-CE-A484 
       23.84        12.30        12.79        11.38        10.68        12.43 
TCGA-CE-A485 TCGA-DE-A0Y2 TCGA-DE-A2OL TCGA-DE-A3KN TCGA-DE-A4M8 TCGA-DE-A4M9 
       12.66        21.63        37.64        27.32        18.54        18.84 
TCGA-DE-A69K TCGA-DJ-A13M TCGA-DJ-A13R TCGA-DJ-A13S TCGA-DJ-A13W TCGA-DJ-A1QG 
       14.27        48.79        18.58         8.71        52.37        44.98 
TCGA-DJ-A1QL TCGA-DJ-A2PO TCGA-DJ-A2PP TCGA-DJ-A2PX TCGA-DJ-A2Q0 TCGA-DJ-A2Q1 
       17.59         7.99        30.58        28.96        34.36        37.74 
TCGA-DJ-A2Q2 TCGA-DJ-A2Q8 TCGA-DJ-A2Q9 TCGA-DJ-A2QB TCGA-DJ-A3UP TCGA-DJ-A3US 
       43.96        39.09        35.90        35.18        16.41        32.81 
TCGA-DJ-A3UT TCGA-DJ-A3UZ TCGA-DJ-A3V3 TCGA-DJ-A3VG TCGA-DJ-A3VM TCGA-DJ-A4UP 
       36.33        40.96        30.61        35.67        27.62        30.12 
TCGA-DJ-A4UQ TCGA-DJ-A4UR TCGA-DJ-A4UT TCGA-DJ-A4V0 TCGA-DJ-A4V5 TCGA-DO-A1JZ 
       33.04        34.78        27.06        35.54        35.38        54.90 
TCGA-DO-A2HM TCGA-E3-A3DZ TCGA-E3-A3E0 TCGA-E8-A416 TCGA-E8-A432 TCGA-E8-A438 
        2.33        47.21        66.38        31.30        30.61        33.50 
TCGA-E8-A44M TCGA-EL-A3CO TCGA-EL-A3CW TCGA-EL-A3CX TCGA-EL-A3CZ TCGA-EL-A3D4 
       30.15        97.74        57.01       106.62        79.50        69.57 
TCGA-EL-A3GO TCGA-EL-A3GW TCGA-EL-A3H1 TCGA-EL-A3H3 TCGA-EL-A3T0 TCGA-EL-A3T2 
       64.87        50.20        49.32        43.36       142.52        32.48 
TCGA-EL-A3T9 TCGA-EL-A3TB TCGA-EL-A3ZH TCGA-EL-A3ZK TCGA-EL-A3ZN TCGA-EL-A3ZP 
        5.72        82.82        91.17        51.78        53.06        65.49 
TCGA-EL-A3ZR TCGA-EL-A3ZS TCGA-EL-A4JV TCGA-EL-A4K2 TCGA-EL-A4K6 TCGA-EL-A4KD 
       60.16         7.07        57.47        30.51        44.15        43.59 
TCGA-EL-A4KI TCGA-EM-A1CS TCGA-EM-A1CW TCGA-EM-A1YA TCGA-EM-A1YB TCGA-EM-A1YC 
       23.90        26.86        18.05        19.79        19.46        78.61 
TCGA-EM-A1YD TCGA-EM-A1YE TCGA-EM-A22J TCGA-EM-A22K TCGA-EM-A22L TCGA-EM-A22N 
       57.01        54.08        14.50        15.75        10.45        10.65 
TCGA-EM-A22Q TCGA-EM-A2CJ TCGA-EM-A2CK TCGA-EM-A2CL TCGA-EM-A2CN TCGA-EM-A2CO 
       14.24        47.57        17.88        13.18        23.51         6.05 
TCGA-EM-A2CP TCGA-EM-A2CQ TCGA-EM-A2CR TCGA-EM-A2CT TCGA-EM-A2CU TCGA-EM-A2OV 
        2.99        12.30        13.64        48.46        13.15        22.16 
TCGA-EM-A2OW TCGA-EM-A2OY TCGA-EM-A2P2 TCGA-EM-A3AI TCGA-EM-A3AJ TCGA-EM-A3AL 
       40.34        32.32        17.29        22.52        30.94        14.14 
TCGA-EM-A3AN TCGA-EM-A3AO TCGA-EM-A3AP TCGA-EM-A3FL TCGA-EM-A3FN TCGA-EM-A3FP 
       33.07        44.52         8.35        47.38        12.07        17.39 
TCGA-EM-A3FQ TCGA-EM-A3FR TCGA-EM-A3O6 TCGA-EM-A3O9 TCGA-EM-A3OA TCGA-EM-A3OB 
       16.18        15.02        15.06         9.24        27.02        38.66 
TCGA-EM-A3ST TCGA-EM-A3SY TCGA-EM-A4FH TCGA-EM-A4FK TCGA-EM-A4FR TCGA-EM-A4FU 
       38.86        13.51        29.33        21.34        21.53        60.49 
TCGA-EM-A4G1 TCGA-ET-A25I TCGA-ET-A2MX TCGA-ET-A2N1 TCGA-ET-A2N3 TCGA-ET-A2N5 
       13.68        81.70        88.41        54.35        83.34        80.88 
TCGA-ET-A39I TCGA-ET-A39L TCGA-ET-A39N TCGA-ET-A39R TCGA-ET-A3BN TCGA-ET-A3DQ 
       33.24       108.46       123.32        94.13        28.24        84.85 
TCGA-ET-A3DR TCGA-ET-A3DS TCGA-ET-A3DV TCGA-ET-A40P TCGA-ET-A40R TCGA-ET-A40S 
       80.58        66.84       166.62        43.99        44.38        40.21 
TCGA-ET-A40T TCGA-ET-A4KN TCGA-FE-A3PA TCGA-FE-A3PD TCGA-FK-A3S3 TCGA-FK-A3SE 
       37.48        33.17       106.36        78.77        71.08        22.03 
TCGA-FK-A3SG TCGA-FK-A4UB TCGA-FY-A2QD TCGA-FY-A3I5 TCGA-FY-A3NM TCGA-FY-A3NP 
        0.92       116.09         1.25         7.82        29.10        16.14 
TCGA-FY-A3R6 TCGA-FY-A3R9 TCGA-FY-A3W9 TCGA-FY-A3WA TCGA-FY-A40M TCGA-FY-A40N 
       13.91        16.57        21.63        17.06        22.49        19.04 
TCGA-FY-A4B0 TCGA-H2-A2K9 TCGA-H2-A3RH TCGA-IM-A41Z TCGA-J8-A3O0 TCGA-J8-A3O1 
       13.81        21.67        12.46        31.10        43.17        27.19 
TCGA-KS-A41I TCGA-KS-A41L TCGA-KS-A4ID TCGA-QD-A8IV 
       15.98       113.85        33.24        12.89 

  BRAF MUTATED BRAF WILD-TYPE 
          0.20           0.92 
  BRAF MUTATED BRAF WILD-TYPE 
        178.29         166.62 
  BRAF MUTATED BRAF WILD-TYPE 
         31.99          29.03 
[1] "0.2 - 178.3 (32.0)" "0.9 - 166.6 (29.0)"
[1] "hr=" "1.9"
D1V2, continuous
                vv
clus             STAGE I STAGE II STAGE III STAGE IV STAGE IVA STAGE IVC
  BRAF MUTATED       157       19        74        0        35         4
  BRAF WILD-TYPE     121       31        34        2        11         2
D1V3, multiclass
           clus
vv          BRAF MUTATED BRAF WILD-TYPE
  STAGE I            157            121
  STAGE II            19             31
  STAGE III           74             34
  STAGE IV             0              2
  STAGE IVA           35             11
  STAGE IVC            4              2
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus              T1  T2  T3  T4
  BRAF MUTATED    78  81 112  18
  BRAF WILD-TYPE  63  81  52   5
D1V4, multiclass
    clus
vv   BRAF MUTATED BRAF WILD-TYPE
  T1           78             63
  T2           81             81
  T3          112             52
  T4           18              5
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D1V5, binary
                cls
clus               0   1
  BRAF MUTATED   108 159
  BRAF WILD-TYPE 112  63
[1] "tbl2"
                cls
clus             [,1] [,2]
  BRAF MUTATED    108  159
  BRAF WILD-TYPE  112   63
   clus
vv  BRAF MUTATED BRAF WILD-TYPE
  0          108            112
  1          159             63
[1] 2 2
[1] FALSE
D1V6, binary
                cls
clus               0   1
  BRAF MUTATED   176   5
  BRAF WILD-TYPE 100   4
[1] "tbl2"
                cls
clus             [,1] [,2]
  BRAF MUTATED    176    5
  BRAF WILD-TYPE  100    4
   clus
vv  BRAF MUTATED BRAF WILD-TYPE
  0          176            100
  1            5              4
[1] 2 2
[1] FALSE
D1V7, binary
                cls
clus               0   1
  BRAF MUTATED   213  77
  BRAF WILD-TYPE 149  53
[1] "tbl2"
                cls
clus             [,1] [,2]
  BRAF MUTATED    213   77
  BRAF WILD-TYPE  149   53
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  FEMALE          213            149
  MALE             77             53
[1] 2 2
[1] FALSE
D1V8, binary
                cls
clus               0   1
  BRAF MUTATED   106 179
  BRAF WILD-TYPE  73 119
[1] "tbl2"
                cls
clus             [,1] [,2]
  BRAF MUTATED    106  179
  BRAF WILD-TYPE   73  119
     clus
vv    BRAF MUTATED BRAF WILD-TYPE
  NO           106             73
  YES          179            119
[1] 2 2
[1] FALSE
                vv
clus             OTHER, SPECIFY THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  BRAF MUTATED                4                                           238
  BRAF WILD-TYPE              3                                           110
                vv
clus             THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  BRAF MUTATED                                                                       16
  BRAF WILD-TYPE                                                                     86
                vv
clus             THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  BRAF MUTATED                                                                    32
  BRAF WILD-TYPE                                                                   3
D1V9, multiclass
                                                                        clus
vv                                                                       BRAF MUTATED
  OTHER, SPECIFY                                                                    4
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                   238
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)           16
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)              32
                                                                        clus
vv                                                                       BRAF WILD-TYPE
  OTHER, SPECIFY                                                                      3
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                     110
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)             86
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                 3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D1V10, binary
                cls
clus               0   1
  BRAF MUTATED   251   8
  BRAF WILD-TYPE 164   9
[1] "tbl2"
                cls
clus             [,1] [,2]
  BRAF MUTATED    251    8
  BRAF WILD-TYPE  164    9
     clus
vv    BRAF MUTATED BRAF WILD-TYPE
  NO           251            164
  YES            8              9
[1] 2 2
[1] FALSE
                vv
clus             MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE VERY ADVANCED (T4B)
  BRAF MUTATED             99                      16  170                   0
  BRAF WILD-TYPE           31                       2  158                   1
D1V11, multiclass
                         clus
vv                        BRAF MUTATED BRAF WILD-TYPE
  MINIMAL (T3)                      99             31
  MODERATE/ADVANCED (T4A)           16              2
  NONE                             170            158
  VERY ADVANCED (T4B)                0              1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus              R0  R1  R2  RX
  BRAF MUTATED   220  36   3  18
  BRAF WILD-TYPE 159  15   1  12
D1V12, multiclass
    clus
vv   BRAF MUTATED BRAF WILD-TYPE
  R0          220            159
  R1           36             15
  R2            3              1
  RX           18             12
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D1V13, continuous
D1V14, binary
                cls
clus               0   1
  BRAF MUTATED   131 156
  BRAF WILD-TYPE  90 106
[1] "tbl2"
                cls
clus             [,1] [,2]
  BRAF MUTATED    131  156
  BRAF WILD-TYPE   90  106
            clus
vv           BRAF MUTATED BRAF WILD-TYPE
  MULTIFOCAL          131             90
  UNIFOCAL            156            106
[1] 2 2
[1] FALSE
D1V15, continuous
                vv
clus             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  BRAF MUTATED                                  1    31
  BRAF WILD-TYPE                                0    20
                vv
clus             BLACK OR AFRICAN AMERICAN WHITE
  BRAF MUTATED                          15   204
  BRAF WILD-TYPE                        11   118
D1V16, multiclass
                                  clus
vv                                 BRAF MUTATED BRAF WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE            1              0
  ASIAN                                      31             20
  BLACK OR AFRICAN AMERICAN                  15             11
  WHITE                                     204            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D1V17, binary
                cls
clus               0   1
  BRAF MUTATED    28 212
  BRAF WILD-TYPE  10 139
[1] "tbl2"
                cls
clus             [,1] [,2]
  BRAF MUTATED     28  212
  BRAF WILD-TYPE   10  139
                        clus
vv                       BRAF MUTATED BRAF WILD-TYPE
  HISPANIC OR LATINO               28             10
  NOT HISPANIC OR LATINO          212            139
[1] 2 2
[1] FALSE

Clustering(2) Variable = NRAS MUTATION ANALYSIS
D2V1, survival
                sevent
clus2              0   1
  NRAS MUTATED    40   0
  NRAS WILD-TYPE 437  14
  NRAS MUTATED NRAS WILD-TYPE 
            40            451 
  NRAS MUTATED NRAS WILD-TYPE 
             0             14 
$`NRAS MUTATED`
TCGA-BJ-A2N7 TCGA-BJ-A2N8 TCGA-BJ-A3PT TCGA-BJ-A45F TCGA-BJ-A45G TCGA-DJ-A13S 
       18.38        16.57        23.31         3.45        23.84         8.71 
TCGA-DJ-A1QG TCGA-DJ-A2PP TCGA-DJ-A3UP TCGA-DJ-A3UT TCGA-DJ-A3VG TCGA-DJ-A4UR 
       44.98        30.58        16.41        36.33        35.67        34.78 
TCGA-EL-A3GW TCGA-EL-A3T2 TCGA-EL-A3ZH TCGA-EL-A4K2 TCGA-EL-A4K6 TCGA-EL-A4KI 
       50.20        32.48        91.17        30.51        44.15        23.90 
TCGA-EM-A22J TCGA-EM-A22L TCGA-EM-A22Q TCGA-EM-A2CN TCGA-EM-A2CR TCGA-EM-A2CT 
       14.50        10.45        14.24        23.51        13.64        48.46 
TCGA-EM-A3AP TCGA-EM-A3OA TCGA-EM-A3OB TCGA-EM-A3ST TCGA-EM-A4FK TCGA-EM-A4FU 
        8.35        27.02        38.66        38.86        21.34        60.49 
TCGA-EM-A4G1 TCGA-ET-A25I TCGA-FY-A3NP TCGA-FY-A3R9 TCGA-FY-A3W9 TCGA-H2-A2K9 
       13.68        81.70        16.14        16.57        21.63        21.67 
TCGA-IM-A41Z TCGA-J8-A3O0 TCGA-KS-A41I TCGA-QD-A8IV 
       31.10        43.17        15.98        12.89 

$`NRAS WILD-TYPE`
TCGA-BJ-A290 TCGA-BJ-A45K TCGA-CE-A13K TCGA-DE-A0XZ TCGA-DJ-A13L TCGA-DJ-A2PR 
       30.21        23.18        12.66        35.84         9.96        27.45 
TCGA-DJ-A3UU TCGA-DJ-A3UW TCGA-DJ-A3V4 TCGA-DJ-A3VI TCGA-DJ-A3VK TCGA-E3-A3E5 
       23.44        59.57        42.54         3.12        24.76        39.95 
TCGA-EL-A3CR TCGA-EL-A3CS TCGA-EL-A3CY TCGA-EL-A3D0 TCGA-EL-A3D5 TCGA-EL-A3GQ 
        7.66        45.53         4.18       139.86        57.11        50.24 
TCGA-EL-A3H2 TCGA-EL-A3H8 TCGA-EL-A3MY TCGA-EL-A3N3 TCGA-EM-A3AQ TCGA-ET-A3BO 
       33.50       150.48        17.52       178.29        29.72        50.40 
TCGA-ET-A3BV TCGA-FK-A3SD TCGA-FY-A76V TCGA-J8-A3NZ TCGA-J8-A4HW TCGA-L6-A4ET 
       75.42         1.05         1.68        17.23         2.60        21.83 
TCGA-MK-A84Z TCGA-4C-A93U TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0Z3 
       23.93         4.24        24.79        13.78        49.78        16.34 
TCGA-BJ-A0Z9 TCGA-BJ-A0ZA TCGA-BJ-A0ZB TCGA-BJ-A0ZC TCGA-BJ-A0ZE TCGA-BJ-A0ZG 
       41.33        18.87         4.01        11.57        16.73        25.48 
TCGA-BJ-A0ZH TCGA-BJ-A0ZJ TCGA-BJ-A18Y TCGA-BJ-A18Z TCGA-BJ-A191 TCGA-BJ-A192 
       15.12        42.08        51.39        41.52         4.83        44.35 
TCGA-BJ-A28R TCGA-BJ-A28S TCGA-BJ-A28T TCGA-BJ-A28V TCGA-BJ-A28X TCGA-BJ-A28Z 
       42.15        21.04        35.54        32.45        30.97        11.08 
TCGA-BJ-A2N9 TCGA-BJ-A2NA TCGA-BJ-A2P4 TCGA-BJ-A3EZ TCGA-BJ-A3F0 TCGA-BJ-A3PR 
       20.48        18.97        12.82        16.01        13.94        36.39 
TCGA-BJ-A3PU TCGA-BJ-A45D TCGA-BJ-A45E TCGA-BJ-A45H TCGA-BJ-A45I TCGA-BJ-A45J 
       18.64        10.88        21.01        28.44        15.45        21.63 
TCGA-BJ-A4O8 TCGA-BJ-A4O9 TCGA-CE-A27D TCGA-CE-A3MD TCGA-CE-A3ME TCGA-CE-A481 
       19.43        23.47        12.30        12.79        12.46        11.38 
TCGA-CE-A482 TCGA-CE-A483 TCGA-CE-A484 TCGA-CE-A485 TCGA-DE-A0Y2 TCGA-DE-A0Y3 
       10.68        15.02        12.43        12.66        21.63        50.17 
TCGA-DE-A2OL TCGA-DE-A3KN TCGA-DE-A4M8 TCGA-DE-A4M9 TCGA-DE-A4MA TCGA-DE-A4MB 
       37.64        27.32        18.54        18.84        30.12        11.57 
TCGA-DE-A4MC TCGA-DE-A4MD TCGA-DE-A69J TCGA-DE-A69K TCGA-DE-A7U5 TCGA-DJ-A13M 
       30.02        25.12        14.70        14.27         2.76        48.79 
TCGA-DJ-A13O TCGA-DJ-A13P TCGA-DJ-A13R TCGA-DJ-A13T TCGA-DJ-A13U TCGA-DJ-A13V 
       38.17       169.32        18.58        56.19        52.27        43.17 
TCGA-DJ-A13W TCGA-DJ-A13X TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QH 
       52.37         8.32        48.07       135.91        30.61        42.51 
TCGA-DJ-A1QI TCGA-DJ-A1QL TCGA-DJ-A1QM TCGA-DJ-A1QN TCGA-DJ-A1QO TCGA-DJ-A1QQ 
       14.96        17.59         6.02        42.58        47.41        17.56 
TCGA-DJ-A2PN TCGA-DJ-A2PO TCGA-DJ-A2PQ TCGA-DJ-A2PS TCGA-DJ-A2PT TCGA-DJ-A2PU 
       10.09         7.99        35.41        26.20        38.83        33.96 
TCGA-DJ-A2PV TCGA-DJ-A2PW TCGA-DJ-A2PX TCGA-DJ-A2PY TCGA-DJ-A2PZ TCGA-DJ-A2Q0 
       31.99        34.85        28.96         8.78         8.42        34.36 
TCGA-DJ-A2Q1 TCGA-DJ-A2Q2 TCGA-DJ-A2Q3 TCGA-DJ-A2Q4 TCGA-DJ-A2Q5 TCGA-DJ-A2Q6 
       37.74        43.96        40.24        33.93        37.48        36.46 
TCGA-DJ-A2Q7 TCGA-DJ-A2Q8 TCGA-DJ-A2Q9 TCGA-DJ-A2QA TCGA-DJ-A2QB TCGA-DJ-A2QC 
       35.11        39.09        35.90        33.53        35.18        39.95 
TCGA-DJ-A3UK TCGA-DJ-A3UM TCGA-DJ-A3UN TCGA-DJ-A3UO TCGA-DJ-A3UQ TCGA-DJ-A3UR 
       36.92        31.04        32.42        31.46        19.56        36.33 
TCGA-DJ-A3US TCGA-DJ-A3UX TCGA-DJ-A3UY TCGA-DJ-A3UZ TCGA-DJ-A3V0 TCGA-DJ-A3V2 
       32.81        11.34        35.87        40.96        36.99        20.22 
TCGA-DJ-A3V3 TCGA-DJ-A3V5 TCGA-DJ-A3V7 TCGA-DJ-A3V8 TCGA-DJ-A3V9 TCGA-DJ-A3VA 
       30.61        19.20        23.21        21.27        20.48        24.82 
TCGA-DJ-A3VB TCGA-DJ-A3VD TCGA-DJ-A3VE TCGA-DJ-A3VF TCGA-DJ-A3VJ TCGA-DJ-A3VL 
       22.92        40.70        18.97         9.60        36.43        23.44 
TCGA-DJ-A3VM TCGA-DJ-A4UL TCGA-DJ-A4UP TCGA-DJ-A4UQ TCGA-DJ-A4UT TCGA-DJ-A4UW 
       27.62        30.87        30.12        33.04        27.06        26.93 
TCGA-DJ-A4V0 TCGA-DJ-A4V2 TCGA-DJ-A4V4 TCGA-DJ-A4V5 TCGA-DO-A1JZ TCGA-DO-A1K0 
       35.54         3.12        15.81        35.38        54.90        21.53 
TCGA-DO-A2HM TCGA-E3-A3DY TCGA-E3-A3DZ TCGA-E3-A3E0 TCGA-E3-A3E1 TCGA-E3-A3E2 
        2.33        92.55        47.21        66.38        80.52        63.19 
TCGA-E3-A3E3 TCGA-E8-A242 TCGA-E8-A2EA TCGA-E8-A2JQ TCGA-E8-A3X7 TCGA-E8-A413 
       52.44        31.23        35.67        11.70        31.27        29.98 
TCGA-E8-A414 TCGA-E8-A415 TCGA-E8-A416 TCGA-E8-A417 TCGA-E8-A419 TCGA-E8-A432 
       31.50        31.04        31.30        30.84        25.45        30.61 
TCGA-E8-A433 TCGA-E8-A434 TCGA-E8-A436 TCGA-E8-A437 TCGA-E8-A438 TCGA-E8-A44K 
       31.27        31.33        14.96        39.88        33.50        31.00 
TCGA-E8-A44M TCGA-EL-A3CL TCGA-EL-A3CM TCGA-EL-A3CN TCGA-EL-A3CO TCGA-EL-A3CP 
       30.15        31.66        26.73       155.54        97.74       158.83 
TCGA-EL-A3CT TCGA-EL-A3CU TCGA-EL-A3CV TCGA-EL-A3CW TCGA-EL-A3CX TCGA-EL-A3CZ 
       60.95       157.15        37.94        57.01       106.62        79.50 
TCGA-EL-A3D1 TCGA-EL-A3D4 TCGA-EL-A3D6 TCGA-EL-A3GO TCGA-EL-A3GP TCGA-EL-A3GR 
       98.53        69.57       108.36        64.87        49.51       115.10 
TCGA-EL-A3GS TCGA-EL-A3GU TCGA-EL-A3GV TCGA-EL-A3GX TCGA-EL-A3GY TCGA-EL-A3GZ 
       65.39       136.01        50.37       147.75       101.13       139.99 
TCGA-EL-A3H1 TCGA-EL-A3H3 TCGA-EL-A3H4 TCGA-EL-A3H5 TCGA-EL-A3H7 TCGA-EL-A3MW 
       49.32        43.36        49.71        83.57       139.00       108.66 
TCGA-EL-A3MX TCGA-EL-A3MZ TCGA-EL-A3N2 TCGA-EL-A3T0 TCGA-EL-A3T1 TCGA-EL-A3T3 
       57.63        52.50        29.65       142.52       129.57       132.07 
TCGA-EL-A3T6 TCGA-EL-A3T7 TCGA-EL-A3T8 TCGA-EL-A3T9 TCGA-EL-A3TA TCGA-EL-A3TB 
       98.24        41.29       107.47         5.72        66.90        82.82 
TCGA-EL-A3ZG TCGA-EL-A3ZK TCGA-EL-A3ZL TCGA-EL-A3ZM TCGA-EL-A3ZN TCGA-EL-A3ZO 
       89.56        51.78        62.30        36.03        53.06        72.69 
TCGA-EL-A3ZP TCGA-EL-A3ZQ TCGA-EL-A3ZR TCGA-EL-A3ZS TCGA-EL-A3ZT TCGA-EL-A4JV 
       65.49        61.22        60.16         7.07        59.44        57.47 
TCGA-EL-A4JW TCGA-EL-A4JX TCGA-EL-A4JZ TCGA-EL-A4K0 TCGA-EL-A4K1 TCGA-EL-A4K4 
       34.72        45.96        61.02        31.04        34.39        53.36 
TCGA-EL-A4K7 TCGA-EL-A4K9 TCGA-EL-A4KD TCGA-EL-A4KG TCGA-EL-A4KH TCGA-EM-A1CS 
       41.13        47.84        43.59        24.30        27.06        26.86 
TCGA-EM-A1CT TCGA-EM-A1CU TCGA-EM-A1CV TCGA-EM-A1CW TCGA-EM-A1YA TCGA-EM-A1YB 
       18.18        20.91        48.49        18.05        19.79        19.46 
TCGA-EM-A1YC TCGA-EM-A1YD TCGA-EM-A1YE TCGA-EM-A22I TCGA-EM-A22K TCGA-EM-A22M 
       78.61        57.01        54.08        14.73        15.75        14.53 
TCGA-EM-A22N TCGA-EM-A22O TCGA-EM-A22P TCGA-EM-A2CJ TCGA-EM-A2CK TCGA-EM-A2CL 
       10.65        44.19        41.29        47.57        17.88        13.18 
TCGA-EM-A2CO TCGA-EM-A2CP TCGA-EM-A2CQ TCGA-EM-A2CS TCGA-EM-A2CU TCGA-EM-A2OV 
        6.05         2.99        12.30        27.65        13.15        22.16 
TCGA-EM-A2OW TCGA-EM-A2OX TCGA-EM-A2OY TCGA-EM-A2OZ TCGA-EM-A2P0 TCGA-EM-A2P1 
       40.34        19.73        32.32        33.96        17.59        17.46 
TCGA-EM-A2P2 TCGA-EM-A2P3 TCGA-EM-A3AI TCGA-EM-A3AJ TCGA-EM-A3AK TCGA-EM-A3AL 
       17.29        14.60        22.52        30.94        15.68        14.14 
TCGA-EM-A3AN TCGA-EM-A3AO TCGA-EM-A3AR TCGA-EM-A3FJ TCGA-EM-A3FK TCGA-EM-A3FL 
       33.07        44.52        37.25        27.95        23.77        47.38 
TCGA-EM-A3FM TCGA-EM-A3FN TCGA-EM-A3FO TCGA-EM-A3FP TCGA-EM-A3FQ TCGA-EM-A3FR 
       21.01        12.07        17.49        17.39        16.18        15.02 
TCGA-EM-A3O3 TCGA-EM-A3O6 TCGA-EM-A3O7 TCGA-EM-A3O8 TCGA-EM-A3O9 TCGA-EM-A3SU 
       14.50        15.06         7.33        12.53         9.24        29.95 
TCGA-EM-A3SX TCGA-EM-A3SY TCGA-EM-A3SZ TCGA-EM-A4FF TCGA-EM-A4FH TCGA-EM-A4FM 
       29.85        13.51        12.79        84.59        29.33         5.33 
TCGA-EM-A4FN TCGA-EM-A4FO TCGA-EM-A4FQ TCGA-EM-A4FR TCGA-EM-A4FV TCGA-ET-A25G 
       26.37        26.37        22.45        21.53        24.46        81.93 
TCGA-ET-A25J TCGA-ET-A25K TCGA-ET-A25O TCGA-ET-A25R TCGA-ET-A2MX TCGA-ET-A2MY 
       77.56        70.42        65.29        63.45        88.41        58.75 
TCGA-ET-A2MZ TCGA-ET-A2N0 TCGA-ET-A2N1 TCGA-ET-A2N3 TCGA-ET-A2N4 TCGA-ET-A2N5 
       37.25        52.60        54.35        83.34         2.66        80.88 
TCGA-ET-A39I TCGA-ET-A39J TCGA-ET-A39K TCGA-ET-A39L TCGA-ET-A39M TCGA-ET-A39N 
       33.24       106.09       107.41       108.46        84.89       123.32 
TCGA-ET-A39O TCGA-ET-A39P TCGA-ET-A39R TCGA-ET-A39S TCGA-ET-A39T TCGA-ET-A3BN 
      100.57        95.34        94.13        55.10        98.20        28.24 
TCGA-ET-A3BP TCGA-ET-A3BQ TCGA-ET-A3BS TCGA-ET-A3BT TCGA-ET-A3BU TCGA-ET-A3BW 
       79.10        76.64         5.79        87.62        77.82        46.65 
TCGA-ET-A3BX TCGA-ET-A3DO TCGA-ET-A3DP TCGA-ET-A3DQ TCGA-ET-A3DR TCGA-ET-A3DS 
       52.47       116.78        94.59        84.85        80.58        66.84 
TCGA-ET-A3DT TCGA-ET-A3DU TCGA-ET-A3DV TCGA-ET-A3DW TCGA-ET-A40P TCGA-ET-A40Q 
       43.73        62.83       166.62        24.72        43.99        46.26 
TCGA-ET-A40R TCGA-ET-A40S TCGA-ET-A40T TCGA-ET-A4KN TCGA-ET-A4KQ TCGA-FE-A22Z 
       44.38        40.21        37.48        33.17        31.40        73.74 
TCGA-FE-A230 TCGA-FE-A231 TCGA-FE-A232 TCGA-FE-A233 TCGA-FE-A234 TCGA-FE-A235 
       71.44        31.59        79.69        24.69        68.22       117.40 
TCGA-FE-A236 TCGA-FE-A237 TCGA-FE-A23A TCGA-FE-A3PA TCGA-FE-A3PB TCGA-FE-A3PC 
       66.77       112.80        81.83       106.36        85.15        85.68 
TCGA-FE-A3PD TCGA-FK-A3S3 TCGA-FK-A3SB TCGA-FK-A3SE TCGA-FK-A3SG TCGA-FK-A3SH 
       78.77        71.08         4.11        22.03         0.92        48.10 
TCGA-FK-A4UB TCGA-FY-A2QD TCGA-FY-A3BL TCGA-FY-A3I4 TCGA-FY-A3I5 TCGA-FY-A3NM 
      116.09         1.25        20.42        17.82         7.82        29.10 
TCGA-FY-A3ON TCGA-FY-A3R6 TCGA-FY-A3R7 TCGA-FY-A3R8 TCGA-FY-A3RA TCGA-FY-A3TY 
       19.56        13.91        16.27        15.68        18.08        23.31 
TCGA-FY-A3WA TCGA-FY-A3YR TCGA-FY-A40K TCGA-FY-A40L TCGA-FY-A40M TCGA-FY-A40N 
       17.06        17.36        15.16        23.87        22.49        19.04 
TCGA-FY-A4B0 TCGA-FY-A4B3 TCGA-FY-A4B4 TCGA-GE-A2C6 TCGA-H2-A26U TCGA-H2-A3RH 
       13.81        14.04        21.60        12.53        17.00        12.46 
TCGA-H2-A3RI TCGA-H2-A421 TCGA-H2-A422 TCGA-IM-A3EB TCGA-IM-A3ED TCGA-IM-A3U2 
       11.01        20.05        18.61        48.92        47.41        18.51 
TCGA-IM-A3U3 TCGA-IM-A41Y TCGA-IM-A420 TCGA-IM-A4EB TCGA-J8-A3O1 TCGA-J8-A3O2 
       16.90        21.83         8.22        25.64        27.19        11.24 
TCGA-J8-A3YD TCGA-J8-A3YE TCGA-J8-A3YF TCGA-J8-A3YG TCGA-J8-A3YH TCGA-J8-A42S 
       31.82        27.85        24.69        22.29         5.75         2.47 
TCGA-J8-A4HY TCGA-KS-A41F TCGA-KS-A41J TCGA-KS-A41L TCGA-KS-A4I1 TCGA-KS-A4I3 
        0.20       143.57        15.68       113.85        26.70        43.69 
TCGA-KS-A4I5 TCGA-KS-A4I7 TCGA-KS-A4I9 TCGA-KS-A4IB TCGA-KS-A4IC TCGA-KS-A4ID 
       18.64        32.45        87.39        84.72        35.28        33.24 
TCGA-L6-A4EP TCGA-L6-A4EQ TCGA-L6-A4EU TCGA-MK-A4N6 TCGA-MK-A4N7 TCGA-MK-A4N9 
       33.40        40.37         9.50        36.10        32.45        30.21 
TCGA-E8-A418 
        3.02 

  NRAS MUTATED NRAS WILD-TYPE 
          3.45           0.20 
  NRAS MUTATED NRAS WILD-TYPE 
         91.17         178.29 
  NRAS MUTATED NRAS WILD-TYPE 
        23.675         31.400 
[1] "3.5 - 91.2 (23.7)"  "0.2 - 178.3 (31.4)"
[1] "hr="     "2.7e+07"
D2V2, continuous
                vv
clus             STAGE I STAGE II STAGE III STAGE IV STAGE IVA STAGE IVC
  NRAS MUTATED        26        6         5        1         1         1
  NRAS WILD-TYPE     252       44       103        1        45         5
D2V3, multiclass
           clus
vv          NRAS MUTATED NRAS WILD-TYPE
  STAGE I             26            252
  STAGE II             6             44
  STAGE III            5            103
  STAGE IV             1              1
  STAGE IVA            1             45
  STAGE IVC            1              5
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus              T1  T2  T3  T4
  NRAS MUTATED    13  16  10   1
  NRAS WILD-TYPE 128 146 154  22
D2V4, multiclass
    clus
vv   NRAS MUTATED NRAS WILD-TYPE
  T1           13            128
  T2           16            146
  T3           10            154
  T4            1             22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D2V5, binary
                cls
clus               0   1
  NRAS MUTATED    30   7
  NRAS WILD-TYPE 190 215
[1] "tbl2"
                cls
clus             [,1] [,2]
  NRAS MUTATED     30    7
  NRAS WILD-TYPE  190  215
   clus
vv  NRAS MUTATED NRAS WILD-TYPE
  0           30            190
  1            7            215
[1] 2 2
[1] FALSE
D2V6, binary
                cls
clus               0   1
  NRAS MUTATED    18   2
  NRAS WILD-TYPE 258   7
[1] "tbl2"
                cls
clus             [,1] [,2]
  NRAS MUTATED     18    2
  NRAS WILD-TYPE  258    7
   clus
vv  NRAS MUTATED NRAS WILD-TYPE
  0           18            258
  1            2              7
[1] 2 2
[1] FALSE
D2V7, binary
                cls
clus               0   1
  NRAS MUTATED    29  11
  NRAS WILD-TYPE 333 119
[1] "tbl2"
                cls
clus             [,1] [,2]
  NRAS MUTATED     29   11
  NRAS WILD-TYPE  333  119
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  FEMALE           29            333
  MALE             11            119
[1] 2 2
[1] FALSE
D2V8, binary
                cls
clus               0   1
  NRAS MUTATED    17  23
  NRAS WILD-TYPE 162 275
[1] "tbl2"
                cls
clus             [,1] [,2]
  NRAS MUTATED     17   23
  NRAS WILD-TYPE  162  275
     clus
vv    NRAS MUTATED NRAS WILD-TYPE
  NO            17            162
  YES           23            275
[1] 2 2
[1] FALSE
                vv
clus             OTHER, SPECIFY THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  NRAS MUTATED                0                                            14
  NRAS WILD-TYPE              7                                           334
                vv
clus             THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  NRAS MUTATED                                                                       26
  NRAS WILD-TYPE                                                                     76
                vv
clus             THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  NRAS MUTATED                                                                     0
  NRAS WILD-TYPE                                                                  35
D2V9, multiclass
                                                                        clus
vv                                                                       NRAS MUTATED
  OTHER, SPECIFY                                                                    0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                    14
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)           26
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)               0
                                                                        clus
vv                                                                       NRAS WILD-TYPE
  OTHER, SPECIFY                                                                      7
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                     334
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)             76
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D2V10, binary
                cls
clus               0   1
  NRAS MUTATED    34   1
  NRAS WILD-TYPE 381  16
[1] "tbl2"
                cls
clus             [,1] [,2]
  NRAS MUTATED     34    1
  NRAS WILD-TYPE  381   16
     clus
vv    NRAS MUTATED NRAS WILD-TYPE
  NO            34            381
  YES            1             16
[1] 2 2
[1] FALSE
                vv
clus             MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE VERY ADVANCED (T4B)
  NRAS MUTATED              6                       0   31                   0
  NRAS WILD-TYPE          124                      18  297                   1
D2V11, multiclass
                         clus
vv                        NRAS MUTATED NRAS WILD-TYPE
  MINIMAL (T3)                       6            124
  MODERATE/ADVANCED (T4A)            0             18
  NONE                              31            297
  VERY ADVANCED (T4B)                0              1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus              R0  R1  R2  RX
  NRAS MUTATED    32   1   0   2
  NRAS WILD-TYPE 347  50   4  28
D2V12, multiclass
    clus
vv   NRAS MUTATED NRAS WILD-TYPE
  R0           32            347
  R1            1             50
  R2            0              4
  RX            2             28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D2V13, continuous
D2V14, binary
                cls
clus               0   1
  NRAS MUTATED    16  24
  NRAS WILD-TYPE 205 238
[1] "tbl2"
                cls
clus             [,1] [,2]
  NRAS MUTATED     16   24
  NRAS WILD-TYPE  205  238
            clus
vv           NRAS MUTATED NRAS WILD-TYPE
  MULTIFOCAL           16            205
  UNIFOCAL             24            238
[1] 2 2
[1] FALSE
D2V15, continuous
                vv
clus             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  NRAS MUTATED                                  0     1
  NRAS WILD-TYPE                                1    50
                vv
clus             BLACK OR AFRICAN AMERICAN WHITE
  NRAS MUTATED                           1    23
  NRAS WILD-TYPE                        25   299
D2V16, multiclass
                                  clus
vv                                 NRAS MUTATED NRAS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE            0              1
  ASIAN                                       1             50
  BLACK OR AFRICAN AMERICAN                   1             25
  WHITE                                      23            299
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D2V17, binary
                cls
clus               0   1
  NRAS MUTATED     6  20
  NRAS WILD-TYPE  32 331
[1] "tbl2"
                cls
clus             [,1] [,2]
  NRAS MUTATED      6   20
  NRAS WILD-TYPE   32  331
                        clus
vv                       NRAS MUTATED NRAS WILD-TYPE
  HISPANIC OR LATINO                6             32
  NOT HISPANIC OR LATINO           20            331
[1] 2 2
[1] FALSE

Clustering(3) Variable = HRAS MUTATION ANALYSIS
D3V1, survival
                sevent
clus2              0   1
  HRAS MUTATED    15   1
  HRAS WILD-TYPE 462  13
  HRAS MUTATED HRAS WILD-TYPE 
            16            475 
  HRAS MUTATED HRAS WILD-TYPE 
             1             13 
$`HRAS MUTATED`
TCGA-MK-A84Z TCGA-BJ-A0Z2 TCGA-BJ-A18Y TCGA-BJ-A2P4 TCGA-BJ-A45D TCGA-DJ-A13M 
       23.93        49.78        51.39        12.82        10.88        48.79 
TCGA-DJ-A2QB TCGA-E3-A3DZ TCGA-EL-A3CZ TCGA-EL-A3ZR TCGA-EL-A4JV TCGA-EM-A22K 
       35.18        47.21        79.50        60.16        57.47        15.75 
TCGA-EM-A2CK TCGA-ET-A2N5 TCGA-ET-A39I TCGA-ET-A40P 
       17.88        80.88        33.24        43.99 

$`HRAS WILD-TYPE`
TCGA-BJ-A290 TCGA-BJ-A45K TCGA-CE-A13K TCGA-DE-A0XZ TCGA-DJ-A13L TCGA-DJ-A2PR 
       30.21        23.18        12.66        35.84         9.96        27.45 
TCGA-DJ-A3UU TCGA-DJ-A3UW TCGA-DJ-A3V4 TCGA-DJ-A3VI TCGA-DJ-A3VK TCGA-E3-A3E5 
       23.44        59.57        42.54         3.12        24.76        39.95 
TCGA-EL-A3CR TCGA-EL-A3CS TCGA-EL-A3CY TCGA-EL-A3D0 TCGA-EL-A3D5 TCGA-EL-A3GQ 
        7.66        45.53         4.18       139.86        57.11        50.24 
TCGA-EL-A3H2 TCGA-EL-A3H8 TCGA-EL-A3MY TCGA-EL-A3N3 TCGA-EM-A3AQ TCGA-ET-A3BO 
       33.50       150.48        17.52       178.29        29.72        50.40 
TCGA-ET-A3BV TCGA-FK-A3SD TCGA-FY-A76V TCGA-J8-A3NZ TCGA-J8-A4HW TCGA-L6-A4ET 
       75.42         1.05         1.68        17.23         2.60        21.83 
TCGA-4C-A93U TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z3 TCGA-BJ-A0Z9 TCGA-BJ-A0ZA 
        4.24        24.79        13.78        16.34        41.33        18.87 
TCGA-BJ-A0ZB TCGA-BJ-A0ZC TCGA-BJ-A0ZE TCGA-BJ-A0ZG TCGA-BJ-A0ZH TCGA-BJ-A0ZJ 
        4.01        11.57        16.73        25.48        15.12        42.08 
TCGA-BJ-A18Z TCGA-BJ-A191 TCGA-BJ-A192 TCGA-BJ-A28R TCGA-BJ-A28S TCGA-BJ-A28T 
       41.52         4.83        44.35        42.15        21.04        35.54 
TCGA-BJ-A28V TCGA-BJ-A28X TCGA-BJ-A28Z TCGA-BJ-A2N7 TCGA-BJ-A2N8 TCGA-BJ-A2N9 
       32.45        30.97        11.08        18.38        16.57        20.48 
TCGA-BJ-A2NA TCGA-BJ-A3EZ TCGA-BJ-A3F0 TCGA-BJ-A3PR TCGA-BJ-A3PT TCGA-BJ-A3PU 
       18.97        16.01        13.94        36.39        23.31        18.64 
TCGA-BJ-A45E TCGA-BJ-A45F TCGA-BJ-A45G TCGA-BJ-A45H TCGA-BJ-A45I TCGA-BJ-A45J 
       21.01         3.45        23.84        28.44        15.45        21.63 
TCGA-BJ-A4O8 TCGA-BJ-A4O9 TCGA-CE-A27D TCGA-CE-A3MD TCGA-CE-A3ME TCGA-CE-A481 
       19.43        23.47        12.30        12.79        12.46        11.38 
TCGA-CE-A482 TCGA-CE-A483 TCGA-CE-A484 TCGA-CE-A485 TCGA-DE-A0Y2 TCGA-DE-A0Y3 
       10.68        15.02        12.43        12.66        21.63        50.17 
TCGA-DE-A2OL TCGA-DE-A3KN TCGA-DE-A4M8 TCGA-DE-A4M9 TCGA-DE-A4MA TCGA-DE-A4MB 
       37.64        27.32        18.54        18.84        30.12        11.57 
TCGA-DE-A4MC TCGA-DE-A4MD TCGA-DE-A69J TCGA-DE-A69K TCGA-DE-A7U5 TCGA-DJ-A13O 
       30.02        25.12        14.70        14.27         2.76        38.17 
TCGA-DJ-A13P TCGA-DJ-A13R TCGA-DJ-A13S TCGA-DJ-A13T TCGA-DJ-A13U TCGA-DJ-A13V 
      169.32        18.58         8.71        56.19        52.27        43.17 
TCGA-DJ-A13W TCGA-DJ-A13X TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QG 
       52.37         8.32        48.07       135.91        30.61        44.98 
TCGA-DJ-A1QH TCGA-DJ-A1QI TCGA-DJ-A1QL TCGA-DJ-A1QM TCGA-DJ-A1QN TCGA-DJ-A1QO 
       42.51        14.96        17.59         6.02        42.58        47.41 
TCGA-DJ-A1QQ TCGA-DJ-A2PN TCGA-DJ-A2PO TCGA-DJ-A2PP TCGA-DJ-A2PQ TCGA-DJ-A2PS 
       17.56        10.09         7.99        30.58        35.41        26.20 
TCGA-DJ-A2PT TCGA-DJ-A2PU TCGA-DJ-A2PV TCGA-DJ-A2PW TCGA-DJ-A2PX TCGA-DJ-A2PY 
       38.83        33.96        31.99        34.85        28.96         8.78 
TCGA-DJ-A2PZ TCGA-DJ-A2Q0 TCGA-DJ-A2Q1 TCGA-DJ-A2Q2 TCGA-DJ-A2Q3 TCGA-DJ-A2Q4 
        8.42        34.36        37.74        43.96        40.24        33.93 
TCGA-DJ-A2Q5 TCGA-DJ-A2Q6 TCGA-DJ-A2Q7 TCGA-DJ-A2Q8 TCGA-DJ-A2Q9 TCGA-DJ-A2QA 
       37.48        36.46        35.11        39.09        35.90        33.53 
TCGA-DJ-A2QC TCGA-DJ-A3UK TCGA-DJ-A3UM TCGA-DJ-A3UN TCGA-DJ-A3UO TCGA-DJ-A3UP 
       39.95        36.92        31.04        32.42        31.46        16.41 
TCGA-DJ-A3UQ TCGA-DJ-A3UR TCGA-DJ-A3US TCGA-DJ-A3UT TCGA-DJ-A3UX TCGA-DJ-A3UY 
       19.56        36.33        32.81        36.33        11.34        35.87 
TCGA-DJ-A3UZ TCGA-DJ-A3V0 TCGA-DJ-A3V2 TCGA-DJ-A3V3 TCGA-DJ-A3V5 TCGA-DJ-A3V7 
       40.96        36.99        20.22        30.61        19.20        23.21 
TCGA-DJ-A3V8 TCGA-DJ-A3V9 TCGA-DJ-A3VA TCGA-DJ-A3VB TCGA-DJ-A3VD TCGA-DJ-A3VE 
       21.27        20.48        24.82        22.92        40.70        18.97 
TCGA-DJ-A3VF TCGA-DJ-A3VG TCGA-DJ-A3VJ TCGA-DJ-A3VL TCGA-DJ-A3VM TCGA-DJ-A4UL 
        9.60        35.67        36.43        23.44        27.62        30.87 
TCGA-DJ-A4UP TCGA-DJ-A4UQ TCGA-DJ-A4UR TCGA-DJ-A4UT TCGA-DJ-A4UW TCGA-DJ-A4V0 
       30.12        33.04        34.78        27.06        26.93        35.54 
TCGA-DJ-A4V2 TCGA-DJ-A4V4 TCGA-DJ-A4V5 TCGA-DO-A1JZ TCGA-DO-A1K0 TCGA-DO-A2HM 
        3.12        15.81        35.38        54.90        21.53         2.33 
TCGA-E3-A3DY TCGA-E3-A3E0 TCGA-E3-A3E1 TCGA-E3-A3E2 TCGA-E3-A3E3 TCGA-E8-A242 
       92.55        66.38        80.52        63.19        52.44        31.23 
TCGA-E8-A2EA TCGA-E8-A2JQ TCGA-E8-A3X7 TCGA-E8-A413 TCGA-E8-A414 TCGA-E8-A415 
       35.67        11.70        31.27        29.98        31.50        31.04 
TCGA-E8-A416 TCGA-E8-A417 TCGA-E8-A419 TCGA-E8-A432 TCGA-E8-A433 TCGA-E8-A434 
       31.30        30.84        25.45        30.61        31.27        31.33 
TCGA-E8-A436 TCGA-E8-A437 TCGA-E8-A438 TCGA-E8-A44K TCGA-E8-A44M TCGA-EL-A3CL 
       14.96        39.88        33.50        31.00        30.15        31.66 
TCGA-EL-A3CM TCGA-EL-A3CN TCGA-EL-A3CO TCGA-EL-A3CP TCGA-EL-A3CT TCGA-EL-A3CU 
       26.73       155.54        97.74       158.83        60.95       157.15 
TCGA-EL-A3CV TCGA-EL-A3CW TCGA-EL-A3CX TCGA-EL-A3D1 TCGA-EL-A3D4 TCGA-EL-A3D6 
       37.94        57.01       106.62        98.53        69.57       108.36 
TCGA-EL-A3GO TCGA-EL-A3GP TCGA-EL-A3GR TCGA-EL-A3GS TCGA-EL-A3GU TCGA-EL-A3GV 
       64.87        49.51       115.10        65.39       136.01        50.37 
TCGA-EL-A3GW TCGA-EL-A3GX TCGA-EL-A3GY TCGA-EL-A3GZ TCGA-EL-A3H1 TCGA-EL-A3H3 
       50.20       147.75       101.13       139.99        49.32        43.36 
TCGA-EL-A3H4 TCGA-EL-A3H5 TCGA-EL-A3H7 TCGA-EL-A3MW TCGA-EL-A3MX TCGA-EL-A3MZ 
       49.71        83.57       139.00       108.66        57.63        52.50 
TCGA-EL-A3N2 TCGA-EL-A3T0 TCGA-EL-A3T1 TCGA-EL-A3T2 TCGA-EL-A3T3 TCGA-EL-A3T6 
       29.65       142.52       129.57        32.48       132.07        98.24 
TCGA-EL-A3T7 TCGA-EL-A3T8 TCGA-EL-A3T9 TCGA-EL-A3TA TCGA-EL-A3TB TCGA-EL-A3ZG 
       41.29       107.47         5.72        66.90        82.82        89.56 
TCGA-EL-A3ZH TCGA-EL-A3ZK TCGA-EL-A3ZL TCGA-EL-A3ZM TCGA-EL-A3ZN TCGA-EL-A3ZO 
       91.17        51.78        62.30        36.03        53.06        72.69 
TCGA-EL-A3ZP TCGA-EL-A3ZQ TCGA-EL-A3ZS TCGA-EL-A3ZT TCGA-EL-A4JW TCGA-EL-A4JX 
       65.49        61.22         7.07        59.44        34.72        45.96 
TCGA-EL-A4JZ TCGA-EL-A4K0 TCGA-EL-A4K1 TCGA-EL-A4K2 TCGA-EL-A4K4 TCGA-EL-A4K6 
       61.02        31.04        34.39        30.51        53.36        44.15 
TCGA-EL-A4K7 TCGA-EL-A4K9 TCGA-EL-A4KD TCGA-EL-A4KG TCGA-EL-A4KH TCGA-EL-A4KI 
       41.13        47.84        43.59        24.30        27.06        23.90 
TCGA-EM-A1CS TCGA-EM-A1CT TCGA-EM-A1CU TCGA-EM-A1CV TCGA-EM-A1CW TCGA-EM-A1YA 
       26.86        18.18        20.91        48.49        18.05        19.79 
TCGA-EM-A1YB TCGA-EM-A1YC TCGA-EM-A1YD TCGA-EM-A1YE TCGA-EM-A22I TCGA-EM-A22J 
       19.46        78.61        57.01        54.08        14.73        14.50 
TCGA-EM-A22L TCGA-EM-A22M TCGA-EM-A22N TCGA-EM-A22O TCGA-EM-A22P TCGA-EM-A22Q 
       10.45        14.53        10.65        44.19        41.29        14.24 
TCGA-EM-A2CJ TCGA-EM-A2CL TCGA-EM-A2CN TCGA-EM-A2CO TCGA-EM-A2CP TCGA-EM-A2CQ 
       47.57        13.18        23.51         6.05         2.99        12.30 
TCGA-EM-A2CR TCGA-EM-A2CS TCGA-EM-A2CT TCGA-EM-A2CU TCGA-EM-A2OV TCGA-EM-A2OW 
       13.64        27.65        48.46        13.15        22.16        40.34 
TCGA-EM-A2OX TCGA-EM-A2OY TCGA-EM-A2OZ TCGA-EM-A2P0 TCGA-EM-A2P1 TCGA-EM-A2P2 
       19.73        32.32        33.96        17.59        17.46        17.29 
TCGA-EM-A2P3 TCGA-EM-A3AI TCGA-EM-A3AJ TCGA-EM-A3AK TCGA-EM-A3AL TCGA-EM-A3AN 
       14.60        22.52        30.94        15.68        14.14        33.07 
TCGA-EM-A3AO TCGA-EM-A3AP TCGA-EM-A3AR TCGA-EM-A3FJ TCGA-EM-A3FK TCGA-EM-A3FL 
       44.52         8.35        37.25        27.95        23.77        47.38 
TCGA-EM-A3FM TCGA-EM-A3FN TCGA-EM-A3FO TCGA-EM-A3FP TCGA-EM-A3FQ TCGA-EM-A3FR 
       21.01        12.07        17.49        17.39        16.18        15.02 
TCGA-EM-A3O3 TCGA-EM-A3O6 TCGA-EM-A3O7 TCGA-EM-A3O8 TCGA-EM-A3O9 TCGA-EM-A3OA 
       14.50        15.06         7.33        12.53         9.24        27.02 
TCGA-EM-A3OB TCGA-EM-A3ST TCGA-EM-A3SU TCGA-EM-A3SX TCGA-EM-A3SY TCGA-EM-A3SZ 
       38.66        38.86        29.95        29.85        13.51        12.79 
TCGA-EM-A4FF TCGA-EM-A4FH TCGA-EM-A4FK TCGA-EM-A4FM TCGA-EM-A4FN TCGA-EM-A4FO 
       84.59        29.33        21.34         5.33        26.37        26.37 
TCGA-EM-A4FQ TCGA-EM-A4FR TCGA-EM-A4FU TCGA-EM-A4FV TCGA-EM-A4G1 TCGA-ET-A25G 
       22.45        21.53        60.49        24.46        13.68        81.93 
TCGA-ET-A25I TCGA-ET-A25J TCGA-ET-A25K TCGA-ET-A25O TCGA-ET-A25R TCGA-ET-A2MX 
       81.70        77.56        70.42        65.29        63.45        88.41 
TCGA-ET-A2MY TCGA-ET-A2MZ TCGA-ET-A2N0 TCGA-ET-A2N1 TCGA-ET-A2N3 TCGA-ET-A2N4 
       58.75        37.25        52.60        54.35        83.34         2.66 
TCGA-ET-A39J TCGA-ET-A39K TCGA-ET-A39L TCGA-ET-A39M TCGA-ET-A39N TCGA-ET-A39O 
      106.09       107.41       108.46        84.89       123.32       100.57 
TCGA-ET-A39P TCGA-ET-A39R TCGA-ET-A39S TCGA-ET-A39T TCGA-ET-A3BN TCGA-ET-A3BP 
       95.34        94.13        55.10        98.20        28.24        79.10 
TCGA-ET-A3BQ TCGA-ET-A3BS TCGA-ET-A3BT TCGA-ET-A3BU TCGA-ET-A3BW TCGA-ET-A3BX 
       76.64         5.79        87.62        77.82        46.65        52.47 
TCGA-ET-A3DO TCGA-ET-A3DP TCGA-ET-A3DQ TCGA-ET-A3DR TCGA-ET-A3DS TCGA-ET-A3DT 
      116.78        94.59        84.85        80.58        66.84        43.73 
TCGA-ET-A3DU TCGA-ET-A3DV TCGA-ET-A3DW TCGA-ET-A40Q TCGA-ET-A40R TCGA-ET-A40S 
       62.83       166.62        24.72        46.26        44.38        40.21 
TCGA-ET-A40T TCGA-ET-A4KN TCGA-ET-A4KQ TCGA-FE-A22Z TCGA-FE-A230 TCGA-FE-A231 
       37.48        33.17        31.40        73.74        71.44        31.59 
TCGA-FE-A232 TCGA-FE-A233 TCGA-FE-A234 TCGA-FE-A235 TCGA-FE-A236 TCGA-FE-A237 
       79.69        24.69        68.22       117.40        66.77       112.80 
TCGA-FE-A23A TCGA-FE-A3PA TCGA-FE-A3PB TCGA-FE-A3PC TCGA-FE-A3PD TCGA-FK-A3S3 
       81.83       106.36        85.15        85.68        78.77        71.08 
TCGA-FK-A3SB TCGA-FK-A3SE TCGA-FK-A3SG TCGA-FK-A3SH TCGA-FK-A4UB TCGA-FY-A2QD 
        4.11        22.03         0.92        48.10       116.09         1.25 
TCGA-FY-A3BL TCGA-FY-A3I4 TCGA-FY-A3I5 TCGA-FY-A3NM TCGA-FY-A3NP TCGA-FY-A3ON 
       20.42        17.82         7.82        29.10        16.14        19.56 
TCGA-FY-A3R6 TCGA-FY-A3R7 TCGA-FY-A3R8 TCGA-FY-A3R9 TCGA-FY-A3RA TCGA-FY-A3TY 
       13.91        16.27        15.68        16.57        18.08        23.31 
TCGA-FY-A3W9 TCGA-FY-A3WA TCGA-FY-A3YR TCGA-FY-A40K TCGA-FY-A40L TCGA-FY-A40M 
       21.63        17.06        17.36        15.16        23.87        22.49 
TCGA-FY-A40N TCGA-FY-A4B0 TCGA-FY-A4B3 TCGA-FY-A4B4 TCGA-GE-A2C6 TCGA-H2-A26U 
       19.04        13.81        14.04        21.60        12.53        17.00 
TCGA-H2-A2K9 TCGA-H2-A3RH TCGA-H2-A3RI TCGA-H2-A421 TCGA-H2-A422 TCGA-IM-A3EB 
       21.67        12.46        11.01        20.05        18.61        48.92 
TCGA-IM-A3ED TCGA-IM-A3U2 TCGA-IM-A3U3 TCGA-IM-A41Y TCGA-IM-A41Z TCGA-IM-A420 
       47.41        18.51        16.90        21.83        31.10         8.22 
TCGA-IM-A4EB TCGA-J8-A3O0 TCGA-J8-A3O1 TCGA-J8-A3O2 TCGA-J8-A3YD TCGA-J8-A3YE 
       25.64        43.17        27.19        11.24        31.82        27.85 
TCGA-J8-A3YF TCGA-J8-A3YG TCGA-J8-A3YH TCGA-J8-A42S TCGA-J8-A4HY TCGA-KS-A41F 
       24.69        22.29         5.75         2.47         0.20       143.57 
TCGA-KS-A41I TCGA-KS-A41J TCGA-KS-A41L TCGA-KS-A4I1 TCGA-KS-A4I3 TCGA-KS-A4I5 
       15.98        15.68       113.85        26.70        43.69        18.64 
TCGA-KS-A4I7 TCGA-KS-A4I9 TCGA-KS-A4IB TCGA-KS-A4IC TCGA-KS-A4ID TCGA-L6-A4EP 
       32.45        87.39        84.72        35.28        33.24        33.40 
TCGA-L6-A4EQ TCGA-L6-A4EU TCGA-MK-A4N6 TCGA-MK-A4N7 TCGA-MK-A4N9 TCGA-QD-A8IV 
       40.37         9.50        36.10        32.45        30.21        12.89 
TCGA-E8-A418 
        3.02 

  HRAS MUTATED HRAS WILD-TYPE 
         10.88           0.20 
  HRAS MUTATED HRAS WILD-TYPE 
         80.88         178.29 
  HRAS MUTATED HRAS WILD-TYPE 
         45.60          31.04 
[1] "10.9 - 80.9 (45.6)" "0.2 - 178.3 (31.0)"
[1] "hr=" "2"  
D3V2, continuous
                vv
clus             STAGE I STAGE II STAGE III STAGE IV STAGE IVA STAGE IVC
  HRAS MUTATED         9        1         3        0         2         1
  HRAS WILD-TYPE     269       49       105        2        44         5
D3V3, multiclass
           clus
vv          HRAS MUTATED HRAS WILD-TYPE
  STAGE I              9            269
  STAGE II             1             49
  STAGE III            3            105
  STAGE IV             0              2
  STAGE IVA            2             44
  STAGE IVC            1              5
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus              T1  T2  T3  T4
  HRAS MUTATED     5   7   4   0
  HRAS WILD-TYPE 136 155 160  23
D3V4, multiclass
    clus
vv   HRAS MUTATED HRAS WILD-TYPE
  T1            5            136
  T2            7            155
  T3            4            160
  T4            0             23
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D3V5, binary
                cls
clus               0   1
  HRAS MUTATED     9   4
  HRAS WILD-TYPE 211 218
[1] "tbl2"
                cls
clus             [,1] [,2]
  HRAS MUTATED      9    4
  HRAS WILD-TYPE  211  218
   clus
vv  HRAS MUTATED HRAS WILD-TYPE
  0            9            211
  1            4            218
[1] 2 2
[1] FALSE
D3V6, binary
                cls
clus               0   1
  HRAS MUTATED     8   1
  HRAS WILD-TYPE 268   8
[1] "tbl2"
                cls
clus             [,1] [,2]
  HRAS MUTATED      8    1
  HRAS WILD-TYPE  268    8
   clus
vv  HRAS MUTATED HRAS WILD-TYPE
  0            8            268
  1            1              8
[1] 2 2
[1] FALSE
D3V7, binary
                cls
clus               0   1
  HRAS MUTATED    11   5
  HRAS WILD-TYPE 351 125
[1] "tbl2"
                cls
clus             [,1] [,2]
  HRAS MUTATED     11    5
  HRAS WILD-TYPE  351  125
        clus
vv       HRAS MUTATED HRAS WILD-TYPE
  FEMALE           11            351
  MALE              5            125
[1] 2 2
[1] FALSE
D3V8, binary
                cls
clus               0   1
  HRAS MUTATED     2  13
  HRAS WILD-TYPE 177 285
[1] "tbl2"
                cls
clus             [,1] [,2]
  HRAS MUTATED      2   13
  HRAS WILD-TYPE  177  285
     clus
vv    HRAS MUTATED HRAS WILD-TYPE
  NO             2            177
  YES           13            285
[1] 2 2
[1] FALSE
                vv
clus             OTHER, SPECIFY THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  HRAS MUTATED                0                                             6
  HRAS WILD-TYPE              7                                           342
                vv
clus             THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  HRAS MUTATED                                                                       10
  HRAS WILD-TYPE                                                                     92
                vv
clus             THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  HRAS MUTATED                                                                     0
  HRAS WILD-TYPE                                                                  35
D3V9, multiclass
                                                                        clus
vv                                                                       HRAS MUTATED
  OTHER, SPECIFY                                                                    0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                     6
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)           10
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)               0
                                                                        clus
vv                                                                       HRAS WILD-TYPE
  OTHER, SPECIFY                                                                      7
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                     342
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)             92
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D3V10, binary
                cls
clus               0   1
  HRAS MUTATED    13   0
  HRAS WILD-TYPE 402  17
[1] "tbl2"
                cls
clus             [,1] [,2]
  HRAS MUTATED     13    0
  HRAS WILD-TYPE  402   17
     clus
vv    HRAS MUTATED HRAS WILD-TYPE
  NO            13            402
  YES            0             17
[1] 2 2
[1] FALSE
                vv
clus             MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE VERY ADVANCED (T4B)
  HRAS MUTATED              2                       0   12                   0
  HRAS WILD-TYPE          128                      18  316                   1
D3V11, multiclass
                         clus
vv                        HRAS MUTATED HRAS WILD-TYPE
  MINIMAL (T3)                       2            128
  MODERATE/ADVANCED (T4A)            0             18
  NONE                              12            316
  VERY ADVANCED (T4B)                0              1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus              R0  R1  R2  RX
  HRAS MUTATED    10   2   0   2
  HRAS WILD-TYPE 369  49   4  28
D3V12, multiclass
    clus
vv   HRAS MUTATED HRAS WILD-TYPE
  R0           10            369
  R1            2             49
  R2            0              4
  RX            2             28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D3V13, continuous
D3V14, binary
                cls
clus               0   1
  HRAS MUTATED     7   9
  HRAS WILD-TYPE 214 253
[1] "tbl2"
                cls
clus             [,1] [,2]
  HRAS MUTATED      7    9
  HRAS WILD-TYPE  214  253
            clus
vv           HRAS MUTATED HRAS WILD-TYPE
  MULTIFOCAL            7            214
  UNIFOCAL              9            253
[1] 2 2
[1] FALSE
D3V15, continuous
                vv
clus             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  HRAS MUTATED                                  0     2
  HRAS WILD-TYPE                                1    49
                vv
clus             BLACK OR AFRICAN AMERICAN WHITE
  HRAS MUTATED                           3     9
  HRAS WILD-TYPE                        23   313
D3V16, multiclass
                                  clus
vv                                 HRAS MUTATED HRAS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE            0              1
  ASIAN                                       2             49
  BLACK OR AFRICAN AMERICAN                   3             23
  WHITE                                       9            313
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D3V17, binary
                cls
clus               0   1
  HRAS MUTATED     0  14
  HRAS WILD-TYPE  38 337
[1] "tbl2"
                cls
clus             [,1] [,2]
  HRAS MUTATED      0   14
  HRAS WILD-TYPE   38  337
                        clus
vv                       HRAS MUTATED HRAS WILD-TYPE
  HISPANIC OR LATINO                0             38
  NOT HISPANIC OR LATINO           14            337
[1] 2 2
[1] FALSE

Clustering(4) Variable = NUDT11 MUTATION ANALYSIS
D4V1, survival
                  sevent
clus2                0   1
  NUDT11 MUTATED    10   0
  NUDT11 WILD-TYPE 467  14
  NUDT11 MUTATED NUDT11 WILD-TYPE 
              10              481 
  NUDT11 MUTATED NUDT11 WILD-TYPE 
               0               14 
$`NUDT11 MUTATED`
TCGA-BJ-A290 TCGA-DJ-A2PP TCGA-DJ-A3V8 TCGA-EM-A1CS TCGA-EM-A3AP TCGA-EM-A3FM 
       30.21        30.58        21.27        26.86         8.35        21.01 
TCGA-ET-A39M TCGA-ET-A3BT TCGA-J8-A3YG TCGA-J8-A42S 
       84.89        87.62        22.29         2.47 

$`NUDT11 WILD-TYPE`
TCGA-BJ-A45K TCGA-CE-A13K TCGA-DE-A0XZ TCGA-DJ-A13L TCGA-DJ-A2PR TCGA-DJ-A3UU 
       23.18        12.66        35.84         9.96        27.45        23.44 
TCGA-DJ-A3UW TCGA-DJ-A3V4 TCGA-DJ-A3VI TCGA-DJ-A3VK TCGA-E3-A3E5 TCGA-EL-A3CR 
       59.57        42.54         3.12        24.76        39.95         7.66 
TCGA-EL-A3CS TCGA-EL-A3CY TCGA-EL-A3D0 TCGA-EL-A3D5 TCGA-EL-A3GQ TCGA-EL-A3H2 
       45.53         4.18       139.86        57.11        50.24        33.50 
TCGA-EL-A3H8 TCGA-EL-A3MY TCGA-EL-A3N3 TCGA-EM-A3AQ TCGA-ET-A3BO TCGA-ET-A3BV 
      150.48        17.52       178.29        29.72        50.40        75.42 
TCGA-FK-A3SD TCGA-FY-A76V TCGA-J8-A3NZ TCGA-J8-A4HW TCGA-L6-A4ET TCGA-MK-A84Z 
        1.05         1.68        17.23         2.60        21.83        23.93 
TCGA-4C-A93U TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0Z3 TCGA-BJ-A0Z9 
        4.24        24.79        13.78        49.78        16.34        41.33 
TCGA-BJ-A0ZA TCGA-BJ-A0ZB TCGA-BJ-A0ZC TCGA-BJ-A0ZE TCGA-BJ-A0ZG TCGA-BJ-A0ZH 
       18.87         4.01        11.57        16.73        25.48        15.12 
TCGA-BJ-A0ZJ TCGA-BJ-A18Y TCGA-BJ-A18Z TCGA-BJ-A191 TCGA-BJ-A192 TCGA-BJ-A28R 
       42.08        51.39        41.52         4.83        44.35        42.15 
TCGA-BJ-A28S TCGA-BJ-A28T TCGA-BJ-A28V TCGA-BJ-A28X TCGA-BJ-A28Z TCGA-BJ-A2N7 
       21.04        35.54        32.45        30.97        11.08        18.38 
TCGA-BJ-A2N8 TCGA-BJ-A2N9 TCGA-BJ-A2NA TCGA-BJ-A2P4 TCGA-BJ-A3EZ TCGA-BJ-A3F0 
       16.57        20.48        18.97        12.82        16.01        13.94 
TCGA-BJ-A3PR TCGA-BJ-A3PT TCGA-BJ-A3PU TCGA-BJ-A45D TCGA-BJ-A45E TCGA-BJ-A45F 
       36.39        23.31        18.64        10.88        21.01         3.45 
TCGA-BJ-A45G TCGA-BJ-A45H TCGA-BJ-A45I TCGA-BJ-A45J TCGA-BJ-A4O8 TCGA-BJ-A4O9 
       23.84        28.44        15.45        21.63        19.43        23.47 
TCGA-CE-A27D TCGA-CE-A3MD TCGA-CE-A3ME TCGA-CE-A481 TCGA-CE-A482 TCGA-CE-A483 
       12.30        12.79        12.46        11.38        10.68        15.02 
TCGA-CE-A484 TCGA-CE-A485 TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DE-A2OL TCGA-DE-A3KN 
       12.43        12.66        21.63        50.17        37.64        27.32 
TCGA-DE-A4M8 TCGA-DE-A4M9 TCGA-DE-A4MA TCGA-DE-A4MB TCGA-DE-A4MC TCGA-DE-A4MD 
       18.54        18.84        30.12        11.57        30.02        25.12 
TCGA-DE-A69J TCGA-DE-A69K TCGA-DE-A7U5 TCGA-DJ-A13M TCGA-DJ-A13O TCGA-DJ-A13P 
       14.70        14.27         2.76        48.79        38.17       169.32 
TCGA-DJ-A13R TCGA-DJ-A13S TCGA-DJ-A13T TCGA-DJ-A13U TCGA-DJ-A13V TCGA-DJ-A13W 
       18.58         8.71        56.19        52.27        43.17        52.37 
TCGA-DJ-A13X TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QG TCGA-DJ-A1QH 
        8.32        48.07       135.91        30.61        44.98        42.51 
TCGA-DJ-A1QI TCGA-DJ-A1QL TCGA-DJ-A1QM TCGA-DJ-A1QN TCGA-DJ-A1QO TCGA-DJ-A1QQ 
       14.96        17.59         6.02        42.58        47.41        17.56 
TCGA-DJ-A2PN TCGA-DJ-A2PO TCGA-DJ-A2PQ TCGA-DJ-A2PS TCGA-DJ-A2PT TCGA-DJ-A2PU 
       10.09         7.99        35.41        26.20        38.83        33.96 
TCGA-DJ-A2PV TCGA-DJ-A2PW TCGA-DJ-A2PX TCGA-DJ-A2PY TCGA-DJ-A2PZ TCGA-DJ-A2Q0 
       31.99        34.85        28.96         8.78         8.42        34.36 
TCGA-DJ-A2Q1 TCGA-DJ-A2Q2 TCGA-DJ-A2Q3 TCGA-DJ-A2Q4 TCGA-DJ-A2Q5 TCGA-DJ-A2Q6 
       37.74        43.96        40.24        33.93        37.48        36.46 
TCGA-DJ-A2Q7 TCGA-DJ-A2Q8 TCGA-DJ-A2Q9 TCGA-DJ-A2QA TCGA-DJ-A2QB TCGA-DJ-A2QC 
       35.11        39.09        35.90        33.53        35.18        39.95 
TCGA-DJ-A3UK TCGA-DJ-A3UM TCGA-DJ-A3UN TCGA-DJ-A3UO TCGA-DJ-A3UP TCGA-DJ-A3UQ 
       36.92        31.04        32.42        31.46        16.41        19.56 
TCGA-DJ-A3UR TCGA-DJ-A3US TCGA-DJ-A3UT TCGA-DJ-A3UX TCGA-DJ-A3UY TCGA-DJ-A3UZ 
       36.33        32.81        36.33        11.34        35.87        40.96 
TCGA-DJ-A3V0 TCGA-DJ-A3V2 TCGA-DJ-A3V3 TCGA-DJ-A3V5 TCGA-DJ-A3V7 TCGA-DJ-A3V9 
       36.99        20.22        30.61        19.20        23.21        20.48 
TCGA-DJ-A3VA TCGA-DJ-A3VB TCGA-DJ-A3VD TCGA-DJ-A3VE TCGA-DJ-A3VF TCGA-DJ-A3VG 
       24.82        22.92        40.70        18.97         9.60        35.67 
TCGA-DJ-A3VJ TCGA-DJ-A3VL TCGA-DJ-A3VM TCGA-DJ-A4UL TCGA-DJ-A4UP TCGA-DJ-A4UQ 
       36.43        23.44        27.62        30.87        30.12        33.04 
TCGA-DJ-A4UR TCGA-DJ-A4UT TCGA-DJ-A4UW TCGA-DJ-A4V0 TCGA-DJ-A4V2 TCGA-DJ-A4V4 
       34.78        27.06        26.93        35.54         3.12        15.81 
TCGA-DJ-A4V5 TCGA-DO-A1JZ TCGA-DO-A1K0 TCGA-DO-A2HM TCGA-E3-A3DY TCGA-E3-A3DZ 
       35.38        54.90        21.53         2.33        92.55        47.21 
TCGA-E3-A3E0 TCGA-E3-A3E1 TCGA-E3-A3E2 TCGA-E3-A3E3 TCGA-E8-A242 TCGA-E8-A2EA 
       66.38        80.52        63.19        52.44        31.23        35.67 
TCGA-E8-A2JQ TCGA-E8-A3X7 TCGA-E8-A413 TCGA-E8-A414 TCGA-E8-A415 TCGA-E8-A416 
       11.70        31.27        29.98        31.50        31.04        31.30 
TCGA-E8-A417 TCGA-E8-A419 TCGA-E8-A432 TCGA-E8-A433 TCGA-E8-A434 TCGA-E8-A436 
       30.84        25.45        30.61        31.27        31.33        14.96 
TCGA-E8-A437 TCGA-E8-A438 TCGA-E8-A44K TCGA-E8-A44M TCGA-EL-A3CL TCGA-EL-A3CM 
       39.88        33.50        31.00        30.15        31.66        26.73 
TCGA-EL-A3CN TCGA-EL-A3CO TCGA-EL-A3CP TCGA-EL-A3CT TCGA-EL-A3CU TCGA-EL-A3CV 
      155.54        97.74       158.83        60.95       157.15        37.94 
TCGA-EL-A3CW TCGA-EL-A3CX TCGA-EL-A3CZ TCGA-EL-A3D1 TCGA-EL-A3D4 TCGA-EL-A3D6 
       57.01       106.62        79.50        98.53        69.57       108.36 
TCGA-EL-A3GO TCGA-EL-A3GP TCGA-EL-A3GR TCGA-EL-A3GS TCGA-EL-A3GU TCGA-EL-A3GV 
       64.87        49.51       115.10        65.39       136.01        50.37 
TCGA-EL-A3GW TCGA-EL-A3GX TCGA-EL-A3GY TCGA-EL-A3GZ TCGA-EL-A3H1 TCGA-EL-A3H3 
       50.20       147.75       101.13       139.99        49.32        43.36 
TCGA-EL-A3H4 TCGA-EL-A3H5 TCGA-EL-A3H7 TCGA-EL-A3MW TCGA-EL-A3MX TCGA-EL-A3MZ 
       49.71        83.57       139.00       108.66        57.63        52.50 
TCGA-EL-A3N2 TCGA-EL-A3T0 TCGA-EL-A3T1 TCGA-EL-A3T2 TCGA-EL-A3T3 TCGA-EL-A3T6 
       29.65       142.52       129.57        32.48       132.07        98.24 
TCGA-EL-A3T7 TCGA-EL-A3T8 TCGA-EL-A3T9 TCGA-EL-A3TA TCGA-EL-A3TB TCGA-EL-A3ZG 
       41.29       107.47         5.72        66.90        82.82        89.56 
TCGA-EL-A3ZH TCGA-EL-A3ZK TCGA-EL-A3ZL TCGA-EL-A3ZM TCGA-EL-A3ZN TCGA-EL-A3ZO 
       91.17        51.78        62.30        36.03        53.06        72.69 
TCGA-EL-A3ZP TCGA-EL-A3ZQ TCGA-EL-A3ZR TCGA-EL-A3ZS TCGA-EL-A3ZT TCGA-EL-A4JV 
       65.49        61.22        60.16         7.07        59.44        57.47 
TCGA-EL-A4JW TCGA-EL-A4JX TCGA-EL-A4JZ TCGA-EL-A4K0 TCGA-EL-A4K1 TCGA-EL-A4K2 
       34.72        45.96        61.02        31.04        34.39        30.51 
TCGA-EL-A4K4 TCGA-EL-A4K6 TCGA-EL-A4K7 TCGA-EL-A4K9 TCGA-EL-A4KD TCGA-EL-A4KG 
       53.36        44.15        41.13        47.84        43.59        24.30 
TCGA-EL-A4KH TCGA-EL-A4KI TCGA-EM-A1CT TCGA-EM-A1CU TCGA-EM-A1CV TCGA-EM-A1CW 
       27.06        23.90        18.18        20.91        48.49        18.05 
TCGA-EM-A1YA TCGA-EM-A1YB TCGA-EM-A1YC TCGA-EM-A1YD TCGA-EM-A1YE TCGA-EM-A22I 
       19.79        19.46        78.61        57.01        54.08        14.73 
TCGA-EM-A22J TCGA-EM-A22K TCGA-EM-A22L TCGA-EM-A22M TCGA-EM-A22N TCGA-EM-A22O 
       14.50        15.75        10.45        14.53        10.65        44.19 
TCGA-EM-A22P TCGA-EM-A22Q TCGA-EM-A2CJ TCGA-EM-A2CK TCGA-EM-A2CL TCGA-EM-A2CN 
       41.29        14.24        47.57        17.88        13.18        23.51 
TCGA-EM-A2CO TCGA-EM-A2CP TCGA-EM-A2CQ TCGA-EM-A2CR TCGA-EM-A2CS TCGA-EM-A2CT 
        6.05         2.99        12.30        13.64        27.65        48.46 
TCGA-EM-A2CU TCGA-EM-A2OV TCGA-EM-A2OW TCGA-EM-A2OX TCGA-EM-A2OY TCGA-EM-A2OZ 
       13.15        22.16        40.34        19.73        32.32        33.96 
TCGA-EM-A2P0 TCGA-EM-A2P1 TCGA-EM-A2P2 TCGA-EM-A2P3 TCGA-EM-A3AI TCGA-EM-A3AJ 
       17.59        17.46        17.29        14.60        22.52        30.94 
TCGA-EM-A3AK TCGA-EM-A3AL TCGA-EM-A3AN TCGA-EM-A3AO TCGA-EM-A3AR TCGA-EM-A3FJ 
       15.68        14.14        33.07        44.52        37.25        27.95 
TCGA-EM-A3FK TCGA-EM-A3FL TCGA-EM-A3FN TCGA-EM-A3FO TCGA-EM-A3FP TCGA-EM-A3FQ 
       23.77        47.38        12.07        17.49        17.39        16.18 
TCGA-EM-A3FR TCGA-EM-A3O3 TCGA-EM-A3O6 TCGA-EM-A3O7 TCGA-EM-A3O8 TCGA-EM-A3O9 
       15.02        14.50        15.06         7.33        12.53         9.24 
TCGA-EM-A3OA TCGA-EM-A3OB TCGA-EM-A3ST TCGA-EM-A3SU TCGA-EM-A3SX TCGA-EM-A3SY 
       27.02        38.66        38.86        29.95        29.85        13.51 
TCGA-EM-A3SZ TCGA-EM-A4FF TCGA-EM-A4FH TCGA-EM-A4FK TCGA-EM-A4FM TCGA-EM-A4FN 
       12.79        84.59        29.33        21.34         5.33        26.37 
TCGA-EM-A4FO TCGA-EM-A4FQ TCGA-EM-A4FR TCGA-EM-A4FU TCGA-EM-A4FV TCGA-EM-A4G1 
       26.37        22.45        21.53        60.49        24.46        13.68 
TCGA-ET-A25G TCGA-ET-A25I TCGA-ET-A25J TCGA-ET-A25K TCGA-ET-A25O TCGA-ET-A25R 
       81.93        81.70        77.56        70.42        65.29        63.45 
TCGA-ET-A2MX TCGA-ET-A2MY TCGA-ET-A2MZ TCGA-ET-A2N0 TCGA-ET-A2N1 TCGA-ET-A2N3 
       88.41        58.75        37.25        52.60        54.35        83.34 
TCGA-ET-A2N4 TCGA-ET-A2N5 TCGA-ET-A39I TCGA-ET-A39J TCGA-ET-A39K TCGA-ET-A39L 
        2.66        80.88        33.24       106.09       107.41       108.46 
TCGA-ET-A39N TCGA-ET-A39O TCGA-ET-A39P TCGA-ET-A39R TCGA-ET-A39S TCGA-ET-A39T 
      123.32       100.57        95.34        94.13        55.10        98.20 
TCGA-ET-A3BN TCGA-ET-A3BP TCGA-ET-A3BQ TCGA-ET-A3BS TCGA-ET-A3BU TCGA-ET-A3BW 
       28.24        79.10        76.64         5.79        77.82        46.65 
TCGA-ET-A3BX TCGA-ET-A3DO TCGA-ET-A3DP TCGA-ET-A3DQ TCGA-ET-A3DR TCGA-ET-A3DS 
       52.47       116.78        94.59        84.85        80.58        66.84 
TCGA-ET-A3DT TCGA-ET-A3DU TCGA-ET-A3DV TCGA-ET-A3DW TCGA-ET-A40P TCGA-ET-A40Q 
       43.73        62.83       166.62        24.72        43.99        46.26 
TCGA-ET-A40R TCGA-ET-A40S TCGA-ET-A40T TCGA-ET-A4KN TCGA-ET-A4KQ TCGA-FE-A22Z 
       44.38        40.21        37.48        33.17        31.40        73.74 
TCGA-FE-A230 TCGA-FE-A231 TCGA-FE-A232 TCGA-FE-A233 TCGA-FE-A234 TCGA-FE-A235 
       71.44        31.59        79.69        24.69        68.22       117.40 
TCGA-FE-A236 TCGA-FE-A237 TCGA-FE-A23A TCGA-FE-A3PA TCGA-FE-A3PB TCGA-FE-A3PC 
       66.77       112.80        81.83       106.36        85.15        85.68 
TCGA-FE-A3PD TCGA-FK-A3S3 TCGA-FK-A3SB TCGA-FK-A3SE TCGA-FK-A3SG TCGA-FK-A3SH 
       78.77        71.08         4.11        22.03         0.92        48.10 
TCGA-FK-A4UB TCGA-FY-A2QD TCGA-FY-A3BL TCGA-FY-A3I4 TCGA-FY-A3I5 TCGA-FY-A3NM 
      116.09         1.25        20.42        17.82         7.82        29.10 
TCGA-FY-A3NP TCGA-FY-A3ON TCGA-FY-A3R6 TCGA-FY-A3R7 TCGA-FY-A3R8 TCGA-FY-A3R9 
       16.14        19.56        13.91        16.27        15.68        16.57 
TCGA-FY-A3RA TCGA-FY-A3TY TCGA-FY-A3W9 TCGA-FY-A3WA TCGA-FY-A3YR TCGA-FY-A40K 
       18.08        23.31        21.63        17.06        17.36        15.16 
TCGA-FY-A40L TCGA-FY-A40M TCGA-FY-A40N TCGA-FY-A4B0 TCGA-FY-A4B3 TCGA-FY-A4B4 
       23.87        22.49        19.04        13.81        14.04        21.60 
TCGA-GE-A2C6 TCGA-H2-A26U TCGA-H2-A2K9 TCGA-H2-A3RH TCGA-H2-A3RI TCGA-H2-A421 
       12.53        17.00        21.67        12.46        11.01        20.05 
TCGA-H2-A422 TCGA-IM-A3EB TCGA-IM-A3ED TCGA-IM-A3U2 TCGA-IM-A3U3 TCGA-IM-A41Y 
       18.61        48.92        47.41        18.51        16.90        21.83 
TCGA-IM-A41Z TCGA-IM-A420 TCGA-IM-A4EB TCGA-J8-A3O0 TCGA-J8-A3O1 TCGA-J8-A3O2 
       31.10         8.22        25.64        43.17        27.19        11.24 
TCGA-J8-A3YD TCGA-J8-A3YE TCGA-J8-A3YF TCGA-J8-A3YH TCGA-J8-A4HY TCGA-KS-A41F 
       31.82        27.85        24.69         5.75         0.20       143.57 
TCGA-KS-A41I TCGA-KS-A41J TCGA-KS-A41L TCGA-KS-A4I1 TCGA-KS-A4I3 TCGA-KS-A4I5 
       15.98        15.68       113.85        26.70        43.69        18.64 
TCGA-KS-A4I7 TCGA-KS-A4I9 TCGA-KS-A4IB TCGA-KS-A4IC TCGA-KS-A4ID TCGA-L6-A4EP 
       32.45        87.39        84.72        35.28        33.24        33.40 
TCGA-L6-A4EQ TCGA-L6-A4EU TCGA-MK-A4N6 TCGA-MK-A4N7 TCGA-MK-A4N9 TCGA-QD-A8IV 
       40.37         9.50        36.10        32.45        30.21        12.89 
TCGA-E8-A418 
        3.02 

  NUDT11 MUTATED NUDT11 WILD-TYPE 
            2.47             0.20 
  NUDT11 MUTATED NUDT11 WILD-TYPE 
           87.62           178.29 
  NUDT11 MUTATED NUDT11 WILD-TYPE 
          24.575           31.270 
[1] "2.5 - 87.6 (24.6)"  "0.2 - 178.3 (31.3)"
[1] "hr="     "9100000"
D4V2, continuous
                  vv
clus               STAGE I STAGE II STAGE III STAGE IV STAGE IVA STAGE IVC
  NUDT11 MUTATED         4        1         3        0         2         0
  NUDT11 WILD-TYPE     274       49       105        2        44         6
D4V3, multiclass
           clus
vv          NUDT11 MUTATED NUDT11 WILD-TYPE
  STAGE I                4              274
  STAGE II               1               49
  STAGE III              3              105
  STAGE IV               0                2
  STAGE IVA              2               44
  STAGE IVC              0                6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus                T1  T2  T3  T4
  NUDT11 MUTATED     2   6   2   0
  NUDT11 WILD-TYPE 139 156 162  23
D4V4, multiclass
    clus
vv   NUDT11 MUTATED NUDT11 WILD-TYPE
  T1              2              139
  T2              6              156
  T3              2              162
  T4              0               23
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D4V5, binary
                  cls
clus                 0   1
  NUDT11 MUTATED     2   6
  NUDT11 WILD-TYPE 218 216
[1] "tbl2"
                  cls
clus               [,1] [,2]
  NUDT11 MUTATED      2    6
  NUDT11 WILD-TYPE  218  216
   clus
vv  NUDT11 MUTATED NUDT11 WILD-TYPE
  0              2              218
  1              6              216
[1] 2 2
[1] FALSE
D4V6, binary
                  cls
clus                 0   1
  NUDT11 MUTATED     4   0
  NUDT11 WILD-TYPE 272   9
[1] "tbl2"
                  cls
clus               [,1] [,2]
  NUDT11 MUTATED      4    0
  NUDT11 WILD-TYPE  272    9
   clus
vv  NUDT11 MUTATED NUDT11 WILD-TYPE
  0              4              272
  1              0                9
[1] 2 2
[1] FALSE
D4V7, binary
                  cls
clus                 0   1
  NUDT11 MUTATED     5   5
  NUDT11 WILD-TYPE 357 125
[1] "tbl2"
                  cls
clus               [,1] [,2]
  NUDT11 MUTATED      5    5
  NUDT11 WILD-TYPE  357  125
        clus
vv       NUDT11 MUTATED NUDT11 WILD-TYPE
  FEMALE              5              357
  MALE                5              125
[1] 2 2
[1] FALSE
D4V8, binary
                  cls
clus                 0   1
  NUDT11 MUTATED     4   6
  NUDT11 WILD-TYPE 175 292
[1] "tbl2"
                  cls
clus               [,1] [,2]
  NUDT11 MUTATED      4    6
  NUDT11 WILD-TYPE  175  292
     clus
vv    NUDT11 MUTATED NUDT11 WILD-TYPE
  NO               4              175
  YES              6              292
[1] 2 2
[1] FALSE
                  vv
clus               OTHER, SPECIFY THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  NUDT11 MUTATED                0                                             5
  NUDT11 WILD-TYPE              7                                           343
                  vv
clus               THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  NUDT11 MUTATED                                                                        2
  NUDT11 WILD-TYPE                                                                    100
                  vv
clus               THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  NUDT11 MUTATED                                                                     3
  NUDT11 WILD-TYPE                                                                  32
D4V9, multiclass
                                                                        clus
vv                                                                       NUDT11 MUTATED
  OTHER, SPECIFY                                                                      0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                       5
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)              2
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                 3
                                                                        clus
vv                                                                       NUDT11 WILD-TYPE
  OTHER, SPECIFY                                                                        7
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                       343
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)              100
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                  32
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D4V10, binary
                  cls
clus                 0   1
  NUDT11 MUTATED     5   2
  NUDT11 WILD-TYPE 410  15
[1] "tbl2"
                  cls
clus               [,1] [,2]
  NUDT11 MUTATED      5    2
  NUDT11 WILD-TYPE  410   15
     clus
vv    NUDT11 MUTATED NUDT11 WILD-TYPE
  NO               5              410
  YES              2               15
[1] 2 2
[1] FALSE
                  vv
clus               MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  NUDT11 MUTATED              2                       0    8
  NUDT11 WILD-TYPE          128                      18  320
                  vv
clus               VERY ADVANCED (T4B)
  NUDT11 MUTATED                     0
  NUDT11 WILD-TYPE                   1
D4V11, multiclass
                         clus
vv                        NUDT11 MUTATED NUDT11 WILD-TYPE
  MINIMAL (T3)                         2              128
  MODERATE/ADVANCED (T4A)              0               18
  NONE                                 8              320
  VERY ADVANCED (T4B)                  0                1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus                R0  R1  R2  RX
  NUDT11 MUTATED     9   0   0   0
  NUDT11 WILD-TYPE 370  51   4  30
D4V12, multiclass
    clus
vv   NUDT11 MUTATED NUDT11 WILD-TYPE
  R0              9              370
  R1              0               51
  R2              0                4
  RX              0               30
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D4V13, continuous
D4V14, binary
                  cls
clus                 0   1
  NUDT11 MUTATED     6   4
  NUDT11 WILD-TYPE 215 258
[1] "tbl2"
                  cls
clus               [,1] [,2]
  NUDT11 MUTATED      6    4
  NUDT11 WILD-TYPE  215  258
            clus
vv           NUDT11 MUTATED NUDT11 WILD-TYPE
  MULTIFOCAL              6              215
  UNIFOCAL                4              258
[1] 2 2
[1] FALSE
D4V15, continuous
                  vv
clus               AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  NUDT11 MUTATED                                  0     0
  NUDT11 WILD-TYPE                                1    51
                  vv
clus               BLACK OR AFRICAN AMERICAN WHITE
  NUDT11 MUTATED                           0     6
  NUDT11 WILD-TYPE                        26   316
D4V16, multiclass
                                  clus
vv                                 NUDT11 MUTATED NUDT11 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE              0                1
  ASIAN                                         0               51
  BLACK OR AFRICAN AMERICAN                     0               26
  WHITE                                         6              316
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D4V17, binary
                  cls
clus                 0   1
  NUDT11 MUTATED     0   5
  NUDT11 WILD-TYPE  38 346
[1] "tbl2"
                  cls
clus               [,1] [,2]
  NUDT11 MUTATED      0    5
  NUDT11 WILD-TYPE   38  346
                        clus
vv                       NUDT11 MUTATED NUDT11 WILD-TYPE
  HISPANIC OR LATINO                  0               38
  NOT HISPANIC OR LATINO              5              346
[1] 2 2
[1] FALSE

Clustering(5) Variable = RPTN MUTATION ANALYSIS
D5V1, survival
                sevent
clus2              0   1
  RPTN MUTATED    10   0
  RPTN WILD-TYPE 467  14
  RPTN MUTATED RPTN WILD-TYPE 
            10            481 
  RPTN MUTATED RPTN WILD-TYPE 
             0             14 
$`RPTN MUTATED`
TCGA-BJ-A290 TCGA-4C-A93U TCGA-BJ-A3PR TCGA-DJ-A3UT TCGA-E8-A438 TCGA-EL-A3GV 
       30.21         4.24        36.39        36.33        33.50        50.37 
TCGA-EL-A4KG TCGA-EM-A2OZ TCGA-EM-A3AP TCGA-FK-A3SH 
       24.30        33.96         8.35        48.10 

$`RPTN WILD-TYPE`
TCGA-BJ-A45K TCGA-CE-A13K TCGA-DE-A0XZ TCGA-DJ-A13L TCGA-DJ-A2PR TCGA-DJ-A3UU 
       23.18        12.66        35.84         9.96        27.45        23.44 
TCGA-DJ-A3UW TCGA-DJ-A3V4 TCGA-DJ-A3VI TCGA-DJ-A3VK TCGA-E3-A3E5 TCGA-EL-A3CR 
       59.57        42.54         3.12        24.76        39.95         7.66 
TCGA-EL-A3CS TCGA-EL-A3CY TCGA-EL-A3D0 TCGA-EL-A3D5 TCGA-EL-A3GQ TCGA-EL-A3H2 
       45.53         4.18       139.86        57.11        50.24        33.50 
TCGA-EL-A3H8 TCGA-EL-A3MY TCGA-EL-A3N3 TCGA-EM-A3AQ TCGA-ET-A3BO TCGA-ET-A3BV 
      150.48        17.52       178.29        29.72        50.40        75.42 
TCGA-FK-A3SD TCGA-FY-A76V TCGA-J8-A3NZ TCGA-J8-A4HW TCGA-L6-A4ET TCGA-MK-A84Z 
        1.05         1.68        17.23         2.60        21.83        23.93 
TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0Z3 TCGA-BJ-A0Z9 TCGA-BJ-A0ZA 
       24.79        13.78        49.78        16.34        41.33        18.87 
TCGA-BJ-A0ZB TCGA-BJ-A0ZC TCGA-BJ-A0ZE TCGA-BJ-A0ZG TCGA-BJ-A0ZH TCGA-BJ-A0ZJ 
        4.01        11.57        16.73        25.48        15.12        42.08 
TCGA-BJ-A18Y TCGA-BJ-A18Z TCGA-BJ-A191 TCGA-BJ-A192 TCGA-BJ-A28R TCGA-BJ-A28S 
       51.39        41.52         4.83        44.35        42.15        21.04 
TCGA-BJ-A28T TCGA-BJ-A28V TCGA-BJ-A28X TCGA-BJ-A28Z TCGA-BJ-A2N7 TCGA-BJ-A2N8 
       35.54        32.45        30.97        11.08        18.38        16.57 
TCGA-BJ-A2N9 TCGA-BJ-A2NA TCGA-BJ-A2P4 TCGA-BJ-A3EZ TCGA-BJ-A3F0 TCGA-BJ-A3PT 
       20.48        18.97        12.82        16.01        13.94        23.31 
TCGA-BJ-A3PU TCGA-BJ-A45D TCGA-BJ-A45E TCGA-BJ-A45F TCGA-BJ-A45G TCGA-BJ-A45H 
       18.64        10.88        21.01         3.45        23.84        28.44 
TCGA-BJ-A45I TCGA-BJ-A45J TCGA-BJ-A4O8 TCGA-BJ-A4O9 TCGA-CE-A27D TCGA-CE-A3MD 
       15.45        21.63        19.43        23.47        12.30        12.79 
TCGA-CE-A3ME TCGA-CE-A481 TCGA-CE-A482 TCGA-CE-A483 TCGA-CE-A484 TCGA-CE-A485 
       12.46        11.38        10.68        15.02        12.43        12.66 
TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DE-A2OL TCGA-DE-A3KN TCGA-DE-A4M8 TCGA-DE-A4M9 
       21.63        50.17        37.64        27.32        18.54        18.84 
TCGA-DE-A4MA TCGA-DE-A4MB TCGA-DE-A4MC TCGA-DE-A4MD TCGA-DE-A69J TCGA-DE-A69K 
       30.12        11.57        30.02        25.12        14.70        14.27 
TCGA-DE-A7U5 TCGA-DJ-A13M TCGA-DJ-A13O TCGA-DJ-A13P TCGA-DJ-A13R TCGA-DJ-A13S 
        2.76        48.79        38.17       169.32        18.58         8.71 
TCGA-DJ-A13T TCGA-DJ-A13U TCGA-DJ-A13V TCGA-DJ-A13W TCGA-DJ-A13X TCGA-DJ-A1QD 
       56.19        52.27        43.17        52.37         8.32        48.07 
TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QG TCGA-DJ-A1QH TCGA-DJ-A1QI TCGA-DJ-A1QL 
      135.91        30.61        44.98        42.51        14.96        17.59 
TCGA-DJ-A1QM TCGA-DJ-A1QN TCGA-DJ-A1QO TCGA-DJ-A1QQ TCGA-DJ-A2PN TCGA-DJ-A2PO 
        6.02        42.58        47.41        17.56        10.09         7.99 
TCGA-DJ-A2PP TCGA-DJ-A2PQ TCGA-DJ-A2PS TCGA-DJ-A2PT TCGA-DJ-A2PU TCGA-DJ-A2PV 
       30.58        35.41        26.20        38.83        33.96        31.99 
TCGA-DJ-A2PW TCGA-DJ-A2PX TCGA-DJ-A2PY TCGA-DJ-A2PZ TCGA-DJ-A2Q0 TCGA-DJ-A2Q1 
       34.85        28.96         8.78         8.42        34.36        37.74 
TCGA-DJ-A2Q2 TCGA-DJ-A2Q3 TCGA-DJ-A2Q4 TCGA-DJ-A2Q5 TCGA-DJ-A2Q6 TCGA-DJ-A2Q7 
       43.96        40.24        33.93        37.48        36.46        35.11 
TCGA-DJ-A2Q8 TCGA-DJ-A2Q9 TCGA-DJ-A2QA TCGA-DJ-A2QB TCGA-DJ-A2QC TCGA-DJ-A3UK 
       39.09        35.90        33.53        35.18        39.95        36.92 
TCGA-DJ-A3UM TCGA-DJ-A3UN TCGA-DJ-A3UO TCGA-DJ-A3UP TCGA-DJ-A3UQ TCGA-DJ-A3UR 
       31.04        32.42        31.46        16.41        19.56        36.33 
TCGA-DJ-A3US TCGA-DJ-A3UX TCGA-DJ-A3UY TCGA-DJ-A3UZ TCGA-DJ-A3V0 TCGA-DJ-A3V2 
       32.81        11.34        35.87        40.96        36.99        20.22 
TCGA-DJ-A3V3 TCGA-DJ-A3V5 TCGA-DJ-A3V7 TCGA-DJ-A3V8 TCGA-DJ-A3V9 TCGA-DJ-A3VA 
       30.61        19.20        23.21        21.27        20.48        24.82 
TCGA-DJ-A3VB TCGA-DJ-A3VD TCGA-DJ-A3VE TCGA-DJ-A3VF TCGA-DJ-A3VG TCGA-DJ-A3VJ 
       22.92        40.70        18.97         9.60        35.67        36.43 
TCGA-DJ-A3VL TCGA-DJ-A3VM TCGA-DJ-A4UL TCGA-DJ-A4UP TCGA-DJ-A4UQ TCGA-DJ-A4UR 
       23.44        27.62        30.87        30.12        33.04        34.78 
TCGA-DJ-A4UT TCGA-DJ-A4UW TCGA-DJ-A4V0 TCGA-DJ-A4V2 TCGA-DJ-A4V4 TCGA-DJ-A4V5 
       27.06        26.93        35.54         3.12        15.81        35.38 
TCGA-DO-A1JZ TCGA-DO-A1K0 TCGA-DO-A2HM TCGA-E3-A3DY TCGA-E3-A3DZ TCGA-E3-A3E0 
       54.90        21.53         2.33        92.55        47.21        66.38 
TCGA-E3-A3E1 TCGA-E3-A3E2 TCGA-E3-A3E3 TCGA-E8-A242 TCGA-E8-A2EA TCGA-E8-A2JQ 
       80.52        63.19        52.44        31.23        35.67        11.70 
TCGA-E8-A3X7 TCGA-E8-A413 TCGA-E8-A414 TCGA-E8-A415 TCGA-E8-A416 TCGA-E8-A417 
       31.27        29.98        31.50        31.04        31.30        30.84 
TCGA-E8-A419 TCGA-E8-A432 TCGA-E8-A433 TCGA-E8-A434 TCGA-E8-A436 TCGA-E8-A437 
       25.45        30.61        31.27        31.33        14.96        39.88 
TCGA-E8-A44K TCGA-E8-A44M TCGA-EL-A3CL TCGA-EL-A3CM TCGA-EL-A3CN TCGA-EL-A3CO 
       31.00        30.15        31.66        26.73       155.54        97.74 
TCGA-EL-A3CP TCGA-EL-A3CT TCGA-EL-A3CU TCGA-EL-A3CV TCGA-EL-A3CW TCGA-EL-A3CX 
      158.83        60.95       157.15        37.94        57.01       106.62 
TCGA-EL-A3CZ TCGA-EL-A3D1 TCGA-EL-A3D4 TCGA-EL-A3D6 TCGA-EL-A3GO TCGA-EL-A3GP 
       79.50        98.53        69.57       108.36        64.87        49.51 
TCGA-EL-A3GR TCGA-EL-A3GS TCGA-EL-A3GU TCGA-EL-A3GW TCGA-EL-A3GX TCGA-EL-A3GY 
      115.10        65.39       136.01        50.20       147.75       101.13 
TCGA-EL-A3GZ TCGA-EL-A3H1 TCGA-EL-A3H3 TCGA-EL-A3H4 TCGA-EL-A3H5 TCGA-EL-A3H7 
      139.99        49.32        43.36        49.71        83.57       139.00 
TCGA-EL-A3MW TCGA-EL-A3MX TCGA-EL-A3MZ TCGA-EL-A3N2 TCGA-EL-A3T0 TCGA-EL-A3T1 
      108.66        57.63        52.50        29.65       142.52       129.57 
TCGA-EL-A3T2 TCGA-EL-A3T3 TCGA-EL-A3T6 TCGA-EL-A3T7 TCGA-EL-A3T8 TCGA-EL-A3T9 
       32.48       132.07        98.24        41.29       107.47         5.72 
TCGA-EL-A3TA TCGA-EL-A3TB TCGA-EL-A3ZG TCGA-EL-A3ZH TCGA-EL-A3ZK TCGA-EL-A3ZL 
       66.90        82.82        89.56        91.17        51.78        62.30 
TCGA-EL-A3ZM TCGA-EL-A3ZN TCGA-EL-A3ZO TCGA-EL-A3ZP TCGA-EL-A3ZQ TCGA-EL-A3ZR 
       36.03        53.06        72.69        65.49        61.22        60.16 
TCGA-EL-A3ZS TCGA-EL-A3ZT TCGA-EL-A4JV TCGA-EL-A4JW TCGA-EL-A4JX TCGA-EL-A4JZ 
        7.07        59.44        57.47        34.72        45.96        61.02 
TCGA-EL-A4K0 TCGA-EL-A4K1 TCGA-EL-A4K2 TCGA-EL-A4K4 TCGA-EL-A4K6 TCGA-EL-A4K7 
       31.04        34.39        30.51        53.36        44.15        41.13 
TCGA-EL-A4K9 TCGA-EL-A4KD TCGA-EL-A4KH TCGA-EL-A4KI TCGA-EM-A1CS TCGA-EM-A1CT 
       47.84        43.59        27.06        23.90        26.86        18.18 
TCGA-EM-A1CU TCGA-EM-A1CV TCGA-EM-A1CW TCGA-EM-A1YA TCGA-EM-A1YB TCGA-EM-A1YC 
       20.91        48.49        18.05        19.79        19.46        78.61 
TCGA-EM-A1YD TCGA-EM-A1YE TCGA-EM-A22I TCGA-EM-A22J TCGA-EM-A22K TCGA-EM-A22L 
       57.01        54.08        14.73        14.50        15.75        10.45 
TCGA-EM-A22M TCGA-EM-A22N TCGA-EM-A22O TCGA-EM-A22P TCGA-EM-A22Q TCGA-EM-A2CJ 
       14.53        10.65        44.19        41.29        14.24        47.57 
TCGA-EM-A2CK TCGA-EM-A2CL TCGA-EM-A2CN TCGA-EM-A2CO TCGA-EM-A2CP TCGA-EM-A2CQ 
       17.88        13.18        23.51         6.05         2.99        12.30 
TCGA-EM-A2CR TCGA-EM-A2CS TCGA-EM-A2CT TCGA-EM-A2CU TCGA-EM-A2OV TCGA-EM-A2OW 
       13.64        27.65        48.46        13.15        22.16        40.34 
TCGA-EM-A2OX TCGA-EM-A2OY TCGA-EM-A2P0 TCGA-EM-A2P1 TCGA-EM-A2P2 TCGA-EM-A2P3 
       19.73        32.32        17.59        17.46        17.29        14.60 
TCGA-EM-A3AI TCGA-EM-A3AJ TCGA-EM-A3AK TCGA-EM-A3AL TCGA-EM-A3AN TCGA-EM-A3AO 
       22.52        30.94        15.68        14.14        33.07        44.52 
TCGA-EM-A3AR TCGA-EM-A3FJ TCGA-EM-A3FK TCGA-EM-A3FL TCGA-EM-A3FM TCGA-EM-A3FN 
       37.25        27.95        23.77        47.38        21.01        12.07 
TCGA-EM-A3FO TCGA-EM-A3FP TCGA-EM-A3FQ TCGA-EM-A3FR TCGA-EM-A3O3 TCGA-EM-A3O6 
       17.49        17.39        16.18        15.02        14.50        15.06 
TCGA-EM-A3O7 TCGA-EM-A3O8 TCGA-EM-A3O9 TCGA-EM-A3OA TCGA-EM-A3OB TCGA-EM-A3ST 
        7.33        12.53         9.24        27.02        38.66        38.86 
TCGA-EM-A3SU TCGA-EM-A3SX TCGA-EM-A3SY TCGA-EM-A3SZ TCGA-EM-A4FF TCGA-EM-A4FH 
       29.95        29.85        13.51        12.79        84.59        29.33 
TCGA-EM-A4FK TCGA-EM-A4FM TCGA-EM-A4FN TCGA-EM-A4FO TCGA-EM-A4FQ TCGA-EM-A4FR 
       21.34         5.33        26.37        26.37        22.45        21.53 
TCGA-EM-A4FU TCGA-EM-A4FV TCGA-EM-A4G1 TCGA-ET-A25G TCGA-ET-A25I TCGA-ET-A25J 
       60.49        24.46        13.68        81.93        81.70        77.56 
TCGA-ET-A25K TCGA-ET-A25O TCGA-ET-A25R TCGA-ET-A2MX TCGA-ET-A2MY TCGA-ET-A2MZ 
       70.42        65.29        63.45        88.41        58.75        37.25 
TCGA-ET-A2N0 TCGA-ET-A2N1 TCGA-ET-A2N3 TCGA-ET-A2N4 TCGA-ET-A2N5 TCGA-ET-A39I 
       52.60        54.35        83.34         2.66        80.88        33.24 
TCGA-ET-A39J TCGA-ET-A39K TCGA-ET-A39L TCGA-ET-A39M TCGA-ET-A39N TCGA-ET-A39O 
      106.09       107.41       108.46        84.89       123.32       100.57 
TCGA-ET-A39P TCGA-ET-A39R TCGA-ET-A39S TCGA-ET-A39T TCGA-ET-A3BN TCGA-ET-A3BP 
       95.34        94.13        55.10        98.20        28.24        79.10 
TCGA-ET-A3BQ TCGA-ET-A3BS TCGA-ET-A3BT TCGA-ET-A3BU TCGA-ET-A3BW TCGA-ET-A3BX 
       76.64         5.79        87.62        77.82        46.65        52.47 
TCGA-ET-A3DO TCGA-ET-A3DP TCGA-ET-A3DQ TCGA-ET-A3DR TCGA-ET-A3DS TCGA-ET-A3DT 
      116.78        94.59        84.85        80.58        66.84        43.73 
TCGA-ET-A3DU TCGA-ET-A3DV TCGA-ET-A3DW TCGA-ET-A40P TCGA-ET-A40Q TCGA-ET-A40R 
       62.83       166.62        24.72        43.99        46.26        44.38 
TCGA-ET-A40S TCGA-ET-A40T TCGA-ET-A4KN TCGA-ET-A4KQ TCGA-FE-A22Z TCGA-FE-A230 
       40.21        37.48        33.17        31.40        73.74        71.44 
TCGA-FE-A231 TCGA-FE-A232 TCGA-FE-A233 TCGA-FE-A234 TCGA-FE-A235 TCGA-FE-A236 
       31.59        79.69        24.69        68.22       117.40        66.77 
TCGA-FE-A237 TCGA-FE-A23A TCGA-FE-A3PA TCGA-FE-A3PB TCGA-FE-A3PC TCGA-FE-A3PD 
      112.80        81.83       106.36        85.15        85.68        78.77 
TCGA-FK-A3S3 TCGA-FK-A3SB TCGA-FK-A3SE TCGA-FK-A3SG TCGA-FK-A4UB TCGA-FY-A2QD 
       71.08         4.11        22.03         0.92       116.09         1.25 
TCGA-FY-A3BL TCGA-FY-A3I4 TCGA-FY-A3I5 TCGA-FY-A3NM TCGA-FY-A3NP TCGA-FY-A3ON 
       20.42        17.82         7.82        29.10        16.14        19.56 
TCGA-FY-A3R6 TCGA-FY-A3R7 TCGA-FY-A3R8 TCGA-FY-A3R9 TCGA-FY-A3RA TCGA-FY-A3TY 
       13.91        16.27        15.68        16.57        18.08        23.31 
TCGA-FY-A3W9 TCGA-FY-A3WA TCGA-FY-A3YR TCGA-FY-A40K TCGA-FY-A40L TCGA-FY-A40M 
       21.63        17.06        17.36        15.16        23.87        22.49 
TCGA-FY-A40N TCGA-FY-A4B0 TCGA-FY-A4B3 TCGA-FY-A4B4 TCGA-GE-A2C6 TCGA-H2-A26U 
       19.04        13.81        14.04        21.60        12.53        17.00 
TCGA-H2-A2K9 TCGA-H2-A3RH TCGA-H2-A3RI TCGA-H2-A421 TCGA-H2-A422 TCGA-IM-A3EB 
       21.67        12.46        11.01        20.05        18.61        48.92 
TCGA-IM-A3ED TCGA-IM-A3U2 TCGA-IM-A3U3 TCGA-IM-A41Y TCGA-IM-A41Z TCGA-IM-A420 
       47.41        18.51        16.90        21.83        31.10         8.22 
TCGA-IM-A4EB TCGA-J8-A3O0 TCGA-J8-A3O1 TCGA-J8-A3O2 TCGA-J8-A3YD TCGA-J8-A3YE 
       25.64        43.17        27.19        11.24        31.82        27.85 
TCGA-J8-A3YF TCGA-J8-A3YG TCGA-J8-A3YH TCGA-J8-A42S TCGA-J8-A4HY TCGA-KS-A41F 
       24.69        22.29         5.75         2.47         0.20       143.57 
TCGA-KS-A41I TCGA-KS-A41J TCGA-KS-A41L TCGA-KS-A4I1 TCGA-KS-A4I3 TCGA-KS-A4I5 
       15.98        15.68       113.85        26.70        43.69        18.64 
TCGA-KS-A4I7 TCGA-KS-A4I9 TCGA-KS-A4IB TCGA-KS-A4IC TCGA-KS-A4ID TCGA-L6-A4EP 
       32.45        87.39        84.72        35.28        33.24        33.40 
TCGA-L6-A4EQ TCGA-L6-A4EU TCGA-MK-A4N6 TCGA-MK-A4N7 TCGA-MK-A4N9 TCGA-QD-A8IV 
       40.37         9.50        36.10        32.45        30.21        12.89 
TCGA-E8-A418 
        3.02 

  RPTN MUTATED RPTN WILD-TYPE 
          4.24           0.20 
  RPTN MUTATED RPTN WILD-TYPE 
         50.37         178.29 
  RPTN MUTATED RPTN WILD-TYPE 
         33.73          31.04 
[1] "4.2 - 50.4 (33.7)"  "0.2 - 178.3 (31.0)"
[1] "hr="     "9200000"
D5V2, continuous
                vv
clus             STAGE I STAGE II STAGE III STAGE IV STAGE IVA STAGE IVC
  RPTN MUTATED         6        0         3        0         1         0
  RPTN WILD-TYPE     272       50       105        2        45         6
D5V3, multiclass
           clus
vv          RPTN MUTATED RPTN WILD-TYPE
  STAGE I              6            272
  STAGE II             0             50
  STAGE III            3            105
  STAGE IV             0              2
  STAGE IVA            1             45
  STAGE IVC            0              6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus              T1  T2  T3  T4
  RPTN MUTATED     4   2   3   1
  RPTN WILD-TYPE 137 160 161  22
D5V4, multiclass
    clus
vv   RPTN MUTATED RPTN WILD-TYPE
  T1            4            137
  T2            2            160
  T3            3            161
  T4            1             22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D5V5, binary
                cls
clus               0   1
  RPTN MUTATED     6   3
  RPTN WILD-TYPE 214 219
[1] "tbl2"
                cls
clus             [,1] [,2]
  RPTN MUTATED      6    3
  RPTN WILD-TYPE  214  219
   clus
vv  RPTN MUTATED RPTN WILD-TYPE
  0            6            214
  1            3            219
[1] 2 2
[1] FALSE
D5V6, binary
                cls
clus               0   1
  RPTN MUTATED     7   0
  RPTN WILD-TYPE 269   9
[1] "tbl2"
                cls
clus             [,1] [,2]
  RPTN MUTATED      7    0
  RPTN WILD-TYPE  269    9
   clus
vv  RPTN MUTATED RPTN WILD-TYPE
  0            7            269
  1            0              9
[1] 2 2
[1] FALSE
D5V7, binary
                cls
clus               0   1
  RPTN MUTATED     8   2
  RPTN WILD-TYPE 354 128
[1] "tbl2"
                cls
clus             [,1] [,2]
  RPTN MUTATED      8    2
  RPTN WILD-TYPE  354  128
        clus
vv       RPTN MUTATED RPTN WILD-TYPE
  FEMALE            8            354
  MALE              2            128
[1] 2 2
[1] FALSE
D5V8, binary
                cls
clus               0   1
  RPTN MUTATED     8   2
  RPTN WILD-TYPE 171 296
[1] "tbl2"
                cls
clus             [,1] [,2]
  RPTN MUTATED      8    2
  RPTN WILD-TYPE  171  296
     clus
vv    RPTN MUTATED RPTN WILD-TYPE
  NO             8            171
  YES            2            296
[1] 2 2
[1] FALSE
                vv
clus             OTHER, SPECIFY THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  RPTN MUTATED                0                                             7
  RPTN WILD-TYPE              7                                           341
                vv
clus             THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  RPTN MUTATED                                                                        2
  RPTN WILD-TYPE                                                                    100
                vv
clus             THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  RPTN MUTATED                                                                     1
  RPTN WILD-TYPE                                                                  34
D5V9, multiclass
                                                                        clus
vv                                                                       RPTN MUTATED
  OTHER, SPECIFY                                                                    0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                     7
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)            2
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)               1
                                                                        clus
vv                                                                       RPTN WILD-TYPE
  OTHER, SPECIFY                                                                      7
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                     341
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)            100
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                34
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D5V10, binary
                cls
clus               0   1
  RPTN MUTATED     8   1
  RPTN WILD-TYPE 407  16
[1] "tbl2"
                cls
clus             [,1] [,2]
  RPTN MUTATED      8    1
  RPTN WILD-TYPE  407   16
     clus
vv    RPTN MUTATED RPTN WILD-TYPE
  NO             8            407
  YES            1             16
[1] 2 2
[1] FALSE
                vv
clus             MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE VERY ADVANCED (T4B)
  RPTN MUTATED              3                       1    6                   0
  RPTN WILD-TYPE          127                      17  322                   1
D5V11, multiclass
                         clus
vv                        RPTN MUTATED RPTN WILD-TYPE
  MINIMAL (T3)                       3            127
  MODERATE/ADVANCED (T4A)            1             17
  NONE                               6            322
  VERY ADVANCED (T4B)                0              1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus              R0  R1  R2  RX
  RPTN MUTATED     9   0   0   0
  RPTN WILD-TYPE 370  51   4  30
D5V12, multiclass
    clus
vv   RPTN MUTATED RPTN WILD-TYPE
  R0            9            370
  R1            0             51
  R2            0              4
  RX            0             30
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D5V13, continuous
D5V14, binary
                cls
clus               0   1
  RPTN MUTATED     3   7
  RPTN WILD-TYPE 218 255
[1] "tbl2"
                cls
clus             [,1] [,2]
  RPTN MUTATED      3    7
  RPTN WILD-TYPE  218  255
            clus
vv           RPTN MUTATED RPTN WILD-TYPE
  MULTIFOCAL            3            218
  UNIFOCAL              7            255
[1] 2 2
[1] FALSE
D5V15, continuous
                vv
clus             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  RPTN MUTATED                                  0     0
  RPTN WILD-TYPE                                1    51
                vv
clus             BLACK OR AFRICAN AMERICAN WHITE
  RPTN MUTATED                           1     7
  RPTN WILD-TYPE                        25   315
D5V16, multiclass
                                  clus
vv                                 RPTN MUTATED RPTN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE            0              1
  ASIAN                                       0             51
  BLACK OR AFRICAN AMERICAN                   1             25
  WHITE                                       7            315
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D5V17, binary
                cls
clus               0   1
  RPTN MUTATED     1   7
  RPTN WILD-TYPE  37 344
[1] "tbl2"
                cls
clus             [,1] [,2]
  RPTN MUTATED      1    7
  RPTN WILD-TYPE   37  344
                        clus
vv                       RPTN MUTATED RPTN WILD-TYPE
  HISPANIC OR LATINO                1             37
  NOT HISPANIC OR LATINO            7            344
[1] 2 2
[1] FALSE

Clustering(6) Variable = EMG1 MUTATION ANALYSIS
D6V1, survival
                sevent
clus2              0   1
  EMG1 MUTATED    11   0
  EMG1 WILD-TYPE 466  14
  EMG1 MUTATED EMG1 WILD-TYPE 
            11            480 
  EMG1 MUTATED EMG1 WILD-TYPE 
             0             14 
$`EMG1 MUTATED`
TCGA-BJ-A0Z9 TCGA-BJ-A2NA TCGA-BJ-A45F TCGA-DJ-A2Q8 TCGA-E8-A3X7 TCGA-EL-A3N2 
       41.33        18.97         3.45        39.09        31.27        29.65 
TCGA-EM-A22N TCGA-EM-A3SU TCGA-ET-A39J TCGA-FY-A3W9 TCGA-IM-A3EB 
       10.65        29.95       106.09        21.63        48.92 

$`EMG1 WILD-TYPE`
TCGA-BJ-A290 TCGA-BJ-A45K TCGA-CE-A13K TCGA-DE-A0XZ TCGA-DJ-A13L TCGA-DJ-A2PR 
       30.21        23.18        12.66        35.84         9.96        27.45 
TCGA-DJ-A3UU TCGA-DJ-A3UW TCGA-DJ-A3V4 TCGA-DJ-A3VI TCGA-DJ-A3VK TCGA-E3-A3E5 
       23.44        59.57        42.54         3.12        24.76        39.95 
TCGA-EL-A3CR TCGA-EL-A3CS TCGA-EL-A3CY TCGA-EL-A3D0 TCGA-EL-A3D5 TCGA-EL-A3GQ 
        7.66        45.53         4.18       139.86        57.11        50.24 
TCGA-EL-A3H2 TCGA-EL-A3H8 TCGA-EL-A3MY TCGA-EL-A3N3 TCGA-EM-A3AQ TCGA-ET-A3BO 
       33.50       150.48        17.52       178.29        29.72        50.40 
TCGA-ET-A3BV TCGA-FK-A3SD TCGA-FY-A76V TCGA-J8-A3NZ TCGA-J8-A4HW TCGA-L6-A4ET 
       75.42         1.05         1.68        17.23         2.60        21.83 
TCGA-MK-A84Z TCGA-4C-A93U TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0Z3 
       23.93         4.24        24.79        13.78        49.78        16.34 
TCGA-BJ-A0ZA TCGA-BJ-A0ZB TCGA-BJ-A0ZC TCGA-BJ-A0ZE TCGA-BJ-A0ZG TCGA-BJ-A0ZH 
       18.87         4.01        11.57        16.73        25.48        15.12 
TCGA-BJ-A0ZJ TCGA-BJ-A18Y TCGA-BJ-A18Z TCGA-BJ-A191 TCGA-BJ-A192 TCGA-BJ-A28R 
       42.08        51.39        41.52         4.83        44.35        42.15 
TCGA-BJ-A28S TCGA-BJ-A28T TCGA-BJ-A28V TCGA-BJ-A28X TCGA-BJ-A28Z TCGA-BJ-A2N7 
       21.04        35.54        32.45        30.97        11.08        18.38 
TCGA-BJ-A2N8 TCGA-BJ-A2N9 TCGA-BJ-A2P4 TCGA-BJ-A3EZ TCGA-BJ-A3F0 TCGA-BJ-A3PR 
       16.57        20.48        12.82        16.01        13.94        36.39 
TCGA-BJ-A3PT TCGA-BJ-A3PU TCGA-BJ-A45D TCGA-BJ-A45E TCGA-BJ-A45G TCGA-BJ-A45H 
       23.31        18.64        10.88        21.01        23.84        28.44 
TCGA-BJ-A45I TCGA-BJ-A45J TCGA-BJ-A4O8 TCGA-BJ-A4O9 TCGA-CE-A27D TCGA-CE-A3MD 
       15.45        21.63        19.43        23.47        12.30        12.79 
TCGA-CE-A3ME TCGA-CE-A481 TCGA-CE-A482 TCGA-CE-A483 TCGA-CE-A484 TCGA-CE-A485 
       12.46        11.38        10.68        15.02        12.43        12.66 
TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DE-A2OL TCGA-DE-A3KN TCGA-DE-A4M8 TCGA-DE-A4M9 
       21.63        50.17        37.64        27.32        18.54        18.84 
TCGA-DE-A4MA TCGA-DE-A4MB TCGA-DE-A4MC TCGA-DE-A4MD TCGA-DE-A69J TCGA-DE-A69K 
       30.12        11.57        30.02        25.12        14.70        14.27 
TCGA-DE-A7U5 TCGA-DJ-A13M TCGA-DJ-A13O TCGA-DJ-A13P TCGA-DJ-A13R TCGA-DJ-A13S 
        2.76        48.79        38.17       169.32        18.58         8.71 
TCGA-DJ-A13T TCGA-DJ-A13U TCGA-DJ-A13V TCGA-DJ-A13W TCGA-DJ-A13X TCGA-DJ-A1QD 
       56.19        52.27        43.17        52.37         8.32        48.07 
TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QG TCGA-DJ-A1QH TCGA-DJ-A1QI TCGA-DJ-A1QL 
      135.91        30.61        44.98        42.51        14.96        17.59 
TCGA-DJ-A1QM TCGA-DJ-A1QN TCGA-DJ-A1QO TCGA-DJ-A1QQ TCGA-DJ-A2PN TCGA-DJ-A2PO 
        6.02        42.58        47.41        17.56        10.09         7.99 
TCGA-DJ-A2PP TCGA-DJ-A2PQ TCGA-DJ-A2PS TCGA-DJ-A2PT TCGA-DJ-A2PU TCGA-DJ-A2PV 
       30.58        35.41        26.20        38.83        33.96        31.99 
TCGA-DJ-A2PW TCGA-DJ-A2PX TCGA-DJ-A2PY TCGA-DJ-A2PZ TCGA-DJ-A2Q0 TCGA-DJ-A2Q1 
       34.85        28.96         8.78         8.42        34.36        37.74 
TCGA-DJ-A2Q2 TCGA-DJ-A2Q3 TCGA-DJ-A2Q4 TCGA-DJ-A2Q5 TCGA-DJ-A2Q6 TCGA-DJ-A2Q7 
       43.96        40.24        33.93        37.48        36.46        35.11 
TCGA-DJ-A2Q9 TCGA-DJ-A2QA TCGA-DJ-A2QB TCGA-DJ-A2QC TCGA-DJ-A3UK TCGA-DJ-A3UM 
       35.90        33.53        35.18        39.95        36.92        31.04 
TCGA-DJ-A3UN TCGA-DJ-A3UO TCGA-DJ-A3UP TCGA-DJ-A3UQ TCGA-DJ-A3UR TCGA-DJ-A3US 
       32.42        31.46        16.41        19.56        36.33        32.81 
TCGA-DJ-A3UT TCGA-DJ-A3UX TCGA-DJ-A3UY TCGA-DJ-A3UZ TCGA-DJ-A3V0 TCGA-DJ-A3V2 
       36.33        11.34        35.87        40.96        36.99        20.22 
TCGA-DJ-A3V3 TCGA-DJ-A3V5 TCGA-DJ-A3V7 TCGA-DJ-A3V8 TCGA-DJ-A3V9 TCGA-DJ-A3VA 
       30.61        19.20        23.21        21.27        20.48        24.82 
TCGA-DJ-A3VB TCGA-DJ-A3VD TCGA-DJ-A3VE TCGA-DJ-A3VF TCGA-DJ-A3VG TCGA-DJ-A3VJ 
       22.92        40.70        18.97         9.60        35.67        36.43 
TCGA-DJ-A3VL TCGA-DJ-A3VM TCGA-DJ-A4UL TCGA-DJ-A4UP TCGA-DJ-A4UQ TCGA-DJ-A4UR 
       23.44        27.62        30.87        30.12        33.04        34.78 
TCGA-DJ-A4UT TCGA-DJ-A4UW TCGA-DJ-A4V0 TCGA-DJ-A4V2 TCGA-DJ-A4V4 TCGA-DJ-A4V5 
       27.06        26.93        35.54         3.12        15.81        35.38 
TCGA-DO-A1JZ TCGA-DO-A1K0 TCGA-DO-A2HM TCGA-E3-A3DY TCGA-E3-A3DZ TCGA-E3-A3E0 
       54.90        21.53         2.33        92.55        47.21        66.38 
TCGA-E3-A3E1 TCGA-E3-A3E2 TCGA-E3-A3E3 TCGA-E8-A242 TCGA-E8-A2EA TCGA-E8-A2JQ 
       80.52        63.19        52.44        31.23        35.67        11.70 
TCGA-E8-A413 TCGA-E8-A414 TCGA-E8-A415 TCGA-E8-A416 TCGA-E8-A417 TCGA-E8-A419 
       29.98        31.50        31.04        31.30        30.84        25.45 
TCGA-E8-A432 TCGA-E8-A433 TCGA-E8-A434 TCGA-E8-A436 TCGA-E8-A437 TCGA-E8-A438 
       30.61        31.27        31.33        14.96        39.88        33.50 
TCGA-E8-A44K TCGA-E8-A44M TCGA-EL-A3CL TCGA-EL-A3CM TCGA-EL-A3CN TCGA-EL-A3CO 
       31.00        30.15        31.66        26.73       155.54        97.74 
TCGA-EL-A3CP TCGA-EL-A3CT TCGA-EL-A3CU TCGA-EL-A3CV TCGA-EL-A3CW TCGA-EL-A3CX 
      158.83        60.95       157.15        37.94        57.01       106.62 
TCGA-EL-A3CZ TCGA-EL-A3D1 TCGA-EL-A3D4 TCGA-EL-A3D6 TCGA-EL-A3GO TCGA-EL-A3GP 
       79.50        98.53        69.57       108.36        64.87        49.51 
TCGA-EL-A3GR TCGA-EL-A3GS TCGA-EL-A3GU TCGA-EL-A3GV TCGA-EL-A3GW TCGA-EL-A3GX 
      115.10        65.39       136.01        50.37        50.20       147.75 
TCGA-EL-A3GY TCGA-EL-A3GZ TCGA-EL-A3H1 TCGA-EL-A3H3 TCGA-EL-A3H4 TCGA-EL-A3H5 
      101.13       139.99        49.32        43.36        49.71        83.57 
TCGA-EL-A3H7 TCGA-EL-A3MW TCGA-EL-A3MX TCGA-EL-A3MZ TCGA-EL-A3T0 TCGA-EL-A3T1 
      139.00       108.66        57.63        52.50       142.52       129.57 
TCGA-EL-A3T2 TCGA-EL-A3T3 TCGA-EL-A3T6 TCGA-EL-A3T7 TCGA-EL-A3T8 TCGA-EL-A3T9 
       32.48       132.07        98.24        41.29       107.47         5.72 
TCGA-EL-A3TA TCGA-EL-A3TB TCGA-EL-A3ZG TCGA-EL-A3ZH TCGA-EL-A3ZK TCGA-EL-A3ZL 
       66.90        82.82        89.56        91.17        51.78        62.30 
TCGA-EL-A3ZM TCGA-EL-A3ZN TCGA-EL-A3ZO TCGA-EL-A3ZP TCGA-EL-A3ZQ TCGA-EL-A3ZR 
       36.03        53.06        72.69        65.49        61.22        60.16 
TCGA-EL-A3ZS TCGA-EL-A3ZT TCGA-EL-A4JV TCGA-EL-A4JW TCGA-EL-A4JX TCGA-EL-A4JZ 
        7.07        59.44        57.47        34.72        45.96        61.02 
TCGA-EL-A4K0 TCGA-EL-A4K1 TCGA-EL-A4K2 TCGA-EL-A4K4 TCGA-EL-A4K6 TCGA-EL-A4K7 
       31.04        34.39        30.51        53.36        44.15        41.13 
TCGA-EL-A4K9 TCGA-EL-A4KD TCGA-EL-A4KG TCGA-EL-A4KH TCGA-EL-A4KI TCGA-EM-A1CS 
       47.84        43.59        24.30        27.06        23.90        26.86 
TCGA-EM-A1CT TCGA-EM-A1CU TCGA-EM-A1CV TCGA-EM-A1CW TCGA-EM-A1YA TCGA-EM-A1YB 
       18.18        20.91        48.49        18.05        19.79        19.46 
TCGA-EM-A1YC TCGA-EM-A1YD TCGA-EM-A1YE TCGA-EM-A22I TCGA-EM-A22J TCGA-EM-A22K 
       78.61        57.01        54.08        14.73        14.50        15.75 
TCGA-EM-A22L TCGA-EM-A22M TCGA-EM-A22O TCGA-EM-A22P TCGA-EM-A22Q TCGA-EM-A2CJ 
       10.45        14.53        44.19        41.29        14.24        47.57 
TCGA-EM-A2CK TCGA-EM-A2CL TCGA-EM-A2CN TCGA-EM-A2CO TCGA-EM-A2CP TCGA-EM-A2CQ 
       17.88        13.18        23.51         6.05         2.99        12.30 
TCGA-EM-A2CR TCGA-EM-A2CS TCGA-EM-A2CT TCGA-EM-A2CU TCGA-EM-A2OV TCGA-EM-A2OW 
       13.64        27.65        48.46        13.15        22.16        40.34 
TCGA-EM-A2OX TCGA-EM-A2OY TCGA-EM-A2OZ TCGA-EM-A2P0 TCGA-EM-A2P1 TCGA-EM-A2P2 
       19.73        32.32        33.96        17.59        17.46        17.29 
TCGA-EM-A2P3 TCGA-EM-A3AI TCGA-EM-A3AJ TCGA-EM-A3AK TCGA-EM-A3AL TCGA-EM-A3AN 
       14.60        22.52        30.94        15.68        14.14        33.07 
TCGA-EM-A3AO TCGA-EM-A3AP TCGA-EM-A3AR TCGA-EM-A3FJ TCGA-EM-A3FK TCGA-EM-A3FL 
       44.52         8.35        37.25        27.95        23.77        47.38 
TCGA-EM-A3FM TCGA-EM-A3FN TCGA-EM-A3FO TCGA-EM-A3FP TCGA-EM-A3FQ TCGA-EM-A3FR 
       21.01        12.07        17.49        17.39        16.18        15.02 
TCGA-EM-A3O3 TCGA-EM-A3O6 TCGA-EM-A3O7 TCGA-EM-A3O8 TCGA-EM-A3O9 TCGA-EM-A3OA 
       14.50        15.06         7.33        12.53         9.24        27.02 
TCGA-EM-A3OB TCGA-EM-A3ST TCGA-EM-A3SX TCGA-EM-A3SY TCGA-EM-A3SZ TCGA-EM-A4FF 
       38.66        38.86        29.85        13.51        12.79        84.59 
TCGA-EM-A4FH TCGA-EM-A4FK TCGA-EM-A4FM TCGA-EM-A4FN TCGA-EM-A4FO TCGA-EM-A4FQ 
       29.33        21.34         5.33        26.37        26.37        22.45 
TCGA-EM-A4FR TCGA-EM-A4FU TCGA-EM-A4FV TCGA-EM-A4G1 TCGA-ET-A25G TCGA-ET-A25I 
       21.53        60.49        24.46        13.68        81.93        81.70 
TCGA-ET-A25J TCGA-ET-A25K TCGA-ET-A25O TCGA-ET-A25R TCGA-ET-A2MX TCGA-ET-A2MY 
       77.56        70.42        65.29        63.45        88.41        58.75 
TCGA-ET-A2MZ TCGA-ET-A2N0 TCGA-ET-A2N1 TCGA-ET-A2N3 TCGA-ET-A2N4 TCGA-ET-A2N5 
       37.25        52.60        54.35        83.34         2.66        80.88 
TCGA-ET-A39I TCGA-ET-A39K TCGA-ET-A39L TCGA-ET-A39M TCGA-ET-A39N TCGA-ET-A39O 
       33.24       107.41       108.46        84.89       123.32       100.57 
TCGA-ET-A39P TCGA-ET-A39R TCGA-ET-A39S TCGA-ET-A39T TCGA-ET-A3BN TCGA-ET-A3BP 
       95.34        94.13        55.10        98.20        28.24        79.10 
TCGA-ET-A3BQ TCGA-ET-A3BS TCGA-ET-A3BT TCGA-ET-A3BU TCGA-ET-A3BW TCGA-ET-A3BX 
       76.64         5.79        87.62        77.82        46.65        52.47 
TCGA-ET-A3DO TCGA-ET-A3DP TCGA-ET-A3DQ TCGA-ET-A3DR TCGA-ET-A3DS TCGA-ET-A3DT 
      116.78        94.59        84.85        80.58        66.84        43.73 
TCGA-ET-A3DU TCGA-ET-A3DV TCGA-ET-A3DW TCGA-ET-A40P TCGA-ET-A40Q TCGA-ET-A40R 
       62.83       166.62        24.72        43.99        46.26        44.38 
TCGA-ET-A40S TCGA-ET-A40T TCGA-ET-A4KN TCGA-ET-A4KQ TCGA-FE-A22Z TCGA-FE-A230 
       40.21        37.48        33.17        31.40        73.74        71.44 
TCGA-FE-A231 TCGA-FE-A232 TCGA-FE-A233 TCGA-FE-A234 TCGA-FE-A235 TCGA-FE-A236 
       31.59        79.69        24.69        68.22       117.40        66.77 
TCGA-FE-A237 TCGA-FE-A23A TCGA-FE-A3PA TCGA-FE-A3PB TCGA-FE-A3PC TCGA-FE-A3PD 
      112.80        81.83       106.36        85.15        85.68        78.77 
TCGA-FK-A3S3 TCGA-FK-A3SB TCGA-FK-A3SE TCGA-FK-A3SG TCGA-FK-A3SH TCGA-FK-A4UB 
       71.08         4.11        22.03         0.92        48.10       116.09 
TCGA-FY-A2QD TCGA-FY-A3BL TCGA-FY-A3I4 TCGA-FY-A3I5 TCGA-FY-A3NM TCGA-FY-A3NP 
        1.25        20.42        17.82         7.82        29.10        16.14 
TCGA-FY-A3ON TCGA-FY-A3R6 TCGA-FY-A3R7 TCGA-FY-A3R8 TCGA-FY-A3R9 TCGA-FY-A3RA 
       19.56        13.91        16.27        15.68        16.57        18.08 
TCGA-FY-A3TY TCGA-FY-A3WA TCGA-FY-A3YR TCGA-FY-A40K TCGA-FY-A40L TCGA-FY-A40M 
       23.31        17.06        17.36        15.16        23.87        22.49 
TCGA-FY-A40N TCGA-FY-A4B0 TCGA-FY-A4B3 TCGA-FY-A4B4 TCGA-GE-A2C6 TCGA-H2-A26U 
       19.04        13.81        14.04        21.60        12.53        17.00 
TCGA-H2-A2K9 TCGA-H2-A3RH TCGA-H2-A3RI TCGA-H2-A421 TCGA-H2-A422 TCGA-IM-A3ED 
       21.67        12.46        11.01        20.05        18.61        47.41 
TCGA-IM-A3U2 TCGA-IM-A3U3 TCGA-IM-A41Y TCGA-IM-A41Z TCGA-IM-A420 TCGA-IM-A4EB 
       18.51        16.90        21.83        31.10         8.22        25.64 
TCGA-J8-A3O0 TCGA-J8-A3O1 TCGA-J8-A3O2 TCGA-J8-A3YD TCGA-J8-A3YE TCGA-J8-A3YF 
       43.17        27.19        11.24        31.82        27.85        24.69 
TCGA-J8-A3YG TCGA-J8-A3YH TCGA-J8-A42S TCGA-J8-A4HY TCGA-KS-A41F TCGA-KS-A41I 
       22.29         5.75         2.47         0.20       143.57        15.98 
TCGA-KS-A41J TCGA-KS-A41L TCGA-KS-A4I1 TCGA-KS-A4I3 TCGA-KS-A4I5 TCGA-KS-A4I7 
       15.68       113.85        26.70        43.69        18.64        32.45 
TCGA-KS-A4I9 TCGA-KS-A4IB TCGA-KS-A4IC TCGA-KS-A4ID TCGA-L6-A4EP TCGA-L6-A4EQ 
       87.39        84.72        35.28        33.24        33.40        40.37 
TCGA-L6-A4EU TCGA-MK-A4N6 TCGA-MK-A4N7 TCGA-MK-A4N9 TCGA-QD-A8IV TCGA-E8-A418 
        9.50        36.10        32.45        30.21        12.89         3.02 

  EMG1 MUTATED EMG1 WILD-TYPE 
          3.45           0.20 
  EMG1 MUTATED EMG1 WILD-TYPE 
        106.09         178.29 
  EMG1 MUTATED EMG1 WILD-TYPE 
        29.950         31.165 
[1] "3.5 - 106.1 (29.9)" "0.2 - 178.3 (31.2)"
[1] "hr="     "9200000"
D6V2, continuous
                vv
clus             STAGE I STAGE II STAGE III STAGE IV STAGE IVA STAGE IVC
  EMG1 MUTATED         7        1         2        0         1         0
  EMG1 WILD-TYPE     271       49       106        2        45         6
D6V3, multiclass
           clus
vv          EMG1 MUTATED EMG1 WILD-TYPE
  STAGE I              7            271
  STAGE II             1             49
  STAGE III            2            106
  STAGE IV             0              2
  STAGE IVA            1             45
  STAGE IVC            0              6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus              T1  T2  T3  T4
  EMG1 MUTATED     3   4   3   1
  EMG1 WILD-TYPE 138 158 161  22
D6V4, multiclass
    clus
vv   EMG1 MUTATED EMG1 WILD-TYPE
  T1            3            138
  T2            4            158
  T3            3            161
  T4            1             22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D6V5, binary
                cls
clus               0   1
  EMG1 MUTATED     7   3
  EMG1 WILD-TYPE 213 219
[1] "tbl2"
                cls
clus             [,1] [,2]
  EMG1 MUTATED      7    3
  EMG1 WILD-TYPE  213  219
   clus
vv  EMG1 MUTATED EMG1 WILD-TYPE
  0            7            213
  1            3            219
[1] 2 2
[1] FALSE
D6V6, binary
                cls
clus               0   1
  EMG1 MUTATED     5   0
  EMG1 WILD-TYPE 271   9
[1] "tbl2"
                cls
clus             [,1] [,2]
  EMG1 MUTATED      5    0
  EMG1 WILD-TYPE  271    9
   clus
vv  EMG1 MUTATED EMG1 WILD-TYPE
  0            5            271
  1            0              9
[1] 2 2
[1] FALSE
D6V7, binary
                cls
clus               0   1
  EMG1 MUTATED    10   1
  EMG1 WILD-TYPE 352 129
[1] "tbl2"
                cls
clus             [,1] [,2]
  EMG1 MUTATED     10    1
  EMG1 WILD-TYPE  352  129
        clus
vv       EMG1 MUTATED EMG1 WILD-TYPE
  FEMALE           10            352
  MALE              1            129
[1] 2 2
[1] FALSE
D6V8, binary
                cls
clus               0   1
  EMG1 MUTATED     2   9
  EMG1 WILD-TYPE 177 289
[1] "tbl2"
                cls
clus             [,1] [,2]
  EMG1 MUTATED      2    9
  EMG1 WILD-TYPE  177  289
     clus
vv    EMG1 MUTATED EMG1 WILD-TYPE
  NO             2            177
  YES            9            289
[1] 2 2
[1] FALSE
                vv
clus             OTHER, SPECIFY THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  EMG1 MUTATED                0                                             7
  EMG1 WILD-TYPE              7                                           341
                vv
clus             THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  EMG1 MUTATED                                                                        2
  EMG1 WILD-TYPE                                                                    100
                vv
clus             THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  EMG1 MUTATED                                                                     2
  EMG1 WILD-TYPE                                                                  33
D6V9, multiclass
                                                                        clus
vv                                                                       EMG1 MUTATED
  OTHER, SPECIFY                                                                    0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                     7
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)            2
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)               2
                                                                        clus
vv                                                                       EMG1 WILD-TYPE
  OTHER, SPECIFY                                                                      7
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                     341
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)            100
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                33
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D6V10, binary
                cls
clus               0   1
  EMG1 MUTATED    10   0
  EMG1 WILD-TYPE 405  17
[1] "tbl2"
                cls
clus             [,1] [,2]
  EMG1 MUTATED     10    0
  EMG1 WILD-TYPE  405   17
     clus
vv    EMG1 MUTATED EMG1 WILD-TYPE
  NO            10            405
  YES            0             17
[1] 2 2
[1] FALSE
                vv
clus             MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE VERY ADVANCED (T4B)
  EMG1 MUTATED              4                       1    5                   0
  EMG1 WILD-TYPE          126                      17  323                   1
D6V11, multiclass
                         clus
vv                        EMG1 MUTATED EMG1 WILD-TYPE
  MINIMAL (T3)                       4            126
  MODERATE/ADVANCED (T4A)            1             17
  NONE                               5            323
  VERY ADVANCED (T4B)                0              1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus              R0  R1  R2  RX
  EMG1 MUTATED     5   3   0   2
  EMG1 WILD-TYPE 374  48   4  28
D6V12, multiclass
    clus
vv   EMG1 MUTATED EMG1 WILD-TYPE
  R0            5            374
  R1            3             48
  R2            0              4
  RX            2             28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D6V13, continuous
D6V14, binary
                cls
clus               0   1
  EMG1 MUTATED     6   5
  EMG1 WILD-TYPE 215 257
[1] "tbl2"
                cls
clus             [,1] [,2]
  EMG1 MUTATED      6    5
  EMG1 WILD-TYPE  215  257
            clus
vv           EMG1 MUTATED EMG1 WILD-TYPE
  MULTIFOCAL            6            215
  UNIFOCAL              5            257
[1] 2 2
[1] FALSE
D6V15, continuous
                vv
clus             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  EMG1 MUTATED                                  0     0
  EMG1 WILD-TYPE                                1    51
                vv
clus             BLACK OR AFRICAN AMERICAN WHITE
  EMG1 MUTATED                           0     8
  EMG1 WILD-TYPE                        26   314
D6V16, multiclass
                                  clus
vv                                 EMG1 MUTATED EMG1 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE            0              1
  ASIAN                                       0             51
  BLACK OR AFRICAN AMERICAN                   0             26
  WHITE                                       8            314
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D6V17, binary
                cls
clus               0   1
  EMG1 MUTATED     1   8
  EMG1 WILD-TYPE  37 343
[1] "tbl2"
                cls
clus             [,1] [,2]
  EMG1 MUTATED      1    8
  EMG1 WILD-TYPE   37  343
                        clus
vv                       EMG1 MUTATED EMG1 WILD-TYPE
  HISPANIC OR LATINO                1             37
  NOT HISPANIC OR LATINO            8            343
[1] 2 2
[1] FALSE

Clustering(7) Variable = FAM47C MUTATION ANALYSIS
D7V1, survival
                  sevent
clus2                0   1
  FAM47C MUTATED    14   0
  FAM47C WILD-TYPE 463  14
  FAM47C MUTATED FAM47C WILD-TYPE 
              14              477 
  FAM47C MUTATED FAM47C WILD-TYPE 
               0               14 
$`FAM47C MUTATED`
TCGA-EL-A3N3 TCGA-DE-A4MB TCGA-DJ-A13M TCGA-EL-A3GV TCGA-EL-A3T3 TCGA-EL-A3TB 
      178.29        11.57        48.79        50.37       132.07        82.82 
TCGA-EM-A3FJ TCGA-EM-A3FM TCGA-EM-A3FN TCGA-EM-A3O7 TCGA-EM-A3OA TCGA-EM-A3SZ 
       27.95        21.01        12.07         7.33        27.02        12.79 
TCGA-FY-A3R9 TCGA-KS-A41I 
       16.57        15.98 

$`FAM47C WILD-TYPE`
TCGA-BJ-A290 TCGA-BJ-A45K TCGA-CE-A13K TCGA-DE-A0XZ TCGA-DJ-A13L TCGA-DJ-A2PR 
       30.21        23.18        12.66        35.84         9.96        27.45 
TCGA-DJ-A3UU TCGA-DJ-A3UW TCGA-DJ-A3V4 TCGA-DJ-A3VI TCGA-DJ-A3VK TCGA-E3-A3E5 
       23.44        59.57        42.54         3.12        24.76        39.95 
TCGA-EL-A3CR TCGA-EL-A3CS TCGA-EL-A3CY TCGA-EL-A3D0 TCGA-EL-A3D5 TCGA-EL-A3GQ 
        7.66        45.53         4.18       139.86        57.11        50.24 
TCGA-EL-A3H2 TCGA-EL-A3H8 TCGA-EL-A3MY TCGA-EM-A3AQ TCGA-ET-A3BO TCGA-ET-A3BV 
       33.50       150.48        17.52        29.72        50.40        75.42 
TCGA-FK-A3SD TCGA-FY-A76V TCGA-J8-A3NZ TCGA-J8-A4HW TCGA-L6-A4ET TCGA-MK-A84Z 
        1.05         1.68        17.23         2.60        21.83        23.93 
TCGA-4C-A93U TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0Z3 TCGA-BJ-A0Z9 
        4.24        24.79        13.78        49.78        16.34        41.33 
TCGA-BJ-A0ZA TCGA-BJ-A0ZB TCGA-BJ-A0ZC TCGA-BJ-A0ZE TCGA-BJ-A0ZG TCGA-BJ-A0ZH 
       18.87         4.01        11.57        16.73        25.48        15.12 
TCGA-BJ-A0ZJ TCGA-BJ-A18Y TCGA-BJ-A18Z TCGA-BJ-A191 TCGA-BJ-A192 TCGA-BJ-A28R 
       42.08        51.39        41.52         4.83        44.35        42.15 
TCGA-BJ-A28S TCGA-BJ-A28T TCGA-BJ-A28V TCGA-BJ-A28X TCGA-BJ-A28Z TCGA-BJ-A2N7 
       21.04        35.54        32.45        30.97        11.08        18.38 
TCGA-BJ-A2N8 TCGA-BJ-A2N9 TCGA-BJ-A2NA TCGA-BJ-A2P4 TCGA-BJ-A3EZ TCGA-BJ-A3F0 
       16.57        20.48        18.97        12.82        16.01        13.94 
TCGA-BJ-A3PR TCGA-BJ-A3PT TCGA-BJ-A3PU TCGA-BJ-A45D TCGA-BJ-A45E TCGA-BJ-A45F 
       36.39        23.31        18.64        10.88        21.01         3.45 
TCGA-BJ-A45G TCGA-BJ-A45H TCGA-BJ-A45I TCGA-BJ-A45J TCGA-BJ-A4O8 TCGA-BJ-A4O9 
       23.84        28.44        15.45        21.63        19.43        23.47 
TCGA-CE-A27D TCGA-CE-A3MD TCGA-CE-A3ME TCGA-CE-A481 TCGA-CE-A482 TCGA-CE-A483 
       12.30        12.79        12.46        11.38        10.68        15.02 
TCGA-CE-A484 TCGA-CE-A485 TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DE-A2OL TCGA-DE-A3KN 
       12.43        12.66        21.63        50.17        37.64        27.32 
TCGA-DE-A4M8 TCGA-DE-A4M9 TCGA-DE-A4MA TCGA-DE-A4MC TCGA-DE-A4MD TCGA-DE-A69J 
       18.54        18.84        30.12        30.02        25.12        14.70 
TCGA-DE-A69K TCGA-DE-A7U5 TCGA-DJ-A13O TCGA-DJ-A13P TCGA-DJ-A13R TCGA-DJ-A13S 
       14.27         2.76        38.17       169.32        18.58         8.71 
TCGA-DJ-A13T TCGA-DJ-A13U TCGA-DJ-A13V TCGA-DJ-A13W TCGA-DJ-A13X TCGA-DJ-A1QD 
       56.19        52.27        43.17        52.37         8.32        48.07 
TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QG TCGA-DJ-A1QH TCGA-DJ-A1QI TCGA-DJ-A1QL 
      135.91        30.61        44.98        42.51        14.96        17.59 
TCGA-DJ-A1QM TCGA-DJ-A1QN TCGA-DJ-A1QO TCGA-DJ-A1QQ TCGA-DJ-A2PN TCGA-DJ-A2PO 
        6.02        42.58        47.41        17.56        10.09         7.99 
TCGA-DJ-A2PP TCGA-DJ-A2PQ TCGA-DJ-A2PS TCGA-DJ-A2PT TCGA-DJ-A2PU TCGA-DJ-A2PV 
       30.58        35.41        26.20        38.83        33.96        31.99 
TCGA-DJ-A2PW TCGA-DJ-A2PX TCGA-DJ-A2PY TCGA-DJ-A2PZ TCGA-DJ-A2Q0 TCGA-DJ-A2Q1 
       34.85        28.96         8.78         8.42        34.36        37.74 
TCGA-DJ-A2Q2 TCGA-DJ-A2Q3 TCGA-DJ-A2Q4 TCGA-DJ-A2Q5 TCGA-DJ-A2Q6 TCGA-DJ-A2Q7 
       43.96        40.24        33.93        37.48        36.46        35.11 
TCGA-DJ-A2Q8 TCGA-DJ-A2Q9 TCGA-DJ-A2QA TCGA-DJ-A2QB TCGA-DJ-A2QC TCGA-DJ-A3UK 
       39.09        35.90        33.53        35.18        39.95        36.92 
TCGA-DJ-A3UM TCGA-DJ-A3UN TCGA-DJ-A3UO TCGA-DJ-A3UP TCGA-DJ-A3UQ TCGA-DJ-A3UR 
       31.04        32.42        31.46        16.41        19.56        36.33 
TCGA-DJ-A3US TCGA-DJ-A3UT TCGA-DJ-A3UX TCGA-DJ-A3UY TCGA-DJ-A3UZ TCGA-DJ-A3V0 
       32.81        36.33        11.34        35.87        40.96        36.99 
TCGA-DJ-A3V2 TCGA-DJ-A3V3 TCGA-DJ-A3V5 TCGA-DJ-A3V7 TCGA-DJ-A3V8 TCGA-DJ-A3V9 
       20.22        30.61        19.20        23.21        21.27        20.48 
TCGA-DJ-A3VA TCGA-DJ-A3VB TCGA-DJ-A3VD TCGA-DJ-A3VE TCGA-DJ-A3VF TCGA-DJ-A3VG 
       24.82        22.92        40.70        18.97         9.60        35.67 
TCGA-DJ-A3VJ TCGA-DJ-A3VL TCGA-DJ-A3VM TCGA-DJ-A4UL TCGA-DJ-A4UP TCGA-DJ-A4UQ 
       36.43        23.44        27.62        30.87        30.12        33.04 
TCGA-DJ-A4UR TCGA-DJ-A4UT TCGA-DJ-A4UW TCGA-DJ-A4V0 TCGA-DJ-A4V2 TCGA-DJ-A4V4 
       34.78        27.06        26.93        35.54         3.12        15.81 
TCGA-DJ-A4V5 TCGA-DO-A1JZ TCGA-DO-A1K0 TCGA-DO-A2HM TCGA-E3-A3DY TCGA-E3-A3DZ 
       35.38        54.90        21.53         2.33        92.55        47.21 
TCGA-E3-A3E0 TCGA-E3-A3E1 TCGA-E3-A3E2 TCGA-E3-A3E3 TCGA-E8-A242 TCGA-E8-A2EA 
       66.38        80.52        63.19        52.44        31.23        35.67 
TCGA-E8-A2JQ TCGA-E8-A3X7 TCGA-E8-A413 TCGA-E8-A414 TCGA-E8-A415 TCGA-E8-A416 
       11.70        31.27        29.98        31.50        31.04        31.30 
TCGA-E8-A417 TCGA-E8-A419 TCGA-E8-A432 TCGA-E8-A433 TCGA-E8-A434 TCGA-E8-A436 
       30.84        25.45        30.61        31.27        31.33        14.96 
TCGA-E8-A437 TCGA-E8-A438 TCGA-E8-A44K TCGA-E8-A44M TCGA-EL-A3CL TCGA-EL-A3CM 
       39.88        33.50        31.00        30.15        31.66        26.73 
TCGA-EL-A3CN TCGA-EL-A3CO TCGA-EL-A3CP TCGA-EL-A3CT TCGA-EL-A3CU TCGA-EL-A3CV 
      155.54        97.74       158.83        60.95       157.15        37.94 
TCGA-EL-A3CW TCGA-EL-A3CX TCGA-EL-A3CZ TCGA-EL-A3D1 TCGA-EL-A3D4 TCGA-EL-A3D6 
       57.01       106.62        79.50        98.53        69.57       108.36 
TCGA-EL-A3GO TCGA-EL-A3GP TCGA-EL-A3GR TCGA-EL-A3GS TCGA-EL-A3GU TCGA-EL-A3GW 
       64.87        49.51       115.10        65.39       136.01        50.20 
TCGA-EL-A3GX TCGA-EL-A3GY TCGA-EL-A3GZ TCGA-EL-A3H1 TCGA-EL-A3H3 TCGA-EL-A3H4 
      147.75       101.13       139.99        49.32        43.36        49.71 
TCGA-EL-A3H5 TCGA-EL-A3H7 TCGA-EL-A3MW TCGA-EL-A3MX TCGA-EL-A3MZ TCGA-EL-A3N2 
       83.57       139.00       108.66        57.63        52.50        29.65 
TCGA-EL-A3T0 TCGA-EL-A3T1 TCGA-EL-A3T2 TCGA-EL-A3T6 TCGA-EL-A3T7 TCGA-EL-A3T8 
      142.52       129.57        32.48        98.24        41.29       107.47 
TCGA-EL-A3T9 TCGA-EL-A3TA TCGA-EL-A3ZG TCGA-EL-A3ZH TCGA-EL-A3ZK TCGA-EL-A3ZL 
        5.72        66.90        89.56        91.17        51.78        62.30 
TCGA-EL-A3ZM TCGA-EL-A3ZN TCGA-EL-A3ZO TCGA-EL-A3ZP TCGA-EL-A3ZQ TCGA-EL-A3ZR 
       36.03        53.06        72.69        65.49        61.22        60.16 
TCGA-EL-A3ZS TCGA-EL-A3ZT TCGA-EL-A4JV TCGA-EL-A4JW TCGA-EL-A4JX TCGA-EL-A4JZ 
        7.07        59.44        57.47        34.72        45.96        61.02 
TCGA-EL-A4K0 TCGA-EL-A4K1 TCGA-EL-A4K2 TCGA-EL-A4K4 TCGA-EL-A4K6 TCGA-EL-A4K7 
       31.04        34.39        30.51        53.36        44.15        41.13 
TCGA-EL-A4K9 TCGA-EL-A4KD TCGA-EL-A4KG TCGA-EL-A4KH TCGA-EL-A4KI TCGA-EM-A1CS 
       47.84        43.59        24.30        27.06        23.90        26.86 
TCGA-EM-A1CT TCGA-EM-A1CU TCGA-EM-A1CV TCGA-EM-A1CW TCGA-EM-A1YA TCGA-EM-A1YB 
       18.18        20.91        48.49        18.05        19.79        19.46 
TCGA-EM-A1YC TCGA-EM-A1YD TCGA-EM-A1YE TCGA-EM-A22I TCGA-EM-A22J TCGA-EM-A22K 
       78.61        57.01        54.08        14.73        14.50        15.75 
TCGA-EM-A22L TCGA-EM-A22M TCGA-EM-A22N TCGA-EM-A22O TCGA-EM-A22P TCGA-EM-A22Q 
       10.45        14.53        10.65        44.19        41.29        14.24 
TCGA-EM-A2CJ TCGA-EM-A2CK TCGA-EM-A2CL TCGA-EM-A2CN TCGA-EM-A2CO TCGA-EM-A2CP 
       47.57        17.88        13.18        23.51         6.05         2.99 
TCGA-EM-A2CQ TCGA-EM-A2CR TCGA-EM-A2CS TCGA-EM-A2CT TCGA-EM-A2CU TCGA-EM-A2OV 
       12.30        13.64        27.65        48.46        13.15        22.16 
TCGA-EM-A2OW TCGA-EM-A2OX TCGA-EM-A2OY TCGA-EM-A2OZ TCGA-EM-A2P0 TCGA-EM-A2P1 
       40.34        19.73        32.32        33.96        17.59        17.46 
TCGA-EM-A2P2 TCGA-EM-A2P3 TCGA-EM-A3AI TCGA-EM-A3AJ TCGA-EM-A3AK TCGA-EM-A3AL 
       17.29        14.60        22.52        30.94        15.68        14.14 
TCGA-EM-A3AN TCGA-EM-A3AO TCGA-EM-A3AP TCGA-EM-A3AR TCGA-EM-A3FK TCGA-EM-A3FL 
       33.07        44.52         8.35        37.25        23.77        47.38 
TCGA-EM-A3FO TCGA-EM-A3FP TCGA-EM-A3FQ TCGA-EM-A3FR TCGA-EM-A3O3 TCGA-EM-A3O6 
       17.49        17.39        16.18        15.02        14.50        15.06 
TCGA-EM-A3O8 TCGA-EM-A3O9 TCGA-EM-A3OB TCGA-EM-A3ST TCGA-EM-A3SU TCGA-EM-A3SX 
       12.53         9.24        38.66        38.86        29.95        29.85 
TCGA-EM-A3SY TCGA-EM-A4FF TCGA-EM-A4FH TCGA-EM-A4FK TCGA-EM-A4FM TCGA-EM-A4FN 
       13.51        84.59        29.33        21.34         5.33        26.37 
TCGA-EM-A4FO TCGA-EM-A4FQ TCGA-EM-A4FR TCGA-EM-A4FU TCGA-EM-A4FV TCGA-EM-A4G1 
       26.37        22.45        21.53        60.49        24.46        13.68 
TCGA-ET-A25G TCGA-ET-A25I TCGA-ET-A25J TCGA-ET-A25K TCGA-ET-A25O TCGA-ET-A25R 
       81.93        81.70        77.56        70.42        65.29        63.45 
TCGA-ET-A2MX TCGA-ET-A2MY TCGA-ET-A2MZ TCGA-ET-A2N0 TCGA-ET-A2N1 TCGA-ET-A2N3 
       88.41        58.75        37.25        52.60        54.35        83.34 
TCGA-ET-A2N4 TCGA-ET-A2N5 TCGA-ET-A39I TCGA-ET-A39J TCGA-ET-A39K TCGA-ET-A39L 
        2.66        80.88        33.24       106.09       107.41       108.46 
TCGA-ET-A39M TCGA-ET-A39N TCGA-ET-A39O TCGA-ET-A39P TCGA-ET-A39R TCGA-ET-A39S 
       84.89       123.32       100.57        95.34        94.13        55.10 
TCGA-ET-A39T TCGA-ET-A3BN TCGA-ET-A3BP TCGA-ET-A3BQ TCGA-ET-A3BS TCGA-ET-A3BT 
       98.20        28.24        79.10        76.64         5.79        87.62 
TCGA-ET-A3BU TCGA-ET-A3BW TCGA-ET-A3BX TCGA-ET-A3DO TCGA-ET-A3DP TCGA-ET-A3DQ 
       77.82        46.65        52.47       116.78        94.59        84.85 
TCGA-ET-A3DR TCGA-ET-A3DS TCGA-ET-A3DT TCGA-ET-A3DU TCGA-ET-A3DV TCGA-ET-A3DW 
       80.58        66.84        43.73        62.83       166.62        24.72 
TCGA-ET-A40P TCGA-ET-A40Q TCGA-ET-A40R TCGA-ET-A40S TCGA-ET-A40T TCGA-ET-A4KN 
       43.99        46.26        44.38        40.21        37.48        33.17 
TCGA-ET-A4KQ TCGA-FE-A22Z TCGA-FE-A230 TCGA-FE-A231 TCGA-FE-A232 TCGA-FE-A233 
       31.40        73.74        71.44        31.59        79.69        24.69 
TCGA-FE-A234 TCGA-FE-A235 TCGA-FE-A236 TCGA-FE-A237 TCGA-FE-A23A TCGA-FE-A3PA 
       68.22       117.40        66.77       112.80        81.83       106.36 
TCGA-FE-A3PB TCGA-FE-A3PC TCGA-FE-A3PD TCGA-FK-A3S3 TCGA-FK-A3SB TCGA-FK-A3SE 
       85.15        85.68        78.77        71.08         4.11        22.03 
TCGA-FK-A3SG TCGA-FK-A3SH TCGA-FK-A4UB TCGA-FY-A2QD TCGA-FY-A3BL TCGA-FY-A3I4 
        0.92        48.10       116.09         1.25        20.42        17.82 
TCGA-FY-A3I5 TCGA-FY-A3NM TCGA-FY-A3NP TCGA-FY-A3ON TCGA-FY-A3R6 TCGA-FY-A3R7 
        7.82        29.10        16.14        19.56        13.91        16.27 
TCGA-FY-A3R8 TCGA-FY-A3RA TCGA-FY-A3TY TCGA-FY-A3W9 TCGA-FY-A3WA TCGA-FY-A3YR 
       15.68        18.08        23.31        21.63        17.06        17.36 
TCGA-FY-A40K TCGA-FY-A40L TCGA-FY-A40M TCGA-FY-A40N TCGA-FY-A4B0 TCGA-FY-A4B3 
       15.16        23.87        22.49        19.04        13.81        14.04 
TCGA-FY-A4B4 TCGA-GE-A2C6 TCGA-H2-A26U TCGA-H2-A2K9 TCGA-H2-A3RH TCGA-H2-A3RI 
       21.60        12.53        17.00        21.67        12.46        11.01 
TCGA-H2-A421 TCGA-H2-A422 TCGA-IM-A3EB TCGA-IM-A3ED TCGA-IM-A3U2 TCGA-IM-A3U3 
       20.05        18.61        48.92        47.41        18.51        16.90 
TCGA-IM-A41Y TCGA-IM-A41Z TCGA-IM-A420 TCGA-IM-A4EB TCGA-J8-A3O0 TCGA-J8-A3O1 
       21.83        31.10         8.22        25.64        43.17        27.19 
TCGA-J8-A3O2 TCGA-J8-A3YD TCGA-J8-A3YE TCGA-J8-A3YF TCGA-J8-A3YG TCGA-J8-A3YH 
       11.24        31.82        27.85        24.69        22.29         5.75 
TCGA-J8-A42S TCGA-J8-A4HY TCGA-KS-A41F TCGA-KS-A41J TCGA-KS-A41L TCGA-KS-A4I1 
        2.47         0.20       143.57        15.68       113.85        26.70 
TCGA-KS-A4I3 TCGA-KS-A4I5 TCGA-KS-A4I7 TCGA-KS-A4I9 TCGA-KS-A4IB TCGA-KS-A4IC 
       43.69        18.64        32.45        87.39        84.72        35.28 
TCGA-KS-A4ID TCGA-L6-A4EP TCGA-L6-A4EQ TCGA-L6-A4EU TCGA-MK-A4N6 TCGA-MK-A4N7 
       33.24        33.40        40.37         9.50        36.10        32.45 
TCGA-MK-A4N9 TCGA-QD-A8IV TCGA-E8-A418 
       30.21        12.89         3.02 

  FAM47C MUTATED FAM47C WILD-TYPE 
            7.33             0.20 
  FAM47C MUTATED FAM47C WILD-TYPE 
          178.29           169.32 
  FAM47C MUTATED FAM47C WILD-TYPE 
          24.015           31.270 
[1] "7.3 - 178.3 (24.0)" "0.2 - 169.3 (31.3)"
[1] "hr="     "2.5e+07"
D7V2, continuous
                  vv
clus               STAGE I STAGE II STAGE III STAGE IV STAGE IVA STAGE IVC
  FAM47C MUTATED         6        3         3        0         2         0
  FAM47C WILD-TYPE     272       47       105        2        44         6
D7V3, multiclass
           clus
vv          FAM47C MUTATED FAM47C WILD-TYPE
  STAGE I                6              272
  STAGE II               3               47
  STAGE III              3              105
  STAGE IV               0                2
  STAGE IVA              2               44
  STAGE IVC              0                6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus                T1  T2  T3  T4
  FAM47C MUTATED     4   4   6   0
  FAM47C WILD-TYPE 137 158 158  23
D7V4, multiclass
    clus
vv   FAM47C MUTATED FAM47C WILD-TYPE
  T1              4              137
  T2              4              158
  T3              6              158
  T4              0               23
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D7V5, binary
                  cls
clus                 0   1
  FAM47C MUTATED     8   4
  FAM47C WILD-TYPE 212 218
[1] "tbl2"
                  cls
clus               [,1] [,2]
  FAM47C MUTATED      8    4
  FAM47C WILD-TYPE  212  218
   clus
vv  FAM47C MUTATED FAM47C WILD-TYPE
  0              8              212
  1              4              218
[1] 2 2
[1] FALSE
D7V6, binary
                  cls
clus                 0   1
  FAM47C MUTATED     7   0
  FAM47C WILD-TYPE 269   9
[1] "tbl2"
                  cls
clus               [,1] [,2]
  FAM47C MUTATED      7    0
  FAM47C WILD-TYPE  269    9
   clus
vv  FAM47C MUTATED FAM47C WILD-TYPE
  0              7              269
  1              0                9
[1] 2 2
[1] FALSE
D7V7, binary
                  cls
clus                 0   1
  FAM47C MUTATED    12   2
  FAM47C WILD-TYPE 350 128
[1] "tbl2"
                  cls
clus               [,1] [,2]
  FAM47C MUTATED     12    2
  FAM47C WILD-TYPE  350  128
        clus
vv       FAM47C MUTATED FAM47C WILD-TYPE
  FEMALE             12              350
  MALE                2              128
[1] 2 2
[1] FALSE
D7V8, binary
                  cls
clus                 0   1
  FAM47C MUTATED     6   8
  FAM47C WILD-TYPE 173 290
[1] "tbl2"
                  cls
clus               [,1] [,2]
  FAM47C MUTATED      6    8
  FAM47C WILD-TYPE  173  290
     clus
vv    FAM47C MUTATED FAM47C WILD-TYPE
  NO               6              173
  YES              8              290
[1] 2 2
[1] FALSE
                  vv
clus               OTHER, SPECIFY THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  FAM47C MUTATED                0                                            10
  FAM47C WILD-TYPE              7                                           338
                  vv
clus               THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  FAM47C MUTATED                                                                        4
  FAM47C WILD-TYPE                                                                     98
                  vv
clus               THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  FAM47C MUTATED                                                                     0
  FAM47C WILD-TYPE                                                                  35
D7V9, multiclass
                                                                        clus
vv                                                                       FAM47C MUTATED
  OTHER, SPECIFY                                                                      0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                      10
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)              4
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                 0
                                                                        clus
vv                                                                       FAM47C WILD-TYPE
  OTHER, SPECIFY                                                                        7
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                       338
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)               98
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                  35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D7V10, binary
                  cls
clus                 0   1
  FAM47C MUTATED    13   0
  FAM47C WILD-TYPE 402  17
[1] "tbl2"
                  cls
clus               [,1] [,2]
  FAM47C MUTATED     13    0
  FAM47C WILD-TYPE  402   17
     clus
vv    FAM47C MUTATED FAM47C WILD-TYPE
  NO              13              402
  YES              0               17
[1] 2 2
[1] FALSE
                  vv
clus               MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  FAM47C MUTATED              4                       0   10
  FAM47C WILD-TYPE          126                      18  318
                  vv
clus               VERY ADVANCED (T4B)
  FAM47C MUTATED                     0
  FAM47C WILD-TYPE                   1
D7V11, multiclass
                         clus
vv                        FAM47C MUTATED FAM47C WILD-TYPE
  MINIMAL (T3)                         4              126
  MODERATE/ADVANCED (T4A)              0               18
  NONE                                10              318
  VERY ADVANCED (T4B)                  0                1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus                R0  R1  R2  RX
  FAM47C MUTATED    13   1   0   0
  FAM47C WILD-TYPE 366  50   4  30
D7V12, multiclass
    clus
vv   FAM47C MUTATED FAM47C WILD-TYPE
  R0             13              366
  R1              1               50
  R2              0                4
  RX              0               30
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D7V13, continuous
D7V14, binary
                  cls
clus                 0   1
  FAM47C MUTATED     8   6
  FAM47C WILD-TYPE 213 256
[1] "tbl2"
                  cls
clus               [,1] [,2]
  FAM47C MUTATED      8    6
  FAM47C WILD-TYPE  213  256
            clus
vv           FAM47C MUTATED FAM47C WILD-TYPE
  MULTIFOCAL              8              213
  UNIFOCAL                6              256
[1] 2 2
[1] FALSE
D7V15, continuous
                  vv
clus               AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  FAM47C MUTATED                                  0     0
  FAM47C WILD-TYPE                                1    51
                  vv
clus               BLACK OR AFRICAN AMERICAN WHITE
  FAM47C MUTATED                           0     8
  FAM47C WILD-TYPE                        26   314
D7V16, multiclass
                                  clus
vv                                 FAM47C MUTATED FAM47C WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE              0                1
  ASIAN                                         0               51
  BLACK OR AFRICAN AMERICAN                     0               26
  WHITE                                         8              314
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D7V17, binary
                  cls
clus                 0   1
  FAM47C MUTATED     2   5
  FAM47C WILD-TYPE  36 346
[1] "tbl2"
                  cls
clus               [,1] [,2]
  FAM47C MUTATED      2    5
  FAM47C WILD-TYPE   36  346
                        clus
vv                       FAM47C MUTATED FAM47C WILD-TYPE
  HISPANIC OR LATINO                  2               36
  NOT HISPANIC OR LATINO              5              346
[1] 2 2
[1] FALSE

Clustering(8) Variable = EIF1AX MUTATION ANALYSIS
D8V1, survival
                  sevent
clus2                0   1
  EIF1AX MUTATED     6   1
  EIF1AX WILD-TYPE 471  13
  EIF1AX MUTATED EIF1AX WILD-TYPE 
               7              484 
  EIF1AX MUTATED EIF1AX WILD-TYPE 
               1               13 
$`EIF1AX MUTATED`
TCGA-BJ-A0ZG TCGA-EL-A3CO TCGA-EM-A1YA TCGA-EM-A2CL TCGA-EM-A3FN TCGA-EM-A3ST 
       25.48        97.74        19.79        13.18        12.07        38.86 
TCGA-EM-A4FV 
       24.46 

$`EIF1AX WILD-TYPE`
TCGA-BJ-A290 TCGA-BJ-A45K TCGA-CE-A13K TCGA-DE-A0XZ TCGA-DJ-A13L TCGA-DJ-A2PR 
       30.21        23.18        12.66        35.84         9.96        27.45 
TCGA-DJ-A3UU TCGA-DJ-A3UW TCGA-DJ-A3V4 TCGA-DJ-A3VI TCGA-DJ-A3VK TCGA-E3-A3E5 
       23.44        59.57        42.54         3.12        24.76        39.95 
TCGA-EL-A3CR TCGA-EL-A3CS TCGA-EL-A3CY TCGA-EL-A3D0 TCGA-EL-A3D5 TCGA-EL-A3GQ 
        7.66        45.53         4.18       139.86        57.11        50.24 
TCGA-EL-A3H2 TCGA-EL-A3H8 TCGA-EL-A3MY TCGA-EL-A3N3 TCGA-EM-A3AQ TCGA-ET-A3BO 
       33.50       150.48        17.52       178.29        29.72        50.40 
TCGA-ET-A3BV TCGA-FK-A3SD TCGA-FY-A76V TCGA-J8-A3NZ TCGA-J8-A4HW TCGA-L6-A4ET 
       75.42         1.05         1.68        17.23         2.60        21.83 
TCGA-MK-A84Z TCGA-4C-A93U TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0Z3 
       23.93         4.24        24.79        13.78        49.78        16.34 
TCGA-BJ-A0Z9 TCGA-BJ-A0ZA TCGA-BJ-A0ZB TCGA-BJ-A0ZC TCGA-BJ-A0ZE TCGA-BJ-A0ZH 
       41.33        18.87         4.01        11.57        16.73        15.12 
TCGA-BJ-A0ZJ TCGA-BJ-A18Y TCGA-BJ-A18Z TCGA-BJ-A191 TCGA-BJ-A192 TCGA-BJ-A28R 
       42.08        51.39        41.52         4.83        44.35        42.15 
TCGA-BJ-A28S TCGA-BJ-A28T TCGA-BJ-A28V TCGA-BJ-A28X TCGA-BJ-A28Z TCGA-BJ-A2N7 
       21.04        35.54        32.45        30.97        11.08        18.38 
TCGA-BJ-A2N8 TCGA-BJ-A2N9 TCGA-BJ-A2NA TCGA-BJ-A2P4 TCGA-BJ-A3EZ TCGA-BJ-A3F0 
       16.57        20.48        18.97        12.82        16.01        13.94 
TCGA-BJ-A3PR TCGA-BJ-A3PT TCGA-BJ-A3PU TCGA-BJ-A45D TCGA-BJ-A45E TCGA-BJ-A45F 
       36.39        23.31        18.64        10.88        21.01         3.45 
TCGA-BJ-A45G TCGA-BJ-A45H TCGA-BJ-A45I TCGA-BJ-A45J TCGA-BJ-A4O8 TCGA-BJ-A4O9 
       23.84        28.44        15.45        21.63        19.43        23.47 
TCGA-CE-A27D TCGA-CE-A3MD TCGA-CE-A3ME TCGA-CE-A481 TCGA-CE-A482 TCGA-CE-A483 
       12.30        12.79        12.46        11.38        10.68        15.02 
TCGA-CE-A484 TCGA-CE-A485 TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DE-A2OL TCGA-DE-A3KN 
       12.43        12.66        21.63        50.17        37.64        27.32 
TCGA-DE-A4M8 TCGA-DE-A4M9 TCGA-DE-A4MA TCGA-DE-A4MB TCGA-DE-A4MC TCGA-DE-A4MD 
       18.54        18.84        30.12        11.57        30.02        25.12 
TCGA-DE-A69J TCGA-DE-A69K TCGA-DE-A7U5 TCGA-DJ-A13M TCGA-DJ-A13O TCGA-DJ-A13P 
       14.70        14.27         2.76        48.79        38.17       169.32 
TCGA-DJ-A13R TCGA-DJ-A13S TCGA-DJ-A13T TCGA-DJ-A13U TCGA-DJ-A13V TCGA-DJ-A13W 
       18.58         8.71        56.19        52.27        43.17        52.37 
TCGA-DJ-A13X TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QG TCGA-DJ-A1QH 
        8.32        48.07       135.91        30.61        44.98        42.51 
TCGA-DJ-A1QI TCGA-DJ-A1QL TCGA-DJ-A1QM TCGA-DJ-A1QN TCGA-DJ-A1QO TCGA-DJ-A1QQ 
       14.96        17.59         6.02        42.58        47.41        17.56 
TCGA-DJ-A2PN TCGA-DJ-A2PO TCGA-DJ-A2PP TCGA-DJ-A2PQ TCGA-DJ-A2PS TCGA-DJ-A2PT 
       10.09         7.99        30.58        35.41        26.20        38.83 
TCGA-DJ-A2PU TCGA-DJ-A2PV TCGA-DJ-A2PW TCGA-DJ-A2PX TCGA-DJ-A2PY TCGA-DJ-A2PZ 
       33.96        31.99        34.85        28.96         8.78         8.42 
TCGA-DJ-A2Q0 TCGA-DJ-A2Q1 TCGA-DJ-A2Q2 TCGA-DJ-A2Q3 TCGA-DJ-A2Q4 TCGA-DJ-A2Q5 
       34.36        37.74        43.96        40.24        33.93        37.48 
TCGA-DJ-A2Q6 TCGA-DJ-A2Q7 TCGA-DJ-A2Q8 TCGA-DJ-A2Q9 TCGA-DJ-A2QA TCGA-DJ-A2QB 
       36.46        35.11        39.09        35.90        33.53        35.18 
TCGA-DJ-A2QC TCGA-DJ-A3UK TCGA-DJ-A3UM TCGA-DJ-A3UN TCGA-DJ-A3UO TCGA-DJ-A3UP 
       39.95        36.92        31.04        32.42        31.46        16.41 
TCGA-DJ-A3UQ TCGA-DJ-A3UR TCGA-DJ-A3US TCGA-DJ-A3UT TCGA-DJ-A3UX TCGA-DJ-A3UY 
       19.56        36.33        32.81        36.33        11.34        35.87 
TCGA-DJ-A3UZ TCGA-DJ-A3V0 TCGA-DJ-A3V2 TCGA-DJ-A3V3 TCGA-DJ-A3V5 TCGA-DJ-A3V7 
       40.96        36.99        20.22        30.61        19.20        23.21 
TCGA-DJ-A3V8 TCGA-DJ-A3V9 TCGA-DJ-A3VA TCGA-DJ-A3VB TCGA-DJ-A3VD TCGA-DJ-A3VE 
       21.27        20.48        24.82        22.92        40.70        18.97 
TCGA-DJ-A3VF TCGA-DJ-A3VG TCGA-DJ-A3VJ TCGA-DJ-A3VL TCGA-DJ-A3VM TCGA-DJ-A4UL 
        9.60        35.67        36.43        23.44        27.62        30.87 
TCGA-DJ-A4UP TCGA-DJ-A4UQ TCGA-DJ-A4UR TCGA-DJ-A4UT TCGA-DJ-A4UW TCGA-DJ-A4V0 
       30.12        33.04        34.78        27.06        26.93        35.54 
TCGA-DJ-A4V2 TCGA-DJ-A4V4 TCGA-DJ-A4V5 TCGA-DO-A1JZ TCGA-DO-A1K0 TCGA-DO-A2HM 
        3.12        15.81        35.38        54.90        21.53         2.33 
TCGA-E3-A3DY TCGA-E3-A3DZ TCGA-E3-A3E0 TCGA-E3-A3E1 TCGA-E3-A3E2 TCGA-E3-A3E3 
       92.55        47.21        66.38        80.52        63.19        52.44 
TCGA-E8-A242 TCGA-E8-A2EA TCGA-E8-A2JQ TCGA-E8-A3X7 TCGA-E8-A413 TCGA-E8-A414 
       31.23        35.67        11.70        31.27        29.98        31.50 
TCGA-E8-A415 TCGA-E8-A416 TCGA-E8-A417 TCGA-E8-A419 TCGA-E8-A432 TCGA-E8-A433 
       31.04        31.30        30.84        25.45        30.61        31.27 
TCGA-E8-A434 TCGA-E8-A436 TCGA-E8-A437 TCGA-E8-A438 TCGA-E8-A44K TCGA-E8-A44M 
       31.33        14.96        39.88        33.50        31.00        30.15 
TCGA-EL-A3CL TCGA-EL-A3CM TCGA-EL-A3CN TCGA-EL-A3CP TCGA-EL-A3CT TCGA-EL-A3CU 
       31.66        26.73       155.54       158.83        60.95       157.15 
TCGA-EL-A3CV TCGA-EL-A3CW TCGA-EL-A3CX TCGA-EL-A3CZ TCGA-EL-A3D1 TCGA-EL-A3D4 
       37.94        57.01       106.62        79.50        98.53        69.57 
TCGA-EL-A3D6 TCGA-EL-A3GO TCGA-EL-A3GP TCGA-EL-A3GR TCGA-EL-A3GS TCGA-EL-A3GU 
      108.36        64.87        49.51       115.10        65.39       136.01 
TCGA-EL-A3GV TCGA-EL-A3GW TCGA-EL-A3GX TCGA-EL-A3GY TCGA-EL-A3GZ TCGA-EL-A3H1 
       50.37        50.20       147.75       101.13       139.99        49.32 
TCGA-EL-A3H3 TCGA-EL-A3H4 TCGA-EL-A3H5 TCGA-EL-A3H7 TCGA-EL-A3MW TCGA-EL-A3MX 
       43.36        49.71        83.57       139.00       108.66        57.63 
TCGA-EL-A3MZ TCGA-EL-A3N2 TCGA-EL-A3T0 TCGA-EL-A3T1 TCGA-EL-A3T2 TCGA-EL-A3T3 
       52.50        29.65       142.52       129.57        32.48       132.07 
TCGA-EL-A3T6 TCGA-EL-A3T7 TCGA-EL-A3T8 TCGA-EL-A3T9 TCGA-EL-A3TA TCGA-EL-A3TB 
       98.24        41.29       107.47         5.72        66.90        82.82 
TCGA-EL-A3ZG TCGA-EL-A3ZH TCGA-EL-A3ZK TCGA-EL-A3ZL TCGA-EL-A3ZM TCGA-EL-A3ZN 
       89.56        91.17        51.78        62.30        36.03        53.06 
TCGA-EL-A3ZO TCGA-EL-A3ZP TCGA-EL-A3ZQ TCGA-EL-A3ZR TCGA-EL-A3ZS TCGA-EL-A3ZT 
       72.69        65.49        61.22        60.16         7.07        59.44 
TCGA-EL-A4JV TCGA-EL-A4JW TCGA-EL-A4JX TCGA-EL-A4JZ TCGA-EL-A4K0 TCGA-EL-A4K1 
       57.47        34.72        45.96        61.02        31.04        34.39 
TCGA-EL-A4K2 TCGA-EL-A4K4 TCGA-EL-A4K6 TCGA-EL-A4K7 TCGA-EL-A4K9 TCGA-EL-A4KD 
       30.51        53.36        44.15        41.13        47.84        43.59 
TCGA-EL-A4KG TCGA-EL-A4KH TCGA-EL-A4KI TCGA-EM-A1CS TCGA-EM-A1CT TCGA-EM-A1CU 
       24.30        27.06        23.90        26.86        18.18        20.91 
TCGA-EM-A1CV TCGA-EM-A1CW TCGA-EM-A1YB TCGA-EM-A1YC TCGA-EM-A1YD TCGA-EM-A1YE 
       48.49        18.05        19.46        78.61        57.01        54.08 
TCGA-EM-A22I TCGA-EM-A22J TCGA-EM-A22K TCGA-EM-A22L TCGA-EM-A22M TCGA-EM-A22N 
       14.73        14.50        15.75        10.45        14.53        10.65 
TCGA-EM-A22O TCGA-EM-A22P TCGA-EM-A22Q TCGA-EM-A2CJ TCGA-EM-A2CK TCGA-EM-A2CN 
       44.19        41.29        14.24        47.57        17.88        23.51 
TCGA-EM-A2CO TCGA-EM-A2CP TCGA-EM-A2CQ TCGA-EM-A2CR TCGA-EM-A2CS TCGA-EM-A2CT 
        6.05         2.99        12.30        13.64        27.65        48.46 
TCGA-EM-A2CU TCGA-EM-A2OV TCGA-EM-A2OW TCGA-EM-A2OX TCGA-EM-A2OY TCGA-EM-A2OZ 
       13.15        22.16        40.34        19.73        32.32        33.96 
TCGA-EM-A2P0 TCGA-EM-A2P1 TCGA-EM-A2P2 TCGA-EM-A2P3 TCGA-EM-A3AI TCGA-EM-A3AJ 
       17.59        17.46        17.29        14.60        22.52        30.94 
TCGA-EM-A3AK TCGA-EM-A3AL TCGA-EM-A3AN TCGA-EM-A3AO TCGA-EM-A3AP TCGA-EM-A3AR 
       15.68        14.14        33.07        44.52         8.35        37.25 
TCGA-EM-A3FJ TCGA-EM-A3FK TCGA-EM-A3FL TCGA-EM-A3FM TCGA-EM-A3FO TCGA-EM-A3FP 
       27.95        23.77        47.38        21.01        17.49        17.39 
TCGA-EM-A3FQ TCGA-EM-A3FR TCGA-EM-A3O3 TCGA-EM-A3O6 TCGA-EM-A3O7 TCGA-EM-A3O8 
       16.18        15.02        14.50        15.06         7.33        12.53 
TCGA-EM-A3O9 TCGA-EM-A3OA TCGA-EM-A3OB TCGA-EM-A3SU TCGA-EM-A3SX TCGA-EM-A3SY 
        9.24        27.02        38.66        29.95        29.85        13.51 
TCGA-EM-A3SZ TCGA-EM-A4FF TCGA-EM-A4FH TCGA-EM-A4FK TCGA-EM-A4FM TCGA-EM-A4FN 
       12.79        84.59        29.33        21.34         5.33        26.37 
TCGA-EM-A4FO TCGA-EM-A4FQ TCGA-EM-A4FR TCGA-EM-A4FU TCGA-EM-A4G1 TCGA-ET-A25G 
       26.37        22.45        21.53        60.49        13.68        81.93 
TCGA-ET-A25I TCGA-ET-A25J TCGA-ET-A25K TCGA-ET-A25O TCGA-ET-A25R TCGA-ET-A2MX 
       81.70        77.56        70.42        65.29        63.45        88.41 
TCGA-ET-A2MY TCGA-ET-A2MZ TCGA-ET-A2N0 TCGA-ET-A2N1 TCGA-ET-A2N3 TCGA-ET-A2N4 
       58.75        37.25        52.60        54.35        83.34         2.66 
TCGA-ET-A2N5 TCGA-ET-A39I TCGA-ET-A39J TCGA-ET-A39K TCGA-ET-A39L TCGA-ET-A39M 
       80.88        33.24       106.09       107.41       108.46        84.89 
TCGA-ET-A39N TCGA-ET-A39O TCGA-ET-A39P TCGA-ET-A39R TCGA-ET-A39S TCGA-ET-A39T 
      123.32       100.57        95.34        94.13        55.10        98.20 
TCGA-ET-A3BN TCGA-ET-A3BP TCGA-ET-A3BQ TCGA-ET-A3BS TCGA-ET-A3BT TCGA-ET-A3BU 
       28.24        79.10        76.64         5.79        87.62        77.82 
TCGA-ET-A3BW TCGA-ET-A3BX TCGA-ET-A3DO TCGA-ET-A3DP TCGA-ET-A3DQ TCGA-ET-A3DR 
       46.65        52.47       116.78        94.59        84.85        80.58 
TCGA-ET-A3DS TCGA-ET-A3DT TCGA-ET-A3DU TCGA-ET-A3DV TCGA-ET-A3DW TCGA-ET-A40P 
       66.84        43.73        62.83       166.62        24.72        43.99 
TCGA-ET-A40Q TCGA-ET-A40R TCGA-ET-A40S TCGA-ET-A40T TCGA-ET-A4KN TCGA-ET-A4KQ 
       46.26        44.38        40.21        37.48        33.17        31.40 
TCGA-FE-A22Z TCGA-FE-A230 TCGA-FE-A231 TCGA-FE-A232 TCGA-FE-A233 TCGA-FE-A234 
       73.74        71.44        31.59        79.69        24.69        68.22 
TCGA-FE-A235 TCGA-FE-A236 TCGA-FE-A237 TCGA-FE-A23A TCGA-FE-A3PA TCGA-FE-A3PB 
      117.40        66.77       112.80        81.83       106.36        85.15 
TCGA-FE-A3PC TCGA-FE-A3PD TCGA-FK-A3S3 TCGA-FK-A3SB TCGA-FK-A3SE TCGA-FK-A3SG 
       85.68        78.77        71.08         4.11        22.03         0.92 
TCGA-FK-A3SH TCGA-FK-A4UB TCGA-FY-A2QD TCGA-FY-A3BL TCGA-FY-A3I4 TCGA-FY-A3I5 
       48.10       116.09         1.25        20.42        17.82         7.82 
TCGA-FY-A3NM TCGA-FY-A3NP TCGA-FY-A3ON TCGA-FY-A3R6 TCGA-FY-A3R7 TCGA-FY-A3R8 
       29.10        16.14        19.56        13.91        16.27        15.68 
TCGA-FY-A3R9 TCGA-FY-A3RA TCGA-FY-A3TY TCGA-FY-A3W9 TCGA-FY-A3WA TCGA-FY-A3YR 
       16.57        18.08        23.31        21.63        17.06        17.36 
TCGA-FY-A40K TCGA-FY-A40L TCGA-FY-A40M TCGA-FY-A40N TCGA-FY-A4B0 TCGA-FY-A4B3 
       15.16        23.87        22.49        19.04        13.81        14.04 
TCGA-FY-A4B4 TCGA-GE-A2C6 TCGA-H2-A26U TCGA-H2-A2K9 TCGA-H2-A3RH TCGA-H2-A3RI 
       21.60        12.53        17.00        21.67        12.46        11.01 
TCGA-H2-A421 TCGA-H2-A422 TCGA-IM-A3EB TCGA-IM-A3ED TCGA-IM-A3U2 TCGA-IM-A3U3 
       20.05        18.61        48.92        47.41        18.51        16.90 
TCGA-IM-A41Y TCGA-IM-A41Z TCGA-IM-A420 TCGA-IM-A4EB TCGA-J8-A3O0 TCGA-J8-A3O1 
       21.83        31.10         8.22        25.64        43.17        27.19 
TCGA-J8-A3O2 TCGA-J8-A3YD TCGA-J8-A3YE TCGA-J8-A3YF TCGA-J8-A3YG TCGA-J8-A3YH 
       11.24        31.82        27.85        24.69        22.29         5.75 
TCGA-J8-A42S TCGA-J8-A4HY TCGA-KS-A41F TCGA-KS-A41I TCGA-KS-A41J TCGA-KS-A41L 
        2.47         0.20       143.57        15.98        15.68       113.85 
TCGA-KS-A4I1 TCGA-KS-A4I3 TCGA-KS-A4I5 TCGA-KS-A4I7 TCGA-KS-A4I9 TCGA-KS-A4IB 
       26.70        43.69        18.64        32.45        87.39        84.72 
TCGA-KS-A4IC TCGA-KS-A4ID TCGA-L6-A4EP TCGA-L6-A4EQ TCGA-L6-A4EU TCGA-MK-A4N6 
       35.28        33.24        33.40        40.37         9.50        36.10 
TCGA-MK-A4N7 TCGA-MK-A4N9 TCGA-QD-A8IV TCGA-E8-A418 
       32.45        30.21        12.89         3.02 

  EIF1AX MUTATED EIF1AX WILD-TYPE 
           12.07             0.20 
  EIF1AX MUTATED EIF1AX WILD-TYPE 
           97.74           178.29 
  EIF1AX MUTATED EIF1AX WILD-TYPE 
           24.46            31.25 
[1] "12.1 - 97.7 (24.5)" "0.2 - 178.3 (31.2)"
[1] "hr=" "6.8"
D8V2, continuous
                  vv
clus               STAGE I STAGE II STAGE III STAGE IV STAGE IVA STAGE IVC
  EIF1AX MUTATED         4        1         2        0         0         0
  EIF1AX WILD-TYPE     274       49       106        2        46         6
D8V3, multiclass
           clus
vv          EIF1AX MUTATED EIF1AX WILD-TYPE
  STAGE I                4              274
  STAGE II               1               49
  STAGE III              2              106
  STAGE IV               0                2
  STAGE IVA              0               46
  STAGE IVC              0                6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus                T1  T2  T3  T4
  EIF1AX MUTATED     2   2   3   0
  EIF1AX WILD-TYPE 139 160 161  23
D8V4, multiclass
    clus
vv   EIF1AX MUTATED EIF1AX WILD-TYPE
  T1              2              139
  T2              2              160
  T3              3              161
  T4              0               23
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D8V5, binary
                  cls
clus                 0   1
  EIF1AX MUTATED     4   1
  EIF1AX WILD-TYPE 216 221
[1] "tbl2"
                  cls
clus               [,1] [,2]
  EIF1AX MUTATED      4    1
  EIF1AX WILD-TYPE  216  221
   clus
vv  EIF1AX MUTATED EIF1AX WILD-TYPE
  0              4              216
  1              1              221
[1] 2 2
[1] FALSE
D8V6, binary
                  cls
clus                 0   1
  EIF1AX MUTATED     2   0
  EIF1AX WILD-TYPE 274   9
[1] "tbl2"
                  cls
clus               [,1] [,2]
  EIF1AX MUTATED      2    0
  EIF1AX WILD-TYPE  274    9
   clus
vv  EIF1AX MUTATED EIF1AX WILD-TYPE
  0              2              274
  1              0                9
[1] 2 2
[1] FALSE
D8V7, binary
                  cls
clus                 0   1
  EIF1AX MUTATED     4   3
  EIF1AX WILD-TYPE 358 127
[1] "tbl2"
                  cls
clus               [,1] [,2]
  EIF1AX MUTATED      4    3
  EIF1AX WILD-TYPE  358  127
        clus
vv       EIF1AX MUTATED EIF1AX WILD-TYPE
  FEMALE              4              358
  MALE                3              127
[1] 2 2
[1] FALSE
D8V8, binary
                  cls
clus                 0   1
  EIF1AX MUTATED     4   3
  EIF1AX WILD-TYPE 175 295
[1] "tbl2"
                  cls
clus               [,1] [,2]
  EIF1AX MUTATED      4    3
  EIF1AX WILD-TYPE  175  295
     clus
vv    EIF1AX MUTATED EIF1AX WILD-TYPE
  NO               4              175
  YES              3              295
[1] 2 2
[1] FALSE
                  vv
clus               OTHER, SPECIFY THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  EIF1AX MUTATED                0                                             2
  EIF1AX WILD-TYPE              7                                           346
                  vv
clus               THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  EIF1AX MUTATED                                                                        5
  EIF1AX WILD-TYPE                                                                     97
                  vv
clus               THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  EIF1AX MUTATED                                                                     0
  EIF1AX WILD-TYPE                                                                  35
D8V9, multiclass
                                                                        clus
vv                                                                       EIF1AX MUTATED
  OTHER, SPECIFY                                                                      0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                       2
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)              5
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                 0
                                                                        clus
vv                                                                       EIF1AX WILD-TYPE
  OTHER, SPECIFY                                                                        7
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                       346
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)               97
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                  35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D8V10, binary
                  cls
clus                 0   1
  EIF1AX MUTATED     7   0
  EIF1AX WILD-TYPE 408  17
[1] "tbl2"
                  cls
clus               [,1] [,2]
  EIF1AX MUTATED      7    0
  EIF1AX WILD-TYPE  408   17
     clus
vv    EIF1AX MUTATED EIF1AX WILD-TYPE
  NO               7              408
  YES              0               17
[1] 2 2
[1] FALSE
                  vv
clus               MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  EIF1AX MUTATED              1                       0    6
  EIF1AX WILD-TYPE          129                      18  322
                  vv
clus               VERY ADVANCED (T4B)
  EIF1AX MUTATED                     0
  EIF1AX WILD-TYPE                   1
D8V11, multiclass
                         clus
vv                        EIF1AX MUTATED EIF1AX WILD-TYPE
  MINIMAL (T3)                         1              129
  MODERATE/ADVANCED (T4A)              0               18
  NONE                                 6              322
  VERY ADVANCED (T4B)                  0                1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus                R0  R1  R2  RX
  EIF1AX MUTATED     5   1   0   1
  EIF1AX WILD-TYPE 374  50   4  29
D8V12, multiclass
    clus
vv   EIF1AX MUTATED EIF1AX WILD-TYPE
  R0              5              374
  R1              1               50
  R2              0                4
  RX              1               29
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D8V13, continuous
D8V14, binary
                  cls
clus                 0   1
  EIF1AX MUTATED     4   2
  EIF1AX WILD-TYPE 217 260
[1] "tbl2"
                  cls
clus               [,1] [,2]
  EIF1AX MUTATED      4    2
  EIF1AX WILD-TYPE  217  260
            clus
vv           EIF1AX MUTATED EIF1AX WILD-TYPE
  MULTIFOCAL              4              217
  UNIFOCAL                2              260
[1] 2 2
[1] FALSE
D8V15, continuous
                  vv
clus               AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  EIF1AX MUTATED                                  0     0
  EIF1AX WILD-TYPE                                1    51
                  vv
clus               BLACK OR AFRICAN AMERICAN WHITE
  EIF1AX MUTATED                           0     2
  EIF1AX WILD-TYPE                        26   320
D8V16, multiclass
[1] "Remove cluster labels:" "EIF1AX MUTATED"        
clus
  EIF1AX MUTATED EIF1AX WILD-TYPE 
               2              398 
      TCGA-BJ-A290       TCGA-BJ-A45K       TCGA-CE-A13K       TCGA-DE-A0XZ 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-DJ-A13L       TCGA-DJ-A2PR       TCGA-DJ-A3UU       TCGA-DJ-A3UW 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-DJ-A3V4       TCGA-DJ-A3VI       TCGA-DJ-A3VK       TCGA-E3-A3E5 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-EL-A3CR       TCGA-EL-A3CS       TCGA-EL-A3CY       TCGA-EL-A3D0 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-EL-A3D5       TCGA-EL-A3GQ       TCGA-EL-A3H2       TCGA-EL-A3H8 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-EL-A3MY       TCGA-EL-A3N3       TCGA-ET-A3BO       TCGA-ET-A3BV 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-FK-A3SD       TCGA-FY-A76V       TCGA-J8-A3NZ       TCGA-J8-A4HW 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-L6-A4ET       TCGA-MK-A84Z       TCGA-4C-A93U       TCGA-BJ-A0YZ 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-BJ-A0Z2       TCGA-BJ-A0Z3       TCGA-BJ-A0Z9       TCGA-BJ-A0ZA 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-BJ-A0ZB       TCGA-BJ-A0ZC       TCGA-BJ-A0ZE       TCGA-BJ-A0ZH 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-BJ-A0ZJ       TCGA-BJ-A18Y       TCGA-BJ-A18Z       TCGA-BJ-A191 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-BJ-A192       TCGA-BJ-A28R       TCGA-BJ-A28S       TCGA-BJ-A28T 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-BJ-A28V       TCGA-BJ-A28X       TCGA-BJ-A28Z       TCGA-BJ-A2N7 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-BJ-A2N8       TCGA-BJ-A2N9       TCGA-BJ-A2NA       TCGA-BJ-A2P4 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-BJ-A3EZ       TCGA-BJ-A3F0       TCGA-BJ-A3PR       TCGA-BJ-A3PT 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-BJ-A3PU       TCGA-BJ-A45D       TCGA-BJ-A45E       TCGA-BJ-A45F 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-BJ-A45G       TCGA-BJ-A45H       TCGA-BJ-A45I       TCGA-BJ-A45J 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-BJ-A4O8       TCGA-BJ-A4O9       TCGA-CE-A27D       TCGA-CE-A3MD 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-CE-A3ME       TCGA-CE-A481       TCGA-CE-A482       TCGA-CE-A483 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-CE-A484       TCGA-CE-A485       TCGA-DE-A0Y2       TCGA-DE-A0Y3 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-DE-A2OL       TCGA-DE-A3KN       TCGA-DE-A4M8       TCGA-DE-A4M9 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-DE-A4MA       TCGA-DE-A4MB       TCGA-DE-A4MC       TCGA-DE-A4MD 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-DE-A69J       TCGA-DE-A69K       TCGA-DE-A7U5       TCGA-DJ-A13M 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-DJ-A13O       TCGA-DJ-A13P       TCGA-DJ-A13R       TCGA-DJ-A13S 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-DJ-A13T       TCGA-DJ-A13U       TCGA-DJ-A13W       TCGA-DJ-A1QD 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-DJ-A1QE       TCGA-DJ-A1QF       TCGA-DJ-A1QG       TCGA-DJ-A1QH 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-DJ-A1QI       TCGA-DJ-A1QM       TCGA-DJ-A1QO       TCGA-DJ-A1QQ 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-DJ-A2PN       TCGA-DJ-A2PO       TCGA-DJ-A2PQ       TCGA-DJ-A2PS 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-DJ-A2PT       TCGA-DJ-A2PU       TCGA-DJ-A2PV       TCGA-DJ-A2PW 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-DJ-A2PX       TCGA-DJ-A2PY       TCGA-DJ-A2PZ       TCGA-DJ-A2Q0 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-DJ-A2Q1       TCGA-DJ-A2Q2       TCGA-DJ-A2Q3       TCGA-DJ-A2Q4 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-DJ-A2Q5       TCGA-DJ-A2Q6       TCGA-DJ-A2Q7       TCGA-DJ-A2Q9 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-DJ-A2QA       TCGA-DJ-A2QB       TCGA-DJ-A3UK       TCGA-DJ-A3UM 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-DJ-A3UN       TCGA-DJ-A3UO       TCGA-DJ-A3UQ       TCGA-DJ-A3UR 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-DJ-A3US       TCGA-DJ-A3UT       TCGA-DJ-A3UX       TCGA-DJ-A3UY 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-DJ-A3UZ       TCGA-DJ-A3V2       TCGA-DJ-A3V3       TCGA-DJ-A3V5 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-DJ-A3V7       TCGA-DJ-A3V8       TCGA-DJ-A3V9       TCGA-DJ-A3VD 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-DJ-A3VE       TCGA-DJ-A3VF       TCGA-DJ-A3VG       TCGA-DJ-A3VJ 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-DJ-A3VL       TCGA-DJ-A3VM       TCGA-DJ-A4UL       TCGA-DJ-A4UP 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-DJ-A4UQ       TCGA-DJ-A4UR       TCGA-DJ-A4UT       TCGA-DJ-A4UW 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-DJ-A4V0       TCGA-DJ-A4V4       TCGA-DJ-A4V5       TCGA-DO-A1JZ 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-DO-A1K0       TCGA-DO-A2HM       TCGA-E3-A3DY       TCGA-E3-A3DZ 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-E3-A3E0       TCGA-E3-A3E1       TCGA-E3-A3E2       TCGA-E3-A3E3 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-E8-A242       TCGA-E8-A2EA       TCGA-E8-A2JQ       TCGA-E8-A3X7 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-E8-A413       TCGA-E8-A414       TCGA-E8-A415       TCGA-E8-A416 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-E8-A417       TCGA-E8-A419       TCGA-E8-A432       TCGA-E8-A433 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-E8-A434       TCGA-E8-A436       TCGA-E8-A437       TCGA-E8-A438 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-E8-A44K       TCGA-E8-A44M       TCGA-EL-A3CL       TCGA-EL-A3CM 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-EL-A3CN       TCGA-EL-A3CP       TCGA-EL-A3CT       TCGA-EL-A3CU 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-EL-A3CV       TCGA-EL-A3CW       TCGA-EL-A3CX       TCGA-EL-A3CZ 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-EL-A3D1       TCGA-EL-A3D4       TCGA-EL-A3D6       TCGA-EL-A3GO 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-EL-A3GP       TCGA-EL-A3GR       TCGA-EL-A3GS       TCGA-EL-A3GU 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-EL-A3GV       TCGA-EL-A3GW       TCGA-EL-A3GX       TCGA-EL-A3GY 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-EL-A3GZ       TCGA-EL-A3H1       TCGA-EL-A3H3       TCGA-EL-A3H4 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-EL-A3H5       TCGA-EL-A3H7       TCGA-EL-A3MW       TCGA-EL-A3MX 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-EL-A3MZ       TCGA-EL-A3N2       TCGA-EL-A3T0       TCGA-EL-A3T1 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-EL-A3T2       TCGA-EL-A3T3       TCGA-EL-A3T6       TCGA-EL-A3T7 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-EL-A3T8       TCGA-EL-A3T9       TCGA-EL-A3TA       TCGA-EL-A3TB 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-EL-A3ZG       TCGA-EL-A3ZH       TCGA-EL-A3ZK       TCGA-EL-A3ZL 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-EL-A3ZN       TCGA-EL-A3ZO       TCGA-EL-A3ZP       TCGA-EL-A3ZQ 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-EL-A3ZR       TCGA-EL-A3ZS       TCGA-EL-A3ZT       TCGA-EL-A4JV 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-EL-A4JW       TCGA-EL-A4JX       TCGA-EL-A4JZ       TCGA-EL-A4K0 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-EL-A4K1       TCGA-EL-A4K2       TCGA-EL-A4K4       TCGA-EL-A4K6 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-EL-A4K7       TCGA-EL-A4K9       TCGA-EL-A4KD       TCGA-EL-A4KG 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-EL-A4KH       TCGA-EL-A4KI       TCGA-EM-A22M       TCGA-EM-A22O 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-EM-A2OV       TCGA-EM-A3AI       TCGA-ET-A25G       TCGA-ET-A25I 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-ET-A25J       TCGA-ET-A25K       TCGA-ET-A25O       TCGA-ET-A25R 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-ET-A2MX       TCGA-ET-A2MY       TCGA-ET-A2MZ       TCGA-ET-A2N0 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-ET-A2N1       TCGA-ET-A2N3       TCGA-ET-A2N4       TCGA-ET-A2N5 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-ET-A39I       TCGA-ET-A39J       TCGA-ET-A39K       TCGA-ET-A39M 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-ET-A39N       TCGA-ET-A39O       TCGA-ET-A39P       TCGA-ET-A39R 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-ET-A39S       TCGA-ET-A39T       TCGA-ET-A3BN       TCGA-ET-A3BP 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-ET-A3BQ       TCGA-ET-A3BS       TCGA-ET-A3BT       TCGA-ET-A3BU 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-ET-A3BW       TCGA-ET-A3BX       TCGA-ET-A3DO       TCGA-ET-A3DP 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-ET-A3DQ       TCGA-ET-A3DR       TCGA-ET-A3DS       TCGA-ET-A3DT 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-ET-A3DU       TCGA-ET-A3DV       TCGA-ET-A3DW       TCGA-ET-A40P 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-ET-A40Q       TCGA-ET-A40R       TCGA-ET-A40S       TCGA-ET-A40T 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-ET-A4KN       TCGA-ET-A4KQ       TCGA-FE-A22Z       TCGA-FE-A230 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-FE-A231       TCGA-FE-A232       TCGA-FE-A233       TCGA-FE-A234 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-FE-A235       TCGA-FE-A236       TCGA-FE-A237       TCGA-FE-A23A 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-FE-A3PA       TCGA-FE-A3PB       TCGA-FE-A3PC       TCGA-FE-A3PD 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-FK-A3S3       TCGA-FK-A3SB       TCGA-FK-A3SE       TCGA-FK-A3SG 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-FK-A3SH       TCGA-FK-A4UB       TCGA-FY-A2QD       TCGA-FY-A3BL 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-FY-A3I4       TCGA-FY-A3I5       TCGA-FY-A3NM       TCGA-FY-A3NP 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-FY-A3ON       TCGA-FY-A3R6       TCGA-FY-A3R7       TCGA-FY-A3R8 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-FY-A3R9       TCGA-FY-A3RA       TCGA-FY-A3TY       TCGA-FY-A3W9 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-FY-A3WA       TCGA-FY-A3YR       TCGA-FY-A40K       TCGA-FY-A40L 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-FY-A40M       TCGA-FY-A40N       TCGA-FY-A4B0       TCGA-FY-A4B3 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-FY-A4B4       TCGA-GE-A2C6       TCGA-H2-A26U       TCGA-H2-A2K9 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-H2-A3RH       TCGA-H2-A3RI       TCGA-H2-A421       TCGA-H2-A422 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-IM-A3EB       TCGA-IM-A3ED       TCGA-IM-A3U2       TCGA-IM-A3U3 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-IM-A41Y       TCGA-IM-A41Z       TCGA-IM-A420       TCGA-IM-A4EB 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-J8-A3O0       TCGA-J8-A3O1       TCGA-J8-A3O2       TCGA-J8-A3YD 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-J8-A3YE       TCGA-J8-A3YF       TCGA-J8-A3YG       TCGA-J8-A3YH 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-J8-A42S       TCGA-J8-A4HY       TCGA-KS-A41F       TCGA-KS-A41I 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-KS-A41J       TCGA-KS-A41L       TCGA-KS-A4I1       TCGA-KS-A4I3 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-KS-A4I5       TCGA-KS-A4I7       TCGA-KS-A4I9       TCGA-KS-A4IB 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-KS-A4IC       TCGA-KS-A4ID       TCGA-L6-A4EP       TCGA-L6-A4EQ 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-L6-A4EU       TCGA-MK-A4N6       TCGA-MK-A4N7       TCGA-MK-A4N9 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
      TCGA-QD-A8IV       TCGA-E8-A418 
"EIF1AX WILD-TYPE" "EIF1AX WILD-TYPE" 
D8V17, binary
                  cls
clus                 0   1
  EIF1AX MUTATED     0   2
  EIF1AX WILD-TYPE  38 349
[1] "tbl2"
                  cls
clus               [,1] [,2]
  EIF1AX MUTATED      0    2
  EIF1AX WILD-TYPE   38  349
                        clus
vv                       EIF1AX MUTATED EIF1AX WILD-TYPE
  HISPANIC OR LATINO                  0               38
  NOT HISPANIC OR LATINO              2              349
[1] 2 2
[1] FALSE

Clustering(9) Variable = DLX6 MUTATION ANALYSIS
D9V1, survival
                sevent
clus2              0   1
  DLX6 MUTATED     7   0
  DLX6 WILD-TYPE 470  14
  DLX6 MUTATED DLX6 WILD-TYPE 
             7            484 
  DLX6 MUTATED DLX6 WILD-TYPE 
             0             14 
$`DLX6 MUTATED`
TCGA-E3-A3E3 TCGA-EL-A4K9 TCGA-EL-A4KG TCGA-EM-A2P0 TCGA-EM-A3FN TCGA-EM-A4FV 
       52.44        47.84        24.30        17.59        12.07        24.46 
TCGA-ET-A40P 
       43.99 

$`DLX6 WILD-TYPE`
TCGA-BJ-A290 TCGA-BJ-A45K TCGA-CE-A13K TCGA-DE-A0XZ TCGA-DJ-A13L TCGA-DJ-A2PR 
       30.21        23.18        12.66        35.84         9.96        27.45 
TCGA-DJ-A3UU TCGA-DJ-A3UW TCGA-DJ-A3V4 TCGA-DJ-A3VI TCGA-DJ-A3VK TCGA-E3-A3E5 
       23.44        59.57        42.54         3.12        24.76        39.95 
TCGA-EL-A3CR TCGA-EL-A3CS TCGA-EL-A3CY TCGA-EL-A3D0 TCGA-EL-A3D5 TCGA-EL-A3GQ 
        7.66        45.53         4.18       139.86        57.11        50.24 
TCGA-EL-A3H2 TCGA-EL-A3H8 TCGA-EL-A3MY TCGA-EL-A3N3 TCGA-EM-A3AQ TCGA-ET-A3BO 
       33.50       150.48        17.52       178.29        29.72        50.40 
TCGA-ET-A3BV TCGA-FK-A3SD TCGA-FY-A76V TCGA-J8-A3NZ TCGA-J8-A4HW TCGA-L6-A4ET 
       75.42         1.05         1.68        17.23         2.60        21.83 
TCGA-MK-A84Z TCGA-4C-A93U TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0Z3 
       23.93         4.24        24.79        13.78        49.78        16.34 
TCGA-BJ-A0Z9 TCGA-BJ-A0ZA TCGA-BJ-A0ZB TCGA-BJ-A0ZC TCGA-BJ-A0ZE TCGA-BJ-A0ZG 
       41.33        18.87         4.01        11.57        16.73        25.48 
TCGA-BJ-A0ZH TCGA-BJ-A0ZJ TCGA-BJ-A18Y TCGA-BJ-A18Z TCGA-BJ-A191 TCGA-BJ-A192 
       15.12        42.08        51.39        41.52         4.83        44.35 
TCGA-BJ-A28R TCGA-BJ-A28S TCGA-BJ-A28T TCGA-BJ-A28V TCGA-BJ-A28X TCGA-BJ-A28Z 
       42.15        21.04        35.54        32.45        30.97        11.08 
TCGA-BJ-A2N7 TCGA-BJ-A2N8 TCGA-BJ-A2N9 TCGA-BJ-A2NA TCGA-BJ-A2P4 TCGA-BJ-A3EZ 
       18.38        16.57        20.48        18.97        12.82        16.01 
TCGA-BJ-A3F0 TCGA-BJ-A3PR TCGA-BJ-A3PT TCGA-BJ-A3PU TCGA-BJ-A45D TCGA-BJ-A45E 
       13.94        36.39        23.31        18.64        10.88        21.01 
TCGA-BJ-A45F TCGA-BJ-A45G TCGA-BJ-A45H TCGA-BJ-A45I TCGA-BJ-A45J TCGA-BJ-A4O8 
        3.45        23.84        28.44        15.45        21.63        19.43 
TCGA-BJ-A4O9 TCGA-CE-A27D TCGA-CE-A3MD TCGA-CE-A3ME TCGA-CE-A481 TCGA-CE-A482 
       23.47        12.30        12.79        12.46        11.38        10.68 
TCGA-CE-A483 TCGA-CE-A484 TCGA-CE-A485 TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DE-A2OL 
       15.02        12.43        12.66        21.63        50.17        37.64 
TCGA-DE-A3KN TCGA-DE-A4M8 TCGA-DE-A4M9 TCGA-DE-A4MA TCGA-DE-A4MB TCGA-DE-A4MC 
       27.32        18.54        18.84        30.12        11.57        30.02 
TCGA-DE-A4MD TCGA-DE-A69J TCGA-DE-A69K TCGA-DE-A7U5 TCGA-DJ-A13M TCGA-DJ-A13O 
       25.12        14.70        14.27         2.76        48.79        38.17 
TCGA-DJ-A13P TCGA-DJ-A13R TCGA-DJ-A13S TCGA-DJ-A13T TCGA-DJ-A13U TCGA-DJ-A13V 
      169.32        18.58         8.71        56.19        52.27        43.17 
TCGA-DJ-A13W TCGA-DJ-A13X TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QG 
       52.37         8.32        48.07       135.91        30.61        44.98 
TCGA-DJ-A1QH TCGA-DJ-A1QI TCGA-DJ-A1QL TCGA-DJ-A1QM TCGA-DJ-A1QN TCGA-DJ-A1QO 
       42.51        14.96        17.59         6.02        42.58        47.41 
TCGA-DJ-A1QQ TCGA-DJ-A2PN TCGA-DJ-A2PO TCGA-DJ-A2PP TCGA-DJ-A2PQ TCGA-DJ-A2PS 
       17.56        10.09         7.99        30.58        35.41        26.20 
TCGA-DJ-A2PT TCGA-DJ-A2PU TCGA-DJ-A2PV TCGA-DJ-A2PW TCGA-DJ-A2PX TCGA-DJ-A2PY 
       38.83        33.96        31.99        34.85        28.96         8.78 
TCGA-DJ-A2PZ TCGA-DJ-A2Q0 TCGA-DJ-A2Q1 TCGA-DJ-A2Q2 TCGA-DJ-A2Q3 TCGA-DJ-A2Q4 
        8.42        34.36        37.74        43.96        40.24        33.93 
TCGA-DJ-A2Q5 TCGA-DJ-A2Q6 TCGA-DJ-A2Q7 TCGA-DJ-A2Q8 TCGA-DJ-A2Q9 TCGA-DJ-A2QA 
       37.48        36.46        35.11        39.09        35.90        33.53 
TCGA-DJ-A2QB TCGA-DJ-A2QC TCGA-DJ-A3UK TCGA-DJ-A3UM TCGA-DJ-A3UN TCGA-DJ-A3UO 
       35.18        39.95        36.92        31.04        32.42        31.46 
TCGA-DJ-A3UP TCGA-DJ-A3UQ TCGA-DJ-A3UR TCGA-DJ-A3US TCGA-DJ-A3UT TCGA-DJ-A3UX 
       16.41        19.56        36.33        32.81        36.33        11.34 
TCGA-DJ-A3UY TCGA-DJ-A3UZ TCGA-DJ-A3V0 TCGA-DJ-A3V2 TCGA-DJ-A3V3 TCGA-DJ-A3V5 
       35.87        40.96        36.99        20.22        30.61        19.20 
TCGA-DJ-A3V7 TCGA-DJ-A3V8 TCGA-DJ-A3V9 TCGA-DJ-A3VA TCGA-DJ-A3VB TCGA-DJ-A3VD 
       23.21        21.27        20.48        24.82        22.92        40.70 
TCGA-DJ-A3VE TCGA-DJ-A3VF TCGA-DJ-A3VG TCGA-DJ-A3VJ TCGA-DJ-A3VL TCGA-DJ-A3VM 
       18.97         9.60        35.67        36.43        23.44        27.62 
TCGA-DJ-A4UL TCGA-DJ-A4UP TCGA-DJ-A4UQ TCGA-DJ-A4UR TCGA-DJ-A4UT TCGA-DJ-A4UW 
       30.87        30.12        33.04        34.78        27.06        26.93 
TCGA-DJ-A4V0 TCGA-DJ-A4V2 TCGA-DJ-A4V4 TCGA-DJ-A4V5 TCGA-DO-A1JZ TCGA-DO-A1K0 
       35.54         3.12        15.81        35.38        54.90        21.53 
TCGA-DO-A2HM TCGA-E3-A3DY TCGA-E3-A3DZ TCGA-E3-A3E0 TCGA-E3-A3E1 TCGA-E3-A3E2 
        2.33        92.55        47.21        66.38        80.52        63.19 
TCGA-E8-A242 TCGA-E8-A2EA TCGA-E8-A2JQ TCGA-E8-A3X7 TCGA-E8-A413 TCGA-E8-A414 
       31.23        35.67        11.70        31.27        29.98        31.50 
TCGA-E8-A415 TCGA-E8-A416 TCGA-E8-A417 TCGA-E8-A419 TCGA-E8-A432 TCGA-E8-A433 
       31.04        31.30        30.84        25.45        30.61        31.27 
TCGA-E8-A434 TCGA-E8-A436 TCGA-E8-A437 TCGA-E8-A438 TCGA-E8-A44K TCGA-E8-A44M 
       31.33        14.96        39.88        33.50        31.00        30.15 
TCGA-EL-A3CL TCGA-EL-A3CM TCGA-EL-A3CN TCGA-EL-A3CO TCGA-EL-A3CP TCGA-EL-A3CT 
       31.66        26.73       155.54        97.74       158.83        60.95 
TCGA-EL-A3CU TCGA-EL-A3CV TCGA-EL-A3CW TCGA-EL-A3CX TCGA-EL-A3CZ TCGA-EL-A3D1 
      157.15        37.94        57.01       106.62        79.50        98.53 
TCGA-EL-A3D4 TCGA-EL-A3D6 TCGA-EL-A3GO TCGA-EL-A3GP TCGA-EL-A3GR TCGA-EL-A3GS 
       69.57       108.36        64.87        49.51       115.10        65.39 
TCGA-EL-A3GU TCGA-EL-A3GV TCGA-EL-A3GW TCGA-EL-A3GX TCGA-EL-A3GY TCGA-EL-A3GZ 
      136.01        50.37        50.20       147.75       101.13       139.99 
TCGA-EL-A3H1 TCGA-EL-A3H3 TCGA-EL-A3H4 TCGA-EL-A3H5 TCGA-EL-A3H7 TCGA-EL-A3MW 
       49.32        43.36        49.71        83.57       139.00       108.66 
TCGA-EL-A3MX TCGA-EL-A3MZ TCGA-EL-A3N2 TCGA-EL-A3T0 TCGA-EL-A3T1 TCGA-EL-A3T2 
       57.63        52.50        29.65       142.52       129.57        32.48 
TCGA-EL-A3T3 TCGA-EL-A3T6 TCGA-EL-A3T7 TCGA-EL-A3T8 TCGA-EL-A3T9 TCGA-EL-A3TA 
      132.07        98.24        41.29       107.47         5.72        66.90 
TCGA-EL-A3TB TCGA-EL-A3ZG TCGA-EL-A3ZH TCGA-EL-A3ZK TCGA-EL-A3ZL TCGA-EL-A3ZM 
       82.82        89.56        91.17        51.78        62.30        36.03 
TCGA-EL-A3ZN TCGA-EL-A3ZO TCGA-EL-A3ZP TCGA-EL-A3ZQ TCGA-EL-A3ZR TCGA-EL-A3ZS 
       53.06        72.69        65.49        61.22        60.16         7.07 
TCGA-EL-A3ZT TCGA-EL-A4JV TCGA-EL-A4JW TCGA-EL-A4JX TCGA-EL-A4JZ TCGA-EL-A4K0 
       59.44        57.47        34.72        45.96        61.02        31.04 
TCGA-EL-A4K1 TCGA-EL-A4K2 TCGA-EL-A4K4 TCGA-EL-A4K6 TCGA-EL-A4K7 TCGA-EL-A4KD 
       34.39        30.51        53.36        44.15        41.13        43.59 
TCGA-EL-A4KH TCGA-EL-A4KI TCGA-EM-A1CS TCGA-EM-A1CT TCGA-EM-A1CU TCGA-EM-A1CV 
       27.06        23.90        26.86        18.18        20.91        48.49 
TCGA-EM-A1CW TCGA-EM-A1YA TCGA-EM-A1YB TCGA-EM-A1YC TCGA-EM-A1YD TCGA-EM-A1YE 
       18.05        19.79        19.46        78.61        57.01        54.08 
TCGA-EM-A22I TCGA-EM-A22J TCGA-EM-A22K TCGA-EM-A22L TCGA-EM-A22M TCGA-EM-A22N 
       14.73        14.50        15.75        10.45        14.53        10.65 
TCGA-EM-A22O TCGA-EM-A22P TCGA-EM-A22Q TCGA-EM-A2CJ TCGA-EM-A2CK TCGA-EM-A2CL 
       44.19        41.29        14.24        47.57        17.88        13.18 
TCGA-EM-A2CN TCGA-EM-A2CO TCGA-EM-A2CP TCGA-EM-A2CQ TCGA-EM-A2CR TCGA-EM-A2CS 
       23.51         6.05         2.99        12.30        13.64        27.65 
TCGA-EM-A2CT TCGA-EM-A2CU TCGA-EM-A2OV TCGA-EM-A2OW TCGA-EM-A2OX TCGA-EM-A2OY 
       48.46        13.15        22.16        40.34        19.73        32.32 
TCGA-EM-A2OZ TCGA-EM-A2P1 TCGA-EM-A2P2 TCGA-EM-A2P3 TCGA-EM-A3AI TCGA-EM-A3AJ 
       33.96        17.46        17.29        14.60        22.52        30.94 
TCGA-EM-A3AK TCGA-EM-A3AL TCGA-EM-A3AN TCGA-EM-A3AO TCGA-EM-A3AP TCGA-EM-A3AR 
       15.68        14.14        33.07        44.52         8.35        37.25 
TCGA-EM-A3FJ TCGA-EM-A3FK TCGA-EM-A3FL TCGA-EM-A3FM TCGA-EM-A3FO TCGA-EM-A3FP 
       27.95        23.77        47.38        21.01        17.49        17.39 
TCGA-EM-A3FQ TCGA-EM-A3FR TCGA-EM-A3O3 TCGA-EM-A3O6 TCGA-EM-A3O7 TCGA-EM-A3O8 
       16.18        15.02        14.50        15.06         7.33        12.53 
TCGA-EM-A3O9 TCGA-EM-A3OA TCGA-EM-A3OB TCGA-EM-A3ST TCGA-EM-A3SU TCGA-EM-A3SX 
        9.24        27.02        38.66        38.86        29.95        29.85 
TCGA-EM-A3SY TCGA-EM-A3SZ TCGA-EM-A4FF TCGA-EM-A4FH TCGA-EM-A4FK TCGA-EM-A4FM 
       13.51        12.79        84.59        29.33        21.34         5.33 
TCGA-EM-A4FN TCGA-EM-A4FO TCGA-EM-A4FQ TCGA-EM-A4FR TCGA-EM-A4FU TCGA-EM-A4G1 
       26.37        26.37        22.45        21.53        60.49        13.68 
TCGA-ET-A25G TCGA-ET-A25I TCGA-ET-A25J TCGA-ET-A25K TCGA-ET-A25O TCGA-ET-A25R 
       81.93        81.70        77.56        70.42        65.29        63.45 
TCGA-ET-A2MX TCGA-ET-A2MY TCGA-ET-A2MZ TCGA-ET-A2N0 TCGA-ET-A2N1 TCGA-ET-A2N3 
       88.41        58.75        37.25        52.60        54.35        83.34 
TCGA-ET-A2N4 TCGA-ET-A2N5 TCGA-ET-A39I TCGA-ET-A39J TCGA-ET-A39K TCGA-ET-A39L 
        2.66        80.88        33.24       106.09       107.41       108.46 
TCGA-ET-A39M TCGA-ET-A39N TCGA-ET-A39O TCGA-ET-A39P TCGA-ET-A39R TCGA-ET-A39S 
       84.89       123.32       100.57        95.34        94.13        55.10 
TCGA-ET-A39T TCGA-ET-A3BN TCGA-ET-A3BP TCGA-ET-A3BQ TCGA-ET-A3BS TCGA-ET-A3BT 
       98.20        28.24        79.10        76.64         5.79        87.62 
TCGA-ET-A3BU TCGA-ET-A3BW TCGA-ET-A3BX TCGA-ET-A3DO TCGA-ET-A3DP TCGA-ET-A3DQ 
       77.82        46.65        52.47       116.78        94.59        84.85 
TCGA-ET-A3DR TCGA-ET-A3DS TCGA-ET-A3DT TCGA-ET-A3DU TCGA-ET-A3DV TCGA-ET-A3DW 
       80.58        66.84        43.73        62.83       166.62        24.72 
TCGA-ET-A40Q TCGA-ET-A40R TCGA-ET-A40S TCGA-ET-A40T TCGA-ET-A4KN TCGA-ET-A4KQ 
       46.26        44.38        40.21        37.48        33.17        31.40 
TCGA-FE-A22Z TCGA-FE-A230 TCGA-FE-A231 TCGA-FE-A232 TCGA-FE-A233 TCGA-FE-A234 
       73.74        71.44        31.59        79.69        24.69        68.22 
TCGA-FE-A235 TCGA-FE-A236 TCGA-FE-A237 TCGA-FE-A23A TCGA-FE-A3PA TCGA-FE-A3PB 
      117.40        66.77       112.80        81.83       106.36        85.15 
TCGA-FE-A3PC TCGA-FE-A3PD TCGA-FK-A3S3 TCGA-FK-A3SB TCGA-FK-A3SE TCGA-FK-A3SG 
       85.68        78.77        71.08         4.11        22.03         0.92 
TCGA-FK-A3SH TCGA-FK-A4UB TCGA-FY-A2QD TCGA-FY-A3BL TCGA-FY-A3I4 TCGA-FY-A3I5 
       48.10       116.09         1.25        20.42        17.82         7.82 
TCGA-FY-A3NM TCGA-FY-A3NP TCGA-FY-A3ON TCGA-FY-A3R6 TCGA-FY-A3R7 TCGA-FY-A3R8 
       29.10        16.14        19.56        13.91        16.27        15.68 
TCGA-FY-A3R9 TCGA-FY-A3RA TCGA-FY-A3TY TCGA-FY-A3W9 TCGA-FY-A3WA TCGA-FY-A3YR 
       16.57        18.08        23.31        21.63        17.06        17.36 
TCGA-FY-A40K TCGA-FY-A40L TCGA-FY-A40M TCGA-FY-A40N TCGA-FY-A4B0 TCGA-FY-A4B3 
       15.16        23.87        22.49        19.04        13.81        14.04 
TCGA-FY-A4B4 TCGA-GE-A2C6 TCGA-H2-A26U TCGA-H2-A2K9 TCGA-H2-A3RH TCGA-H2-A3RI 
       21.60        12.53        17.00        21.67        12.46        11.01 
TCGA-H2-A421 TCGA-H2-A422 TCGA-IM-A3EB TCGA-IM-A3ED TCGA-IM-A3U2 TCGA-IM-A3U3 
       20.05        18.61        48.92        47.41        18.51        16.90 
TCGA-IM-A41Y TCGA-IM-A41Z TCGA-IM-A420 TCGA-IM-A4EB TCGA-J8-A3O0 TCGA-J8-A3O1 
       21.83        31.10         8.22        25.64        43.17        27.19 
TCGA-J8-A3O2 TCGA-J8-A3YD TCGA-J8-A3YE TCGA-J8-A3YF TCGA-J8-A3YG TCGA-J8-A3YH 
       11.24        31.82        27.85        24.69        22.29         5.75 
TCGA-J8-A42S TCGA-J8-A4HY TCGA-KS-A41F TCGA-KS-A41I TCGA-KS-A41J TCGA-KS-A41L 
        2.47         0.20       143.57        15.98        15.68       113.85 
TCGA-KS-A4I1 TCGA-KS-A4I3 TCGA-KS-A4I5 TCGA-KS-A4I7 TCGA-KS-A4I9 TCGA-KS-A4IB 
       26.70        43.69        18.64        32.45        87.39        84.72 
TCGA-KS-A4IC TCGA-KS-A4ID TCGA-L6-A4EP TCGA-L6-A4EQ TCGA-L6-A4EU TCGA-MK-A4N6 
       35.28        33.24        33.40        40.37         9.50        36.10 
TCGA-MK-A4N7 TCGA-MK-A4N9 TCGA-QD-A8IV TCGA-E8-A418 
       32.45        30.21        12.89         3.02 

  DLX6 MUTATED DLX6 WILD-TYPE 
         12.07           0.20 
  DLX6 MUTATED DLX6 WILD-TYPE 
         52.44         178.29 
  DLX6 MUTATED DLX6 WILD-TYPE 
        24.460         31.165 
[1] "12.1 - 52.4 (24.5)" "0.2 - 178.3 (31.2)"
[1] "hr="     "3300000"
D9V2, continuous
                vv
clus             STAGE I STAGE II STAGE III STAGE IV STAGE IVA STAGE IVC
  DLX6 MUTATED         5        2         0        0         0         0
  DLX6 WILD-TYPE     273       48       108        2        46         6
D9V3, multiclass
           clus
vv          DLX6 MUTATED DLX6 WILD-TYPE
  STAGE I              5            273
  STAGE II             2             48
  STAGE III            0            108
  STAGE IV             0              2
  STAGE IVA            0             46
  STAGE IVC            0              6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus              T1  T2  T3  T4
  DLX6 MUTATED     1   4   2   0
  DLX6 WILD-TYPE 140 158 162  23
D9V4, multiclass
    clus
vv   DLX6 MUTATED DLX6 WILD-TYPE
  T1            1            140
  T2            4            158
  T3            2            162
  T4            0             23
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D9V5, binary
                cls
clus               0   1
  DLX6 MUTATED     6   1
  DLX6 WILD-TYPE 214 221
[1] "tbl2"
                cls
clus             [,1] [,2]
  DLX6 MUTATED      6    1
  DLX6 WILD-TYPE  214  221
   clus
vv  DLX6 MUTATED DLX6 WILD-TYPE
  0            6            214
  1            1            221
[1] 2 2
[1] FALSE
D9V6, binary
                cls
clus               0   1
  DLX6 MUTATED     3   0
  DLX6 WILD-TYPE 273   9
[1] "tbl2"
                cls
clus             [,1] [,2]
  DLX6 MUTATED      3    0
  DLX6 WILD-TYPE  273    9
   clus
vv  DLX6 MUTATED DLX6 WILD-TYPE
  0            3            273
  1            0              9
[1] 2 2
[1] FALSE
D9V7, binary
                cls
clus               0   1
  DLX6 MUTATED     5   2
  DLX6 WILD-TYPE 357 128
[1] "tbl2"
                cls
clus             [,1] [,2]
  DLX6 MUTATED      5    2
  DLX6 WILD-TYPE  357  128
        clus
vv       DLX6 MUTATED DLX6 WILD-TYPE
  FEMALE            5            357
  MALE              2            128
[1] 2 2
[1] FALSE
D9V8, binary
                cls
clus               0   1
  DLX6 MUTATED     3   4
  DLX6 WILD-TYPE 176 294
[1] "tbl2"
                cls
clus             [,1] [,2]
  DLX6 MUTATED      3    4
  DLX6 WILD-TYPE  176  294
     clus
vv    DLX6 MUTATED DLX6 WILD-TYPE
  NO             3            176
  YES            4            294
[1] 2 2
[1] FALSE
                vv
clus             OTHER, SPECIFY THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  DLX6 MUTATED                0                                             5
  DLX6 WILD-TYPE              7                                           343
                vv
clus             THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  DLX6 MUTATED                                                                        2
  DLX6 WILD-TYPE                                                                    100
                vv
clus             THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  DLX6 MUTATED                                                                     0
  DLX6 WILD-TYPE                                                                  35
D9V9, multiclass
                                                                        clus
vv                                                                       DLX6 MUTATED
  OTHER, SPECIFY                                                                    0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                     5
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)            2
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)               0
                                                                        clus
vv                                                                       DLX6 WILD-TYPE
  OTHER, SPECIFY                                                                      7
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                     343
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)            100
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D9V10, binary
                cls
clus               0   1
  DLX6 MUTATED     7   0
  DLX6 WILD-TYPE 408  17
[1] "tbl2"
                cls
clus             [,1] [,2]
  DLX6 MUTATED      7    0
  DLX6 WILD-TYPE  408   17
     clus
vv    DLX6 MUTATED DLX6 WILD-TYPE
  NO             7            408
  YES            0             17
[1] 2 2
[1] FALSE
                vv
clus             MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE VERY ADVANCED (T4B)
  DLX6 MUTATED              2                       0    5                   0
  DLX6 WILD-TYPE          128                      18  323                   1
D9V11, multiclass
                         clus
vv                        DLX6 MUTATED DLX6 WILD-TYPE
  MINIMAL (T3)                       2            128
  MODERATE/ADVANCED (T4A)            0             18
  NONE                               5            323
  VERY ADVANCED (T4B)                0              1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus              R0  R1  R2  RX
  DLX6 MUTATED     7   0   0   0
  DLX6 WILD-TYPE 372  51   4  30
D9V12, multiclass
    clus
vv   DLX6 MUTATED DLX6 WILD-TYPE
  R0            7            372
  R1            0             51
  R2            0              4
  RX            0             30
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D9V13, continuous
D9V14, binary
                cls
clus               0   1
  DLX6 MUTATED     3   4
  DLX6 WILD-TYPE 218 258
[1] "tbl2"
                cls
clus             [,1] [,2]
  DLX6 MUTATED      3    4
  DLX6 WILD-TYPE  218  258
            clus
vv           DLX6 MUTATED DLX6 WILD-TYPE
  MULTIFOCAL            3            218
  UNIFOCAL              4            258
[1] 2 2
[1] FALSE
D9V15, continuous
                vv
clus             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DLX6 MUTATED                                  0     0
  DLX6 WILD-TYPE                                1    51
                vv
clus             BLACK OR AFRICAN AMERICAN WHITE
  DLX6 MUTATED                           0     4
  DLX6 WILD-TYPE                        26   318
D9V16, multiclass
                                  clus
vv                                 DLX6 MUTATED DLX6 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE            0              1
  ASIAN                                       0             51
  BLACK OR AFRICAN AMERICAN                   0             26
  WHITE                                       4            318
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D9V17, binary
                cls
clus               0   1
  DLX6 MUTATED     0   4
  DLX6 WILD-TYPE  38 347
[1] "tbl2"
                cls
clus             [,1] [,2]
  DLX6 MUTATED      0    4
  DLX6 WILD-TYPE   38  347
                        clus
vv                       DLX6 MUTATED DLX6 WILD-TYPE
  HISPANIC OR LATINO                0             38
  NOT HISPANIC OR LATINO            4            347
[1] 2 2
[1] FALSE

Clustering(10) Variable = GPR44 MUTATION ANALYSIS
D10V1, survival
                 sevent
clus2               0   1
  GPR44 MUTATED     4   0
  GPR44 WILD-TYPE 473  14
  GPR44 MUTATED GPR44 WILD-TYPE 
              4             487 
  GPR44 MUTATED GPR44 WILD-TYPE 
              0              14 
$`GPR44 MUTATED`
TCGA-EL-A3D0 TCGA-CE-A3ME TCGA-EL-A3TA TCGA-FY-A3I4 
      139.86        12.46        66.90        17.82 

$`GPR44 WILD-TYPE`
TCGA-BJ-A290 TCGA-BJ-A45K TCGA-CE-A13K TCGA-DE-A0XZ TCGA-DJ-A13L TCGA-DJ-A2PR 
       30.21        23.18        12.66        35.84         9.96        27.45 
TCGA-DJ-A3UU TCGA-DJ-A3UW TCGA-DJ-A3V4 TCGA-DJ-A3VI TCGA-DJ-A3VK TCGA-E3-A3E5 
       23.44        59.57        42.54         3.12        24.76        39.95 
TCGA-EL-A3CR TCGA-EL-A3CS TCGA-EL-A3CY TCGA-EL-A3D5 TCGA-EL-A3GQ TCGA-EL-A3H2 
        7.66        45.53         4.18        57.11        50.24        33.50 
TCGA-EL-A3H8 TCGA-EL-A3MY TCGA-EL-A3N3 TCGA-EM-A3AQ TCGA-ET-A3BO TCGA-ET-A3BV 
      150.48        17.52       178.29        29.72        50.40        75.42 
TCGA-FK-A3SD TCGA-FY-A76V TCGA-J8-A3NZ TCGA-J8-A4HW TCGA-L6-A4ET TCGA-MK-A84Z 
        1.05         1.68        17.23         2.60        21.83        23.93 
TCGA-4C-A93U TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0Z3 TCGA-BJ-A0Z9 
        4.24        24.79        13.78        49.78        16.34        41.33 
TCGA-BJ-A0ZA TCGA-BJ-A0ZB TCGA-BJ-A0ZC TCGA-BJ-A0ZE TCGA-BJ-A0ZG TCGA-BJ-A0ZH 
       18.87         4.01        11.57        16.73        25.48        15.12 
TCGA-BJ-A0ZJ TCGA-BJ-A18Y TCGA-BJ-A18Z TCGA-BJ-A191 TCGA-BJ-A192 TCGA-BJ-A28R 
       42.08        51.39        41.52         4.83        44.35        42.15 
TCGA-BJ-A28S TCGA-BJ-A28T TCGA-BJ-A28V TCGA-BJ-A28X TCGA-BJ-A28Z TCGA-BJ-A2N7 
       21.04        35.54        32.45        30.97        11.08        18.38 
TCGA-BJ-A2N8 TCGA-BJ-A2N9 TCGA-BJ-A2NA TCGA-BJ-A2P4 TCGA-BJ-A3EZ TCGA-BJ-A3F0 
       16.57        20.48        18.97        12.82        16.01        13.94 
TCGA-BJ-A3PR TCGA-BJ-A3PT TCGA-BJ-A3PU TCGA-BJ-A45D TCGA-BJ-A45E TCGA-BJ-A45F 
       36.39        23.31        18.64        10.88        21.01         3.45 
TCGA-BJ-A45G TCGA-BJ-A45H TCGA-BJ-A45I TCGA-BJ-A45J TCGA-BJ-A4O8 TCGA-BJ-A4O9 
       23.84        28.44        15.45        21.63        19.43        23.47 
TCGA-CE-A27D TCGA-CE-A3MD TCGA-CE-A481 TCGA-CE-A482 TCGA-CE-A483 TCGA-CE-A484 
       12.30        12.79        11.38        10.68        15.02        12.43 
TCGA-CE-A485 TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DE-A2OL TCGA-DE-A3KN TCGA-DE-A4M8 
       12.66        21.63        50.17        37.64        27.32        18.54 
TCGA-DE-A4M9 TCGA-DE-A4MA TCGA-DE-A4MB TCGA-DE-A4MC TCGA-DE-A4MD TCGA-DE-A69J 
       18.84        30.12        11.57        30.02        25.12        14.70 
TCGA-DE-A69K TCGA-DE-A7U5 TCGA-DJ-A13M TCGA-DJ-A13O TCGA-DJ-A13P TCGA-DJ-A13R 
       14.27         2.76        48.79        38.17       169.32        18.58 
TCGA-DJ-A13S TCGA-DJ-A13T TCGA-DJ-A13U TCGA-DJ-A13V TCGA-DJ-A13W TCGA-DJ-A13X 
        8.71        56.19        52.27        43.17        52.37         8.32 
TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QG TCGA-DJ-A1QH TCGA-DJ-A1QI 
       48.07       135.91        30.61        44.98        42.51        14.96 
TCGA-DJ-A1QL TCGA-DJ-A1QM TCGA-DJ-A1QN TCGA-DJ-A1QO TCGA-DJ-A1QQ TCGA-DJ-A2PN 
       17.59         6.02        42.58        47.41        17.56        10.09 
TCGA-DJ-A2PO TCGA-DJ-A2PP TCGA-DJ-A2PQ TCGA-DJ-A2PS TCGA-DJ-A2PT TCGA-DJ-A2PU 
        7.99        30.58        35.41        26.20        38.83        33.96 
TCGA-DJ-A2PV TCGA-DJ-A2PW TCGA-DJ-A2PX TCGA-DJ-A2PY TCGA-DJ-A2PZ TCGA-DJ-A2Q0 
       31.99        34.85        28.96         8.78         8.42        34.36 
TCGA-DJ-A2Q1 TCGA-DJ-A2Q2 TCGA-DJ-A2Q3 TCGA-DJ-A2Q4 TCGA-DJ-A2Q5 TCGA-DJ-A2Q6 
       37.74        43.96        40.24        33.93        37.48        36.46 
TCGA-DJ-A2Q7 TCGA-DJ-A2Q8 TCGA-DJ-A2Q9 TCGA-DJ-A2QA TCGA-DJ-A2QB TCGA-DJ-A2QC 
       35.11        39.09        35.90        33.53        35.18        39.95 
TCGA-DJ-A3UK TCGA-DJ-A3UM TCGA-DJ-A3UN TCGA-DJ-A3UO TCGA-DJ-A3UP TCGA-DJ-A3UQ 
       36.92        31.04        32.42        31.46        16.41        19.56 
TCGA-DJ-A3UR TCGA-DJ-A3US TCGA-DJ-A3UT TCGA-DJ-A3UX TCGA-DJ-A3UY TCGA-DJ-A3UZ 
       36.33        32.81        36.33        11.34        35.87        40.96 
TCGA-DJ-A3V0 TCGA-DJ-A3V2 TCGA-DJ-A3V3 TCGA-DJ-A3V5 TCGA-DJ-A3V7 TCGA-DJ-A3V8 
       36.99        20.22        30.61        19.20        23.21        21.27 
TCGA-DJ-A3V9 TCGA-DJ-A3VA TCGA-DJ-A3VB TCGA-DJ-A3VD TCGA-DJ-A3VE TCGA-DJ-A3VF 
       20.48        24.82        22.92        40.70        18.97         9.60 
TCGA-DJ-A3VG TCGA-DJ-A3VJ TCGA-DJ-A3VL TCGA-DJ-A3VM TCGA-DJ-A4UL TCGA-DJ-A4UP 
       35.67        36.43        23.44        27.62        30.87        30.12 
TCGA-DJ-A4UQ TCGA-DJ-A4UR TCGA-DJ-A4UT TCGA-DJ-A4UW TCGA-DJ-A4V0 TCGA-DJ-A4V2 
       33.04        34.78        27.06        26.93        35.54         3.12 
TCGA-DJ-A4V4 TCGA-DJ-A4V5 TCGA-DO-A1JZ TCGA-DO-A1K0 TCGA-DO-A2HM TCGA-E3-A3DY 
       15.81        35.38        54.90        21.53         2.33        92.55 
TCGA-E3-A3DZ TCGA-E3-A3E0 TCGA-E3-A3E1 TCGA-E3-A3E2 TCGA-E3-A3E3 TCGA-E8-A242 
       47.21        66.38        80.52        63.19        52.44        31.23 
TCGA-E8-A2EA TCGA-E8-A2JQ TCGA-E8-A3X7 TCGA-E8-A413 TCGA-E8-A414 TCGA-E8-A415 
       35.67        11.70        31.27        29.98        31.50        31.04 
TCGA-E8-A416 TCGA-E8-A417 TCGA-E8-A419 TCGA-E8-A432 TCGA-E8-A433 TCGA-E8-A434 
       31.30        30.84        25.45        30.61        31.27        31.33 
TCGA-E8-A436 TCGA-E8-A437 TCGA-E8-A438 TCGA-E8-A44K TCGA-E8-A44M TCGA-EL-A3CL 
       14.96        39.88        33.50        31.00        30.15        31.66 
TCGA-EL-A3CM TCGA-EL-A3CN TCGA-EL-A3CO TCGA-EL-A3CP TCGA-EL-A3CT TCGA-EL-A3CU 
       26.73       155.54        97.74       158.83        60.95       157.15 
TCGA-EL-A3CV TCGA-EL-A3CW TCGA-EL-A3CX TCGA-EL-A3CZ TCGA-EL-A3D1 TCGA-EL-A3D4 
       37.94        57.01       106.62        79.50        98.53        69.57 
TCGA-EL-A3D6 TCGA-EL-A3GO TCGA-EL-A3GP TCGA-EL-A3GR TCGA-EL-A3GS TCGA-EL-A3GU 
      108.36        64.87        49.51       115.10        65.39       136.01 
TCGA-EL-A3GV TCGA-EL-A3GW TCGA-EL-A3GX TCGA-EL-A3GY TCGA-EL-A3GZ TCGA-EL-A3H1 
       50.37        50.20       147.75       101.13       139.99        49.32 
TCGA-EL-A3H3 TCGA-EL-A3H4 TCGA-EL-A3H5 TCGA-EL-A3H7 TCGA-EL-A3MW TCGA-EL-A3MX 
       43.36        49.71        83.57       139.00       108.66        57.63 
TCGA-EL-A3MZ TCGA-EL-A3N2 TCGA-EL-A3T0 TCGA-EL-A3T1 TCGA-EL-A3T2 TCGA-EL-A3T3 
       52.50        29.65       142.52       129.57        32.48       132.07 
TCGA-EL-A3T6 TCGA-EL-A3T7 TCGA-EL-A3T8 TCGA-EL-A3T9 TCGA-EL-A3TB TCGA-EL-A3ZG 
       98.24        41.29       107.47         5.72        82.82        89.56 
TCGA-EL-A3ZH TCGA-EL-A3ZK TCGA-EL-A3ZL TCGA-EL-A3ZM TCGA-EL-A3ZN TCGA-EL-A3ZO 
       91.17        51.78        62.30        36.03        53.06        72.69 
TCGA-EL-A3ZP TCGA-EL-A3ZQ TCGA-EL-A3ZR TCGA-EL-A3ZS TCGA-EL-A3ZT TCGA-EL-A4JV 
       65.49        61.22        60.16         7.07        59.44        57.47 
TCGA-EL-A4JW TCGA-EL-A4JX TCGA-EL-A4JZ TCGA-EL-A4K0 TCGA-EL-A4K1 TCGA-EL-A4K2 
       34.72        45.96        61.02        31.04        34.39        30.51 
TCGA-EL-A4K4 TCGA-EL-A4K6 TCGA-EL-A4K7 TCGA-EL-A4K9 TCGA-EL-A4KD TCGA-EL-A4KG 
       53.36        44.15        41.13        47.84        43.59        24.30 
TCGA-EL-A4KH TCGA-EL-A4KI TCGA-EM-A1CS TCGA-EM-A1CT TCGA-EM-A1CU TCGA-EM-A1CV 
       27.06        23.90        26.86        18.18        20.91        48.49 
TCGA-EM-A1CW TCGA-EM-A1YA TCGA-EM-A1YB TCGA-EM-A1YC TCGA-EM-A1YD TCGA-EM-A1YE 
       18.05        19.79        19.46        78.61        57.01        54.08 
TCGA-EM-A22I TCGA-EM-A22J TCGA-EM-A22K TCGA-EM-A22L TCGA-EM-A22M TCGA-EM-A22N 
       14.73        14.50        15.75        10.45        14.53        10.65 
TCGA-EM-A22O TCGA-EM-A22P TCGA-EM-A22Q TCGA-EM-A2CJ TCGA-EM-A2CK TCGA-EM-A2CL 
       44.19        41.29        14.24        47.57        17.88        13.18 
TCGA-EM-A2CN TCGA-EM-A2CO TCGA-EM-A2CP TCGA-EM-A2CQ TCGA-EM-A2CR TCGA-EM-A2CS 
       23.51         6.05         2.99        12.30        13.64        27.65 
TCGA-EM-A2CT TCGA-EM-A2CU TCGA-EM-A2OV TCGA-EM-A2OW TCGA-EM-A2OX TCGA-EM-A2OY 
       48.46        13.15        22.16        40.34        19.73        32.32 
TCGA-EM-A2OZ TCGA-EM-A2P0 TCGA-EM-A2P1 TCGA-EM-A2P2 TCGA-EM-A2P3 TCGA-EM-A3AI 
       33.96        17.59        17.46        17.29        14.60        22.52 
TCGA-EM-A3AJ TCGA-EM-A3AK TCGA-EM-A3AL TCGA-EM-A3AN TCGA-EM-A3AO TCGA-EM-A3AP 
       30.94        15.68        14.14        33.07        44.52         8.35 
TCGA-EM-A3AR TCGA-EM-A3FJ TCGA-EM-A3FK TCGA-EM-A3FL TCGA-EM-A3FM TCGA-EM-A3FN 
       37.25        27.95        23.77        47.38        21.01        12.07 
TCGA-EM-A3FO TCGA-EM-A3FP TCGA-EM-A3FQ TCGA-EM-A3FR TCGA-EM-A3O3 TCGA-EM-A3O6 
       17.49        17.39        16.18        15.02        14.50        15.06 
TCGA-EM-A3O7 TCGA-EM-A3O8 TCGA-EM-A3O9 TCGA-EM-A3OA TCGA-EM-A3OB TCGA-EM-A3ST 
        7.33        12.53         9.24        27.02        38.66        38.86 
TCGA-EM-A3SU TCGA-EM-A3SX TCGA-EM-A3SY TCGA-EM-A3SZ TCGA-EM-A4FF TCGA-EM-A4FH 
       29.95        29.85        13.51        12.79        84.59        29.33 
TCGA-EM-A4FK TCGA-EM-A4FM TCGA-EM-A4FN TCGA-EM-A4FO TCGA-EM-A4FQ TCGA-EM-A4FR 
       21.34         5.33        26.37        26.37        22.45        21.53 
TCGA-EM-A4FU TCGA-EM-A4FV TCGA-EM-A4G1 TCGA-ET-A25G TCGA-ET-A25I TCGA-ET-A25J 
       60.49        24.46        13.68        81.93        81.70        77.56 
TCGA-ET-A25K TCGA-ET-A25O TCGA-ET-A25R TCGA-ET-A2MX TCGA-ET-A2MY TCGA-ET-A2MZ 
       70.42        65.29        63.45        88.41        58.75        37.25 
TCGA-ET-A2N0 TCGA-ET-A2N1 TCGA-ET-A2N3 TCGA-ET-A2N4 TCGA-ET-A2N5 TCGA-ET-A39I 
       52.60        54.35        83.34         2.66        80.88        33.24 
TCGA-ET-A39J TCGA-ET-A39K TCGA-ET-A39L TCGA-ET-A39M TCGA-ET-A39N TCGA-ET-A39O 
      106.09       107.41       108.46        84.89       123.32       100.57 
TCGA-ET-A39P TCGA-ET-A39R TCGA-ET-A39S TCGA-ET-A39T TCGA-ET-A3BN TCGA-ET-A3BP 
       95.34        94.13        55.10        98.20        28.24        79.10 
TCGA-ET-A3BQ TCGA-ET-A3BS TCGA-ET-A3BT TCGA-ET-A3BU TCGA-ET-A3BW TCGA-ET-A3BX 
       76.64         5.79        87.62        77.82        46.65        52.47 
TCGA-ET-A3DO TCGA-ET-A3DP TCGA-ET-A3DQ TCGA-ET-A3DR TCGA-ET-A3DS TCGA-ET-A3DT 
      116.78        94.59        84.85        80.58        66.84        43.73 
TCGA-ET-A3DU TCGA-ET-A3DV TCGA-ET-A3DW TCGA-ET-A40P TCGA-ET-A40Q TCGA-ET-A40R 
       62.83       166.62        24.72        43.99        46.26        44.38 
TCGA-ET-A40S TCGA-ET-A40T TCGA-ET-A4KN TCGA-ET-A4KQ TCGA-FE-A22Z TCGA-FE-A230 
       40.21        37.48        33.17        31.40        73.74        71.44 
TCGA-FE-A231 TCGA-FE-A232 TCGA-FE-A233 TCGA-FE-A234 TCGA-FE-A235 TCGA-FE-A236 
       31.59        79.69        24.69        68.22       117.40        66.77 
TCGA-FE-A237 TCGA-FE-A23A TCGA-FE-A3PA TCGA-FE-A3PB TCGA-FE-A3PC TCGA-FE-A3PD 
      112.80        81.83       106.36        85.15        85.68        78.77 
TCGA-FK-A3S3 TCGA-FK-A3SB TCGA-FK-A3SE TCGA-FK-A3SG TCGA-FK-A3SH TCGA-FK-A4UB 
       71.08         4.11        22.03         0.92        48.10       116.09 
TCGA-FY-A2QD TCGA-FY-A3BL TCGA-FY-A3I5 TCGA-FY-A3NM TCGA-FY-A3NP TCGA-FY-A3ON 
        1.25        20.42         7.82        29.10        16.14        19.56 
TCGA-FY-A3R6 TCGA-FY-A3R7 TCGA-FY-A3R8 TCGA-FY-A3R9 TCGA-FY-A3RA TCGA-FY-A3TY 
       13.91        16.27        15.68        16.57        18.08        23.31 
TCGA-FY-A3W9 TCGA-FY-A3WA TCGA-FY-A3YR TCGA-FY-A40K TCGA-FY-A40L TCGA-FY-A40M 
       21.63        17.06        17.36        15.16        23.87        22.49 
TCGA-FY-A40N TCGA-FY-A4B0 TCGA-FY-A4B3 TCGA-FY-A4B4 TCGA-GE-A2C6 TCGA-H2-A26U 
       19.04        13.81        14.04        21.60        12.53        17.00 
TCGA-H2-A2K9 TCGA-H2-A3RH TCGA-H2-A3RI TCGA-H2-A421 TCGA-H2-A422 TCGA-IM-A3EB 
       21.67        12.46        11.01        20.05        18.61        48.92 
TCGA-IM-A3ED TCGA-IM-A3U2 TCGA-IM-A3U3 TCGA-IM-A41Y TCGA-IM-A41Z TCGA-IM-A420 
       47.41        18.51        16.90        21.83        31.10         8.22 
TCGA-IM-A4EB TCGA-J8-A3O0 TCGA-J8-A3O1 TCGA-J8-A3O2 TCGA-J8-A3YD TCGA-J8-A3YE 
       25.64        43.17        27.19        11.24        31.82        27.85 
TCGA-J8-A3YF TCGA-J8-A3YG TCGA-J8-A3YH TCGA-J8-A42S TCGA-J8-A4HY TCGA-KS-A41F 
       24.69        22.29         5.75         2.47         0.20       143.57 
TCGA-KS-A41I TCGA-KS-A41J TCGA-KS-A41L TCGA-KS-A4I1 TCGA-KS-A4I3 TCGA-KS-A4I5 
       15.98        15.68       113.85        26.70        43.69        18.64 
TCGA-KS-A4I7 TCGA-KS-A4I9 TCGA-KS-A4IB TCGA-KS-A4IC TCGA-KS-A4ID TCGA-L6-A4EP 
       32.45        87.39        84.72        35.28        33.24        33.40 
TCGA-L6-A4EQ TCGA-L6-A4EU TCGA-MK-A4N6 TCGA-MK-A4N7 TCGA-MK-A4N9 TCGA-QD-A8IV 
       40.37         9.50        36.10        32.45        30.21        12.89 
TCGA-E8-A418 
        3.02 

  GPR44 MUTATED GPR44 WILD-TYPE 
          12.46            0.20 
  GPR44 MUTATED GPR44 WILD-TYPE 
         139.86          178.29 
  GPR44 MUTATED GPR44 WILD-TYPE 
          42.36           31.10 
[1] "12.5 - 139.9 (42.4)" "0.2 - 178.3 (31.1)" 
[1] "hr="     "9100000"
D10V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV STAGE IVA STAGE IVC
  GPR44 MUTATED         2        1         1        0         0         0
  GPR44 WILD-TYPE     276       49       107        2        46         6
D10V3, multiclass
           clus
vv          GPR44 MUTATED GPR44 WILD-TYPE
  STAGE I               2             276
  STAGE II              1              49
  STAGE III             1             107
  STAGE IV              0               2
  STAGE IVA             0              46
  STAGE IVC             0               6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus               T1  T2  T3  T4
  GPR44 MUTATED     0   3   0   1
  GPR44 WILD-TYPE 141 159 164  22
D10V4, multiclass
    clus
vv   GPR44 MUTATED GPR44 WILD-TYPE
  T1             0             141
  T2             3             159
  T3             0             164
  T4             1              22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D10V5, binary
                 cls
clus                0   1
  GPR44 MUTATED     3   1
  GPR44 WILD-TYPE 217 221
[1] "tbl2"
                 cls
clus              [,1] [,2]
  GPR44 MUTATED      3    1
  GPR44 WILD-TYPE  217  221
   clus
vv  GPR44 MUTATED GPR44 WILD-TYPE
  0             3             217
  1             1             221
[1] 2 2
[1] FALSE
D10V6, binary
                 cls
clus                0   1
  GPR44 MUTATED     4   0
  GPR44 WILD-TYPE 272   9
[1] "tbl2"
                 cls
clus              [,1] [,2]
  GPR44 MUTATED      4    0
  GPR44 WILD-TYPE  272    9
   clus
vv  GPR44 MUTATED GPR44 WILD-TYPE
  0             4             272
  1             0               9
[1] 2 2
[1] FALSE
D10V7, binary
                 cls
clus                0   1
  GPR44 MUTATED     2   2
  GPR44 WILD-TYPE 360 128
[1] "tbl2"
                 cls
clus              [,1] [,2]
  GPR44 MUTATED      2    2
  GPR44 WILD-TYPE  360  128
        clus
vv       GPR44 MUTATED GPR44 WILD-TYPE
  FEMALE             2             360
  MALE               2             128
[1] 2 2
[1] FALSE
D10V8, binary
                 cls
clus                0   1
  GPR44 MUTATED     2   2
  GPR44 WILD-TYPE 177 296
[1] "tbl2"
                 cls
clus              [,1] [,2]
  GPR44 MUTATED      2    2
  GPR44 WILD-TYPE  177  296
     clus
vv    GPR44 MUTATED GPR44 WILD-TYPE
  NO              2             177
  YES             2             296
[1] 2 2
[1] FALSE
                 vv
clus              OTHER, SPECIFY THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  GPR44 MUTATED                0                                             4
  GPR44 WILD-TYPE              7                                           344
                 vv
clus              THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  GPR44 MUTATED                                                                        0
  GPR44 WILD-TYPE                                                                    102
                 vv
clus              THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  GPR44 MUTATED                                                                     0
  GPR44 WILD-TYPE                                                                  35
D10V9, multiclass
                                                                        clus
vv                                                                       GPR44 MUTATED
  OTHER, SPECIFY                                                                     0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                      4
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)             0
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                0
                                                                        clus
vv                                                                       GPR44 WILD-TYPE
  OTHER, SPECIFY                                                                       7
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                      344
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)             102
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                 35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D10V10, binary
                 cls
clus                0   1
  GPR44 MUTATED     2   0
  GPR44 WILD-TYPE 413  17
[1] "tbl2"
                 cls
clus              [,1] [,2]
  GPR44 MUTATED      2    0
  GPR44 WILD-TYPE  413   17
     clus
vv    GPR44 MUTATED GPR44 WILD-TYPE
  NO              2             413
  YES             0              17
[1] 2 2
[1] FALSE
                 vv
clus              MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE VERY ADVANCED (T4B)
  GPR44 MUTATED              0                       1    3                   0
  GPR44 WILD-TYPE          130                      17  325                   1
D10V11, multiclass
                         clus
vv                        GPR44 MUTATED GPR44 WILD-TYPE
  MINIMAL (T3)                        0             130
  MODERATE/ADVANCED (T4A)             1              17
  NONE                                3             325
  VERY ADVANCED (T4B)                 0               1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus               R0  R1  R2  RX
  GPR44 MUTATED     3   0   1   0
  GPR44 WILD-TYPE 376  51   3  30
D10V12, multiclass
    clus
vv   GPR44 MUTATED GPR44 WILD-TYPE
  R0             3             376
  R1             0              51
  R2             1               3
  RX             0              30
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D10V13, continuous
[1] "Remove cluster labels:" "GPR44 MUTATED"         
clus
  GPR44 MUTATED GPR44 WILD-TYPE 
              2             376 
     TCGA-BJ-A290      TCGA-BJ-A45K      TCGA-CE-A13K      TCGA-DE-A0XZ 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-DJ-A2PR      TCGA-DJ-A3UU      TCGA-DJ-A3UW      TCGA-DJ-A3V4 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-DJ-A3VI      TCGA-DJ-A3VK      TCGA-E3-A3E5      TCGA-EL-A3CR 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-EL-A3CS      TCGA-EL-A3CY      TCGA-EL-A3D5      TCGA-EL-A3GQ 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-EL-A3H8      TCGA-EM-A3AQ      TCGA-ET-A3BO      TCGA-ET-A3BV 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-J8-A3NZ      TCGA-J8-A4HW      TCGA-4C-A93U      TCGA-BJ-A0Z0 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-BJ-A0Z3      TCGA-BJ-A0Z9      TCGA-BJ-A0ZA      TCGA-BJ-A0ZB 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-BJ-A0ZH      TCGA-BJ-A0ZJ      TCGA-BJ-A18Y      TCGA-BJ-A18Z 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-BJ-A191      TCGA-BJ-A28R      TCGA-BJ-A28T      TCGA-BJ-A28X 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-BJ-A28Z      TCGA-BJ-A2N8      TCGA-BJ-A2N9      TCGA-BJ-A2NA 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-BJ-A3EZ      TCGA-BJ-A3PR      TCGA-BJ-A3PU      TCGA-BJ-A45D 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-BJ-A45E      TCGA-BJ-A45G      TCGA-BJ-A45I      TCGA-BJ-A45J 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-BJ-A4O8      TCGA-BJ-A4O9      TCGA-CE-A3MD      TCGA-CE-A483 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-CE-A484      TCGA-CE-A485      TCGA-DE-A0Y2      TCGA-DE-A0Y3 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-DE-A3KN      TCGA-DE-A4M8      TCGA-DE-A4MA      TCGA-DE-A4MB 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-DE-A4MC      TCGA-DE-A4MD      TCGA-DE-A69K      TCGA-DE-A7U5 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-DJ-A13M      TCGA-DJ-A13O      TCGA-DJ-A13R      TCGA-DJ-A13T 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-DJ-A13V      TCGA-DJ-A13W      TCGA-DJ-A13X      TCGA-DJ-A1QG 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-DJ-A1QH      TCGA-DJ-A1QM      TCGA-DJ-A2PO      TCGA-DJ-A2PP 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-DJ-A2PQ      TCGA-DJ-A2PS      TCGA-DJ-A2PT      TCGA-DJ-A2PU 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-DJ-A2PV      TCGA-DJ-A2PW      TCGA-DJ-A2PX      TCGA-DJ-A2PY 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-DJ-A2PZ      TCGA-DJ-A2Q0      TCGA-DJ-A2Q1      TCGA-DJ-A2Q2 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-DJ-A2Q3      TCGA-DJ-A2Q4      TCGA-DJ-A2Q5      TCGA-DJ-A2Q6 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-DJ-A2Q7      TCGA-DJ-A2Q8      TCGA-DJ-A2Q9      TCGA-DJ-A2QA 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-DJ-A2QB      TCGA-DJ-A3UK      TCGA-DJ-A3UM      TCGA-DJ-A3UN 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-DJ-A3UO      TCGA-DJ-A3UP      TCGA-DJ-A3UQ      TCGA-DJ-A3UR 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-DJ-A3UX      TCGA-DJ-A3UZ      TCGA-DJ-A3V0      TCGA-DJ-A3V2 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-DJ-A3V3      TCGA-DJ-A3V5      TCGA-DJ-A3V7      TCGA-DJ-A3V8 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-DJ-A3V9      TCGA-DJ-A3VA      TCGA-DJ-A3VB      TCGA-DJ-A3VD 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-DJ-A3VF      TCGA-DJ-A3VG      TCGA-DJ-A3VJ      TCGA-DJ-A3VL 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-DJ-A4UL      TCGA-DJ-A4UP      TCGA-DJ-A4UQ      TCGA-DJ-A4UR 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-DJ-A4UW      TCGA-DJ-A4V2      TCGA-DJ-A4V5      TCGA-DO-A1K0 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-DO-A2HM      TCGA-E3-A3DY      TCGA-E3-A3DZ      TCGA-E3-A3E0 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-E3-A3E1      TCGA-E3-A3E2      TCGA-E3-A3E3      TCGA-E8-A242 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-E8-A2EA      TCGA-E8-A2JQ      TCGA-E8-A414      TCGA-E8-A415 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-E8-A417      TCGA-E8-A419      TCGA-E8-A433      TCGA-E8-A436 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-E8-A438      TCGA-E8-A44K      TCGA-EL-A3CM      TCGA-EL-A3CN 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-EL-A3CO      TCGA-EL-A3CT      TCGA-EL-A3CU      TCGA-EL-A3CV 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-EL-A3CW      TCGA-EL-A3CX      TCGA-EL-A3CZ      TCGA-EL-A3D1 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-EL-A3D4      TCGA-EL-A3D6      TCGA-EL-A3GO      TCGA-EL-A3GP 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-EL-A3GS      TCGA-EL-A3GU      TCGA-EL-A3GV      TCGA-EL-A3GX 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-EL-A3H3      TCGA-EL-A3H4      TCGA-EL-A3H5      TCGA-EL-A3H7 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-EL-A3MW      TCGA-EL-A3MX      TCGA-EL-A3MZ      TCGA-EL-A3N2 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-EL-A3T0      TCGA-EL-A3T1      TCGA-EL-A3T2      TCGA-EL-A3TB 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-EL-A3ZH      TCGA-EL-A3ZK      TCGA-EL-A3ZL      TCGA-EL-A3ZM 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-EL-A3ZN      TCGA-EL-A3ZO      TCGA-EL-A3ZP      TCGA-EL-A3ZS 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-EL-A4JV      TCGA-EL-A4JW      TCGA-EL-A4JX      TCGA-EL-A4JZ 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-EL-A4K0      TCGA-EL-A4K1      TCGA-EL-A4K2      TCGA-EL-A4K4 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-EL-A4K6      TCGA-EL-A4K7      TCGA-EL-A4KD      TCGA-EL-A4KG 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-EL-A4KI      TCGA-EM-A1CS      TCGA-EM-A1CT      TCGA-EM-A1CU 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-EM-A1CV      TCGA-EM-A1CW      TCGA-EM-A1YC      TCGA-EM-A1YD 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-EM-A1YE      TCGA-EM-A22I      TCGA-EM-A22J      TCGA-EM-A22K 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-EM-A22L      TCGA-EM-A22M      TCGA-EM-A22N      TCGA-EM-A22O 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-EM-A22P      TCGA-EM-A22Q      TCGA-EM-A2CK      TCGA-EM-A2CN 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-EM-A2CP      TCGA-EM-A2CQ      TCGA-EM-A2CR      TCGA-EM-A2CS 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-EM-A2CT      TCGA-EM-A2CU      TCGA-EM-A2OV      TCGA-EM-A2OX 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-EM-A2OY      TCGA-EM-A2OZ      TCGA-EM-A2P0      TCGA-EM-A2P1 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-EM-A2P2      TCGA-EM-A3AJ      TCGA-EM-A3AK      TCGA-EM-A3AL 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-EM-A3AN      TCGA-EM-A3AO      TCGA-EM-A3AR      TCGA-EM-A3FJ 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-EM-A3FK      TCGA-EM-A3FM      TCGA-EM-A3FN      TCGA-EM-A3FO 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-EM-A3FP      TCGA-EM-A3FQ      TCGA-EM-A3FR      TCGA-EM-A3O3 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-EM-A3O8      TCGA-EM-A3O9      TCGA-EM-A3OA      TCGA-EM-A3OB 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-EM-A3ST      TCGA-EM-A3SU      TCGA-EM-A3SX      TCGA-EM-A3SZ 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-EM-A4FF      TCGA-EM-A4FM      TCGA-EM-A4FN      TCGA-EM-A4FO 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-EM-A4FQ      TCGA-EM-A4FR      TCGA-EM-A4FV      TCGA-EM-A4G1 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-ET-A25G      TCGA-ET-A25I      TCGA-ET-A25J      TCGA-ET-A25K 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-ET-A25O      TCGA-ET-A2MX      TCGA-ET-A2MZ      TCGA-ET-A2N0 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-ET-A2N1      TCGA-ET-A2N4      TCGA-ET-A39K      TCGA-ET-A39L 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-ET-A39O      TCGA-ET-A39P      TCGA-ET-A39R      TCGA-ET-A39S 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-ET-A39T      TCGA-ET-A3BP      TCGA-ET-A3BQ      TCGA-ET-A3BS 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-ET-A3BT      TCGA-ET-A3BU      TCGA-ET-A3BX      TCGA-ET-A3DQ 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-ET-A3DR      TCGA-ET-A3DS      TCGA-ET-A3DT      TCGA-ET-A3DU 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-ET-A3DV      TCGA-ET-A3DW      TCGA-ET-A40P      TCGA-ET-A40Q 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-ET-A40R      TCGA-ET-A40S      TCGA-ET-A40T      TCGA-ET-A4KN 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-FE-A22Z      TCGA-FE-A230      TCGA-FE-A231      TCGA-FE-A232 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-FE-A233      TCGA-FE-A234      TCGA-FE-A235      TCGA-FE-A236 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-FE-A237      TCGA-FE-A23A      TCGA-FE-A3PB      TCGA-FE-A3PC 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-FE-A3PD      TCGA-FK-A3S3      TCGA-FK-A3SB      TCGA-FK-A3SE 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-FK-A3SG      TCGA-FK-A3SH      TCGA-FK-A4UB      TCGA-FY-A2QD 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-FY-A3I5      TCGA-FY-A3NM      TCGA-FY-A3NN      TCGA-FY-A3ON 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-FY-A3R6      TCGA-FY-A3R7      TCGA-FY-A3R9      TCGA-FY-A3TY 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-FY-A3W9      TCGA-FY-A3YR      TCGA-FY-A40K      TCGA-FY-A40L 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-FY-A40M      TCGA-FY-A40N      TCGA-FY-A4B3      TCGA-FY-A4B4 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-GE-A2C6      TCGA-H2-A26U      TCGA-H2-A2K9      TCGA-H2-A3RH 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-H2-A3RI      TCGA-H2-A421      TCGA-H2-A422      TCGA-IM-A3EB 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-IM-A3ED      TCGA-IM-A3U2      TCGA-IM-A3U3      TCGA-IM-A41Y 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-IM-A41Z      TCGA-IM-A420      TCGA-IM-A4EB      TCGA-J8-A3O0 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-J8-A3O1      TCGA-J8-A3O2      TCGA-J8-A3YD      TCGA-J8-A3YE 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-J8-A3YF      TCGA-J8-A3YG      TCGA-J8-A3YH      TCGA-J8-A42S 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-J8-A4HY      TCGA-KS-A41F      TCGA-KS-A41I      TCGA-KS-A41J 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-KS-A41L      TCGA-KS-A4I1      TCGA-KS-A4I3      TCGA-KS-A4I5 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-KS-A4I7      TCGA-KS-A4I9      TCGA-KS-A4IB      TCGA-KS-A4IC 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-KS-A4ID      TCGA-L6-A4EP      TCGA-L6-A4EQ      TCGA-L6-A4EU 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
     TCGA-MK-A4N6      TCGA-MK-A4N7      TCGA-MK-A4N9      TCGA-QD-A8IV 
"GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" "GPR44 WILD-TYPE" 
D10V14, binary
                 cls
clus                0   1
  GPR44 MUTATED     0   4
  GPR44 WILD-TYPE 221 258
[1] "tbl2"
                 cls
clus              [,1] [,2]
  GPR44 MUTATED      0    4
  GPR44 WILD-TYPE  221  258
            clus
vv           GPR44 MUTATED GPR44 WILD-TYPE
  MULTIFOCAL             0             221
  UNIFOCAL               4             258
[1] 2 2
[1] FALSE
D10V15, continuous
                 vv
clus              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  GPR44 MUTATED                                  0     1
  GPR44 WILD-TYPE                                1    50
                 vv
clus              BLACK OR AFRICAN AMERICAN WHITE
  GPR44 MUTATED                           0     3
  GPR44 WILD-TYPE                        26   319
D10V16, multiclass
                                  clus
vv                                 GPR44 MUTATED GPR44 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE             0               1
  ASIAN                                        1              50
  BLACK OR AFRICAN AMERICAN                    0              26
  WHITE                                        3             319
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D10V17, binary
                 cls
clus                0   1
  GPR44 MUTATED     0   4
  GPR44 WILD-TYPE  38 347
[1] "tbl2"
                 cls
clus              [,1] [,2]
  GPR44 MUTATED      0    4
  GPR44 WILD-TYPE   38  347
                        clus
vv                       GPR44 MUTATED GPR44 WILD-TYPE
  HISPANIC OR LATINO                 0              38
  NOT HISPANIC OR LATINO             4             347
[1] 2 2
[1] FALSE

Clustering(11) Variable = TMEM184A MUTATION ANALYSIS
D11V1, survival
                    sevent
clus2                  0   1
  TMEM184A MUTATED     5   0
  TMEM184A WILD-TYPE 472  14
  TMEM184A MUTATED TMEM184A WILD-TYPE 
                 5                486 
  TMEM184A MUTATED TMEM184A WILD-TYPE 
                 0                 14 
$`TMEM184A MUTATED`
TCGA-E8-A3X7 TCGA-E8-A417 TCGA-EM-A3SY TCGA-ET-A40P TCGA-J8-A42S 
       31.27        30.84        13.51        43.99         2.47 

$`TMEM184A WILD-TYPE`
TCGA-BJ-A290 TCGA-BJ-A45K TCGA-CE-A13K TCGA-DE-A0XZ TCGA-DJ-A13L TCGA-DJ-A2PR 
       30.21        23.18        12.66        35.84         9.96        27.45 
TCGA-DJ-A3UU TCGA-DJ-A3UW TCGA-DJ-A3V4 TCGA-DJ-A3VI TCGA-DJ-A3VK TCGA-E3-A3E5 
       23.44        59.57        42.54         3.12        24.76        39.95 
TCGA-EL-A3CR TCGA-EL-A3CS TCGA-EL-A3CY TCGA-EL-A3D0 TCGA-EL-A3D5 TCGA-EL-A3GQ 
        7.66        45.53         4.18       139.86        57.11        50.24 
TCGA-EL-A3H2 TCGA-EL-A3H8 TCGA-EL-A3MY TCGA-EL-A3N3 TCGA-EM-A3AQ TCGA-ET-A3BO 
       33.50       150.48        17.52       178.29        29.72        50.40 
TCGA-ET-A3BV TCGA-FK-A3SD TCGA-FY-A76V TCGA-J8-A3NZ TCGA-J8-A4HW TCGA-L6-A4ET 
       75.42         1.05         1.68        17.23         2.60        21.83 
TCGA-MK-A84Z TCGA-4C-A93U TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0Z3 
       23.93         4.24        24.79        13.78        49.78        16.34 
TCGA-BJ-A0Z9 TCGA-BJ-A0ZA TCGA-BJ-A0ZB TCGA-BJ-A0ZC TCGA-BJ-A0ZE TCGA-BJ-A0ZG 
       41.33        18.87         4.01        11.57        16.73        25.48 
TCGA-BJ-A0ZH TCGA-BJ-A0ZJ TCGA-BJ-A18Y TCGA-BJ-A18Z TCGA-BJ-A191 TCGA-BJ-A192 
       15.12        42.08        51.39        41.52         4.83        44.35 
TCGA-BJ-A28R TCGA-BJ-A28S TCGA-BJ-A28T TCGA-BJ-A28V TCGA-BJ-A28X TCGA-BJ-A28Z 
       42.15        21.04        35.54        32.45        30.97        11.08 
TCGA-BJ-A2N7 TCGA-BJ-A2N8 TCGA-BJ-A2N9 TCGA-BJ-A2NA TCGA-BJ-A2P4 TCGA-BJ-A3EZ 
       18.38        16.57        20.48        18.97        12.82        16.01 
TCGA-BJ-A3F0 TCGA-BJ-A3PR TCGA-BJ-A3PT TCGA-BJ-A3PU TCGA-BJ-A45D TCGA-BJ-A45E 
       13.94        36.39        23.31        18.64        10.88        21.01 
TCGA-BJ-A45F TCGA-BJ-A45G TCGA-BJ-A45H TCGA-BJ-A45I TCGA-BJ-A45J TCGA-BJ-A4O8 
        3.45        23.84        28.44        15.45        21.63        19.43 
TCGA-BJ-A4O9 TCGA-CE-A27D TCGA-CE-A3MD TCGA-CE-A3ME TCGA-CE-A481 TCGA-CE-A482 
       23.47        12.30        12.79        12.46        11.38        10.68 
TCGA-CE-A483 TCGA-CE-A484 TCGA-CE-A485 TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DE-A2OL 
       15.02        12.43        12.66        21.63        50.17        37.64 
TCGA-DE-A3KN TCGA-DE-A4M8 TCGA-DE-A4M9 TCGA-DE-A4MA TCGA-DE-A4MB TCGA-DE-A4MC 
       27.32        18.54        18.84        30.12        11.57        30.02 
TCGA-DE-A4MD TCGA-DE-A69J TCGA-DE-A69K TCGA-DE-A7U5 TCGA-DJ-A13M TCGA-DJ-A13O 
       25.12        14.70        14.27         2.76        48.79        38.17 
TCGA-DJ-A13P TCGA-DJ-A13R TCGA-DJ-A13S TCGA-DJ-A13T TCGA-DJ-A13U TCGA-DJ-A13V 
      169.32        18.58         8.71        56.19        52.27        43.17 
TCGA-DJ-A13W TCGA-DJ-A13X TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QG 
       52.37         8.32        48.07       135.91        30.61        44.98 
TCGA-DJ-A1QH TCGA-DJ-A1QI TCGA-DJ-A1QL TCGA-DJ-A1QM TCGA-DJ-A1QN TCGA-DJ-A1QO 
       42.51        14.96        17.59         6.02        42.58        47.41 
TCGA-DJ-A1QQ TCGA-DJ-A2PN TCGA-DJ-A2PO TCGA-DJ-A2PP TCGA-DJ-A2PQ TCGA-DJ-A2PS 
       17.56        10.09         7.99        30.58        35.41        26.20 
TCGA-DJ-A2PT TCGA-DJ-A2PU TCGA-DJ-A2PV TCGA-DJ-A2PW TCGA-DJ-A2PX TCGA-DJ-A2PY 
       38.83        33.96        31.99        34.85        28.96         8.78 
TCGA-DJ-A2PZ TCGA-DJ-A2Q0 TCGA-DJ-A2Q1 TCGA-DJ-A2Q2 TCGA-DJ-A2Q3 TCGA-DJ-A2Q4 
        8.42        34.36        37.74        43.96        40.24        33.93 
TCGA-DJ-A2Q5 TCGA-DJ-A2Q6 TCGA-DJ-A2Q7 TCGA-DJ-A2Q8 TCGA-DJ-A2Q9 TCGA-DJ-A2QA 
       37.48        36.46        35.11        39.09        35.90        33.53 
TCGA-DJ-A2QB TCGA-DJ-A2QC TCGA-DJ-A3UK TCGA-DJ-A3UM TCGA-DJ-A3UN TCGA-DJ-A3UO 
       35.18        39.95        36.92        31.04        32.42        31.46 
TCGA-DJ-A3UP TCGA-DJ-A3UQ TCGA-DJ-A3UR TCGA-DJ-A3US TCGA-DJ-A3UT TCGA-DJ-A3UX 
       16.41        19.56        36.33        32.81        36.33        11.34 
TCGA-DJ-A3UY TCGA-DJ-A3UZ TCGA-DJ-A3V0 TCGA-DJ-A3V2 TCGA-DJ-A3V3 TCGA-DJ-A3V5 
       35.87        40.96        36.99        20.22        30.61        19.20 
TCGA-DJ-A3V7 TCGA-DJ-A3V8 TCGA-DJ-A3V9 TCGA-DJ-A3VA TCGA-DJ-A3VB TCGA-DJ-A3VD 
       23.21        21.27        20.48        24.82        22.92        40.70 
TCGA-DJ-A3VE TCGA-DJ-A3VF TCGA-DJ-A3VG TCGA-DJ-A3VJ TCGA-DJ-A3VL TCGA-DJ-A3VM 
       18.97         9.60        35.67        36.43        23.44        27.62 
TCGA-DJ-A4UL TCGA-DJ-A4UP TCGA-DJ-A4UQ TCGA-DJ-A4UR TCGA-DJ-A4UT TCGA-DJ-A4UW 
       30.87        30.12        33.04        34.78        27.06        26.93 
TCGA-DJ-A4V0 TCGA-DJ-A4V2 TCGA-DJ-A4V4 TCGA-DJ-A4V5 TCGA-DO-A1JZ TCGA-DO-A1K0 
       35.54         3.12        15.81        35.38        54.90        21.53 
TCGA-DO-A2HM TCGA-E3-A3DY TCGA-E3-A3DZ TCGA-E3-A3E0 TCGA-E3-A3E1 TCGA-E3-A3E2 
        2.33        92.55        47.21        66.38        80.52        63.19 
TCGA-E3-A3E3 TCGA-E8-A242 TCGA-E8-A2EA TCGA-E8-A2JQ TCGA-E8-A413 TCGA-E8-A414 
       52.44        31.23        35.67        11.70        29.98        31.50 
TCGA-E8-A415 TCGA-E8-A416 TCGA-E8-A419 TCGA-E8-A432 TCGA-E8-A433 TCGA-E8-A434 
       31.04        31.30        25.45        30.61        31.27        31.33 
TCGA-E8-A436 TCGA-E8-A437 TCGA-E8-A438 TCGA-E8-A44K TCGA-E8-A44M TCGA-EL-A3CL 
       14.96        39.88        33.50        31.00        30.15        31.66 
TCGA-EL-A3CM TCGA-EL-A3CN TCGA-EL-A3CO TCGA-EL-A3CP TCGA-EL-A3CT TCGA-EL-A3CU 
       26.73       155.54        97.74       158.83        60.95       157.15 
TCGA-EL-A3CV TCGA-EL-A3CW TCGA-EL-A3CX TCGA-EL-A3CZ TCGA-EL-A3D1 TCGA-EL-A3D4 
       37.94        57.01       106.62        79.50        98.53        69.57 
TCGA-EL-A3D6 TCGA-EL-A3GO TCGA-EL-A3GP TCGA-EL-A3GR TCGA-EL-A3GS TCGA-EL-A3GU 
      108.36        64.87        49.51       115.10        65.39       136.01 
TCGA-EL-A3GV TCGA-EL-A3GW TCGA-EL-A3GX TCGA-EL-A3GY TCGA-EL-A3GZ TCGA-EL-A3H1 
       50.37        50.20       147.75       101.13       139.99        49.32 
TCGA-EL-A3H3 TCGA-EL-A3H4 TCGA-EL-A3H5 TCGA-EL-A3H7 TCGA-EL-A3MW TCGA-EL-A3MX 
       43.36        49.71        83.57       139.00       108.66        57.63 
TCGA-EL-A3MZ TCGA-EL-A3N2 TCGA-EL-A3T0 TCGA-EL-A3T1 TCGA-EL-A3T2 TCGA-EL-A3T3 
       52.50        29.65       142.52       129.57        32.48       132.07 
TCGA-EL-A3T6 TCGA-EL-A3T7 TCGA-EL-A3T8 TCGA-EL-A3T9 TCGA-EL-A3TA TCGA-EL-A3TB 
       98.24        41.29       107.47         5.72        66.90        82.82 
TCGA-EL-A3ZG TCGA-EL-A3ZH TCGA-EL-A3ZK TCGA-EL-A3ZL TCGA-EL-A3ZM TCGA-EL-A3ZN 
       89.56        91.17        51.78        62.30        36.03        53.06 
TCGA-EL-A3ZO TCGA-EL-A3ZP TCGA-EL-A3ZQ TCGA-EL-A3ZR TCGA-EL-A3ZS TCGA-EL-A3ZT 
       72.69        65.49        61.22        60.16         7.07        59.44 
TCGA-EL-A4JV TCGA-EL-A4JW TCGA-EL-A4JX TCGA-EL-A4JZ TCGA-EL-A4K0 TCGA-EL-A4K1 
       57.47        34.72        45.96        61.02        31.04        34.39 
TCGA-EL-A4K2 TCGA-EL-A4K4 TCGA-EL-A4K6 TCGA-EL-A4K7 TCGA-EL-A4K9 TCGA-EL-A4KD 
       30.51        53.36        44.15        41.13        47.84        43.59 
TCGA-EL-A4KG TCGA-EL-A4KH TCGA-EL-A4KI TCGA-EM-A1CS TCGA-EM-A1CT TCGA-EM-A1CU 
       24.30        27.06        23.90        26.86        18.18        20.91 
TCGA-EM-A1CV TCGA-EM-A1CW TCGA-EM-A1YA TCGA-EM-A1YB TCGA-EM-A1YC TCGA-EM-A1YD 
       48.49        18.05        19.79        19.46        78.61        57.01 
TCGA-EM-A1YE TCGA-EM-A22I TCGA-EM-A22J TCGA-EM-A22K TCGA-EM-A22L TCGA-EM-A22M 
       54.08        14.73        14.50        15.75        10.45        14.53 
TCGA-EM-A22N TCGA-EM-A22O TCGA-EM-A22P TCGA-EM-A22Q TCGA-EM-A2CJ TCGA-EM-A2CK 
       10.65        44.19        41.29        14.24        47.57        17.88 
TCGA-EM-A2CL TCGA-EM-A2CN TCGA-EM-A2CO TCGA-EM-A2CP TCGA-EM-A2CQ TCGA-EM-A2CR 
       13.18        23.51         6.05         2.99        12.30        13.64 
TCGA-EM-A2CS TCGA-EM-A2CT TCGA-EM-A2CU TCGA-EM-A2OV TCGA-EM-A2OW TCGA-EM-A2OX 
       27.65        48.46        13.15        22.16        40.34        19.73 
TCGA-EM-A2OY TCGA-EM-A2OZ TCGA-EM-A2P0 TCGA-EM-A2P1 TCGA-EM-A2P2 TCGA-EM-A2P3 
       32.32        33.96        17.59        17.46        17.29        14.60 
TCGA-EM-A3AI TCGA-EM-A3AJ TCGA-EM-A3AK TCGA-EM-A3AL TCGA-EM-A3AN TCGA-EM-A3AO 
       22.52        30.94        15.68        14.14        33.07        44.52 
TCGA-EM-A3AP TCGA-EM-A3AR TCGA-EM-A3FJ TCGA-EM-A3FK TCGA-EM-A3FL TCGA-EM-A3FM 
        8.35        37.25        27.95        23.77        47.38        21.01 
TCGA-EM-A3FN TCGA-EM-A3FO TCGA-EM-A3FP TCGA-EM-A3FQ TCGA-EM-A3FR TCGA-EM-A3O3 
       12.07        17.49        17.39        16.18        15.02        14.50 
TCGA-EM-A3O6 TCGA-EM-A3O7 TCGA-EM-A3O8 TCGA-EM-A3O9 TCGA-EM-A3OA TCGA-EM-A3OB 
       15.06         7.33        12.53         9.24        27.02        38.66 
TCGA-EM-A3ST TCGA-EM-A3SU TCGA-EM-A3SX TCGA-EM-A3SZ TCGA-EM-A4FF TCGA-EM-A4FH 
       38.86        29.95        29.85        12.79        84.59        29.33 
TCGA-EM-A4FK TCGA-EM-A4FM TCGA-EM-A4FN TCGA-EM-A4FO TCGA-EM-A4FQ TCGA-EM-A4FR 
       21.34         5.33        26.37        26.37        22.45        21.53 
TCGA-EM-A4FU TCGA-EM-A4FV TCGA-EM-A4G1 TCGA-ET-A25G TCGA-ET-A25I TCGA-ET-A25J 
       60.49        24.46        13.68        81.93        81.70        77.56 
TCGA-ET-A25K TCGA-ET-A25O TCGA-ET-A25R TCGA-ET-A2MX TCGA-ET-A2MY TCGA-ET-A2MZ 
       70.42        65.29        63.45        88.41        58.75        37.25 
TCGA-ET-A2N0 TCGA-ET-A2N1 TCGA-ET-A2N3 TCGA-ET-A2N4 TCGA-ET-A2N5 TCGA-ET-A39I 
       52.60        54.35        83.34         2.66        80.88        33.24 
TCGA-ET-A39J TCGA-ET-A39K TCGA-ET-A39L TCGA-ET-A39M TCGA-ET-A39N TCGA-ET-A39O 
      106.09       107.41       108.46        84.89       123.32       100.57 
TCGA-ET-A39P TCGA-ET-A39R TCGA-ET-A39S TCGA-ET-A39T TCGA-ET-A3BN TCGA-ET-A3BP 
       95.34        94.13        55.10        98.20        28.24        79.10 
TCGA-ET-A3BQ TCGA-ET-A3BS TCGA-ET-A3BT TCGA-ET-A3BU TCGA-ET-A3BW TCGA-ET-A3BX 
       76.64         5.79        87.62        77.82        46.65        52.47 
TCGA-ET-A3DO TCGA-ET-A3DP TCGA-ET-A3DQ TCGA-ET-A3DR TCGA-ET-A3DS TCGA-ET-A3DT 
      116.78        94.59        84.85        80.58        66.84        43.73 
TCGA-ET-A3DU TCGA-ET-A3DV TCGA-ET-A3DW TCGA-ET-A40Q TCGA-ET-A40R TCGA-ET-A40S 
       62.83       166.62        24.72        46.26        44.38        40.21 
TCGA-ET-A40T TCGA-ET-A4KN TCGA-ET-A4KQ TCGA-FE-A22Z TCGA-FE-A230 TCGA-FE-A231 
       37.48        33.17        31.40        73.74        71.44        31.59 
TCGA-FE-A232 TCGA-FE-A233 TCGA-FE-A234 TCGA-FE-A235 TCGA-FE-A236 TCGA-FE-A237 
       79.69        24.69        68.22       117.40        66.77       112.80 
TCGA-FE-A23A TCGA-FE-A3PA TCGA-FE-A3PB TCGA-FE-A3PC TCGA-FE-A3PD TCGA-FK-A3S3 
       81.83       106.36        85.15        85.68        78.77        71.08 
TCGA-FK-A3SB TCGA-FK-A3SE TCGA-FK-A3SG TCGA-FK-A3SH TCGA-FK-A4UB TCGA-FY-A2QD 
        4.11        22.03         0.92        48.10       116.09         1.25 
TCGA-FY-A3BL TCGA-FY-A3I4 TCGA-FY-A3I5 TCGA-FY-A3NM TCGA-FY-A3NP TCGA-FY-A3ON 
       20.42        17.82         7.82        29.10        16.14        19.56 
TCGA-FY-A3R6 TCGA-FY-A3R7 TCGA-FY-A3R8 TCGA-FY-A3R9 TCGA-FY-A3RA TCGA-FY-A3TY 
       13.91        16.27        15.68        16.57        18.08        23.31 
TCGA-FY-A3W9 TCGA-FY-A3WA TCGA-FY-A3YR TCGA-FY-A40K TCGA-FY-A40L TCGA-FY-A40M 
       21.63        17.06        17.36        15.16        23.87        22.49 
TCGA-FY-A40N TCGA-FY-A4B0 TCGA-FY-A4B3 TCGA-FY-A4B4 TCGA-GE-A2C6 TCGA-H2-A26U 
       19.04        13.81        14.04        21.60        12.53        17.00 
TCGA-H2-A2K9 TCGA-H2-A3RH TCGA-H2-A3RI TCGA-H2-A421 TCGA-H2-A422 TCGA-IM-A3EB 
       21.67        12.46        11.01        20.05        18.61        48.92 
TCGA-IM-A3ED TCGA-IM-A3U2 TCGA-IM-A3U3 TCGA-IM-A41Y TCGA-IM-A41Z TCGA-IM-A420 
       47.41        18.51        16.90        21.83        31.10         8.22 
TCGA-IM-A4EB TCGA-J8-A3O0 TCGA-J8-A3O1 TCGA-J8-A3O2 TCGA-J8-A3YD TCGA-J8-A3YE 
       25.64        43.17        27.19        11.24        31.82        27.85 
TCGA-J8-A3YF TCGA-J8-A3YG TCGA-J8-A3YH TCGA-J8-A4HY TCGA-KS-A41F TCGA-KS-A41I 
       24.69        22.29         5.75         0.20       143.57        15.98 
TCGA-KS-A41J TCGA-KS-A41L TCGA-KS-A4I1 TCGA-KS-A4I3 TCGA-KS-A4I5 TCGA-KS-A4I7 
       15.68       113.85        26.70        43.69        18.64        32.45 
TCGA-KS-A4I9 TCGA-KS-A4IB TCGA-KS-A4IC TCGA-KS-A4ID TCGA-L6-A4EP TCGA-L6-A4EQ 
       87.39        84.72        35.28        33.24        33.40        40.37 
TCGA-L6-A4EU TCGA-MK-A4N6 TCGA-MK-A4N7 TCGA-MK-A4N9 TCGA-QD-A8IV TCGA-E8-A418 
        9.50        36.10        32.45        30.21        12.89         3.02 

  TMEM184A MUTATED TMEM184A WILD-TYPE 
              2.47               0.20 
  TMEM184A MUTATED TMEM184A WILD-TYPE 
             43.99             178.29 
  TMEM184A MUTATED TMEM184A WILD-TYPE 
            30.840             31.165 
[1] "2.5 - 44.0 (30.8)"  "0.2 - 178.3 (31.2)"
[1] "hr="     "1200000"
D11V2, continuous
                    vv
clus                 STAGE I STAGE II STAGE III STAGE IV STAGE IVA STAGE IVC
  TMEM184A MUTATED         3        0         1        0         1         0
  TMEM184A WILD-TYPE     275       50       107        2        45         6
D11V3, multiclass
           clus
vv          TMEM184A MUTATED TMEM184A WILD-TYPE
  STAGE I                  3                275
  STAGE II                 0                 50
  STAGE III                1                107
  STAGE IV                 0                  2
  STAGE IVA                1                 45
  STAGE IVC                0                  6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                  T1  T2  T3  T4
  TMEM184A MUTATED     2   2   0   1
  TMEM184A WILD-TYPE 139 160 164  22
D11V4, multiclass
    clus
vv   TMEM184A MUTATED TMEM184A WILD-TYPE
  T1                2                139
  T2                2                160
  T3                0                164
  T4                1                 22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D11V5, binary
                    cls
clus                   0   1
  TMEM184A MUTATED     2   2
  TMEM184A WILD-TYPE 218 220
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  TMEM184A MUTATED      2    2
  TMEM184A WILD-TYPE  218  220
   clus
vv  TMEM184A MUTATED TMEM184A WILD-TYPE
  0                2                218
  1                2                220
[1] 2 2
[1] FALSE
D11V6, binary
                    cls
clus                   0   1
  TMEM184A MUTATED     2   0
  TMEM184A WILD-TYPE 274   9
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  TMEM184A MUTATED      2    0
  TMEM184A WILD-TYPE  274    9
   clus
vv  TMEM184A MUTATED TMEM184A WILD-TYPE
  0                2                274
  1                0                  9
[1] 2 2
[1] FALSE
D11V7, binary
                    cls
clus                   0   1
  TMEM184A MUTATED     3   2
  TMEM184A WILD-TYPE 359 128
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  TMEM184A MUTATED      3    2
  TMEM184A WILD-TYPE  359  128
        clus
vv       TMEM184A MUTATED TMEM184A WILD-TYPE
  FEMALE                3                359
  MALE                  2                128
[1] 2 2
[1] FALSE
D11V8, binary
                    cls
clus                   0   1
  TMEM184A MUTATED     2   3
  TMEM184A WILD-TYPE 177 295
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  TMEM184A MUTATED      2    3
  TMEM184A WILD-TYPE  177  295
     clus
vv    TMEM184A MUTATED TMEM184A WILD-TYPE
  NO                 2                177
  YES                3                295
[1] 2 2
[1] FALSE
                    vv
clus                 OTHER, SPECIFY
  TMEM184A MUTATED                0
  TMEM184A WILD-TYPE              7
                    vv
clus                 THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  TMEM184A MUTATED                                               3
  TMEM184A WILD-TYPE                                           345
                    vv
clus                 THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  TMEM184A MUTATED                                                                        2
  TMEM184A WILD-TYPE                                                                    100
                    vv
clus                 THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  TMEM184A MUTATED                                                                     0
  TMEM184A WILD-TYPE                                                                  35
D11V9, multiclass
                                                                        clus
vv                                                                       TMEM184A MUTATED
  OTHER, SPECIFY                                                                        0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                         3
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)                2
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                   0
                                                                        clus
vv                                                                       TMEM184A WILD-TYPE
  OTHER, SPECIFY                                                                          7
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                         345
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)                100
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                    35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D11V10, binary
                    cls
clus                   0   1
  TMEM184A MUTATED     3   0
  TMEM184A WILD-TYPE 412  17
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  TMEM184A MUTATED      3    0
  TMEM184A WILD-TYPE  412   17
     clus
vv    TMEM184A MUTATED TMEM184A WILD-TYPE
  NO                 3                412
  YES                0                 17
[1] 2 2
[1] FALSE
                    vv
clus                 MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  TMEM184A MUTATED              0                       1    4
  TMEM184A WILD-TYPE          130                      17  324
                    vv
clus                 VERY ADVANCED (T4B)
  TMEM184A MUTATED                     0
  TMEM184A WILD-TYPE                   1
D11V11, multiclass
                         clus
vv                        TMEM184A MUTATED TMEM184A WILD-TYPE
  MINIMAL (T3)                           0                130
  MODERATE/ADVANCED (T4A)                1                 17
  NONE                                   4                324
  VERY ADVANCED (T4B)                    0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                  R0  R1  R2  RX
  TMEM184A MUTATED     4   0   0   1
  TMEM184A WILD-TYPE 375  51   4  29
D11V12, multiclass
    clus
vv   TMEM184A MUTATED TMEM184A WILD-TYPE
  R0                4                375
  R1                0                 51
  R2                0                  4
  RX                1                 29
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D11V13, continuous
D11V14, binary
                    cls
clus                   0   1
  TMEM184A MUTATED     2   3
  TMEM184A WILD-TYPE 219 259
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  TMEM184A MUTATED      2    3
  TMEM184A WILD-TYPE  219  259
            clus
vv           TMEM184A MUTATED TMEM184A WILD-TYPE
  MULTIFOCAL                2                219
  UNIFOCAL                  3                259
[1] 2 2
[1] FALSE
D11V15, continuous
[1] "Remove cluster labels:" "TMEM184A MUTATED"      
clus
  TMEM184A MUTATED TMEM184A WILD-TYPE 
                 2                391 
        TCGA-BJ-A290         TCGA-BJ-A45K         TCGA-CE-A13K 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DE-A0XZ         TCGA-DJ-A13L         TCGA-DJ-A2PR 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DJ-A3UU         TCGA-DJ-A3UW         TCGA-DJ-A3V4 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DJ-A3VK         TCGA-EL-A3CR         TCGA-EL-A3CS 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EL-A3CY         TCGA-EL-A3D0         TCGA-EL-A3D5 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EL-A3GQ         TCGA-EL-A3H2         TCGA-EL-A3H8 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EL-A3MY         TCGA-EL-A3N3         TCGA-EM-A3AQ 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-ET-A3BO         TCGA-ET-A3BV         TCGA-FY-A76V 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-L6-A4ET         TCGA-MK-A84Z         TCGA-4C-A93U 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-BJ-A0Z2         TCGA-BJ-A0Z3         TCGA-BJ-A0Z9 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-BJ-A0ZA         TCGA-BJ-A0ZB         TCGA-BJ-A0ZC 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-BJ-A0ZE         TCGA-BJ-A0ZG         TCGA-BJ-A0ZH 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-BJ-A0ZJ         TCGA-BJ-A18Y         TCGA-BJ-A18Z 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-BJ-A191         TCGA-BJ-A192         TCGA-BJ-A28R 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-BJ-A28S         TCGA-BJ-A28T         TCGA-BJ-A28V 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-BJ-A28Z         TCGA-BJ-A2N8         TCGA-BJ-A2N9 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-BJ-A2P4         TCGA-BJ-A3PU         TCGA-BJ-A45D 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-BJ-A45E         TCGA-BJ-A45F         TCGA-BJ-A45G 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-BJ-A45H         TCGA-BJ-A45I         TCGA-BJ-A45J 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-BJ-A4O8         TCGA-BJ-A4O9         TCGA-CE-A27D 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-CE-A3MD         TCGA-CE-A3ME         TCGA-CE-A481 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-CE-A482         TCGA-CE-A483         TCGA-CE-A484 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-CE-A485         TCGA-DE-A0Y2         TCGA-DE-A0Y3 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DE-A2OL         TCGA-DE-A3KN         TCGA-DE-A4M8 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DE-A4M9         TCGA-DE-A4MA         TCGA-DE-A4MB 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DE-A4MC         TCGA-DE-A4MD         TCGA-DE-A69J 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DE-A69K         TCGA-DE-A7U5         TCGA-DJ-A13M 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DJ-A13O         TCGA-DJ-A13R         TCGA-DJ-A13S 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DJ-A13U         TCGA-DJ-A13V         TCGA-DJ-A13W 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DJ-A13X         TCGA-DJ-A1QD         TCGA-DJ-A1QE 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DJ-A1QF         TCGA-DJ-A1QG         TCGA-DJ-A1QH 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DJ-A1QI         TCGA-DJ-A1QL         TCGA-DJ-A1QM 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DJ-A1QN         TCGA-DJ-A1QO         TCGA-DJ-A1QQ 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DJ-A2PN         TCGA-DJ-A2PO         TCGA-DJ-A2PP 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DJ-A2PQ         TCGA-DJ-A2PS         TCGA-DJ-A2PT 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DJ-A2PU         TCGA-DJ-A2PV         TCGA-DJ-A2PW 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DJ-A2PY         TCGA-DJ-A2PZ         TCGA-DJ-A2Q0 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DJ-A2Q1         TCGA-DJ-A2Q2         TCGA-DJ-A2Q3 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DJ-A2Q4         TCGA-DJ-A2Q5         TCGA-DJ-A2Q6 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DJ-A2Q7         TCGA-DJ-A2Q8         TCGA-DJ-A2Q9 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DJ-A2QA         TCGA-DJ-A2QC         TCGA-DJ-A3UK 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DJ-A3UM         TCGA-DJ-A3UN         TCGA-DJ-A3UO 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DJ-A3UP         TCGA-DJ-A3UQ         TCGA-DJ-A3UR 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DJ-A3US         TCGA-DJ-A3UT         TCGA-DJ-A3UX 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DJ-A3UY         TCGA-DJ-A3V0         TCGA-DJ-A3V2 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DJ-A3V3         TCGA-DJ-A3V5         TCGA-DJ-A3V7 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DJ-A3V8         TCGA-DJ-A3VA         TCGA-DJ-A3VB 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DJ-A3VD         TCGA-DJ-A3VE         TCGA-DJ-A3VF 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DJ-A3VG         TCGA-DJ-A3VJ         TCGA-DJ-A3VL 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DJ-A3VM         TCGA-DJ-A4UL         TCGA-DJ-A4UP 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DJ-A4UQ         TCGA-DJ-A4UT         TCGA-DJ-A4V0 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DJ-A4V2         TCGA-DJ-A4V4         TCGA-DJ-A4V5 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-DO-A1JZ         TCGA-DO-A1K0         TCGA-DO-A2HM 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-E3-A3DY         TCGA-E3-A3DZ         TCGA-E3-A3E0 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-E3-A3E1         TCGA-E3-A3E2         TCGA-E3-A3E3 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-E8-A419         TCGA-EL-A3CN         TCGA-EL-A3CO 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EL-A3CT         TCGA-EL-A3CU         TCGA-EL-A3CV 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EL-A3CW         TCGA-EL-A3CX         TCGA-EL-A3CZ 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EL-A3D1         TCGA-EL-A3D4         TCGA-EL-A3D6 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EL-A3GO         TCGA-EL-A3GP         TCGA-EL-A3GR 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EL-A3GS         TCGA-EL-A3GU         TCGA-EL-A3GV 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EL-A3GW         TCGA-EL-A3GX         TCGA-EL-A3GY 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EL-A3GZ         TCGA-EL-A3H3         TCGA-EL-A3H4 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EL-A3H5         TCGA-EL-A3H7         TCGA-EL-A3MW 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EL-A3MX         TCGA-EL-A3MZ         TCGA-EL-A3N2 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EL-A3T1         TCGA-EL-A3T2         TCGA-EL-A3T3 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EL-A3T6         TCGA-EL-A3T7         TCGA-EL-A3T8 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EL-A3T9         TCGA-EL-A3TA         TCGA-EL-A3TB 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EL-A3ZG         TCGA-EL-A3ZH         TCGA-EL-A3ZK 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EL-A3ZL         TCGA-EL-A3ZM         TCGA-EL-A3ZN 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EL-A3ZO         TCGA-EL-A3ZP         TCGA-EL-A3ZQ 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EL-A3ZR         TCGA-EL-A3ZS         TCGA-EL-A3ZT 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EL-A4JV         TCGA-EL-A4JW         TCGA-EL-A4JX 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EL-A4JZ         TCGA-EL-A4K0         TCGA-EL-A4K1 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EL-A4K2         TCGA-EL-A4K4         TCGA-EL-A4K6 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EL-A4K7         TCGA-EL-A4K9         TCGA-EL-A4KD 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EL-A4KG         TCGA-EL-A4KH         TCGA-EL-A4KI 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EM-A1CS         TCGA-EM-A1CT         TCGA-EM-A1CU 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EM-A1CV         TCGA-EM-A1CW         TCGA-EM-A1YA 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EM-A1YB         TCGA-EM-A1YC         TCGA-EM-A1YD 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EM-A1YE         TCGA-EM-A22I         TCGA-EM-A22J 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EM-A22K         TCGA-EM-A22L         TCGA-EM-A22N 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EM-A22O         TCGA-EM-A22P         TCGA-EM-A22Q 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EM-A2CJ         TCGA-EM-A2CK         TCGA-EM-A2CL 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EM-A2CN         TCGA-EM-A2CO         TCGA-EM-A2CP 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EM-A2CQ         TCGA-EM-A2CR         TCGA-EM-A2CS 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EM-A2CT         TCGA-EM-A2CU         TCGA-EM-A2OW 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EM-A2OX         TCGA-EM-A2OY         TCGA-EM-A2P0 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EM-A2P1         TCGA-EM-A2P2         TCGA-EM-A2P3 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EM-A3AI         TCGA-EM-A3AJ         TCGA-EM-A3AK 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EM-A3AL         TCGA-EM-A3AN         TCGA-EM-A3AO 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EM-A3AP         TCGA-EM-A3AR         TCGA-EM-A3FJ 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EM-A3FM         TCGA-EM-A3FN         TCGA-EM-A3FO 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EM-A3FP         TCGA-EM-A3FR         TCGA-EM-A3O3 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EM-A3O6         TCGA-EM-A3O7         TCGA-EM-A3O8 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EM-A3O9         TCGA-EM-A3OA         TCGA-EM-A3OB 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EM-A3ST         TCGA-EM-A3SU         TCGA-EM-A3SX 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EM-A3SZ         TCGA-EM-A4FF         TCGA-EM-A4FH 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EM-A4FK         TCGA-EM-A4FM         TCGA-EM-A4FN 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EM-A4FQ         TCGA-EM-A4FR         TCGA-EM-A4FU 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-EM-A4FV         TCGA-EM-A4G1         TCGA-ET-A25G 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-ET-A25I         TCGA-ET-A25J         TCGA-ET-A25K 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-ET-A25O         TCGA-ET-A25R         TCGA-ET-A2MY 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-ET-A2MZ         TCGA-ET-A2N0         TCGA-ET-A2N5 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-ET-A39J         TCGA-ET-A39M         TCGA-ET-A39N 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-ET-A39O         TCGA-ET-A39P         TCGA-ET-A39T 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-ET-A3BN         TCGA-ET-A3BP         TCGA-ET-A3BQ 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-ET-A3BS         TCGA-ET-A3BT         TCGA-ET-A3BU 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-ET-A3BW         TCGA-ET-A3BX         TCGA-ET-A3DO 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-ET-A3DS         TCGA-ET-A3DT         TCGA-ET-A40Q 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-ET-A40R         TCGA-ET-A40S         TCGA-ET-A4KN 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-ET-A4KQ         TCGA-FE-A22Z         TCGA-FE-A230 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-FE-A232         TCGA-FE-A233         TCGA-FE-A234 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-FE-A235         TCGA-FE-A236         TCGA-FE-A237 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-FE-A23A         TCGA-FE-A3PA         TCGA-FE-A3PB 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-FE-A3PC         TCGA-FE-A3PD         TCGA-FY-A2QD 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-FY-A3I4         TCGA-FY-A3I5         TCGA-FY-A3ON 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-FY-A3R8         TCGA-FY-A3TY         TCGA-FY-A3W9 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-FY-A3YR         TCGA-FY-A40K         TCGA-FY-A40L 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-FY-A40M         TCGA-FY-A40N         TCGA-FY-A4B3 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-GE-A2C6         TCGA-H2-A421         TCGA-IM-A3EB 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-IM-A3ED         TCGA-IM-A3U2         TCGA-IM-A3U3 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-IM-A41Y         TCGA-IM-A41Z         TCGA-IM-A420 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-IM-A4EB         TCGA-J8-A3O0         TCGA-J8-A3YD 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-J8-A3YG         TCGA-KS-A41F         TCGA-KS-A41I 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-KS-A41J         TCGA-KS-A41L         TCGA-KS-A4I3 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-KS-A4I5         TCGA-KS-A4I7         TCGA-KS-A4I9 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-KS-A4IB         TCGA-KS-A4IC         TCGA-KS-A4ID 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-L6-A4EP         TCGA-L6-A4EQ         TCGA-L6-A4EU 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-MK-A4N6         TCGA-MK-A4N7         TCGA-MK-A4N9 
"TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" "TMEM184A WILD-TYPE" 
        TCGA-QD-A8IV 
"TMEM184A WILD-TYPE" 
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  TMEM184A MUTATED                                  0     1
  TMEM184A WILD-TYPE                                1    50
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  TMEM184A MUTATED                           0     3
  TMEM184A WILD-TYPE                        26   319
D11V16, multiclass
                                  clus
vv                                 TMEM184A MUTATED TMEM184A WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           1                 50
  BLACK OR AFRICAN AMERICAN                       0                 26
  WHITE                                           3                319
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D11V17, binary
                    cls
clus                   0   1
  TMEM184A MUTATED     0   3
  TMEM184A WILD-TYPE  38 348
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  TMEM184A MUTATED      0    3
  TMEM184A WILD-TYPE   38  348
                        clus
vv                       TMEM184A MUTATED TMEM184A WILD-TYPE
  HISPANIC OR LATINO                    0                 38
  NOT HISPANIC OR LATINO                3                348
[1] 2 2
[1] FALSE

Clustering(12) Variable = NUP93 MUTATION ANALYSIS
D12V1, survival
                 sevent
clus2               0   1
  NUP93 MUTATED     4   0
  NUP93 WILD-TYPE 473  14
  NUP93 MUTATED NUP93 WILD-TYPE 
              4             487 
  NUP93 MUTATED NUP93 WILD-TYPE 
              0              14 
$`NUP93 MUTATED`
TCGA-BJ-A191 TCGA-DJ-A2Q4 TCGA-EM-A4FQ TCGA-L6-A4EU 
        4.83        33.93        22.45         9.50 

$`NUP93 WILD-TYPE`
TCGA-BJ-A290 TCGA-BJ-A45K TCGA-CE-A13K TCGA-DE-A0XZ TCGA-DJ-A13L TCGA-DJ-A2PR 
       30.21        23.18        12.66        35.84         9.96        27.45 
TCGA-DJ-A3UU TCGA-DJ-A3UW TCGA-DJ-A3V4 TCGA-DJ-A3VI TCGA-DJ-A3VK TCGA-E3-A3E5 
       23.44        59.57        42.54         3.12        24.76        39.95 
TCGA-EL-A3CR TCGA-EL-A3CS TCGA-EL-A3CY TCGA-EL-A3D0 TCGA-EL-A3D5 TCGA-EL-A3GQ 
        7.66        45.53         4.18       139.86        57.11        50.24 
TCGA-EL-A3H2 TCGA-EL-A3H8 TCGA-EL-A3MY TCGA-EL-A3N3 TCGA-EM-A3AQ TCGA-ET-A3BO 
       33.50       150.48        17.52       178.29        29.72        50.40 
TCGA-ET-A3BV TCGA-FK-A3SD TCGA-FY-A76V TCGA-J8-A3NZ TCGA-J8-A4HW TCGA-L6-A4ET 
       75.42         1.05         1.68        17.23         2.60        21.83 
TCGA-MK-A84Z TCGA-4C-A93U TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0Z3 
       23.93         4.24        24.79        13.78        49.78        16.34 
TCGA-BJ-A0Z9 TCGA-BJ-A0ZA TCGA-BJ-A0ZB TCGA-BJ-A0ZC TCGA-BJ-A0ZE TCGA-BJ-A0ZG 
       41.33        18.87         4.01        11.57        16.73        25.48 
TCGA-BJ-A0ZH TCGA-BJ-A0ZJ TCGA-BJ-A18Y TCGA-BJ-A18Z TCGA-BJ-A192 TCGA-BJ-A28R 
       15.12        42.08        51.39        41.52        44.35        42.15 
TCGA-BJ-A28S TCGA-BJ-A28T TCGA-BJ-A28V TCGA-BJ-A28X TCGA-BJ-A28Z TCGA-BJ-A2N7 
       21.04        35.54        32.45        30.97        11.08        18.38 
TCGA-BJ-A2N8 TCGA-BJ-A2N9 TCGA-BJ-A2NA TCGA-BJ-A2P4 TCGA-BJ-A3EZ TCGA-BJ-A3F0 
       16.57        20.48        18.97        12.82        16.01        13.94 
TCGA-BJ-A3PR TCGA-BJ-A3PT TCGA-BJ-A3PU TCGA-BJ-A45D TCGA-BJ-A45E TCGA-BJ-A45F 
       36.39        23.31        18.64        10.88        21.01         3.45 
TCGA-BJ-A45G TCGA-BJ-A45H TCGA-BJ-A45I TCGA-BJ-A45J TCGA-BJ-A4O8 TCGA-BJ-A4O9 
       23.84        28.44        15.45        21.63        19.43        23.47 
TCGA-CE-A27D TCGA-CE-A3MD TCGA-CE-A3ME TCGA-CE-A481 TCGA-CE-A482 TCGA-CE-A483 
       12.30        12.79        12.46        11.38        10.68        15.02 
TCGA-CE-A484 TCGA-CE-A485 TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DE-A2OL TCGA-DE-A3KN 
       12.43        12.66        21.63        50.17        37.64        27.32 
TCGA-DE-A4M8 TCGA-DE-A4M9 TCGA-DE-A4MA TCGA-DE-A4MB TCGA-DE-A4MC TCGA-DE-A4MD 
       18.54        18.84        30.12        11.57        30.02        25.12 
TCGA-DE-A69J TCGA-DE-A69K TCGA-DE-A7U5 TCGA-DJ-A13M TCGA-DJ-A13O TCGA-DJ-A13P 
       14.70        14.27         2.76        48.79        38.17       169.32 
TCGA-DJ-A13R TCGA-DJ-A13S TCGA-DJ-A13T TCGA-DJ-A13U TCGA-DJ-A13V TCGA-DJ-A13W 
       18.58         8.71        56.19        52.27        43.17        52.37 
TCGA-DJ-A13X TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QG TCGA-DJ-A1QH 
        8.32        48.07       135.91        30.61        44.98        42.51 
TCGA-DJ-A1QI TCGA-DJ-A1QL TCGA-DJ-A1QM TCGA-DJ-A1QN TCGA-DJ-A1QO TCGA-DJ-A1QQ 
       14.96        17.59         6.02        42.58        47.41        17.56 
TCGA-DJ-A2PN TCGA-DJ-A2PO TCGA-DJ-A2PP TCGA-DJ-A2PQ TCGA-DJ-A2PS TCGA-DJ-A2PT 
       10.09         7.99        30.58        35.41        26.20        38.83 
TCGA-DJ-A2PU TCGA-DJ-A2PV TCGA-DJ-A2PW TCGA-DJ-A2PX TCGA-DJ-A2PY TCGA-DJ-A2PZ 
       33.96        31.99        34.85        28.96         8.78         8.42 
TCGA-DJ-A2Q0 TCGA-DJ-A2Q1 TCGA-DJ-A2Q2 TCGA-DJ-A2Q3 TCGA-DJ-A2Q5 TCGA-DJ-A2Q6 
       34.36        37.74        43.96        40.24        37.48        36.46 
TCGA-DJ-A2Q7 TCGA-DJ-A2Q8 TCGA-DJ-A2Q9 TCGA-DJ-A2QA TCGA-DJ-A2QB TCGA-DJ-A2QC 
       35.11        39.09        35.90        33.53        35.18        39.95 
TCGA-DJ-A3UK TCGA-DJ-A3UM TCGA-DJ-A3UN TCGA-DJ-A3UO TCGA-DJ-A3UP TCGA-DJ-A3UQ 
       36.92        31.04        32.42        31.46        16.41        19.56 
TCGA-DJ-A3UR TCGA-DJ-A3US TCGA-DJ-A3UT TCGA-DJ-A3UX TCGA-DJ-A3UY TCGA-DJ-A3UZ 
       36.33        32.81        36.33        11.34        35.87        40.96 
TCGA-DJ-A3V0 TCGA-DJ-A3V2 TCGA-DJ-A3V3 TCGA-DJ-A3V5 TCGA-DJ-A3V7 TCGA-DJ-A3V8 
       36.99        20.22        30.61        19.20        23.21        21.27 
TCGA-DJ-A3V9 TCGA-DJ-A3VA TCGA-DJ-A3VB TCGA-DJ-A3VD TCGA-DJ-A3VE TCGA-DJ-A3VF 
       20.48        24.82        22.92        40.70        18.97         9.60 
TCGA-DJ-A3VG TCGA-DJ-A3VJ TCGA-DJ-A3VL TCGA-DJ-A3VM TCGA-DJ-A4UL TCGA-DJ-A4UP 
       35.67        36.43        23.44        27.62        30.87        30.12 
TCGA-DJ-A4UQ TCGA-DJ-A4UR TCGA-DJ-A4UT TCGA-DJ-A4UW TCGA-DJ-A4V0 TCGA-DJ-A4V2 
       33.04        34.78        27.06        26.93        35.54         3.12 
TCGA-DJ-A4V4 TCGA-DJ-A4V5 TCGA-DO-A1JZ TCGA-DO-A1K0 TCGA-DO-A2HM TCGA-E3-A3DY 
       15.81        35.38        54.90        21.53         2.33        92.55 
TCGA-E3-A3DZ TCGA-E3-A3E0 TCGA-E3-A3E1 TCGA-E3-A3E2 TCGA-E3-A3E3 TCGA-E8-A242 
       47.21        66.38        80.52        63.19        52.44        31.23 
TCGA-E8-A2EA TCGA-E8-A2JQ TCGA-E8-A3X7 TCGA-E8-A413 TCGA-E8-A414 TCGA-E8-A415 
       35.67        11.70        31.27        29.98        31.50        31.04 
TCGA-E8-A416 TCGA-E8-A417 TCGA-E8-A419 TCGA-E8-A432 TCGA-E8-A433 TCGA-E8-A434 
       31.30        30.84        25.45        30.61        31.27        31.33 
TCGA-E8-A436 TCGA-E8-A437 TCGA-E8-A438 TCGA-E8-A44K TCGA-E8-A44M TCGA-EL-A3CL 
       14.96        39.88        33.50        31.00        30.15        31.66 
TCGA-EL-A3CM TCGA-EL-A3CN TCGA-EL-A3CO TCGA-EL-A3CP TCGA-EL-A3CT TCGA-EL-A3CU 
       26.73       155.54        97.74       158.83        60.95       157.15 
TCGA-EL-A3CV TCGA-EL-A3CW TCGA-EL-A3CX TCGA-EL-A3CZ TCGA-EL-A3D1 TCGA-EL-A3D4 
       37.94        57.01       106.62        79.50        98.53        69.57 
TCGA-EL-A3D6 TCGA-EL-A3GO TCGA-EL-A3GP TCGA-EL-A3GR TCGA-EL-A3GS TCGA-EL-A3GU 
      108.36        64.87        49.51       115.10        65.39       136.01 
TCGA-EL-A3GV TCGA-EL-A3GW TCGA-EL-A3GX TCGA-EL-A3GY TCGA-EL-A3GZ TCGA-EL-A3H1 
       50.37        50.20       147.75       101.13       139.99        49.32 
TCGA-EL-A3H3 TCGA-EL-A3H4 TCGA-EL-A3H5 TCGA-EL-A3H7 TCGA-EL-A3MW TCGA-EL-A3MX 
       43.36        49.71        83.57       139.00       108.66        57.63 
TCGA-EL-A3MZ TCGA-EL-A3N2 TCGA-EL-A3T0 TCGA-EL-A3T1 TCGA-EL-A3T2 TCGA-EL-A3T3 
       52.50        29.65       142.52       129.57        32.48       132.07 
TCGA-EL-A3T6 TCGA-EL-A3T7 TCGA-EL-A3T8 TCGA-EL-A3T9 TCGA-EL-A3TA TCGA-EL-A3TB 
       98.24        41.29       107.47         5.72        66.90        82.82 
TCGA-EL-A3ZG TCGA-EL-A3ZH TCGA-EL-A3ZK TCGA-EL-A3ZL TCGA-EL-A3ZM TCGA-EL-A3ZN 
       89.56        91.17        51.78        62.30        36.03        53.06 
TCGA-EL-A3ZO TCGA-EL-A3ZP TCGA-EL-A3ZQ TCGA-EL-A3ZR TCGA-EL-A3ZS TCGA-EL-A3ZT 
       72.69        65.49        61.22        60.16         7.07        59.44 
TCGA-EL-A4JV TCGA-EL-A4JW TCGA-EL-A4JX TCGA-EL-A4JZ TCGA-EL-A4K0 TCGA-EL-A4K1 
       57.47        34.72        45.96        61.02        31.04        34.39 
TCGA-EL-A4K2 TCGA-EL-A4K4 TCGA-EL-A4K6 TCGA-EL-A4K7 TCGA-EL-A4K9 TCGA-EL-A4KD 
       30.51        53.36        44.15        41.13        47.84        43.59 
TCGA-EL-A4KG TCGA-EL-A4KH TCGA-EL-A4KI TCGA-EM-A1CS TCGA-EM-A1CT TCGA-EM-A1CU 
       24.30        27.06        23.90        26.86        18.18        20.91 
TCGA-EM-A1CV TCGA-EM-A1CW TCGA-EM-A1YA TCGA-EM-A1YB TCGA-EM-A1YC TCGA-EM-A1YD 
       48.49        18.05        19.79        19.46        78.61        57.01 
TCGA-EM-A1YE TCGA-EM-A22I TCGA-EM-A22J TCGA-EM-A22K TCGA-EM-A22L TCGA-EM-A22M 
       54.08        14.73        14.50        15.75        10.45        14.53 
TCGA-EM-A22N TCGA-EM-A22O TCGA-EM-A22P TCGA-EM-A22Q TCGA-EM-A2CJ TCGA-EM-A2CK 
       10.65        44.19        41.29        14.24        47.57        17.88 
TCGA-EM-A2CL TCGA-EM-A2CN TCGA-EM-A2CO TCGA-EM-A2CP TCGA-EM-A2CQ TCGA-EM-A2CR 
       13.18        23.51         6.05         2.99        12.30        13.64 
TCGA-EM-A2CS TCGA-EM-A2CT TCGA-EM-A2CU TCGA-EM-A2OV TCGA-EM-A2OW TCGA-EM-A2OX 
       27.65        48.46        13.15        22.16        40.34        19.73 
TCGA-EM-A2OY TCGA-EM-A2OZ TCGA-EM-A2P0 TCGA-EM-A2P1 TCGA-EM-A2P2 TCGA-EM-A2P3 
       32.32        33.96        17.59        17.46        17.29        14.60 
TCGA-EM-A3AI TCGA-EM-A3AJ TCGA-EM-A3AK TCGA-EM-A3AL TCGA-EM-A3AN TCGA-EM-A3AO 
       22.52        30.94        15.68        14.14        33.07        44.52 
TCGA-EM-A3AP TCGA-EM-A3AR TCGA-EM-A3FJ TCGA-EM-A3FK TCGA-EM-A3FL TCGA-EM-A3FM 
        8.35        37.25        27.95        23.77        47.38        21.01 
TCGA-EM-A3FN TCGA-EM-A3FO TCGA-EM-A3FP TCGA-EM-A3FQ TCGA-EM-A3FR TCGA-EM-A3O3 
       12.07        17.49        17.39        16.18        15.02        14.50 
TCGA-EM-A3O6 TCGA-EM-A3O7 TCGA-EM-A3O8 TCGA-EM-A3O9 TCGA-EM-A3OA TCGA-EM-A3OB 
       15.06         7.33        12.53         9.24        27.02        38.66 
TCGA-EM-A3ST TCGA-EM-A3SU TCGA-EM-A3SX TCGA-EM-A3SY TCGA-EM-A3SZ TCGA-EM-A4FF 
       38.86        29.95        29.85        13.51        12.79        84.59 
TCGA-EM-A4FH TCGA-EM-A4FK TCGA-EM-A4FM TCGA-EM-A4FN TCGA-EM-A4FO TCGA-EM-A4FR 
       29.33        21.34         5.33        26.37        26.37        21.53 
TCGA-EM-A4FU TCGA-EM-A4FV TCGA-EM-A4G1 TCGA-ET-A25G TCGA-ET-A25I TCGA-ET-A25J 
       60.49        24.46        13.68        81.93        81.70        77.56 
TCGA-ET-A25K TCGA-ET-A25O TCGA-ET-A25R TCGA-ET-A2MX TCGA-ET-A2MY TCGA-ET-A2MZ 
       70.42        65.29        63.45        88.41        58.75        37.25 
TCGA-ET-A2N0 TCGA-ET-A2N1 TCGA-ET-A2N3 TCGA-ET-A2N4 TCGA-ET-A2N5 TCGA-ET-A39I 
       52.60        54.35        83.34         2.66        80.88        33.24 
TCGA-ET-A39J TCGA-ET-A39K TCGA-ET-A39L TCGA-ET-A39M TCGA-ET-A39N TCGA-ET-A39O 
      106.09       107.41       108.46        84.89       123.32       100.57 
TCGA-ET-A39P TCGA-ET-A39R TCGA-ET-A39S TCGA-ET-A39T TCGA-ET-A3BN TCGA-ET-A3BP 
       95.34        94.13        55.10        98.20        28.24        79.10 
TCGA-ET-A3BQ TCGA-ET-A3BS TCGA-ET-A3BT TCGA-ET-A3BU TCGA-ET-A3BW TCGA-ET-A3BX 
       76.64         5.79        87.62        77.82        46.65        52.47 
TCGA-ET-A3DO TCGA-ET-A3DP TCGA-ET-A3DQ TCGA-ET-A3DR TCGA-ET-A3DS TCGA-ET-A3DT 
      116.78        94.59        84.85        80.58        66.84        43.73 
TCGA-ET-A3DU TCGA-ET-A3DV TCGA-ET-A3DW TCGA-ET-A40P TCGA-ET-A40Q TCGA-ET-A40R 
       62.83       166.62        24.72        43.99        46.26        44.38 
TCGA-ET-A40S TCGA-ET-A40T TCGA-ET-A4KN TCGA-ET-A4KQ TCGA-FE-A22Z TCGA-FE-A230 
       40.21        37.48        33.17        31.40        73.74        71.44 
TCGA-FE-A231 TCGA-FE-A232 TCGA-FE-A233 TCGA-FE-A234 TCGA-FE-A235 TCGA-FE-A236 
       31.59        79.69        24.69        68.22       117.40        66.77 
TCGA-FE-A237 TCGA-FE-A23A TCGA-FE-A3PA TCGA-FE-A3PB TCGA-FE-A3PC TCGA-FE-A3PD 
      112.80        81.83       106.36        85.15        85.68        78.77 
TCGA-FK-A3S3 TCGA-FK-A3SB TCGA-FK-A3SE TCGA-FK-A3SG TCGA-FK-A3SH TCGA-FK-A4UB 
       71.08         4.11        22.03         0.92        48.10       116.09 
TCGA-FY-A2QD TCGA-FY-A3BL TCGA-FY-A3I4 TCGA-FY-A3I5 TCGA-FY-A3NM TCGA-FY-A3NP 
        1.25        20.42        17.82         7.82        29.10        16.14 
TCGA-FY-A3ON TCGA-FY-A3R6 TCGA-FY-A3R7 TCGA-FY-A3R8 TCGA-FY-A3R9 TCGA-FY-A3RA 
       19.56        13.91        16.27        15.68        16.57        18.08 
TCGA-FY-A3TY TCGA-FY-A3W9 TCGA-FY-A3WA TCGA-FY-A3YR TCGA-FY-A40K TCGA-FY-A40L 
       23.31        21.63        17.06        17.36        15.16        23.87 
TCGA-FY-A40M TCGA-FY-A40N TCGA-FY-A4B0 TCGA-FY-A4B3 TCGA-FY-A4B4 TCGA-GE-A2C6 
       22.49        19.04        13.81        14.04        21.60        12.53 
TCGA-H2-A26U TCGA-H2-A2K9 TCGA-H2-A3RH TCGA-H2-A3RI TCGA-H2-A421 TCGA-H2-A422 
       17.00        21.67        12.46        11.01        20.05        18.61 
TCGA-IM-A3EB TCGA-IM-A3ED TCGA-IM-A3U2 TCGA-IM-A3U3 TCGA-IM-A41Y TCGA-IM-A41Z 
       48.92        47.41        18.51        16.90        21.83        31.10 
TCGA-IM-A420 TCGA-IM-A4EB TCGA-J8-A3O0 TCGA-J8-A3O1 TCGA-J8-A3O2 TCGA-J8-A3YD 
        8.22        25.64        43.17        27.19        11.24        31.82 
TCGA-J8-A3YE TCGA-J8-A3YF TCGA-J8-A3YG TCGA-J8-A3YH TCGA-J8-A42S TCGA-J8-A4HY 
       27.85        24.69        22.29         5.75         2.47         0.20 
TCGA-KS-A41F TCGA-KS-A41I TCGA-KS-A41J TCGA-KS-A41L TCGA-KS-A4I1 TCGA-KS-A4I3 
      143.57        15.98        15.68       113.85        26.70        43.69 
TCGA-KS-A4I5 TCGA-KS-A4I7 TCGA-KS-A4I9 TCGA-KS-A4IB TCGA-KS-A4IC TCGA-KS-A4ID 
       18.64        32.45        87.39        84.72        35.28        33.24 
TCGA-L6-A4EP TCGA-L6-A4EQ TCGA-MK-A4N6 TCGA-MK-A4N7 TCGA-MK-A4N9 TCGA-QD-A8IV 
       33.40        40.37        36.10        32.45        30.21        12.89 
TCGA-E8-A418 
        3.02 

  NUP93 MUTATED NUP93 WILD-TYPE 
           4.83            0.20 
  NUP93 MUTATED NUP93 WILD-TYPE 
          33.93          178.29 
  NUP93 MUTATED NUP93 WILD-TYPE 
         15.975          31.230 
[1] "4.8 - 33.9 (16.0)"  "0.2 - 178.3 (31.2)"
[1] "hr="     "1200000"
D12V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV STAGE IVA STAGE IVC
  NUP93 MUTATED         2        0         2        0         0         0
  NUP93 WILD-TYPE     276       50       106        2        46         6
D12V3, multiclass
           clus
vv          NUP93 MUTATED NUP93 WILD-TYPE
  STAGE I               2             276
  STAGE II              0              50
  STAGE III             2             106
  STAGE IV              0               2
  STAGE IVA             0              46
  STAGE IVC             0               6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus               T1  T2  T3  T4
  NUP93 MUTATED     2   1   1   0
  NUP93 WILD-TYPE 139 161 163  23
D12V4, multiclass
    clus
vv   NUP93 MUTATED NUP93 WILD-TYPE
  T1             2             139
  T2             1             161
  T3             1             163
  T4             0              23
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D12V5, binary
                 cls
clus                0   1
  NUP93 MUTATED     1   3
  NUP93 WILD-TYPE 219 219
[1] "tbl2"
                 cls
clus              [,1] [,2]
  NUP93 MUTATED      1    3
  NUP93 WILD-TYPE  219  219
   clus
vv  NUP93 MUTATED NUP93 WILD-TYPE
  0             1             219
  1             3             219
[1] 2 2
[1] FALSE
D12V6, binary
                 cls
clus                0   1
  NUP93 MUTATED     3   0
  NUP93 WILD-TYPE 273   9
[1] "tbl2"
                 cls
clus              [,1] [,2]
  NUP93 MUTATED      3    0
  NUP93 WILD-TYPE  273    9
   clus
vv  NUP93 MUTATED NUP93 WILD-TYPE
  0             3             273
  1             0               9
[1] 2 2
[1] FALSE
D12V7, binary
                 cls
clus                0   1
  NUP93 MUTATED     3   1
  NUP93 WILD-TYPE 359 129
[1] "tbl2"
                 cls
clus              [,1] [,2]
  NUP93 MUTATED      3    1
  NUP93 WILD-TYPE  359  129
        clus
vv       NUP93 MUTATED NUP93 WILD-TYPE
  FEMALE             3             359
  MALE               1             129
[1] 2 2
[1] FALSE
D12V8, binary
                 cls
clus                0   1
  NUP93 MUTATED     1   3
  NUP93 WILD-TYPE 178 295
[1] "tbl2"
                 cls
clus              [,1] [,2]
  NUP93 MUTATED      1    3
  NUP93 WILD-TYPE  178  295
     clus
vv    NUP93 MUTATED NUP93 WILD-TYPE
  NO              1             178
  YES             3             295
[1] 2 2
[1] FALSE
                 vv
clus              OTHER, SPECIFY THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  NUP93 MUTATED                1                                             1
  NUP93 WILD-TYPE              6                                           347
                 vv
clus              THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  NUP93 MUTATED                                                                        1
  NUP93 WILD-TYPE                                                                    101
                 vv
clus              THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  NUP93 MUTATED                                                                     1
  NUP93 WILD-TYPE                                                                  34
D12V9, multiclass
                                                                        clus
vv                                                                       NUP93 MUTATED
  OTHER, SPECIFY                                                                     1
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                      1
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)             1
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                1
                                                                        clus
vv                                                                       NUP93 WILD-TYPE
  OTHER, SPECIFY                                                                       6
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                      347
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)             101
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                 34
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D12V10, binary
                 cls
clus                0   1
  NUP93 MUTATED     3   0
  NUP93 WILD-TYPE 412  17
[1] "tbl2"
                 cls
clus              [,1] [,2]
  NUP93 MUTATED      3    0
  NUP93 WILD-TYPE  412   17
     clus
vv    NUP93 MUTATED NUP93 WILD-TYPE
  NO              3             412
  YES             0              17
[1] 2 2
[1] FALSE
                 vv
clus              MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE VERY ADVANCED (T4B)
  NUP93 MUTATED              1                       0    3                   0
  NUP93 WILD-TYPE          129                      18  325                   1
D12V11, multiclass
                         clus
vv                        NUP93 MUTATED NUP93 WILD-TYPE
  MINIMAL (T3)                        1             129
  MODERATE/ADVANCED (T4A)             0              18
  NONE                                3             325
  VERY ADVANCED (T4B)                 0               1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus               R0  R1  R2  RX
  NUP93 MUTATED     3   1   0   0
  NUP93 WILD-TYPE 376  50   4  30
D12V12, multiclass
    clus
vv   NUP93 MUTATED NUP93 WILD-TYPE
  R0             3             376
  R1             1              50
  R2             0               4
  RX             0              30
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D12V13, continuous
D12V14, binary
                 cls
clus                0   1
  NUP93 MUTATED     3   1
  NUP93 WILD-TYPE 218 261
[1] "tbl2"
                 cls
clus              [,1] [,2]
  NUP93 MUTATED      3    1
  NUP93 WILD-TYPE  218  261
            clus
vv           NUP93 MUTATED NUP93 WILD-TYPE
  MULTIFOCAL             3             218
  UNIFOCAL               1             261
[1] 2 2
[1] FALSE
D12V15, continuous
                 vv
clus              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  NUP93 MUTATED                                  0     0
  NUP93 WILD-TYPE                                1    51
                 vv
clus              BLACK OR AFRICAN AMERICAN WHITE
  NUP93 MUTATED                           1     2
  NUP93 WILD-TYPE                        25   320
D12V16, multiclass
                                  clus
vv                                 NUP93 MUTATED NUP93 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE             0               1
  ASIAN                                        0              51
  BLACK OR AFRICAN AMERICAN                    1              25
  WHITE                                        2             320
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D12V17, binary
                 cls
clus                0   1
  NUP93 MUTATED     0   3
  NUP93 WILD-TYPE  38 348
[1] "tbl2"
                 cls
clus              [,1] [,2]
  NUP93 MUTATED      0    3
  NUP93 WILD-TYPE   38  348
                        clus
vv                       NUP93 MUTATED NUP93 WILD-TYPE
  HISPANIC OR LATINO                 0              38
  NOT HISPANIC OR LATINO             3             348
[1] 2 2
[1] FALSE

Clustering(13) Variable = GAGE2A MUTATION ANALYSIS
D13V1, survival
                  sevent
clus2                0   1
  GAGE2A MUTATED     4   0
  GAGE2A WILD-TYPE 473  14
  GAGE2A MUTATED GAGE2A WILD-TYPE 
               4              487 
  GAGE2A MUTATED GAGE2A WILD-TYPE 
               0               14 
$`GAGE2A MUTATED`
TCGA-BJ-A2N8 TCGA-CE-A3MD TCGA-EM-A3SX TCGA-FY-A3RA 
       16.57        12.79        29.85        18.08 

$`GAGE2A WILD-TYPE`
TCGA-BJ-A290 TCGA-BJ-A45K TCGA-CE-A13K TCGA-DE-A0XZ TCGA-DJ-A13L TCGA-DJ-A2PR 
       30.21        23.18        12.66        35.84         9.96        27.45 
TCGA-DJ-A3UU TCGA-DJ-A3UW TCGA-DJ-A3V4 TCGA-DJ-A3VI TCGA-DJ-A3VK TCGA-E3-A3E5 
       23.44        59.57        42.54         3.12        24.76        39.95 
TCGA-EL-A3CR TCGA-EL-A3CS TCGA-EL-A3CY TCGA-EL-A3D0 TCGA-EL-A3D5 TCGA-EL-A3GQ 
        7.66        45.53         4.18       139.86        57.11        50.24 
TCGA-EL-A3H2 TCGA-EL-A3H8 TCGA-EL-A3MY TCGA-EL-A3N3 TCGA-EM-A3AQ TCGA-ET-A3BO 
       33.50       150.48        17.52       178.29        29.72        50.40 
TCGA-ET-A3BV TCGA-FK-A3SD TCGA-FY-A76V TCGA-J8-A3NZ TCGA-J8-A4HW TCGA-L6-A4ET 
       75.42         1.05         1.68        17.23         2.60        21.83 
TCGA-MK-A84Z TCGA-4C-A93U TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0Z3 
       23.93         4.24        24.79        13.78        49.78        16.34 
TCGA-BJ-A0Z9 TCGA-BJ-A0ZA TCGA-BJ-A0ZB TCGA-BJ-A0ZC TCGA-BJ-A0ZE TCGA-BJ-A0ZG 
       41.33        18.87         4.01        11.57        16.73        25.48 
TCGA-BJ-A0ZH TCGA-BJ-A0ZJ TCGA-BJ-A18Y TCGA-BJ-A18Z TCGA-BJ-A191 TCGA-BJ-A192 
       15.12        42.08        51.39        41.52         4.83        44.35 
TCGA-BJ-A28R TCGA-BJ-A28S TCGA-BJ-A28T TCGA-BJ-A28V TCGA-BJ-A28X TCGA-BJ-A28Z 
       42.15        21.04        35.54        32.45        30.97        11.08 
TCGA-BJ-A2N7 TCGA-BJ-A2N9 TCGA-BJ-A2NA TCGA-BJ-A2P4 TCGA-BJ-A3EZ TCGA-BJ-A3F0 
       18.38        20.48        18.97        12.82        16.01        13.94 
TCGA-BJ-A3PR TCGA-BJ-A3PT TCGA-BJ-A3PU TCGA-BJ-A45D TCGA-BJ-A45E TCGA-BJ-A45F 
       36.39        23.31        18.64        10.88        21.01         3.45 
TCGA-BJ-A45G TCGA-BJ-A45H TCGA-BJ-A45I TCGA-BJ-A45J TCGA-BJ-A4O8 TCGA-BJ-A4O9 
       23.84        28.44        15.45        21.63        19.43        23.47 
TCGA-CE-A27D TCGA-CE-A3ME TCGA-CE-A481 TCGA-CE-A482 TCGA-CE-A483 TCGA-CE-A484 
       12.30        12.46        11.38        10.68        15.02        12.43 
TCGA-CE-A485 TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DE-A2OL TCGA-DE-A3KN TCGA-DE-A4M8 
       12.66        21.63        50.17        37.64        27.32        18.54 
TCGA-DE-A4M9 TCGA-DE-A4MA TCGA-DE-A4MB TCGA-DE-A4MC TCGA-DE-A4MD TCGA-DE-A69J 
       18.84        30.12        11.57        30.02        25.12        14.70 
TCGA-DE-A69K TCGA-DE-A7U5 TCGA-DJ-A13M TCGA-DJ-A13O TCGA-DJ-A13P TCGA-DJ-A13R 
       14.27         2.76        48.79        38.17       169.32        18.58 
TCGA-DJ-A13S TCGA-DJ-A13T TCGA-DJ-A13U TCGA-DJ-A13V TCGA-DJ-A13W TCGA-DJ-A13X 
        8.71        56.19        52.27        43.17        52.37         8.32 
TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QG TCGA-DJ-A1QH TCGA-DJ-A1QI 
       48.07       135.91        30.61        44.98        42.51        14.96 
TCGA-DJ-A1QL TCGA-DJ-A1QM TCGA-DJ-A1QN TCGA-DJ-A1QO TCGA-DJ-A1QQ TCGA-DJ-A2PN 
       17.59         6.02        42.58        47.41        17.56        10.09 
TCGA-DJ-A2PO TCGA-DJ-A2PP TCGA-DJ-A2PQ TCGA-DJ-A2PS TCGA-DJ-A2PT TCGA-DJ-A2PU 
        7.99        30.58        35.41        26.20        38.83        33.96 
TCGA-DJ-A2PV TCGA-DJ-A2PW TCGA-DJ-A2PX TCGA-DJ-A2PY TCGA-DJ-A2PZ TCGA-DJ-A2Q0 
       31.99        34.85        28.96         8.78         8.42        34.36 
TCGA-DJ-A2Q1 TCGA-DJ-A2Q2 TCGA-DJ-A2Q3 TCGA-DJ-A2Q4 TCGA-DJ-A2Q5 TCGA-DJ-A2Q6 
       37.74        43.96        40.24        33.93        37.48        36.46 
TCGA-DJ-A2Q7 TCGA-DJ-A2Q8 TCGA-DJ-A2Q9 TCGA-DJ-A2QA TCGA-DJ-A2QB TCGA-DJ-A2QC 
       35.11        39.09        35.90        33.53        35.18        39.95 
TCGA-DJ-A3UK TCGA-DJ-A3UM TCGA-DJ-A3UN TCGA-DJ-A3UO TCGA-DJ-A3UP TCGA-DJ-A3UQ 
       36.92        31.04        32.42        31.46        16.41        19.56 
TCGA-DJ-A3UR TCGA-DJ-A3US TCGA-DJ-A3UT TCGA-DJ-A3UX TCGA-DJ-A3UY TCGA-DJ-A3UZ 
       36.33        32.81        36.33        11.34        35.87        40.96 
TCGA-DJ-A3V0 TCGA-DJ-A3V2 TCGA-DJ-A3V3 TCGA-DJ-A3V5 TCGA-DJ-A3V7 TCGA-DJ-A3V8 
       36.99        20.22        30.61        19.20        23.21        21.27 
TCGA-DJ-A3V9 TCGA-DJ-A3VA TCGA-DJ-A3VB TCGA-DJ-A3VD TCGA-DJ-A3VE TCGA-DJ-A3VF 
       20.48        24.82        22.92        40.70        18.97         9.60 
TCGA-DJ-A3VG TCGA-DJ-A3VJ TCGA-DJ-A3VL TCGA-DJ-A3VM TCGA-DJ-A4UL TCGA-DJ-A4UP 
       35.67        36.43        23.44        27.62        30.87        30.12 
TCGA-DJ-A4UQ TCGA-DJ-A4UR TCGA-DJ-A4UT TCGA-DJ-A4UW TCGA-DJ-A4V0 TCGA-DJ-A4V2 
       33.04        34.78        27.06        26.93        35.54         3.12 
TCGA-DJ-A4V4 TCGA-DJ-A4V5 TCGA-DO-A1JZ TCGA-DO-A1K0 TCGA-DO-A2HM TCGA-E3-A3DY 
       15.81        35.38        54.90        21.53         2.33        92.55 
TCGA-E3-A3DZ TCGA-E3-A3E0 TCGA-E3-A3E1 TCGA-E3-A3E2 TCGA-E3-A3E3 TCGA-E8-A242 
       47.21        66.38        80.52        63.19        52.44        31.23 
TCGA-E8-A2EA TCGA-E8-A2JQ TCGA-E8-A3X7 TCGA-E8-A413 TCGA-E8-A414 TCGA-E8-A415 
       35.67        11.70        31.27        29.98        31.50        31.04 
TCGA-E8-A416 TCGA-E8-A417 TCGA-E8-A419 TCGA-E8-A432 TCGA-E8-A433 TCGA-E8-A434 
       31.30        30.84        25.45        30.61        31.27        31.33 
TCGA-E8-A436 TCGA-E8-A437 TCGA-E8-A438 TCGA-E8-A44K TCGA-E8-A44M TCGA-EL-A3CL 
       14.96        39.88        33.50        31.00        30.15        31.66 
TCGA-EL-A3CM TCGA-EL-A3CN TCGA-EL-A3CO TCGA-EL-A3CP TCGA-EL-A3CT TCGA-EL-A3CU 
       26.73       155.54        97.74       158.83        60.95       157.15 
TCGA-EL-A3CV TCGA-EL-A3CW TCGA-EL-A3CX TCGA-EL-A3CZ TCGA-EL-A3D1 TCGA-EL-A3D4 
       37.94        57.01       106.62        79.50        98.53        69.57 
TCGA-EL-A3D6 TCGA-EL-A3GO TCGA-EL-A3GP TCGA-EL-A3GR TCGA-EL-A3GS TCGA-EL-A3GU 
      108.36        64.87        49.51       115.10        65.39       136.01 
TCGA-EL-A3GV TCGA-EL-A3GW TCGA-EL-A3GX TCGA-EL-A3GY TCGA-EL-A3GZ TCGA-EL-A3H1 
       50.37        50.20       147.75       101.13       139.99        49.32 
TCGA-EL-A3H3 TCGA-EL-A3H4 TCGA-EL-A3H5 TCGA-EL-A3H7 TCGA-EL-A3MW TCGA-EL-A3MX 
       43.36        49.71        83.57       139.00       108.66        57.63 
TCGA-EL-A3MZ TCGA-EL-A3N2 TCGA-EL-A3T0 TCGA-EL-A3T1 TCGA-EL-A3T2 TCGA-EL-A3T3 
       52.50        29.65       142.52       129.57        32.48       132.07 
TCGA-EL-A3T6 TCGA-EL-A3T7 TCGA-EL-A3T8 TCGA-EL-A3T9 TCGA-EL-A3TA TCGA-EL-A3TB 
       98.24        41.29       107.47         5.72        66.90        82.82 
TCGA-EL-A3ZG TCGA-EL-A3ZH TCGA-EL-A3ZK TCGA-EL-A3ZL TCGA-EL-A3ZM TCGA-EL-A3ZN 
       89.56        91.17        51.78        62.30        36.03        53.06 
TCGA-EL-A3ZO TCGA-EL-A3ZP TCGA-EL-A3ZQ TCGA-EL-A3ZR TCGA-EL-A3ZS TCGA-EL-A3ZT 
       72.69        65.49        61.22        60.16         7.07        59.44 
TCGA-EL-A4JV TCGA-EL-A4JW TCGA-EL-A4JX TCGA-EL-A4JZ TCGA-EL-A4K0 TCGA-EL-A4K1 
       57.47        34.72        45.96        61.02        31.04        34.39 
TCGA-EL-A4K2 TCGA-EL-A4K4 TCGA-EL-A4K6 TCGA-EL-A4K7 TCGA-EL-A4K9 TCGA-EL-A4KD 
       30.51        53.36        44.15        41.13        47.84        43.59 
TCGA-EL-A4KG TCGA-EL-A4KH TCGA-EL-A4KI TCGA-EM-A1CS TCGA-EM-A1CT TCGA-EM-A1CU 
       24.30        27.06        23.90        26.86        18.18        20.91 
TCGA-EM-A1CV TCGA-EM-A1CW TCGA-EM-A1YA TCGA-EM-A1YB TCGA-EM-A1YC TCGA-EM-A1YD 
       48.49        18.05        19.79        19.46        78.61        57.01 
TCGA-EM-A1YE TCGA-EM-A22I TCGA-EM-A22J TCGA-EM-A22K TCGA-EM-A22L TCGA-EM-A22M 
       54.08        14.73        14.50        15.75        10.45        14.53 
TCGA-EM-A22N TCGA-EM-A22O TCGA-EM-A22P TCGA-EM-A22Q TCGA-EM-A2CJ TCGA-EM-A2CK 
       10.65        44.19        41.29        14.24        47.57        17.88 
TCGA-EM-A2CL TCGA-EM-A2CN TCGA-EM-A2CO TCGA-EM-A2CP TCGA-EM-A2CQ TCGA-EM-A2CR 
       13.18        23.51         6.05         2.99        12.30        13.64 
TCGA-EM-A2CS TCGA-EM-A2CT TCGA-EM-A2CU TCGA-EM-A2OV TCGA-EM-A2OW TCGA-EM-A2OX 
       27.65        48.46        13.15        22.16        40.34        19.73 
TCGA-EM-A2OY TCGA-EM-A2OZ TCGA-EM-A2P0 TCGA-EM-A2P1 TCGA-EM-A2P2 TCGA-EM-A2P3 
       32.32        33.96        17.59        17.46        17.29        14.60 
TCGA-EM-A3AI TCGA-EM-A3AJ TCGA-EM-A3AK TCGA-EM-A3AL TCGA-EM-A3AN TCGA-EM-A3AO 
       22.52        30.94        15.68        14.14        33.07        44.52 
TCGA-EM-A3AP TCGA-EM-A3AR TCGA-EM-A3FJ TCGA-EM-A3FK TCGA-EM-A3FL TCGA-EM-A3FM 
        8.35        37.25        27.95        23.77        47.38        21.01 
TCGA-EM-A3FN TCGA-EM-A3FO TCGA-EM-A3FP TCGA-EM-A3FQ TCGA-EM-A3FR TCGA-EM-A3O3 
       12.07        17.49        17.39        16.18        15.02        14.50 
TCGA-EM-A3O6 TCGA-EM-A3O7 TCGA-EM-A3O8 TCGA-EM-A3O9 TCGA-EM-A3OA TCGA-EM-A3OB 
       15.06         7.33        12.53         9.24        27.02        38.66 
TCGA-EM-A3ST TCGA-EM-A3SU TCGA-EM-A3SY TCGA-EM-A3SZ TCGA-EM-A4FF TCGA-EM-A4FH 
       38.86        29.95        13.51        12.79        84.59        29.33 
TCGA-EM-A4FK TCGA-EM-A4FM TCGA-EM-A4FN TCGA-EM-A4FO TCGA-EM-A4FQ TCGA-EM-A4FR 
       21.34         5.33        26.37        26.37        22.45        21.53 
TCGA-EM-A4FU TCGA-EM-A4FV TCGA-EM-A4G1 TCGA-ET-A25G TCGA-ET-A25I TCGA-ET-A25J 
       60.49        24.46        13.68        81.93        81.70        77.56 
TCGA-ET-A25K TCGA-ET-A25O TCGA-ET-A25R TCGA-ET-A2MX TCGA-ET-A2MY TCGA-ET-A2MZ 
       70.42        65.29        63.45        88.41        58.75        37.25 
TCGA-ET-A2N0 TCGA-ET-A2N1 TCGA-ET-A2N3 TCGA-ET-A2N4 TCGA-ET-A2N5 TCGA-ET-A39I 
       52.60        54.35        83.34         2.66        80.88        33.24 
TCGA-ET-A39J TCGA-ET-A39K TCGA-ET-A39L TCGA-ET-A39M TCGA-ET-A39N TCGA-ET-A39O 
      106.09       107.41       108.46        84.89       123.32       100.57 
TCGA-ET-A39P TCGA-ET-A39R TCGA-ET-A39S TCGA-ET-A39T TCGA-ET-A3BN TCGA-ET-A3BP 
       95.34        94.13        55.10        98.20        28.24        79.10 
TCGA-ET-A3BQ TCGA-ET-A3BS TCGA-ET-A3BT TCGA-ET-A3BU TCGA-ET-A3BW TCGA-ET-A3BX 
       76.64         5.79        87.62        77.82        46.65        52.47 
TCGA-ET-A3DO TCGA-ET-A3DP TCGA-ET-A3DQ TCGA-ET-A3DR TCGA-ET-A3DS TCGA-ET-A3DT 
      116.78        94.59        84.85        80.58        66.84        43.73 
TCGA-ET-A3DU TCGA-ET-A3DV TCGA-ET-A3DW TCGA-ET-A40P TCGA-ET-A40Q TCGA-ET-A40R 
       62.83       166.62        24.72        43.99        46.26        44.38 
TCGA-ET-A40S TCGA-ET-A40T TCGA-ET-A4KN TCGA-ET-A4KQ TCGA-FE-A22Z TCGA-FE-A230 
       40.21        37.48        33.17        31.40        73.74        71.44 
TCGA-FE-A231 TCGA-FE-A232 TCGA-FE-A233 TCGA-FE-A234 TCGA-FE-A235 TCGA-FE-A236 
       31.59        79.69        24.69        68.22       117.40        66.77 
TCGA-FE-A237 TCGA-FE-A23A TCGA-FE-A3PA TCGA-FE-A3PB TCGA-FE-A3PC TCGA-FE-A3PD 
      112.80        81.83       106.36        85.15        85.68        78.77 
TCGA-FK-A3S3 TCGA-FK-A3SB TCGA-FK-A3SE TCGA-FK-A3SG TCGA-FK-A3SH TCGA-FK-A4UB 
       71.08         4.11        22.03         0.92        48.10       116.09 
TCGA-FY-A2QD TCGA-FY-A3BL TCGA-FY-A3I4 TCGA-FY-A3I5 TCGA-FY-A3NM TCGA-FY-A3NP 
        1.25        20.42        17.82         7.82        29.10        16.14 
TCGA-FY-A3ON TCGA-FY-A3R6 TCGA-FY-A3R7 TCGA-FY-A3R8 TCGA-FY-A3R9 TCGA-FY-A3TY 
       19.56        13.91        16.27        15.68        16.57        23.31 
TCGA-FY-A3W9 TCGA-FY-A3WA TCGA-FY-A3YR TCGA-FY-A40K TCGA-FY-A40L TCGA-FY-A40M 
       21.63        17.06        17.36        15.16        23.87        22.49 
TCGA-FY-A40N TCGA-FY-A4B0 TCGA-FY-A4B3 TCGA-FY-A4B4 TCGA-GE-A2C6 TCGA-H2-A26U 
       19.04        13.81        14.04        21.60        12.53        17.00 
TCGA-H2-A2K9 TCGA-H2-A3RH TCGA-H2-A3RI TCGA-H2-A421 TCGA-H2-A422 TCGA-IM-A3EB 
       21.67        12.46        11.01        20.05        18.61        48.92 
TCGA-IM-A3ED TCGA-IM-A3U2 TCGA-IM-A3U3 TCGA-IM-A41Y TCGA-IM-A41Z TCGA-IM-A420 
       47.41        18.51        16.90        21.83        31.10         8.22 
TCGA-IM-A4EB TCGA-J8-A3O0 TCGA-J8-A3O1 TCGA-J8-A3O2 TCGA-J8-A3YD TCGA-J8-A3YE 
       25.64        43.17        27.19        11.24        31.82        27.85 
TCGA-J8-A3YF TCGA-J8-A3YG TCGA-J8-A3YH TCGA-J8-A42S TCGA-J8-A4HY TCGA-KS-A41F 
       24.69        22.29         5.75         2.47         0.20       143.57 
TCGA-KS-A41I TCGA-KS-A41J TCGA-KS-A41L TCGA-KS-A4I1 TCGA-KS-A4I3 TCGA-KS-A4I5 
       15.98        15.68       113.85        26.70        43.69        18.64 
TCGA-KS-A4I7 TCGA-KS-A4I9 TCGA-KS-A4IB TCGA-KS-A4IC TCGA-KS-A4ID TCGA-L6-A4EP 
       32.45        87.39        84.72        35.28        33.24        33.40 
TCGA-L6-A4EQ TCGA-L6-A4EU TCGA-MK-A4N6 TCGA-MK-A4N7 TCGA-MK-A4N9 TCGA-QD-A8IV 
       40.37         9.50        36.10        32.45        30.21        12.89 
TCGA-E8-A418 
        3.02 

  GAGE2A MUTATED GAGE2A WILD-TYPE 
           12.79             0.20 
  GAGE2A MUTATED GAGE2A WILD-TYPE 
           29.85           178.29 
  GAGE2A MUTATED GAGE2A WILD-TYPE 
          17.325           31.270 
[1] "12.8 - 29.9 (17.3)" "0.2 - 178.3 (31.3)"
[1] "hr="     "1200000"
D13V2, continuous
                  vv
clus               STAGE I STAGE II STAGE III STAGE IV STAGE IVA STAGE IVC
  GAGE2A MUTATED         4        0         0        0         0         0
  GAGE2A WILD-TYPE     274       50       108        2        46         6
D13V3, multiclass
           clus
vv          GAGE2A MUTATED GAGE2A WILD-TYPE
  STAGE I                4              274
  STAGE II               0               50
  STAGE III              0              108
  STAGE IV               0                2
  STAGE IVA              0               46
  STAGE IVC              0                6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus                T1  T2  T3  T4
  GAGE2A MUTATED     1   2   1   0
  GAGE2A WILD-TYPE 140 160 163  23
D13V4, multiclass
    clus
vv   GAGE2A MUTATED GAGE2A WILD-TYPE
  T1              1              140
  T2              2              160
  T3              1              163
  T4              0               23
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D13V5, binary
                  cls
clus                 0   1
  GAGE2A MUTATED     1   2
  GAGE2A WILD-TYPE 219 220
[1] "tbl2"
                  cls
clus               [,1] [,2]
  GAGE2A MUTATED      1    2
  GAGE2A WILD-TYPE  219  220
   clus
vv  GAGE2A MUTATED GAGE2A WILD-TYPE
  0              1              219
  1              2              220
[1] 2 2
[1] FALSE
D13V6, binary
                  cls
clus                 0   1
  GAGE2A MUTATED     2   0
  GAGE2A WILD-TYPE 274   9
[1] "tbl2"
                  cls
clus               [,1] [,2]
  GAGE2A MUTATED      2    0
  GAGE2A WILD-TYPE  274    9
   clus
vv  GAGE2A MUTATED GAGE2A WILD-TYPE
  0              2              274
  1              0                9
[1] 2 2
[1] FALSE
D13V7, binary
                  cls
clus                 0   1
  GAGE2A MUTATED     3   1
  GAGE2A WILD-TYPE 359 129
[1] "tbl2"
                  cls
clus               [,1] [,2]
  GAGE2A MUTATED      3    1
  GAGE2A WILD-TYPE  359  129
        clus
vv       GAGE2A MUTATED GAGE2A WILD-TYPE
  FEMALE              3              359
  MALE                1              129
[1] 2 2
[1] FALSE
D13V8, binary
                  cls
clus                 0   1
  GAGE2A MUTATED     2   2
  GAGE2A WILD-TYPE 177 296
[1] "tbl2"
                  cls
clus               [,1] [,2]
  GAGE2A MUTATED      2    2
  GAGE2A WILD-TYPE  177  296
     clus
vv    GAGE2A MUTATED GAGE2A WILD-TYPE
  NO               2              177
  YES              2              296
[1] 2 2
[1] FALSE
                  vv
clus               OTHER, SPECIFY THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  GAGE2A MUTATED                0                                             4
  GAGE2A WILD-TYPE              7                                           344
                  vv
clus               THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  GAGE2A MUTATED                                                                        0
  GAGE2A WILD-TYPE                                                                    102
                  vv
clus               THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  GAGE2A MUTATED                                                                     0
  GAGE2A WILD-TYPE                                                                  35
D13V9, multiclass
                                                                        clus
vv                                                                       GAGE2A MUTATED
  OTHER, SPECIFY                                                                      0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                       4
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)              0
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                 0
                                                                        clus
vv                                                                       GAGE2A WILD-TYPE
  OTHER, SPECIFY                                                                        7
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                       344
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)              102
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                  35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D13V10, binary
                  cls
clus                 0   1
  GAGE2A MUTATED     2   0
  GAGE2A WILD-TYPE 413  17
[1] "tbl2"
                  cls
clus               [,1] [,2]
  GAGE2A MUTATED      2    0
  GAGE2A WILD-TYPE  413   17
     clus
vv    GAGE2A MUTATED GAGE2A WILD-TYPE
  NO               2              413
  YES              0               17
[1] 2 2
[1] FALSE
                  vv
clus               MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  GAGE2A MUTATED              0                       0    3
  GAGE2A WILD-TYPE          130                      18  325
                  vv
clus               VERY ADVANCED (T4B)
  GAGE2A MUTATED                     0
  GAGE2A WILD-TYPE                   1
D13V11, multiclass
                         clus
vv                        GAGE2A MUTATED GAGE2A WILD-TYPE
  MINIMAL (T3)                         0              130
  MODERATE/ADVANCED (T4A)              0               18
  NONE                                 3              325
  VERY ADVANCED (T4B)                  0                1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus                R0  R1  R2  RX
  GAGE2A MUTATED     2   1   0   0
  GAGE2A WILD-TYPE 377  50   4  30
D13V12, multiclass
    clus
vv   GAGE2A MUTATED GAGE2A WILD-TYPE
  R0              2              377
  R1              1               50
  R2              0                4
  RX              0               30
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D13V13, continuous
D13V14, binary
                  cls
clus                 0   1
  GAGE2A MUTATED     2   2
  GAGE2A WILD-TYPE 219 260
[1] "tbl2"
                  cls
clus               [,1] [,2]
  GAGE2A MUTATED      2    2
  GAGE2A WILD-TYPE  219  260
            clus
vv           GAGE2A MUTATED GAGE2A WILD-TYPE
  MULTIFOCAL              2              219
  UNIFOCAL                2              260
[1] 2 2
[1] FALSE
D13V15, continuous
                  vv
clus               AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  GAGE2A MUTATED                                  0     1
  GAGE2A WILD-TYPE                                1    50
                  vv
clus               BLACK OR AFRICAN AMERICAN WHITE
  GAGE2A MUTATED                           0     2
  GAGE2A WILD-TYPE                        26   320
D13V16, multiclass
                                  clus
vv                                 GAGE2A MUTATED GAGE2A WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE              0                1
  ASIAN                                         1               50
  BLACK OR AFRICAN AMERICAN                     0               26
  WHITE                                         2              320
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D13V17, binary
                  cls
clus                 0   1
  GAGE2A MUTATED     0   3
  GAGE2A WILD-TYPE  38 348
[1] "tbl2"
                  cls
clus               [,1] [,2]
  GAGE2A MUTATED      0    3
  GAGE2A WILD-TYPE   38  348
                        clus
vv                       GAGE2A MUTATED GAGE2A WILD-TYPE
  HISPANIC OR LATINO                  0               38
  NOT HISPANIC OR LATINO              3              348
[1] 2 2
[1] FALSE

Clustering(14) Variable = ABL1 MUTATION ANALYSIS
D14V1, survival
                sevent
clus2              0   1
  ABL1 MUTATED     5   0
  ABL1 WILD-TYPE 472  14
  ABL1 MUTATED ABL1 WILD-TYPE 
             5            486 
  ABL1 MUTATED ABL1 WILD-TYPE 
             0             14 
$`ABL1 MUTATED`
TCGA-BJ-A2N7 TCGA-CE-A484 TCGA-DJ-A3VD TCGA-EL-A3GY TCGA-ET-A39L 
       18.38        12.43        40.70       101.13       108.46 

$`ABL1 WILD-TYPE`
TCGA-BJ-A290 TCGA-BJ-A45K TCGA-CE-A13K TCGA-DE-A0XZ TCGA-DJ-A13L TCGA-DJ-A2PR 
       30.21        23.18        12.66        35.84         9.96        27.45 
TCGA-DJ-A3UU TCGA-DJ-A3UW TCGA-DJ-A3V4 TCGA-DJ-A3VI TCGA-DJ-A3VK TCGA-E3-A3E5 
       23.44        59.57        42.54         3.12        24.76        39.95 
TCGA-EL-A3CR TCGA-EL-A3CS TCGA-EL-A3CY TCGA-EL-A3D0 TCGA-EL-A3D5 TCGA-EL-A3GQ 
        7.66        45.53         4.18       139.86        57.11        50.24 
TCGA-EL-A3H2 TCGA-EL-A3H8 TCGA-EL-A3MY TCGA-EL-A3N3 TCGA-EM-A3AQ TCGA-ET-A3BO 
       33.50       150.48        17.52       178.29        29.72        50.40 
TCGA-ET-A3BV TCGA-FK-A3SD TCGA-FY-A76V TCGA-J8-A3NZ TCGA-J8-A4HW TCGA-L6-A4ET 
       75.42         1.05         1.68        17.23         2.60        21.83 
TCGA-MK-A84Z TCGA-4C-A93U TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0Z3 
       23.93         4.24        24.79        13.78        49.78        16.34 
TCGA-BJ-A0Z9 TCGA-BJ-A0ZA TCGA-BJ-A0ZB TCGA-BJ-A0ZC TCGA-BJ-A0ZE TCGA-BJ-A0ZG 
       41.33        18.87         4.01        11.57        16.73        25.48 
TCGA-BJ-A0ZH TCGA-BJ-A0ZJ TCGA-BJ-A18Y TCGA-BJ-A18Z TCGA-BJ-A191 TCGA-BJ-A192 
       15.12        42.08        51.39        41.52         4.83        44.35 
TCGA-BJ-A28R TCGA-BJ-A28S TCGA-BJ-A28T TCGA-BJ-A28V TCGA-BJ-A28X TCGA-BJ-A28Z 
       42.15        21.04        35.54        32.45        30.97        11.08 
TCGA-BJ-A2N8 TCGA-BJ-A2N9 TCGA-BJ-A2NA TCGA-BJ-A2P4 TCGA-BJ-A3EZ TCGA-BJ-A3F0 
       16.57        20.48        18.97        12.82        16.01        13.94 
TCGA-BJ-A3PR TCGA-BJ-A3PT TCGA-BJ-A3PU TCGA-BJ-A45D TCGA-BJ-A45E TCGA-BJ-A45F 
       36.39        23.31        18.64        10.88        21.01         3.45 
TCGA-BJ-A45G TCGA-BJ-A45H TCGA-BJ-A45I TCGA-BJ-A45J TCGA-BJ-A4O8 TCGA-BJ-A4O9 
       23.84        28.44        15.45        21.63        19.43        23.47 
TCGA-CE-A27D TCGA-CE-A3MD TCGA-CE-A3ME TCGA-CE-A481 TCGA-CE-A482 TCGA-CE-A483 
       12.30        12.79        12.46        11.38        10.68        15.02 
TCGA-CE-A485 TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DE-A2OL TCGA-DE-A3KN TCGA-DE-A4M8 
       12.66        21.63        50.17        37.64        27.32        18.54 
TCGA-DE-A4M9 TCGA-DE-A4MA TCGA-DE-A4MB TCGA-DE-A4MC TCGA-DE-A4MD TCGA-DE-A69J 
       18.84        30.12        11.57        30.02        25.12        14.70 
TCGA-DE-A69K TCGA-DE-A7U5 TCGA-DJ-A13M TCGA-DJ-A13O TCGA-DJ-A13P TCGA-DJ-A13R 
       14.27         2.76        48.79        38.17       169.32        18.58 
TCGA-DJ-A13S TCGA-DJ-A13T TCGA-DJ-A13U TCGA-DJ-A13V TCGA-DJ-A13W TCGA-DJ-A13X 
        8.71        56.19        52.27        43.17        52.37         8.32 
TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QG TCGA-DJ-A1QH TCGA-DJ-A1QI 
       48.07       135.91        30.61        44.98        42.51        14.96 
TCGA-DJ-A1QL TCGA-DJ-A1QM TCGA-DJ-A1QN TCGA-DJ-A1QO TCGA-DJ-A1QQ TCGA-DJ-A2PN 
       17.59         6.02        42.58        47.41        17.56        10.09 
TCGA-DJ-A2PO TCGA-DJ-A2PP TCGA-DJ-A2PQ TCGA-DJ-A2PS TCGA-DJ-A2PT TCGA-DJ-A2PU 
        7.99        30.58        35.41        26.20        38.83        33.96 
TCGA-DJ-A2PV TCGA-DJ-A2PW TCGA-DJ-A2PX TCGA-DJ-A2PY TCGA-DJ-A2PZ TCGA-DJ-A2Q0 
       31.99        34.85        28.96         8.78         8.42        34.36 
TCGA-DJ-A2Q1 TCGA-DJ-A2Q2 TCGA-DJ-A2Q3 TCGA-DJ-A2Q4 TCGA-DJ-A2Q5 TCGA-DJ-A2Q6 
       37.74        43.96        40.24        33.93        37.48        36.46 
TCGA-DJ-A2Q7 TCGA-DJ-A2Q8 TCGA-DJ-A2Q9 TCGA-DJ-A2QA TCGA-DJ-A2QB TCGA-DJ-A2QC 
       35.11        39.09        35.90        33.53        35.18        39.95 
TCGA-DJ-A3UK TCGA-DJ-A3UM TCGA-DJ-A3UN TCGA-DJ-A3UO TCGA-DJ-A3UP TCGA-DJ-A3UQ 
       36.92        31.04        32.42        31.46        16.41        19.56 
TCGA-DJ-A3UR TCGA-DJ-A3US TCGA-DJ-A3UT TCGA-DJ-A3UX TCGA-DJ-A3UY TCGA-DJ-A3UZ 
       36.33        32.81        36.33        11.34        35.87        40.96 
TCGA-DJ-A3V0 TCGA-DJ-A3V2 TCGA-DJ-A3V3 TCGA-DJ-A3V5 TCGA-DJ-A3V7 TCGA-DJ-A3V8 
       36.99        20.22        30.61        19.20        23.21        21.27 
TCGA-DJ-A3V9 TCGA-DJ-A3VA TCGA-DJ-A3VB TCGA-DJ-A3VE TCGA-DJ-A3VF TCGA-DJ-A3VG 
       20.48        24.82        22.92        18.97         9.60        35.67 
TCGA-DJ-A3VJ TCGA-DJ-A3VL TCGA-DJ-A3VM TCGA-DJ-A4UL TCGA-DJ-A4UP TCGA-DJ-A4UQ 
       36.43        23.44        27.62        30.87        30.12        33.04 
TCGA-DJ-A4UR TCGA-DJ-A4UT TCGA-DJ-A4UW TCGA-DJ-A4V0 TCGA-DJ-A4V2 TCGA-DJ-A4V4 
       34.78        27.06        26.93        35.54         3.12        15.81 
TCGA-DJ-A4V5 TCGA-DO-A1JZ TCGA-DO-A1K0 TCGA-DO-A2HM TCGA-E3-A3DY TCGA-E3-A3DZ 
       35.38        54.90        21.53         2.33        92.55        47.21 
TCGA-E3-A3E0 TCGA-E3-A3E1 TCGA-E3-A3E2 TCGA-E3-A3E3 TCGA-E8-A242 TCGA-E8-A2EA 
       66.38        80.52        63.19        52.44        31.23        35.67 
TCGA-E8-A2JQ TCGA-E8-A3X7 TCGA-E8-A413 TCGA-E8-A414 TCGA-E8-A415 TCGA-E8-A416 
       11.70        31.27        29.98        31.50        31.04        31.30 
TCGA-E8-A417 TCGA-E8-A419 TCGA-E8-A432 TCGA-E8-A433 TCGA-E8-A434 TCGA-E8-A436 
       30.84        25.45        30.61        31.27        31.33        14.96 
TCGA-E8-A437 TCGA-E8-A438 TCGA-E8-A44K TCGA-E8-A44M TCGA-EL-A3CL TCGA-EL-A3CM 
       39.88        33.50        31.00        30.15        31.66        26.73 
TCGA-EL-A3CN TCGA-EL-A3CO TCGA-EL-A3CP TCGA-EL-A3CT TCGA-EL-A3CU TCGA-EL-A3CV 
      155.54        97.74       158.83        60.95       157.15        37.94 
TCGA-EL-A3CW TCGA-EL-A3CX TCGA-EL-A3CZ TCGA-EL-A3D1 TCGA-EL-A3D4 TCGA-EL-A3D6 
       57.01       106.62        79.50        98.53        69.57       108.36 
TCGA-EL-A3GO TCGA-EL-A3GP TCGA-EL-A3GR TCGA-EL-A3GS TCGA-EL-A3GU TCGA-EL-A3GV 
       64.87        49.51       115.10        65.39       136.01        50.37 
TCGA-EL-A3GW TCGA-EL-A3GX TCGA-EL-A3GZ TCGA-EL-A3H1 TCGA-EL-A3H3 TCGA-EL-A3H4 
       50.20       147.75       139.99        49.32        43.36        49.71 
TCGA-EL-A3H5 TCGA-EL-A3H7 TCGA-EL-A3MW TCGA-EL-A3MX TCGA-EL-A3MZ TCGA-EL-A3N2 
       83.57       139.00       108.66        57.63        52.50        29.65 
TCGA-EL-A3T0 TCGA-EL-A3T1 TCGA-EL-A3T2 TCGA-EL-A3T3 TCGA-EL-A3T6 TCGA-EL-A3T7 
      142.52       129.57        32.48       132.07        98.24        41.29 
TCGA-EL-A3T8 TCGA-EL-A3T9 TCGA-EL-A3TA TCGA-EL-A3TB TCGA-EL-A3ZG TCGA-EL-A3ZH 
      107.47         5.72        66.90        82.82        89.56        91.17 
TCGA-EL-A3ZK TCGA-EL-A3ZL TCGA-EL-A3ZM TCGA-EL-A3ZN TCGA-EL-A3ZO TCGA-EL-A3ZP 
       51.78        62.30        36.03        53.06        72.69        65.49 
TCGA-EL-A3ZQ TCGA-EL-A3ZR TCGA-EL-A3ZS TCGA-EL-A3ZT TCGA-EL-A4JV TCGA-EL-A4JW 
       61.22        60.16         7.07        59.44        57.47        34.72 
TCGA-EL-A4JX TCGA-EL-A4JZ TCGA-EL-A4K0 TCGA-EL-A4K1 TCGA-EL-A4K2 TCGA-EL-A4K4 
       45.96        61.02        31.04        34.39        30.51        53.36 
TCGA-EL-A4K6 TCGA-EL-A4K7 TCGA-EL-A4K9 TCGA-EL-A4KD TCGA-EL-A4KG TCGA-EL-A4KH 
       44.15        41.13        47.84        43.59        24.30        27.06 
TCGA-EL-A4KI TCGA-EM-A1CS TCGA-EM-A1CT TCGA-EM-A1CU TCGA-EM-A1CV TCGA-EM-A1CW 
       23.90        26.86        18.18        20.91        48.49        18.05 
TCGA-EM-A1YA TCGA-EM-A1YB TCGA-EM-A1YC TCGA-EM-A1YD TCGA-EM-A1YE TCGA-EM-A22I 
       19.79        19.46        78.61        57.01        54.08        14.73 
TCGA-EM-A22J TCGA-EM-A22K TCGA-EM-A22L TCGA-EM-A22M TCGA-EM-A22N TCGA-EM-A22O 
       14.50        15.75        10.45        14.53        10.65        44.19 
TCGA-EM-A22P TCGA-EM-A22Q TCGA-EM-A2CJ TCGA-EM-A2CK TCGA-EM-A2CL TCGA-EM-A2CN 
       41.29        14.24        47.57        17.88        13.18        23.51 
TCGA-EM-A2CO TCGA-EM-A2CP TCGA-EM-A2CQ TCGA-EM-A2CR TCGA-EM-A2CS TCGA-EM-A2CT 
        6.05         2.99        12.30        13.64        27.65        48.46 
TCGA-EM-A2CU TCGA-EM-A2OV TCGA-EM-A2OW TCGA-EM-A2OX TCGA-EM-A2OY TCGA-EM-A2OZ 
       13.15        22.16        40.34        19.73        32.32        33.96 
TCGA-EM-A2P0 TCGA-EM-A2P1 TCGA-EM-A2P2 TCGA-EM-A2P3 TCGA-EM-A3AI TCGA-EM-A3AJ 
       17.59        17.46        17.29        14.60        22.52        30.94 
TCGA-EM-A3AK TCGA-EM-A3AL TCGA-EM-A3AN TCGA-EM-A3AO TCGA-EM-A3AP TCGA-EM-A3AR 
       15.68        14.14        33.07        44.52         8.35        37.25 
TCGA-EM-A3FJ TCGA-EM-A3FK TCGA-EM-A3FL TCGA-EM-A3FM TCGA-EM-A3FN TCGA-EM-A3FO 
       27.95        23.77        47.38        21.01        12.07        17.49 
TCGA-EM-A3FP TCGA-EM-A3FQ TCGA-EM-A3FR TCGA-EM-A3O3 TCGA-EM-A3O6 TCGA-EM-A3O7 
       17.39        16.18        15.02        14.50        15.06         7.33 
TCGA-EM-A3O8 TCGA-EM-A3O9 TCGA-EM-A3OA TCGA-EM-A3OB TCGA-EM-A3ST TCGA-EM-A3SU 
       12.53         9.24        27.02        38.66        38.86        29.95 
TCGA-EM-A3SX TCGA-EM-A3SY TCGA-EM-A3SZ TCGA-EM-A4FF TCGA-EM-A4FH TCGA-EM-A4FK 
       29.85        13.51        12.79        84.59        29.33        21.34 
TCGA-EM-A4FM TCGA-EM-A4FN TCGA-EM-A4FO TCGA-EM-A4FQ TCGA-EM-A4FR TCGA-EM-A4FU 
        5.33        26.37        26.37        22.45        21.53        60.49 
TCGA-EM-A4FV TCGA-EM-A4G1 TCGA-ET-A25G TCGA-ET-A25I TCGA-ET-A25J TCGA-ET-A25K 
       24.46        13.68        81.93        81.70        77.56        70.42 
TCGA-ET-A25O TCGA-ET-A25R TCGA-ET-A2MX TCGA-ET-A2MY TCGA-ET-A2MZ TCGA-ET-A2N0 
       65.29        63.45        88.41        58.75        37.25        52.60 
TCGA-ET-A2N1 TCGA-ET-A2N3 TCGA-ET-A2N4 TCGA-ET-A2N5 TCGA-ET-A39I TCGA-ET-A39J 
       54.35        83.34         2.66        80.88        33.24       106.09 
TCGA-ET-A39K TCGA-ET-A39M TCGA-ET-A39N TCGA-ET-A39O TCGA-ET-A39P TCGA-ET-A39R 
      107.41        84.89       123.32       100.57        95.34        94.13 
TCGA-ET-A39S TCGA-ET-A39T TCGA-ET-A3BN TCGA-ET-A3BP TCGA-ET-A3BQ TCGA-ET-A3BS 
       55.10        98.20        28.24        79.10        76.64         5.79 
TCGA-ET-A3BT TCGA-ET-A3BU TCGA-ET-A3BW TCGA-ET-A3BX TCGA-ET-A3DO TCGA-ET-A3DP 
       87.62        77.82        46.65        52.47       116.78        94.59 
TCGA-ET-A3DQ TCGA-ET-A3DR TCGA-ET-A3DS TCGA-ET-A3DT TCGA-ET-A3DU TCGA-ET-A3DV 
       84.85        80.58        66.84        43.73        62.83       166.62 
TCGA-ET-A3DW TCGA-ET-A40P TCGA-ET-A40Q TCGA-ET-A40R TCGA-ET-A40S TCGA-ET-A40T 
       24.72        43.99        46.26        44.38        40.21        37.48 
TCGA-ET-A4KN TCGA-ET-A4KQ TCGA-FE-A22Z TCGA-FE-A230 TCGA-FE-A231 TCGA-FE-A232 
       33.17        31.40        73.74        71.44        31.59        79.69 
TCGA-FE-A233 TCGA-FE-A234 TCGA-FE-A235 TCGA-FE-A236 TCGA-FE-A237 TCGA-FE-A23A 
       24.69        68.22       117.40        66.77       112.80        81.83 
TCGA-FE-A3PA TCGA-FE-A3PB TCGA-FE-A3PC TCGA-FE-A3PD TCGA-FK-A3S3 TCGA-FK-A3SB 
      106.36        85.15        85.68        78.77        71.08         4.11 
TCGA-FK-A3SE TCGA-FK-A3SG TCGA-FK-A3SH TCGA-FK-A4UB TCGA-FY-A2QD TCGA-FY-A3BL 
       22.03         0.92        48.10       116.09         1.25        20.42 
TCGA-FY-A3I4 TCGA-FY-A3I5 TCGA-FY-A3NM TCGA-FY-A3NP TCGA-FY-A3ON TCGA-FY-A3R6 
       17.82         7.82        29.10        16.14        19.56        13.91 
TCGA-FY-A3R7 TCGA-FY-A3R8 TCGA-FY-A3R9 TCGA-FY-A3RA TCGA-FY-A3TY TCGA-FY-A3W9 
       16.27        15.68        16.57        18.08        23.31        21.63 
TCGA-FY-A3WA TCGA-FY-A3YR TCGA-FY-A40K TCGA-FY-A40L TCGA-FY-A40M TCGA-FY-A40N 
       17.06        17.36        15.16        23.87        22.49        19.04 
TCGA-FY-A4B0 TCGA-FY-A4B3 TCGA-FY-A4B4 TCGA-GE-A2C6 TCGA-H2-A26U TCGA-H2-A2K9 
       13.81        14.04        21.60        12.53        17.00        21.67 
TCGA-H2-A3RH TCGA-H2-A3RI TCGA-H2-A421 TCGA-H2-A422 TCGA-IM-A3EB TCGA-IM-A3ED 
       12.46        11.01        20.05        18.61        48.92        47.41 
TCGA-IM-A3U2 TCGA-IM-A3U3 TCGA-IM-A41Y TCGA-IM-A41Z TCGA-IM-A420 TCGA-IM-A4EB 
       18.51        16.90        21.83        31.10         8.22        25.64 
TCGA-J8-A3O0 TCGA-J8-A3O1 TCGA-J8-A3O2 TCGA-J8-A3YD TCGA-J8-A3YE TCGA-J8-A3YF 
       43.17        27.19        11.24        31.82        27.85        24.69 
TCGA-J8-A3YG TCGA-J8-A3YH TCGA-J8-A42S TCGA-J8-A4HY TCGA-KS-A41F TCGA-KS-A41I 
       22.29         5.75         2.47         0.20       143.57        15.98 
TCGA-KS-A41J TCGA-KS-A41L TCGA-KS-A4I1 TCGA-KS-A4I3 TCGA-KS-A4I5 TCGA-KS-A4I7 
       15.68       113.85        26.70        43.69        18.64        32.45 
TCGA-KS-A4I9 TCGA-KS-A4IB TCGA-KS-A4IC TCGA-KS-A4ID TCGA-L6-A4EP TCGA-L6-A4EQ 
       87.39        84.72        35.28        33.24        33.40        40.37 
TCGA-L6-A4EU TCGA-MK-A4N6 TCGA-MK-A4N7 TCGA-MK-A4N9 TCGA-QD-A8IV TCGA-E8-A418 
        9.50        36.10        32.45        30.21        12.89         3.02 

  ABL1 MUTATED ABL1 WILD-TYPE 
         12.43           0.20 
  ABL1 MUTATED ABL1 WILD-TYPE 
        108.46         178.29 
  ABL1 MUTATED ABL1 WILD-TYPE 
         40.70          31.07 
[1] "12.4 - 108.5 (40.7)" "0.2 - 178.3 (31.1)" 
[1] "hr="     "9200000"
D14V2, continuous
                vv
clus             STAGE I STAGE II STAGE III STAGE IV STAGE IVA STAGE IVC
  ABL1 MUTATED         4        1         0        0         0         0
  ABL1 WILD-TYPE     274       49       108        2        46         6
D14V3, multiclass
           clus
vv          ABL1 MUTATED ABL1 WILD-TYPE
  STAGE I              4            274
  STAGE II             1             49
  STAGE III            0            108
  STAGE IV             0              2
  STAGE IVA            0             46
  STAGE IVC            0              6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus              T1  T2  T3  T4
  ABL1 MUTATED     2   1   2   0
  ABL1 WILD-TYPE 139 161 162  23
D14V4, multiclass
    clus
vv   ABL1 MUTATED ABL1 WILD-TYPE
  T1            2            139
  T2            1            161
  T3            2            162
  T4            0             23
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D14V5, binary
                cls
clus               0   1
  ABL1 MUTATED     2   3
  ABL1 WILD-TYPE 218 219
[1] "tbl2"
                cls
clus             [,1] [,2]
  ABL1 MUTATED      2    3
  ABL1 WILD-TYPE  218  219
   clus
vv  ABL1 MUTATED ABL1 WILD-TYPE
  0            2            218
  1            3            219
[1] 2 2
[1] FALSE
D14V6, binary
                cls
clus               0   1
  ABL1 MUTATED     3   1
  ABL1 WILD-TYPE 273   8
[1] "tbl2"
                cls
clus             [,1] [,2]
  ABL1 MUTATED      3    1
  ABL1 WILD-TYPE  273    8
   clus
vv  ABL1 MUTATED ABL1 WILD-TYPE
  0            3            273
  1            1              8
[1] 2 2
[1] FALSE
D14V7, binary
                cls
clus               0   1
  ABL1 MUTATED     5   0
  ABL1 WILD-TYPE 357 130
[1] "tbl2"
                cls
clus             [,1] [,2]
  ABL1 MUTATED      5    0
  ABL1 WILD-TYPE  357  130
        clus
vv       ABL1 MUTATED ABL1 WILD-TYPE
  FEMALE            5            357
  MALE              0            130
[1] 2 2
[1] FALSE
D14V8, binary
                cls
clus               0   1
  ABL1 MUTATED     1   4
  ABL1 WILD-TYPE 178 294
[1] "tbl2"
                cls
clus             [,1] [,2]
  ABL1 MUTATED      1    4
  ABL1 WILD-TYPE  178  294
     clus
vv    ABL1 MUTATED ABL1 WILD-TYPE
  NO             1            178
  YES            4            294
[1] 2 2
[1] FALSE
                vv
clus             OTHER, SPECIFY THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  ABL1 MUTATED                0                                             5
  ABL1 WILD-TYPE              7                                           343
                vv
clus             THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  ABL1 MUTATED                                                                        0
  ABL1 WILD-TYPE                                                                    102
                vv
clus             THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  ABL1 MUTATED                                                                     0
  ABL1 WILD-TYPE                                                                  35
D14V9, multiclass
                                                                        clus
vv                                                                       ABL1 MUTATED
  OTHER, SPECIFY                                                                    0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                     5
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)            0
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)               0
                                                                        clus
vv                                                                       ABL1 WILD-TYPE
  OTHER, SPECIFY                                                                      7
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                     343
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)            102
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D14V10, binary
                cls
clus               0   1
  ABL1 MUTATED     5   0
  ABL1 WILD-TYPE 410  17
[1] "tbl2"
                cls
clus             [,1] [,2]
  ABL1 MUTATED      5    0
  ABL1 WILD-TYPE  410   17
     clus
vv    ABL1 MUTATED ABL1 WILD-TYPE
  NO             5            410
  YES            0             17
[1] 2 2
[1] FALSE
                vv
clus             MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE VERY ADVANCED (T4B)
  ABL1 MUTATED              1                       0    4                   0
  ABL1 WILD-TYPE          129                      18  324                   1
D14V11, multiclass
                         clus
vv                        ABL1 MUTATED ABL1 WILD-TYPE
  MINIMAL (T3)                       1            129
  MODERATE/ADVANCED (T4A)            0             18
  NONE                               4            324
  VERY ADVANCED (T4B)                0              1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus              R0  R1  R2  RX
  ABL1 MUTATED     5   0   0   0
  ABL1 WILD-TYPE 374  51   4  30
D14V12, multiclass
    clus
vv   ABL1 MUTATED ABL1 WILD-TYPE
  R0            5            374
  R1            0             51
  R2            0              4
  RX            0             30
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D14V13, continuous
D14V14, binary
                cls
clus               0   1
  ABL1 MUTATED     1   4
  ABL1 WILD-TYPE 220 258
[1] "tbl2"
                cls
clus             [,1] [,2]
  ABL1 MUTATED      1    4
  ABL1 WILD-TYPE  220  258
            clus
vv           ABL1 MUTATED ABL1 WILD-TYPE
  MULTIFOCAL            1            220
  UNIFOCAL              4            258
[1] 2 2
[1] FALSE
D14V15, continuous
                vv
clus             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  ABL1 MUTATED                                  0     1
  ABL1 WILD-TYPE                                1    50
                vv
clus             BLACK OR AFRICAN AMERICAN WHITE
  ABL1 MUTATED                           0     3
  ABL1 WILD-TYPE                        26   319
D14V16, multiclass
                                  clus
vv                                 ABL1 MUTATED ABL1 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE            0              1
  ASIAN                                       1             50
  BLACK OR AFRICAN AMERICAN                   0             26
  WHITE                                       3            319
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D14V17, binary
                cls
clus               0   1
  ABL1 MUTATED     1   4
  ABL1 WILD-TYPE  37 347
[1] "tbl2"
                cls
clus             [,1] [,2]
  ABL1 MUTATED      1    4
  ABL1 WILD-TYPE   37  347
                        clus
vv                       ABL1 MUTATED ABL1 WILD-TYPE
  HISPANIC OR LATINO                1             37
  NOT HISPANIC OR LATINO            4            347
[1] 2 2
[1] FALSE

Clustering(15) Variable = LMTK2 MUTATION ANALYSIS
D15V1, survival
                 sevent
clus2               0   1
  LMTK2 MUTATED     4   0
  LMTK2 WILD-TYPE 473  14
  LMTK2 MUTATED LMTK2 WILD-TYPE 
              4             487 
  LMTK2 MUTATED LMTK2 WILD-TYPE 
              0              14 
$`LMTK2 MUTATED`
TCGA-EL-A3N3 TCGA-EL-A3GU TCGA-ET-A25I TCGA-FE-A3PA 
      178.29       136.01        81.70       106.36 

$`LMTK2 WILD-TYPE`
TCGA-BJ-A290 TCGA-BJ-A45K TCGA-CE-A13K TCGA-DE-A0XZ TCGA-DJ-A13L TCGA-DJ-A2PR 
       30.21        23.18        12.66        35.84         9.96        27.45 
TCGA-DJ-A3UU TCGA-DJ-A3UW TCGA-DJ-A3V4 TCGA-DJ-A3VI TCGA-DJ-A3VK TCGA-E3-A3E5 
       23.44        59.57        42.54         3.12        24.76        39.95 
TCGA-EL-A3CR TCGA-EL-A3CS TCGA-EL-A3CY TCGA-EL-A3D0 TCGA-EL-A3D5 TCGA-EL-A3GQ 
        7.66        45.53         4.18       139.86        57.11        50.24 
TCGA-EL-A3H2 TCGA-EL-A3H8 TCGA-EL-A3MY TCGA-EM-A3AQ TCGA-ET-A3BO TCGA-ET-A3BV 
       33.50       150.48        17.52        29.72        50.40        75.42 
TCGA-FK-A3SD TCGA-FY-A76V TCGA-J8-A3NZ TCGA-J8-A4HW TCGA-L6-A4ET TCGA-MK-A84Z 
        1.05         1.68        17.23         2.60        21.83        23.93 
TCGA-4C-A93U TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0Z3 TCGA-BJ-A0Z9 
        4.24        24.79        13.78        49.78        16.34        41.33 
TCGA-BJ-A0ZA TCGA-BJ-A0ZB TCGA-BJ-A0ZC TCGA-BJ-A0ZE TCGA-BJ-A0ZG TCGA-BJ-A0ZH 
       18.87         4.01        11.57        16.73        25.48        15.12 
TCGA-BJ-A0ZJ TCGA-BJ-A18Y TCGA-BJ-A18Z TCGA-BJ-A191 TCGA-BJ-A192 TCGA-BJ-A28R 
       42.08        51.39        41.52         4.83        44.35        42.15 
TCGA-BJ-A28S TCGA-BJ-A28T TCGA-BJ-A28V TCGA-BJ-A28X TCGA-BJ-A28Z TCGA-BJ-A2N7 
       21.04        35.54        32.45        30.97        11.08        18.38 
TCGA-BJ-A2N8 TCGA-BJ-A2N9 TCGA-BJ-A2NA TCGA-BJ-A2P4 TCGA-BJ-A3EZ TCGA-BJ-A3F0 
       16.57        20.48        18.97        12.82        16.01        13.94 
TCGA-BJ-A3PR TCGA-BJ-A3PT TCGA-BJ-A3PU TCGA-BJ-A45D TCGA-BJ-A45E TCGA-BJ-A45F 
       36.39        23.31        18.64        10.88        21.01         3.45 
TCGA-BJ-A45G TCGA-BJ-A45H TCGA-BJ-A45I TCGA-BJ-A45J TCGA-BJ-A4O8 TCGA-BJ-A4O9 
       23.84        28.44        15.45        21.63        19.43        23.47 
TCGA-CE-A27D TCGA-CE-A3MD TCGA-CE-A3ME TCGA-CE-A481 TCGA-CE-A482 TCGA-CE-A483 
       12.30        12.79        12.46        11.38        10.68        15.02 
TCGA-CE-A484 TCGA-CE-A485 TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DE-A2OL TCGA-DE-A3KN 
       12.43        12.66        21.63        50.17        37.64        27.32 
TCGA-DE-A4M8 TCGA-DE-A4M9 TCGA-DE-A4MA TCGA-DE-A4MB TCGA-DE-A4MC TCGA-DE-A4MD 
       18.54        18.84        30.12        11.57        30.02        25.12 
TCGA-DE-A69J TCGA-DE-A69K TCGA-DE-A7U5 TCGA-DJ-A13M TCGA-DJ-A13O TCGA-DJ-A13P 
       14.70        14.27         2.76        48.79        38.17       169.32 
TCGA-DJ-A13R TCGA-DJ-A13S TCGA-DJ-A13T TCGA-DJ-A13U TCGA-DJ-A13V TCGA-DJ-A13W 
       18.58         8.71        56.19        52.27        43.17        52.37 
TCGA-DJ-A13X TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QG TCGA-DJ-A1QH 
        8.32        48.07       135.91        30.61        44.98        42.51 
TCGA-DJ-A1QI TCGA-DJ-A1QL TCGA-DJ-A1QM TCGA-DJ-A1QN TCGA-DJ-A1QO TCGA-DJ-A1QQ 
       14.96        17.59         6.02        42.58        47.41        17.56 
TCGA-DJ-A2PN TCGA-DJ-A2PO TCGA-DJ-A2PP TCGA-DJ-A2PQ TCGA-DJ-A2PS TCGA-DJ-A2PT 
       10.09         7.99        30.58        35.41        26.20        38.83 
TCGA-DJ-A2PU TCGA-DJ-A2PV TCGA-DJ-A2PW TCGA-DJ-A2PX TCGA-DJ-A2PY TCGA-DJ-A2PZ 
       33.96        31.99        34.85        28.96         8.78         8.42 
TCGA-DJ-A2Q0 TCGA-DJ-A2Q1 TCGA-DJ-A2Q2 TCGA-DJ-A2Q3 TCGA-DJ-A2Q4 TCGA-DJ-A2Q5 
       34.36        37.74        43.96        40.24        33.93        37.48 
TCGA-DJ-A2Q6 TCGA-DJ-A2Q7 TCGA-DJ-A2Q8 TCGA-DJ-A2Q9 TCGA-DJ-A2QA TCGA-DJ-A2QB 
       36.46        35.11        39.09        35.90        33.53        35.18 
TCGA-DJ-A2QC TCGA-DJ-A3UK TCGA-DJ-A3UM TCGA-DJ-A3UN TCGA-DJ-A3UO TCGA-DJ-A3UP 
       39.95        36.92        31.04        32.42        31.46        16.41 
TCGA-DJ-A3UQ TCGA-DJ-A3UR TCGA-DJ-A3US TCGA-DJ-A3UT TCGA-DJ-A3UX TCGA-DJ-A3UY 
       19.56        36.33        32.81        36.33        11.34        35.87 
TCGA-DJ-A3UZ TCGA-DJ-A3V0 TCGA-DJ-A3V2 TCGA-DJ-A3V3 TCGA-DJ-A3V5 TCGA-DJ-A3V7 
       40.96        36.99        20.22        30.61        19.20        23.21 
TCGA-DJ-A3V8 TCGA-DJ-A3V9 TCGA-DJ-A3VA TCGA-DJ-A3VB TCGA-DJ-A3VD TCGA-DJ-A3VE 
       21.27        20.48        24.82        22.92        40.70        18.97 
TCGA-DJ-A3VF TCGA-DJ-A3VG TCGA-DJ-A3VJ TCGA-DJ-A3VL TCGA-DJ-A3VM TCGA-DJ-A4UL 
        9.60        35.67        36.43        23.44        27.62        30.87 
TCGA-DJ-A4UP TCGA-DJ-A4UQ TCGA-DJ-A4UR TCGA-DJ-A4UT TCGA-DJ-A4UW TCGA-DJ-A4V0 
       30.12        33.04        34.78        27.06        26.93        35.54 
TCGA-DJ-A4V2 TCGA-DJ-A4V4 TCGA-DJ-A4V5 TCGA-DO-A1JZ TCGA-DO-A1K0 TCGA-DO-A2HM 
        3.12        15.81        35.38        54.90        21.53         2.33 
TCGA-E3-A3DY TCGA-E3-A3DZ TCGA-E3-A3E0 TCGA-E3-A3E1 TCGA-E3-A3E2 TCGA-E3-A3E3 
       92.55        47.21        66.38        80.52        63.19        52.44 
TCGA-E8-A242 TCGA-E8-A2EA TCGA-E8-A2JQ TCGA-E8-A3X7 TCGA-E8-A413 TCGA-E8-A414 
       31.23        35.67        11.70        31.27        29.98        31.50 
TCGA-E8-A415 TCGA-E8-A416 TCGA-E8-A417 TCGA-E8-A419 TCGA-E8-A432 TCGA-E8-A433 
       31.04        31.30        30.84        25.45        30.61        31.27 
TCGA-E8-A434 TCGA-E8-A436 TCGA-E8-A437 TCGA-E8-A438 TCGA-E8-A44K TCGA-E8-A44M 
       31.33        14.96        39.88        33.50        31.00        30.15 
TCGA-EL-A3CL TCGA-EL-A3CM TCGA-EL-A3CN TCGA-EL-A3CO TCGA-EL-A3CP TCGA-EL-A3CT 
       31.66        26.73       155.54        97.74       158.83        60.95 
TCGA-EL-A3CU TCGA-EL-A3CV TCGA-EL-A3CW TCGA-EL-A3CX TCGA-EL-A3CZ TCGA-EL-A3D1 
      157.15        37.94        57.01       106.62        79.50        98.53 
TCGA-EL-A3D4 TCGA-EL-A3D6 TCGA-EL-A3GO TCGA-EL-A3GP TCGA-EL-A3GR TCGA-EL-A3GS 
       69.57       108.36        64.87        49.51       115.10        65.39 
TCGA-EL-A3GV TCGA-EL-A3GW TCGA-EL-A3GX TCGA-EL-A3GY TCGA-EL-A3GZ TCGA-EL-A3H1 
       50.37        50.20       147.75       101.13       139.99        49.32 
TCGA-EL-A3H3 TCGA-EL-A3H4 TCGA-EL-A3H5 TCGA-EL-A3H7 TCGA-EL-A3MW TCGA-EL-A3MX 
       43.36        49.71        83.57       139.00       108.66        57.63 
TCGA-EL-A3MZ TCGA-EL-A3N2 TCGA-EL-A3T0 TCGA-EL-A3T1 TCGA-EL-A3T2 TCGA-EL-A3T3 
       52.50        29.65       142.52       129.57        32.48       132.07 
TCGA-EL-A3T6 TCGA-EL-A3T7 TCGA-EL-A3T8 TCGA-EL-A3T9 TCGA-EL-A3TA TCGA-EL-A3TB 
       98.24        41.29       107.47         5.72        66.90        82.82 
TCGA-EL-A3ZG TCGA-EL-A3ZH TCGA-EL-A3ZK TCGA-EL-A3ZL TCGA-EL-A3ZM TCGA-EL-A3ZN 
       89.56        91.17        51.78        62.30        36.03        53.06 
TCGA-EL-A3ZO TCGA-EL-A3ZP TCGA-EL-A3ZQ TCGA-EL-A3ZR TCGA-EL-A3ZS TCGA-EL-A3ZT 
       72.69        65.49        61.22        60.16         7.07        59.44 
TCGA-EL-A4JV TCGA-EL-A4JW TCGA-EL-A4JX TCGA-EL-A4JZ TCGA-EL-A4K0 TCGA-EL-A4K1 
       57.47        34.72        45.96        61.02        31.04        34.39 
TCGA-EL-A4K2 TCGA-EL-A4K4 TCGA-EL-A4K6 TCGA-EL-A4K7 TCGA-EL-A4K9 TCGA-EL-A4KD 
       30.51        53.36        44.15        41.13        47.84        43.59 
TCGA-EL-A4KG TCGA-EL-A4KH TCGA-EL-A4KI TCGA-EM-A1CS TCGA-EM-A1CT TCGA-EM-A1CU 
       24.30        27.06        23.90        26.86        18.18        20.91 
TCGA-EM-A1CV TCGA-EM-A1CW TCGA-EM-A1YA TCGA-EM-A1YB TCGA-EM-A1YC TCGA-EM-A1YD 
       48.49        18.05        19.79        19.46        78.61        57.01 
TCGA-EM-A1YE TCGA-EM-A22I TCGA-EM-A22J TCGA-EM-A22K TCGA-EM-A22L TCGA-EM-A22M 
       54.08        14.73        14.50        15.75        10.45        14.53 
TCGA-EM-A22N TCGA-EM-A22O TCGA-EM-A22P TCGA-EM-A22Q TCGA-EM-A2CJ TCGA-EM-A2CK 
       10.65        44.19        41.29        14.24        47.57        17.88 
TCGA-EM-A2CL TCGA-EM-A2CN TCGA-EM-A2CO TCGA-EM-A2CP TCGA-EM-A2CQ TCGA-EM-A2CR 
       13.18        23.51         6.05         2.99        12.30        13.64 
TCGA-EM-A2CS TCGA-EM-A2CT TCGA-EM-A2CU TCGA-EM-A2OV TCGA-EM-A2OW TCGA-EM-A2OX 
       27.65        48.46        13.15        22.16        40.34        19.73 
TCGA-EM-A2OY TCGA-EM-A2OZ TCGA-EM-A2P0 TCGA-EM-A2P1 TCGA-EM-A2P2 TCGA-EM-A2P3 
       32.32        33.96        17.59        17.46        17.29        14.60 
TCGA-EM-A3AI TCGA-EM-A3AJ TCGA-EM-A3AK TCGA-EM-A3AL TCGA-EM-A3AN TCGA-EM-A3AO 
       22.52        30.94        15.68        14.14        33.07        44.52 
TCGA-EM-A3AP TCGA-EM-A3AR TCGA-EM-A3FJ TCGA-EM-A3FK TCGA-EM-A3FL TCGA-EM-A3FM 
        8.35        37.25        27.95        23.77        47.38        21.01 
TCGA-EM-A3FN TCGA-EM-A3FO TCGA-EM-A3FP TCGA-EM-A3FQ TCGA-EM-A3FR TCGA-EM-A3O3 
       12.07        17.49        17.39        16.18        15.02        14.50 
TCGA-EM-A3O6 TCGA-EM-A3O7 TCGA-EM-A3O8 TCGA-EM-A3O9 TCGA-EM-A3OA TCGA-EM-A3OB 
       15.06         7.33        12.53         9.24        27.02        38.66 
TCGA-EM-A3ST TCGA-EM-A3SU TCGA-EM-A3SX TCGA-EM-A3SY TCGA-EM-A3SZ TCGA-EM-A4FF 
       38.86        29.95        29.85        13.51        12.79        84.59 
TCGA-EM-A4FH TCGA-EM-A4FK TCGA-EM-A4FM TCGA-EM-A4FN TCGA-EM-A4FO TCGA-EM-A4FQ 
       29.33        21.34         5.33        26.37        26.37        22.45 
TCGA-EM-A4FR TCGA-EM-A4FU TCGA-EM-A4FV TCGA-EM-A4G1 TCGA-ET-A25G TCGA-ET-A25J 
       21.53        60.49        24.46        13.68        81.93        77.56 
TCGA-ET-A25K TCGA-ET-A25O TCGA-ET-A25R TCGA-ET-A2MX TCGA-ET-A2MY TCGA-ET-A2MZ 
       70.42        65.29        63.45        88.41        58.75        37.25 
TCGA-ET-A2N0 TCGA-ET-A2N1 TCGA-ET-A2N3 TCGA-ET-A2N4 TCGA-ET-A2N5 TCGA-ET-A39I 
       52.60        54.35        83.34         2.66        80.88        33.24 
TCGA-ET-A39J TCGA-ET-A39K TCGA-ET-A39L TCGA-ET-A39M TCGA-ET-A39N TCGA-ET-A39O 
      106.09       107.41       108.46        84.89       123.32       100.57 
TCGA-ET-A39P TCGA-ET-A39R TCGA-ET-A39S TCGA-ET-A39T TCGA-ET-A3BN TCGA-ET-A3BP 
       95.34        94.13        55.10        98.20        28.24        79.10 
TCGA-ET-A3BQ TCGA-ET-A3BS TCGA-ET-A3BT TCGA-ET-A3BU TCGA-ET-A3BW TCGA-ET-A3BX 
       76.64         5.79        87.62        77.82        46.65        52.47 
TCGA-ET-A3DO TCGA-ET-A3DP TCGA-ET-A3DQ TCGA-ET-A3DR TCGA-ET-A3DS TCGA-ET-A3DT 
      116.78        94.59        84.85        80.58        66.84        43.73 
TCGA-ET-A3DU TCGA-ET-A3DV TCGA-ET-A3DW TCGA-ET-A40P TCGA-ET-A40Q TCGA-ET-A40R 
       62.83       166.62        24.72        43.99        46.26        44.38 
TCGA-ET-A40S TCGA-ET-A40T TCGA-ET-A4KN TCGA-ET-A4KQ TCGA-FE-A22Z TCGA-FE-A230 
       40.21        37.48        33.17        31.40        73.74        71.44 
TCGA-FE-A231 TCGA-FE-A232 TCGA-FE-A233 TCGA-FE-A234 TCGA-FE-A235 TCGA-FE-A236 
       31.59        79.69        24.69        68.22       117.40        66.77 
TCGA-FE-A237 TCGA-FE-A23A TCGA-FE-A3PB TCGA-FE-A3PC TCGA-FE-A3PD TCGA-FK-A3S3 
      112.80        81.83        85.15        85.68        78.77        71.08 
TCGA-FK-A3SB TCGA-FK-A3SE TCGA-FK-A3SG TCGA-FK-A3SH TCGA-FK-A4UB TCGA-FY-A2QD 
        4.11        22.03         0.92        48.10       116.09         1.25 
TCGA-FY-A3BL TCGA-FY-A3I4 TCGA-FY-A3I5 TCGA-FY-A3NM TCGA-FY-A3NP TCGA-FY-A3ON 
       20.42        17.82         7.82        29.10        16.14        19.56 
TCGA-FY-A3R6 TCGA-FY-A3R7 TCGA-FY-A3R8 TCGA-FY-A3R9 TCGA-FY-A3RA TCGA-FY-A3TY 
       13.91        16.27        15.68        16.57        18.08        23.31 
TCGA-FY-A3W9 TCGA-FY-A3WA TCGA-FY-A3YR TCGA-FY-A40K TCGA-FY-A40L TCGA-FY-A40M 
       21.63        17.06        17.36        15.16        23.87        22.49 
TCGA-FY-A40N TCGA-FY-A4B0 TCGA-FY-A4B3 TCGA-FY-A4B4 TCGA-GE-A2C6 TCGA-H2-A26U 
       19.04        13.81        14.04        21.60        12.53        17.00 
TCGA-H2-A2K9 TCGA-H2-A3RH TCGA-H2-A3RI TCGA-H2-A421 TCGA-H2-A422 TCGA-IM-A3EB 
       21.67        12.46        11.01        20.05        18.61        48.92 
TCGA-IM-A3ED TCGA-IM-A3U2 TCGA-IM-A3U3 TCGA-IM-A41Y TCGA-IM-A41Z TCGA-IM-A420 
       47.41        18.51        16.90        21.83        31.10         8.22 
TCGA-IM-A4EB TCGA-J8-A3O0 TCGA-J8-A3O1 TCGA-J8-A3O2 TCGA-J8-A3YD TCGA-J8-A3YE 
       25.64        43.17        27.19        11.24        31.82        27.85 
TCGA-J8-A3YF TCGA-J8-A3YG TCGA-J8-A3YH TCGA-J8-A42S TCGA-J8-A4HY TCGA-KS-A41F 
       24.69        22.29         5.75         2.47         0.20       143.57 
TCGA-KS-A41I TCGA-KS-A41J TCGA-KS-A41L TCGA-KS-A4I1 TCGA-KS-A4I3 TCGA-KS-A4I5 
       15.98        15.68       113.85        26.70        43.69        18.64 
TCGA-KS-A4I7 TCGA-KS-A4I9 TCGA-KS-A4IB TCGA-KS-A4IC TCGA-KS-A4ID TCGA-L6-A4EP 
       32.45        87.39        84.72        35.28        33.24        33.40 
TCGA-L6-A4EQ TCGA-L6-A4EU TCGA-MK-A4N6 TCGA-MK-A4N7 TCGA-MK-A4N9 TCGA-QD-A8IV 
       40.37         9.50        36.10        32.45        30.21        12.89 
TCGA-E8-A418 
        3.02 

  LMTK2 MUTATED LMTK2 WILD-TYPE 
           81.7             0.2 
  LMTK2 MUTATED LMTK2 WILD-TYPE 
         178.29          169.32 
  LMTK2 MUTATED LMTK2 WILD-TYPE 
        121.185          31.040 
[1] "81.7 - 178.3 (121.2)" "0.2 - 169.3 (31.0)"  
[1] "hr="     "2.6e+07"
D15V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV STAGE IVA STAGE IVC
  LMTK2 MUTATED         1        2         1        0         0         0
  LMTK2 WILD-TYPE     277       48       107        2        46         6
D15V3, multiclass
           clus
vv          LMTK2 MUTATED LMTK2 WILD-TYPE
  STAGE I               1             277
  STAGE II              2              48
  STAGE III             1             107
  STAGE IV              0               2
  STAGE IVA             0              46
  STAGE IVC             0               6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus               T1  T2  T3  T4
  LMTK2 MUTATED     0   1   2   1
  LMTK2 WILD-TYPE 141 161 162  22
D15V4, multiclass
    clus
vv   LMTK2 MUTATED LMTK2 WILD-TYPE
  T1             0             141
  T2             1             161
  T3             2             162
  T4             1              22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D15V5, binary
                 cls
clus                0   1
  LMTK2 MUTATED     2   1
  LMTK2 WILD-TYPE 218 221
[1] "tbl2"
                 cls
clus              [,1] [,2]
  LMTK2 MUTATED      2    1
  LMTK2 WILD-TYPE  218  221
   clus
vv  LMTK2 MUTATED LMTK2 WILD-TYPE
  0             2             218
  1             1             221
[1] 2 2
[1] FALSE
D15V6, binary
                 cls
clus                0   1
  LMTK2 MUTATED     2   1
  LMTK2 WILD-TYPE 274   8
[1] "tbl2"
                 cls
clus              [,1] [,2]
  LMTK2 MUTATED      2    1
  LMTK2 WILD-TYPE  274    8
   clus
vv  LMTK2 MUTATED LMTK2 WILD-TYPE
  0             2             274
  1             1               8
[1] 2 2
[1] FALSE
D15V7, binary
                 cls
clus                0   1
  LMTK2 MUTATED     3   1
  LMTK2 WILD-TYPE 359 129
[1] "tbl2"
                 cls
clus              [,1] [,2]
  LMTK2 MUTATED      3    1
  LMTK2 WILD-TYPE  359  129
        clus
vv       LMTK2 MUTATED LMTK2 WILD-TYPE
  FEMALE             3             359
  MALE               1             129
[1] 2 2
[1] FALSE
D15V8, binary
                 cls
clus                0   1
  LMTK2 MUTATED     1   3
  LMTK2 WILD-TYPE 178 295
[1] "tbl2"
                 cls
clus              [,1] [,2]
  LMTK2 MUTATED      1    3
  LMTK2 WILD-TYPE  178  295
     clus
vv    LMTK2 MUTATED LMTK2 WILD-TYPE
  NO              1             178
  YES             3             295
[1] 2 2
[1] FALSE
                 vv
clus              OTHER, SPECIFY THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  LMTK2 MUTATED                0                                             2
  LMTK2 WILD-TYPE              7                                           346
                 vv
clus              THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  LMTK2 MUTATED                                                                        2
  LMTK2 WILD-TYPE                                                                    100
                 vv
clus              THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  LMTK2 MUTATED                                                                     0
  LMTK2 WILD-TYPE                                                                  35
D15V9, multiclass
                                                                        clus
vv                                                                       LMTK2 MUTATED
  OTHER, SPECIFY                                                                     0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                      2
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)             2
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                0
                                                                        clus
vv                                                                       LMTK2 WILD-TYPE
  OTHER, SPECIFY                                                                       7
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                      346
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)             100
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                 35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D15V10, binary
                 cls
clus                0   1
  LMTK2 MUTATED     4   0
  LMTK2 WILD-TYPE 411  17
[1] "tbl2"
                 cls
clus              [,1] [,2]
  LMTK2 MUTATED      4    0
  LMTK2 WILD-TYPE  411   17
     clus
vv    LMTK2 MUTATED LMTK2 WILD-TYPE
  NO              4             411
  YES             0              17
[1] 2 2
[1] FALSE
                 vv
clus              MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE VERY ADVANCED (T4B)
  LMTK2 MUTATED              3                       0    1                   0
  LMTK2 WILD-TYPE          127                      18  327                   1
D15V11, multiclass
                         clus
vv                        LMTK2 MUTATED LMTK2 WILD-TYPE
  MINIMAL (T3)                        3             127
  MODERATE/ADVANCED (T4A)             0              18
  NONE                                1             327
  VERY ADVANCED (T4B)                 0               1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus               R0  R1  R2  RX
  LMTK2 MUTATED     3   0   1   0
  LMTK2 WILD-TYPE 376  51   3  30
D15V12, multiclass
    clus
vv   LMTK2 MUTATED LMTK2 WILD-TYPE
  R0             3             376
  R1             0              51
  R2             1               3
  RX             0              30
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D15V13, continuous
[1] "Remove cluster labels:" "LMTK2 MUTATED"         
clus
  LMTK2 MUTATED LMTK2 WILD-TYPE 
              2             376 
     TCGA-BJ-A290      TCGA-BJ-A45K      TCGA-CE-A13K      TCGA-DE-A0XZ 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-DJ-A2PR      TCGA-DJ-A3UU      TCGA-DJ-A3UW      TCGA-DJ-A3V4 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-DJ-A3VI      TCGA-DJ-A3VK      TCGA-E3-A3E5      TCGA-EL-A3CR 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-EL-A3CS      TCGA-EL-A3CY      TCGA-EL-A3D0      TCGA-EL-A3D5 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-EL-A3GQ      TCGA-EL-A3H8      TCGA-EM-A3AQ      TCGA-ET-A3BO 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-ET-A3BV      TCGA-J8-A3NZ      TCGA-J8-A4HW      TCGA-4C-A93U 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-BJ-A0Z0      TCGA-BJ-A0Z3      TCGA-BJ-A0Z9      TCGA-BJ-A0ZA 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-BJ-A0ZB      TCGA-BJ-A0ZH      TCGA-BJ-A0ZJ      TCGA-BJ-A18Y 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-BJ-A18Z      TCGA-BJ-A191      TCGA-BJ-A28R      TCGA-BJ-A28T 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-BJ-A28X      TCGA-BJ-A28Z      TCGA-BJ-A2N8      TCGA-BJ-A2N9 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-BJ-A2NA      TCGA-BJ-A3EZ      TCGA-BJ-A3PR      TCGA-BJ-A3PU 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-BJ-A45D      TCGA-BJ-A45E      TCGA-BJ-A45G      TCGA-BJ-A45I 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-BJ-A45J      TCGA-BJ-A4O8      TCGA-BJ-A4O9      TCGA-CE-A3MD 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-CE-A483      TCGA-CE-A484      TCGA-CE-A485      TCGA-DE-A0Y2 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-DE-A0Y3      TCGA-DE-A3KN      TCGA-DE-A4M8      TCGA-DE-A4MA 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-DE-A4MB      TCGA-DE-A4MC      TCGA-DE-A4MD      TCGA-DE-A69K 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-DE-A7U5      TCGA-DJ-A13M      TCGA-DJ-A13O      TCGA-DJ-A13R 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-DJ-A13T      TCGA-DJ-A13V      TCGA-DJ-A13W      TCGA-DJ-A13X 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-DJ-A1QG      TCGA-DJ-A1QH      TCGA-DJ-A1QM      TCGA-DJ-A2PO 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-DJ-A2PP      TCGA-DJ-A2PQ      TCGA-DJ-A2PS      TCGA-DJ-A2PT 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-DJ-A2PU      TCGA-DJ-A2PV      TCGA-DJ-A2PW      TCGA-DJ-A2PX 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-DJ-A2PY      TCGA-DJ-A2PZ      TCGA-DJ-A2Q0      TCGA-DJ-A2Q1 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-DJ-A2Q2      TCGA-DJ-A2Q3      TCGA-DJ-A2Q4      TCGA-DJ-A2Q5 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-DJ-A2Q6      TCGA-DJ-A2Q7      TCGA-DJ-A2Q8      TCGA-DJ-A2Q9 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-DJ-A2QA      TCGA-DJ-A2QB      TCGA-DJ-A3UK      TCGA-DJ-A3UM 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-DJ-A3UN      TCGA-DJ-A3UO      TCGA-DJ-A3UP      TCGA-DJ-A3UQ 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-DJ-A3UR      TCGA-DJ-A3UX      TCGA-DJ-A3UZ      TCGA-DJ-A3V0 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-DJ-A3V2      TCGA-DJ-A3V3      TCGA-DJ-A3V5      TCGA-DJ-A3V7 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-DJ-A3V8      TCGA-DJ-A3V9      TCGA-DJ-A3VA      TCGA-DJ-A3VB 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-DJ-A3VD      TCGA-DJ-A3VF      TCGA-DJ-A3VG      TCGA-DJ-A3VJ 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-DJ-A3VL      TCGA-DJ-A4UL      TCGA-DJ-A4UP      TCGA-DJ-A4UQ 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-DJ-A4UR      TCGA-DJ-A4UW      TCGA-DJ-A4V2      TCGA-DJ-A4V5 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-DO-A1K0      TCGA-DO-A2HM      TCGA-E3-A3DY      TCGA-E3-A3DZ 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-E3-A3E0      TCGA-E3-A3E1      TCGA-E3-A3E2      TCGA-E3-A3E3 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-E8-A242      TCGA-E8-A2EA      TCGA-E8-A2JQ      TCGA-E8-A414 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-E8-A415      TCGA-E8-A417      TCGA-E8-A419      TCGA-E8-A433 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-E8-A436      TCGA-E8-A438      TCGA-E8-A44K      TCGA-EL-A3CM 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-EL-A3CN      TCGA-EL-A3CO      TCGA-EL-A3CT      TCGA-EL-A3CU 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-EL-A3CV      TCGA-EL-A3CW      TCGA-EL-A3CX      TCGA-EL-A3CZ 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-EL-A3D1      TCGA-EL-A3D4      TCGA-EL-A3D6      TCGA-EL-A3GO 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-EL-A3GP      TCGA-EL-A3GS      TCGA-EL-A3GV      TCGA-EL-A3GX 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-EL-A3H3      TCGA-EL-A3H4      TCGA-EL-A3H5      TCGA-EL-A3H7 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-EL-A3MW      TCGA-EL-A3MX      TCGA-EL-A3MZ      TCGA-EL-A3N2 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-EL-A3T0      TCGA-EL-A3T1      TCGA-EL-A3T2      TCGA-EL-A3TB 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-EL-A3ZH      TCGA-EL-A3ZK      TCGA-EL-A3ZL      TCGA-EL-A3ZM 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-EL-A3ZN      TCGA-EL-A3ZO      TCGA-EL-A3ZP      TCGA-EL-A3ZS 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-EL-A4JV      TCGA-EL-A4JW      TCGA-EL-A4JX      TCGA-EL-A4JZ 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-EL-A4K0      TCGA-EL-A4K1      TCGA-EL-A4K2      TCGA-EL-A4K4 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-EL-A4K6      TCGA-EL-A4K7      TCGA-EL-A4KD      TCGA-EL-A4KG 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-EL-A4KI      TCGA-EM-A1CS      TCGA-EM-A1CT      TCGA-EM-A1CU 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-EM-A1CV      TCGA-EM-A1CW      TCGA-EM-A1YC      TCGA-EM-A1YD 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-EM-A1YE      TCGA-EM-A22I      TCGA-EM-A22J      TCGA-EM-A22K 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-EM-A22L      TCGA-EM-A22M      TCGA-EM-A22N      TCGA-EM-A22O 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-EM-A22P      TCGA-EM-A22Q      TCGA-EM-A2CK      TCGA-EM-A2CN 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-EM-A2CP      TCGA-EM-A2CQ      TCGA-EM-A2CR      TCGA-EM-A2CS 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-EM-A2CT      TCGA-EM-A2CU      TCGA-EM-A2OV      TCGA-EM-A2OX 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-EM-A2OY      TCGA-EM-A2OZ      TCGA-EM-A2P0      TCGA-EM-A2P1 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-EM-A2P2      TCGA-EM-A3AJ      TCGA-EM-A3AK      TCGA-EM-A3AL 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-EM-A3AN      TCGA-EM-A3AO      TCGA-EM-A3AR      TCGA-EM-A3FJ 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-EM-A3FK      TCGA-EM-A3FM      TCGA-EM-A3FN      TCGA-EM-A3FO 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-EM-A3FP      TCGA-EM-A3FQ      TCGA-EM-A3FR      TCGA-EM-A3O3 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-EM-A3O8      TCGA-EM-A3O9      TCGA-EM-A3OA      TCGA-EM-A3OB 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-EM-A3ST      TCGA-EM-A3SU      TCGA-EM-A3SX      TCGA-EM-A3SZ 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-EM-A4FF      TCGA-EM-A4FM      TCGA-EM-A4FN      TCGA-EM-A4FO 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-EM-A4FQ      TCGA-EM-A4FR      TCGA-EM-A4FV      TCGA-EM-A4G1 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-ET-A25G      TCGA-ET-A25J      TCGA-ET-A25K      TCGA-ET-A25O 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-ET-A2MX      TCGA-ET-A2MZ      TCGA-ET-A2N0      TCGA-ET-A2N1 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-ET-A2N4      TCGA-ET-A39K      TCGA-ET-A39L      TCGA-ET-A39O 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-ET-A39P      TCGA-ET-A39R      TCGA-ET-A39S      TCGA-ET-A39T 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-ET-A3BP      TCGA-ET-A3BQ      TCGA-ET-A3BS      TCGA-ET-A3BT 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-ET-A3BU      TCGA-ET-A3BX      TCGA-ET-A3DQ      TCGA-ET-A3DR 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-ET-A3DS      TCGA-ET-A3DT      TCGA-ET-A3DU      TCGA-ET-A3DV 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-ET-A3DW      TCGA-ET-A40P      TCGA-ET-A40Q      TCGA-ET-A40R 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-ET-A40S      TCGA-ET-A40T      TCGA-ET-A4KN      TCGA-FE-A22Z 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-FE-A230      TCGA-FE-A231      TCGA-FE-A232      TCGA-FE-A233 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-FE-A234      TCGA-FE-A235      TCGA-FE-A236      TCGA-FE-A237 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-FE-A23A      TCGA-FE-A3PB      TCGA-FE-A3PC      TCGA-FE-A3PD 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-FK-A3S3      TCGA-FK-A3SB      TCGA-FK-A3SE      TCGA-FK-A3SG 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-FK-A3SH      TCGA-FK-A4UB      TCGA-FY-A2QD      TCGA-FY-A3I4 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-FY-A3I5      TCGA-FY-A3NM      TCGA-FY-A3NN      TCGA-FY-A3ON 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-FY-A3R6      TCGA-FY-A3R7      TCGA-FY-A3R9      TCGA-FY-A3TY 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-FY-A3W9      TCGA-FY-A3YR      TCGA-FY-A40K      TCGA-FY-A40L 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-FY-A40M      TCGA-FY-A40N      TCGA-FY-A4B3      TCGA-FY-A4B4 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-GE-A2C6      TCGA-H2-A26U      TCGA-H2-A2K9      TCGA-H2-A3RH 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-H2-A3RI      TCGA-H2-A421      TCGA-H2-A422      TCGA-IM-A3EB 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-IM-A3ED      TCGA-IM-A3U2      TCGA-IM-A3U3      TCGA-IM-A41Y 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-IM-A41Z      TCGA-IM-A420      TCGA-IM-A4EB      TCGA-J8-A3O0 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-J8-A3O1      TCGA-J8-A3O2      TCGA-J8-A3YD      TCGA-J8-A3YE 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-J8-A3YF      TCGA-J8-A3YG      TCGA-J8-A3YH      TCGA-J8-A42S 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-J8-A4HY      TCGA-KS-A41F      TCGA-KS-A41I      TCGA-KS-A41J 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-KS-A41L      TCGA-KS-A4I1      TCGA-KS-A4I3      TCGA-KS-A4I5 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-KS-A4I7      TCGA-KS-A4I9      TCGA-KS-A4IB      TCGA-KS-A4IC 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-KS-A4ID      TCGA-L6-A4EP      TCGA-L6-A4EQ      TCGA-L6-A4EU 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
     TCGA-MK-A4N6      TCGA-MK-A4N7      TCGA-MK-A4N9      TCGA-QD-A8IV 
"LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" "LMTK2 WILD-TYPE" 
D15V14, binary
                 cls
clus                0   1
  LMTK2 MUTATED     0   4
  LMTK2 WILD-TYPE 221 258
[1] "tbl2"
                 cls
clus              [,1] [,2]
  LMTK2 MUTATED      0    4
  LMTK2 WILD-TYPE  221  258
            clus
vv           LMTK2 MUTATED LMTK2 WILD-TYPE
  MULTIFOCAL             0             221
  UNIFOCAL               4             258
[1] 2 2
[1] FALSE
D15V15, continuous
                 vv
clus              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  LMTK2 MUTATED                                  0     0
  LMTK2 WILD-TYPE                                1    51
                 vv
clus              BLACK OR AFRICAN AMERICAN WHITE
  LMTK2 MUTATED                           0     4
  LMTK2 WILD-TYPE                        26   318
D15V16, multiclass
                                  clus
vv                                 LMTK2 MUTATED LMTK2 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE             0               1
  ASIAN                                        0              51
  BLACK OR AFRICAN AMERICAN                    0              26
  WHITE                                        4             318
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D15V17, binary
                 cls
clus                0   1
  LMTK2 MUTATED     1   3
  LMTK2 WILD-TYPE  37 348
[1] "tbl2"
                 cls
clus              [,1] [,2]
  LMTK2 MUTATED      1    3
  LMTK2 WILD-TYPE   37  348
                        clus
vv                       LMTK2 MUTATED LMTK2 WILD-TYPE
  HISPANIC OR LATINO                 1              37
  NOT HISPANIC OR LATINO             3             348
[1] 2 2
[1] FALSE

Clustering(16) Variable = SRPX MUTATION ANALYSIS
D16V1, survival
                sevent
clus2              0   1
  SRPX MUTATED     4   0
  SRPX WILD-TYPE 473  14
  SRPX MUTATED SRPX WILD-TYPE 
             4            487 
  SRPX MUTATED SRPX WILD-TYPE 
             0             14 
$`SRPX MUTATED`
TCGA-BJ-A28Z TCGA-CE-A484 TCGA-EM-A3FL TCGA-IM-A3U2 
       11.08        12.43        47.38        18.51 

$`SRPX WILD-TYPE`
TCGA-BJ-A290 TCGA-BJ-A45K TCGA-CE-A13K TCGA-DE-A0XZ TCGA-DJ-A13L TCGA-DJ-A2PR 
       30.21        23.18        12.66        35.84         9.96        27.45 
TCGA-DJ-A3UU TCGA-DJ-A3UW TCGA-DJ-A3V4 TCGA-DJ-A3VI TCGA-DJ-A3VK TCGA-E3-A3E5 
       23.44        59.57        42.54         3.12        24.76        39.95 
TCGA-EL-A3CR TCGA-EL-A3CS TCGA-EL-A3CY TCGA-EL-A3D0 TCGA-EL-A3D5 TCGA-EL-A3GQ 
        7.66        45.53         4.18       139.86        57.11        50.24 
TCGA-EL-A3H2 TCGA-EL-A3H8 TCGA-EL-A3MY TCGA-EL-A3N3 TCGA-EM-A3AQ TCGA-ET-A3BO 
       33.50       150.48        17.52       178.29        29.72        50.40 
TCGA-ET-A3BV TCGA-FK-A3SD TCGA-FY-A76V TCGA-J8-A3NZ TCGA-J8-A4HW TCGA-L6-A4ET 
       75.42         1.05         1.68        17.23         2.60        21.83 
TCGA-MK-A84Z TCGA-4C-A93U TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0Z3 
       23.93         4.24        24.79        13.78        49.78        16.34 
TCGA-BJ-A0Z9 TCGA-BJ-A0ZA TCGA-BJ-A0ZB TCGA-BJ-A0ZC TCGA-BJ-A0ZE TCGA-BJ-A0ZG 
       41.33        18.87         4.01        11.57        16.73        25.48 
TCGA-BJ-A0ZH TCGA-BJ-A0ZJ TCGA-BJ-A18Y TCGA-BJ-A18Z TCGA-BJ-A191 TCGA-BJ-A192 
       15.12        42.08        51.39        41.52         4.83        44.35 
TCGA-BJ-A28R TCGA-BJ-A28S TCGA-BJ-A28T TCGA-BJ-A28V TCGA-BJ-A28X TCGA-BJ-A2N7 
       42.15        21.04        35.54        32.45        30.97        18.38 
TCGA-BJ-A2N8 TCGA-BJ-A2N9 TCGA-BJ-A2NA TCGA-BJ-A2P4 TCGA-BJ-A3EZ TCGA-BJ-A3F0 
       16.57        20.48        18.97        12.82        16.01        13.94 
TCGA-BJ-A3PR TCGA-BJ-A3PT TCGA-BJ-A3PU TCGA-BJ-A45D TCGA-BJ-A45E TCGA-BJ-A45F 
       36.39        23.31        18.64        10.88        21.01         3.45 
TCGA-BJ-A45G TCGA-BJ-A45H TCGA-BJ-A45I TCGA-BJ-A45J TCGA-BJ-A4O8 TCGA-BJ-A4O9 
       23.84        28.44        15.45        21.63        19.43        23.47 
TCGA-CE-A27D TCGA-CE-A3MD TCGA-CE-A3ME TCGA-CE-A481 TCGA-CE-A482 TCGA-CE-A483 
       12.30        12.79        12.46        11.38        10.68        15.02 
TCGA-CE-A485 TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DE-A2OL TCGA-DE-A3KN TCGA-DE-A4M8 
       12.66        21.63        50.17        37.64        27.32        18.54 
TCGA-DE-A4M9 TCGA-DE-A4MA TCGA-DE-A4MB TCGA-DE-A4MC TCGA-DE-A4MD TCGA-DE-A69J 
       18.84        30.12        11.57        30.02        25.12        14.70 
TCGA-DE-A69K TCGA-DE-A7U5 TCGA-DJ-A13M TCGA-DJ-A13O TCGA-DJ-A13P TCGA-DJ-A13R 
       14.27         2.76        48.79        38.17       169.32        18.58 
TCGA-DJ-A13S TCGA-DJ-A13T TCGA-DJ-A13U TCGA-DJ-A13V TCGA-DJ-A13W TCGA-DJ-A13X 
        8.71        56.19        52.27        43.17        52.37         8.32 
TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QG TCGA-DJ-A1QH TCGA-DJ-A1QI 
       48.07       135.91        30.61        44.98        42.51        14.96 
TCGA-DJ-A1QL TCGA-DJ-A1QM TCGA-DJ-A1QN TCGA-DJ-A1QO TCGA-DJ-A1QQ TCGA-DJ-A2PN 
       17.59         6.02        42.58        47.41        17.56        10.09 
TCGA-DJ-A2PO TCGA-DJ-A2PP TCGA-DJ-A2PQ TCGA-DJ-A2PS TCGA-DJ-A2PT TCGA-DJ-A2PU 
        7.99        30.58        35.41        26.20        38.83        33.96 
TCGA-DJ-A2PV TCGA-DJ-A2PW TCGA-DJ-A2PX TCGA-DJ-A2PY TCGA-DJ-A2PZ TCGA-DJ-A2Q0 
       31.99        34.85        28.96         8.78         8.42        34.36 
TCGA-DJ-A2Q1 TCGA-DJ-A2Q2 TCGA-DJ-A2Q3 TCGA-DJ-A2Q4 TCGA-DJ-A2Q5 TCGA-DJ-A2Q6 
       37.74        43.96        40.24        33.93        37.48        36.46 
TCGA-DJ-A2Q7 TCGA-DJ-A2Q8 TCGA-DJ-A2Q9 TCGA-DJ-A2QA TCGA-DJ-A2QB TCGA-DJ-A2QC 
       35.11        39.09        35.90        33.53        35.18        39.95 
TCGA-DJ-A3UK TCGA-DJ-A3UM TCGA-DJ-A3UN TCGA-DJ-A3UO TCGA-DJ-A3UP TCGA-DJ-A3UQ 
       36.92        31.04        32.42        31.46        16.41        19.56 
TCGA-DJ-A3UR TCGA-DJ-A3US TCGA-DJ-A3UT TCGA-DJ-A3UX TCGA-DJ-A3UY TCGA-DJ-A3UZ 
       36.33        32.81        36.33        11.34        35.87        40.96 
TCGA-DJ-A3V0 TCGA-DJ-A3V2 TCGA-DJ-A3V3 TCGA-DJ-A3V5 TCGA-DJ-A3V7 TCGA-DJ-A3V8 
       36.99        20.22        30.61        19.20        23.21        21.27 
TCGA-DJ-A3V9 TCGA-DJ-A3VA TCGA-DJ-A3VB TCGA-DJ-A3VD TCGA-DJ-A3VE TCGA-DJ-A3VF 
       20.48        24.82        22.92        40.70        18.97         9.60 
TCGA-DJ-A3VG TCGA-DJ-A3VJ TCGA-DJ-A3VL TCGA-DJ-A3VM TCGA-DJ-A4UL TCGA-DJ-A4UP 
       35.67        36.43        23.44        27.62        30.87        30.12 
TCGA-DJ-A4UQ TCGA-DJ-A4UR TCGA-DJ-A4UT TCGA-DJ-A4UW TCGA-DJ-A4V0 TCGA-DJ-A4V2 
       33.04        34.78        27.06        26.93        35.54         3.12 
TCGA-DJ-A4V4 TCGA-DJ-A4V5 TCGA-DO-A1JZ TCGA-DO-A1K0 TCGA-DO-A2HM TCGA-E3-A3DY 
       15.81        35.38        54.90        21.53         2.33        92.55 
TCGA-E3-A3DZ TCGA-E3-A3E0 TCGA-E3-A3E1 TCGA-E3-A3E2 TCGA-E3-A3E3 TCGA-E8-A242 
       47.21        66.38        80.52        63.19        52.44        31.23 
TCGA-E8-A2EA TCGA-E8-A2JQ TCGA-E8-A3X7 TCGA-E8-A413 TCGA-E8-A414 TCGA-E8-A415 
       35.67        11.70        31.27        29.98        31.50        31.04 
TCGA-E8-A416 TCGA-E8-A417 TCGA-E8-A419 TCGA-E8-A432 TCGA-E8-A433 TCGA-E8-A434 
       31.30        30.84        25.45        30.61        31.27        31.33 
TCGA-E8-A436 TCGA-E8-A437 TCGA-E8-A438 TCGA-E8-A44K TCGA-E8-A44M TCGA-EL-A3CL 
       14.96        39.88        33.50        31.00        30.15        31.66 
TCGA-EL-A3CM TCGA-EL-A3CN TCGA-EL-A3CO TCGA-EL-A3CP TCGA-EL-A3CT TCGA-EL-A3CU 
       26.73       155.54        97.74       158.83        60.95       157.15 
TCGA-EL-A3CV TCGA-EL-A3CW TCGA-EL-A3CX TCGA-EL-A3CZ TCGA-EL-A3D1 TCGA-EL-A3D4 
       37.94        57.01       106.62        79.50        98.53        69.57 
TCGA-EL-A3D6 TCGA-EL-A3GO TCGA-EL-A3GP TCGA-EL-A3GR TCGA-EL-A3GS TCGA-EL-A3GU 
      108.36        64.87        49.51       115.10        65.39       136.01 
TCGA-EL-A3GV TCGA-EL-A3GW TCGA-EL-A3GX TCGA-EL-A3GY TCGA-EL-A3GZ TCGA-EL-A3H1 
       50.37        50.20       147.75       101.13       139.99        49.32 
TCGA-EL-A3H3 TCGA-EL-A3H4 TCGA-EL-A3H5 TCGA-EL-A3H7 TCGA-EL-A3MW TCGA-EL-A3MX 
       43.36        49.71        83.57       139.00       108.66        57.63 
TCGA-EL-A3MZ TCGA-EL-A3N2 TCGA-EL-A3T0 TCGA-EL-A3T1 TCGA-EL-A3T2 TCGA-EL-A3T3 
       52.50        29.65       142.52       129.57        32.48       132.07 
TCGA-EL-A3T6 TCGA-EL-A3T7 TCGA-EL-A3T8 TCGA-EL-A3T9 TCGA-EL-A3TA TCGA-EL-A3TB 
       98.24        41.29       107.47         5.72        66.90        82.82 
TCGA-EL-A3ZG TCGA-EL-A3ZH TCGA-EL-A3ZK TCGA-EL-A3ZL TCGA-EL-A3ZM TCGA-EL-A3ZN 
       89.56        91.17        51.78        62.30        36.03        53.06 
TCGA-EL-A3ZO TCGA-EL-A3ZP TCGA-EL-A3ZQ TCGA-EL-A3ZR TCGA-EL-A3ZS TCGA-EL-A3ZT 
       72.69        65.49        61.22        60.16         7.07        59.44 
TCGA-EL-A4JV TCGA-EL-A4JW TCGA-EL-A4JX TCGA-EL-A4JZ TCGA-EL-A4K0 TCGA-EL-A4K1 
       57.47        34.72        45.96        61.02        31.04        34.39 
TCGA-EL-A4K2 TCGA-EL-A4K4 TCGA-EL-A4K6 TCGA-EL-A4K7 TCGA-EL-A4K9 TCGA-EL-A4KD 
       30.51        53.36        44.15        41.13        47.84        43.59 
TCGA-EL-A4KG TCGA-EL-A4KH TCGA-EL-A4KI TCGA-EM-A1CS TCGA-EM-A1CT TCGA-EM-A1CU 
       24.30        27.06        23.90        26.86        18.18        20.91 
TCGA-EM-A1CV TCGA-EM-A1CW TCGA-EM-A1YA TCGA-EM-A1YB TCGA-EM-A1YC TCGA-EM-A1YD 
       48.49        18.05        19.79        19.46        78.61        57.01 
TCGA-EM-A1YE TCGA-EM-A22I TCGA-EM-A22J TCGA-EM-A22K TCGA-EM-A22L TCGA-EM-A22M 
       54.08        14.73        14.50        15.75        10.45        14.53 
TCGA-EM-A22N TCGA-EM-A22O TCGA-EM-A22P TCGA-EM-A22Q TCGA-EM-A2CJ TCGA-EM-A2CK 
       10.65        44.19        41.29        14.24        47.57        17.88 
TCGA-EM-A2CL TCGA-EM-A2CN TCGA-EM-A2CO TCGA-EM-A2CP TCGA-EM-A2CQ TCGA-EM-A2CR 
       13.18        23.51         6.05         2.99        12.30        13.64 
TCGA-EM-A2CS TCGA-EM-A2CT TCGA-EM-A2CU TCGA-EM-A2OV TCGA-EM-A2OW TCGA-EM-A2OX 
       27.65        48.46        13.15        22.16        40.34        19.73 
TCGA-EM-A2OY TCGA-EM-A2OZ TCGA-EM-A2P0 TCGA-EM-A2P1 TCGA-EM-A2P2 TCGA-EM-A2P3 
       32.32        33.96        17.59        17.46        17.29        14.60 
TCGA-EM-A3AI TCGA-EM-A3AJ TCGA-EM-A3AK TCGA-EM-A3AL TCGA-EM-A3AN TCGA-EM-A3AO 
       22.52        30.94        15.68        14.14        33.07        44.52 
TCGA-EM-A3AP TCGA-EM-A3AR TCGA-EM-A3FJ TCGA-EM-A3FK TCGA-EM-A3FM TCGA-EM-A3FN 
        8.35        37.25        27.95        23.77        21.01        12.07 
TCGA-EM-A3FO TCGA-EM-A3FP TCGA-EM-A3FQ TCGA-EM-A3FR TCGA-EM-A3O3 TCGA-EM-A3O6 
       17.49        17.39        16.18        15.02        14.50        15.06 
TCGA-EM-A3O7 TCGA-EM-A3O8 TCGA-EM-A3O9 TCGA-EM-A3OA TCGA-EM-A3OB TCGA-EM-A3ST 
        7.33        12.53         9.24        27.02        38.66        38.86 
TCGA-EM-A3SU TCGA-EM-A3SX TCGA-EM-A3SY TCGA-EM-A3SZ TCGA-EM-A4FF TCGA-EM-A4FH 
       29.95        29.85        13.51        12.79        84.59        29.33 
TCGA-EM-A4FK TCGA-EM-A4FM TCGA-EM-A4FN TCGA-EM-A4FO TCGA-EM-A4FQ TCGA-EM-A4FR 
       21.34         5.33        26.37        26.37        22.45        21.53 
TCGA-EM-A4FU TCGA-EM-A4FV TCGA-EM-A4G1 TCGA-ET-A25G TCGA-ET-A25I TCGA-ET-A25J 
       60.49        24.46        13.68        81.93        81.70        77.56 
TCGA-ET-A25K TCGA-ET-A25O TCGA-ET-A25R TCGA-ET-A2MX TCGA-ET-A2MY TCGA-ET-A2MZ 
       70.42        65.29        63.45        88.41        58.75        37.25 
TCGA-ET-A2N0 TCGA-ET-A2N1 TCGA-ET-A2N3 TCGA-ET-A2N4 TCGA-ET-A2N5 TCGA-ET-A39I 
       52.60        54.35        83.34         2.66        80.88        33.24 
TCGA-ET-A39J TCGA-ET-A39K TCGA-ET-A39L TCGA-ET-A39M TCGA-ET-A39N TCGA-ET-A39O 
      106.09       107.41       108.46        84.89       123.32       100.57 
TCGA-ET-A39P TCGA-ET-A39R TCGA-ET-A39S TCGA-ET-A39T TCGA-ET-A3BN TCGA-ET-A3BP 
       95.34        94.13        55.10        98.20        28.24        79.10 
TCGA-ET-A3BQ TCGA-ET-A3BS TCGA-ET-A3BT TCGA-ET-A3BU TCGA-ET-A3BW TCGA-ET-A3BX 
       76.64         5.79        87.62        77.82        46.65        52.47 
TCGA-ET-A3DO TCGA-ET-A3DP TCGA-ET-A3DQ TCGA-ET-A3DR TCGA-ET-A3DS TCGA-ET-A3DT 
      116.78        94.59        84.85        80.58        66.84        43.73 
TCGA-ET-A3DU TCGA-ET-A3DV TCGA-ET-A3DW TCGA-ET-A40P TCGA-ET-A40Q TCGA-ET-A40R 
       62.83       166.62        24.72        43.99        46.26        44.38 
TCGA-ET-A40S TCGA-ET-A40T TCGA-ET-A4KN TCGA-ET-A4KQ TCGA-FE-A22Z TCGA-FE-A230 
       40.21        37.48        33.17        31.40        73.74        71.44 
TCGA-FE-A231 TCGA-FE-A232 TCGA-FE-A233 TCGA-FE-A234 TCGA-FE-A235 TCGA-FE-A236 
       31.59        79.69        24.69        68.22       117.40        66.77 
TCGA-FE-A237 TCGA-FE-A23A TCGA-FE-A3PA TCGA-FE-A3PB TCGA-FE-A3PC TCGA-FE-A3PD 
      112.80        81.83       106.36        85.15        85.68        78.77 
TCGA-FK-A3S3 TCGA-FK-A3SB TCGA-FK-A3SE TCGA-FK-A3SG TCGA-FK-A3SH TCGA-FK-A4UB 
       71.08         4.11        22.03         0.92        48.10       116.09 
TCGA-FY-A2QD TCGA-FY-A3BL TCGA-FY-A3I4 TCGA-FY-A3I5 TCGA-FY-A3NM TCGA-FY-A3NP 
        1.25        20.42        17.82         7.82        29.10        16.14 
TCGA-FY-A3ON TCGA-FY-A3R6 TCGA-FY-A3R7 TCGA-FY-A3R8 TCGA-FY-A3R9 TCGA-FY-A3RA 
       19.56        13.91        16.27        15.68        16.57        18.08 
TCGA-FY-A3TY TCGA-FY-A3W9 TCGA-FY-A3WA TCGA-FY-A3YR TCGA-FY-A40K TCGA-FY-A40L 
       23.31        21.63        17.06        17.36        15.16        23.87 
TCGA-FY-A40M TCGA-FY-A40N TCGA-FY-A4B0 TCGA-FY-A4B3 TCGA-FY-A4B4 TCGA-GE-A2C6 
       22.49        19.04        13.81        14.04        21.60        12.53 
TCGA-H2-A26U TCGA-H2-A2K9 TCGA-H2-A3RH TCGA-H2-A3RI TCGA-H2-A421 TCGA-H2-A422 
       17.00        21.67        12.46        11.01        20.05        18.61 
TCGA-IM-A3EB TCGA-IM-A3ED TCGA-IM-A3U3 TCGA-IM-A41Y TCGA-IM-A41Z TCGA-IM-A420 
       48.92        47.41        16.90        21.83        31.10         8.22 
TCGA-IM-A4EB TCGA-J8-A3O0 TCGA-J8-A3O1 TCGA-J8-A3O2 TCGA-J8-A3YD TCGA-J8-A3YE 
       25.64        43.17        27.19        11.24        31.82        27.85 
TCGA-J8-A3YF TCGA-J8-A3YG TCGA-J8-A3YH TCGA-J8-A42S TCGA-J8-A4HY TCGA-KS-A41F 
       24.69        22.29         5.75         2.47         0.20       143.57 
TCGA-KS-A41I TCGA-KS-A41J TCGA-KS-A41L TCGA-KS-A4I1 TCGA-KS-A4I3 TCGA-KS-A4I5 
       15.98        15.68       113.85        26.70        43.69        18.64 
TCGA-KS-A4I7 TCGA-KS-A4I9 TCGA-KS-A4IB TCGA-KS-A4IC TCGA-KS-A4ID TCGA-L6-A4EP 
       32.45        87.39        84.72        35.28        33.24        33.40 
TCGA-L6-A4EQ TCGA-L6-A4EU TCGA-MK-A4N6 TCGA-MK-A4N7 TCGA-MK-A4N9 TCGA-QD-A8IV 
       40.37         9.50        36.10        32.45        30.21        12.89 
TCGA-E8-A418 
        3.02 

  SRPX MUTATED SRPX WILD-TYPE 
         11.08           0.20 
  SRPX MUTATED SRPX WILD-TYPE 
         47.38         178.29 
  SRPX MUTATED SRPX WILD-TYPE 
         15.47          31.23 
[1] "11.1 - 47.4 (15.5)" "0.2 - 178.3 (31.2)"
[1] "hr="     "1200000"
D16V2, continuous
                vv
clus             STAGE I STAGE II STAGE III STAGE IV STAGE IVA STAGE IVC
  SRPX MUTATED         2        0         1        0         1         0
  SRPX WILD-TYPE     276       50       107        2        45         6
D16V3, multiclass
           clus
vv          SRPX MUTATED SRPX WILD-TYPE
  STAGE I              2            276
  STAGE II             0             50
  STAGE III            1            107
  STAGE IV             0              2
  STAGE IVA            1             45
  STAGE IVC            0              6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus              T1  T2  T3  T4
  SRPX MUTATED     1   1   2   0
  SRPX WILD-TYPE 140 161 162  23
D16V4, multiclass
    clus
vv   SRPX MUTATED SRPX WILD-TYPE
  T1            1            140
  T2            1            161
  T3            2            162
  T4            0             23
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D16V5, binary
                cls
clus               0   1
  SRPX MUTATED     0   3
  SRPX WILD-TYPE 220 219
[1] "tbl2"
                cls
clus             [,1] [,2]
  SRPX MUTATED      0    3
  SRPX WILD-TYPE  220  219
   clus
vv  SRPX MUTATED SRPX WILD-TYPE
  0            0            220
  1            3            219
[1] 2 2
[1] FALSE
D16V6, binary
                cls
clus               0   1
  SRPX MUTATED     2   0
  SRPX WILD-TYPE 274   9
[1] "tbl2"
                cls
clus             [,1] [,2]
  SRPX MUTATED      2    0
  SRPX WILD-TYPE  274    9
   clus
vv  SRPX MUTATED SRPX WILD-TYPE
  0            2            274
  1            0              9
[1] 2 2
[1] FALSE
D16V7, binary
                cls
clus               0   1
  SRPX MUTATED     4   0
  SRPX WILD-TYPE 358 130
[1] "tbl2"
                cls
clus             [,1] [,2]
  SRPX MUTATED      4    0
  SRPX WILD-TYPE  358  130
        clus
vv       SRPX MUTATED SRPX WILD-TYPE
  FEMALE            4            358
  MALE              0            130
[1] 2 2
[1] FALSE
D16V8, binary
                cls
clus               0   1
  SRPX MUTATED     2   2
  SRPX WILD-TYPE 177 296
[1] "tbl2"
                cls
clus             [,1] [,2]
  SRPX MUTATED      2    2
  SRPX WILD-TYPE  177  296
     clus
vv    SRPX MUTATED SRPX WILD-TYPE
  NO             2            177
  YES            2            296
[1] 2 2
[1] FALSE
                vv
clus             OTHER, SPECIFY THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  SRPX MUTATED                0                                             2
  SRPX WILD-TYPE              7                                           346
                vv
clus             THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  SRPX MUTATED                                                                        1
  SRPX WILD-TYPE                                                                    101
                vv
clus             THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  SRPX MUTATED                                                                     1
  SRPX WILD-TYPE                                                                  34
D16V9, multiclass
                                                                        clus
vv                                                                       SRPX MUTATED
  OTHER, SPECIFY                                                                    0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                     2
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)            1
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)               1
                                                                        clus
vv                                                                       SRPX WILD-TYPE
  OTHER, SPECIFY                                                                      7
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                     346
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)            101
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                34
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D16V10, binary
                cls
clus               0   1
  SRPX MUTATED     3   0
  SRPX WILD-TYPE 412  17
[1] "tbl2"
                cls
clus             [,1] [,2]
  SRPX MUTATED      3    0
  SRPX WILD-TYPE  412   17
     clus
vv    SRPX MUTATED SRPX WILD-TYPE
  NO             3            412
  YES            0             17
[1] 2 2
[1] FALSE
                vv
clus             MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE VERY ADVANCED (T4B)
  SRPX MUTATED              2                       0    2                   0
  SRPX WILD-TYPE          128                      18  326                   1
D16V11, multiclass
                         clus
vv                        SRPX MUTATED SRPX WILD-TYPE
  MINIMAL (T3)                       2            128
  MODERATE/ADVANCED (T4A)            0             18
  NONE                               2            326
  VERY ADVANCED (T4B)                0              1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus              R0  R1  R2  RX
  SRPX MUTATED     3   0   0   0
  SRPX WILD-TYPE 376  51   4  30
D16V12, multiclass
    clus
vv   SRPX MUTATED SRPX WILD-TYPE
  R0            3            376
  R1            0             51
  R2            0              4
  RX            0             30
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D16V13, continuous
D16V14, binary
                cls
clus               0   1
  SRPX MUTATED     3   1
  SRPX WILD-TYPE 218 261
[1] "tbl2"
                cls
clus             [,1] [,2]
  SRPX MUTATED      3    1
  SRPX WILD-TYPE  218  261
            clus
vv           SRPX MUTATED SRPX WILD-TYPE
  MULTIFOCAL            3            218
  UNIFOCAL              1            261
[1] 2 2
[1] FALSE
D16V15, continuous
                vv
clus             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  SRPX MUTATED                                  0     1
  SRPX WILD-TYPE                                1    50
                vv
clus             BLACK OR AFRICAN AMERICAN WHITE
  SRPX MUTATED                           0     2
  SRPX WILD-TYPE                        26   320
D16V16, multiclass
                                  clus
vv                                 SRPX MUTATED SRPX WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE            0              1
  ASIAN                                       1             50
  BLACK OR AFRICAN AMERICAN                   0             26
  WHITE                                       2            320
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D16V17, binary
                cls
clus               0   1
  SRPX MUTATED     1   2
  SRPX WILD-TYPE  37 349
[1] "tbl2"
                cls
clus             [,1] [,2]
  SRPX MUTATED      1    2
  SRPX WILD-TYPE   37  349
                        clus
vv                       SRPX MUTATED SRPX WILD-TYPE
  HISPANIC OR LATINO                1             37
  NOT HISPANIC OR LATINO            2            349
[1] 2 2
[1] FALSE

Clustering(17) Variable = PPM1D MUTATION ANALYSIS
D17V1, survival
                 sevent
clus2               0   1
  PPM1D MUTATED     5   0
  PPM1D WILD-TYPE 472  14
  PPM1D MUTATED PPM1D WILD-TYPE 
              5             486 
  PPM1D MUTATED PPM1D WILD-TYPE 
              0              14 
$`PPM1D MUTATED`
TCGA-DJ-A1QE TCGA-DJ-A2PW TCGA-ET-A3BW TCGA-FY-A3R7 TCGA-E8-A418 
      135.91        34.85        46.65        16.27         3.02 

$`PPM1D WILD-TYPE`
TCGA-BJ-A290 TCGA-BJ-A45K TCGA-CE-A13K TCGA-DE-A0XZ TCGA-DJ-A13L TCGA-DJ-A2PR 
       30.21        23.18        12.66        35.84         9.96        27.45 
TCGA-DJ-A3UU TCGA-DJ-A3UW TCGA-DJ-A3V4 TCGA-DJ-A3VI TCGA-DJ-A3VK TCGA-E3-A3E5 
       23.44        59.57        42.54         3.12        24.76        39.95 
TCGA-EL-A3CR TCGA-EL-A3CS TCGA-EL-A3CY TCGA-EL-A3D0 TCGA-EL-A3D5 TCGA-EL-A3GQ 
        7.66        45.53         4.18       139.86        57.11        50.24 
TCGA-EL-A3H2 TCGA-EL-A3H8 TCGA-EL-A3MY TCGA-EL-A3N3 TCGA-EM-A3AQ TCGA-ET-A3BO 
       33.50       150.48        17.52       178.29        29.72        50.40 
TCGA-ET-A3BV TCGA-FK-A3SD TCGA-FY-A76V TCGA-J8-A3NZ TCGA-J8-A4HW TCGA-L6-A4ET 
       75.42         1.05         1.68        17.23         2.60        21.83 
TCGA-MK-A84Z TCGA-4C-A93U TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0Z3 
       23.93         4.24        24.79        13.78        49.78        16.34 
TCGA-BJ-A0Z9 TCGA-BJ-A0ZA TCGA-BJ-A0ZB TCGA-BJ-A0ZC TCGA-BJ-A0ZE TCGA-BJ-A0ZG 
       41.33        18.87         4.01        11.57        16.73        25.48 
TCGA-BJ-A0ZH TCGA-BJ-A0ZJ TCGA-BJ-A18Y TCGA-BJ-A18Z TCGA-BJ-A191 TCGA-BJ-A192 
       15.12        42.08        51.39        41.52         4.83        44.35 
TCGA-BJ-A28R TCGA-BJ-A28S TCGA-BJ-A28T TCGA-BJ-A28V TCGA-BJ-A28X TCGA-BJ-A28Z 
       42.15        21.04        35.54        32.45        30.97        11.08 
TCGA-BJ-A2N7 TCGA-BJ-A2N8 TCGA-BJ-A2N9 TCGA-BJ-A2NA TCGA-BJ-A2P4 TCGA-BJ-A3EZ 
       18.38        16.57        20.48        18.97        12.82        16.01 
TCGA-BJ-A3F0 TCGA-BJ-A3PR TCGA-BJ-A3PT TCGA-BJ-A3PU TCGA-BJ-A45D TCGA-BJ-A45E 
       13.94        36.39        23.31        18.64        10.88        21.01 
TCGA-BJ-A45F TCGA-BJ-A45G TCGA-BJ-A45H TCGA-BJ-A45I TCGA-BJ-A45J TCGA-BJ-A4O8 
        3.45        23.84        28.44        15.45        21.63        19.43 
TCGA-BJ-A4O9 TCGA-CE-A27D TCGA-CE-A3MD TCGA-CE-A3ME TCGA-CE-A481 TCGA-CE-A482 
       23.47        12.30        12.79        12.46        11.38        10.68 
TCGA-CE-A483 TCGA-CE-A484 TCGA-CE-A485 TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DE-A2OL 
       15.02        12.43        12.66        21.63        50.17        37.64 
TCGA-DE-A3KN TCGA-DE-A4M8 TCGA-DE-A4M9 TCGA-DE-A4MA TCGA-DE-A4MB TCGA-DE-A4MC 
       27.32        18.54        18.84        30.12        11.57        30.02 
TCGA-DE-A4MD TCGA-DE-A69J TCGA-DE-A69K TCGA-DE-A7U5 TCGA-DJ-A13M TCGA-DJ-A13O 
       25.12        14.70        14.27         2.76        48.79        38.17 
TCGA-DJ-A13P TCGA-DJ-A13R TCGA-DJ-A13S TCGA-DJ-A13T TCGA-DJ-A13U TCGA-DJ-A13V 
      169.32        18.58         8.71        56.19        52.27        43.17 
TCGA-DJ-A13W TCGA-DJ-A13X TCGA-DJ-A1QD TCGA-DJ-A1QF TCGA-DJ-A1QG TCGA-DJ-A1QH 
       52.37         8.32        48.07        30.61        44.98        42.51 
TCGA-DJ-A1QI TCGA-DJ-A1QL TCGA-DJ-A1QM TCGA-DJ-A1QN TCGA-DJ-A1QO TCGA-DJ-A1QQ 
       14.96        17.59         6.02        42.58        47.41        17.56 
TCGA-DJ-A2PN TCGA-DJ-A2PO TCGA-DJ-A2PP TCGA-DJ-A2PQ TCGA-DJ-A2PS TCGA-DJ-A2PT 
       10.09         7.99        30.58        35.41        26.20        38.83 
TCGA-DJ-A2PU TCGA-DJ-A2PV TCGA-DJ-A2PX TCGA-DJ-A2PY TCGA-DJ-A2PZ TCGA-DJ-A2Q0 
       33.96        31.99        28.96         8.78         8.42        34.36 
TCGA-DJ-A2Q1 TCGA-DJ-A2Q2 TCGA-DJ-A2Q3 TCGA-DJ-A2Q4 TCGA-DJ-A2Q5 TCGA-DJ-A2Q6 
       37.74        43.96        40.24        33.93        37.48        36.46 
TCGA-DJ-A2Q7 TCGA-DJ-A2Q8 TCGA-DJ-A2Q9 TCGA-DJ-A2QA TCGA-DJ-A2QB TCGA-DJ-A2QC 
       35.11        39.09        35.90        33.53        35.18        39.95 
TCGA-DJ-A3UK TCGA-DJ-A3UM TCGA-DJ-A3UN TCGA-DJ-A3UO TCGA-DJ-A3UP TCGA-DJ-A3UQ 
       36.92        31.04        32.42        31.46        16.41        19.56 
TCGA-DJ-A3UR TCGA-DJ-A3US TCGA-DJ-A3UT TCGA-DJ-A3UX TCGA-DJ-A3UY TCGA-DJ-A3UZ 
       36.33        32.81        36.33        11.34        35.87        40.96 
TCGA-DJ-A3V0 TCGA-DJ-A3V2 TCGA-DJ-A3V3 TCGA-DJ-A3V5 TCGA-DJ-A3V7 TCGA-DJ-A3V8 
       36.99        20.22        30.61        19.20        23.21        21.27 
TCGA-DJ-A3V9 TCGA-DJ-A3VA TCGA-DJ-A3VB TCGA-DJ-A3VD TCGA-DJ-A3VE TCGA-DJ-A3VF 
       20.48        24.82        22.92        40.70        18.97         9.60 
TCGA-DJ-A3VG TCGA-DJ-A3VJ TCGA-DJ-A3VL TCGA-DJ-A3VM TCGA-DJ-A4UL TCGA-DJ-A4UP 
       35.67        36.43        23.44        27.62        30.87        30.12 
TCGA-DJ-A4UQ TCGA-DJ-A4UR TCGA-DJ-A4UT TCGA-DJ-A4UW TCGA-DJ-A4V0 TCGA-DJ-A4V2 
       33.04        34.78        27.06        26.93        35.54         3.12 
TCGA-DJ-A4V4 TCGA-DJ-A4V5 TCGA-DO-A1JZ TCGA-DO-A1K0 TCGA-DO-A2HM TCGA-E3-A3DY 
       15.81        35.38        54.90        21.53         2.33        92.55 
TCGA-E3-A3DZ TCGA-E3-A3E0 TCGA-E3-A3E1 TCGA-E3-A3E2 TCGA-E3-A3E3 TCGA-E8-A242 
       47.21        66.38        80.52        63.19        52.44        31.23 
TCGA-E8-A2EA TCGA-E8-A2JQ TCGA-E8-A3X7 TCGA-E8-A413 TCGA-E8-A414 TCGA-E8-A415 
       35.67        11.70        31.27        29.98        31.50        31.04 
TCGA-E8-A416 TCGA-E8-A417 TCGA-E8-A419 TCGA-E8-A432 TCGA-E8-A433 TCGA-E8-A434 
       31.30        30.84        25.45        30.61        31.27        31.33 
TCGA-E8-A436 TCGA-E8-A437 TCGA-E8-A438 TCGA-E8-A44K TCGA-E8-A44M TCGA-EL-A3CL 
       14.96        39.88        33.50        31.00        30.15        31.66 
TCGA-EL-A3CM TCGA-EL-A3CN TCGA-EL-A3CO TCGA-EL-A3CP TCGA-EL-A3CT TCGA-EL-A3CU 
       26.73       155.54        97.74       158.83        60.95       157.15 
TCGA-EL-A3CV TCGA-EL-A3CW TCGA-EL-A3CX TCGA-EL-A3CZ TCGA-EL-A3D1 TCGA-EL-A3D4 
       37.94        57.01       106.62        79.50        98.53        69.57 
TCGA-EL-A3D6 TCGA-EL-A3GO TCGA-EL-A3GP TCGA-EL-A3GR TCGA-EL-A3GS TCGA-EL-A3GU 
      108.36        64.87        49.51       115.10        65.39       136.01 
TCGA-EL-A3GV TCGA-EL-A3GW TCGA-EL-A3GX TCGA-EL-A3GY TCGA-EL-A3GZ TCGA-EL-A3H1 
       50.37        50.20       147.75       101.13       139.99        49.32 
TCGA-EL-A3H3 TCGA-EL-A3H4 TCGA-EL-A3H5 TCGA-EL-A3H7 TCGA-EL-A3MW TCGA-EL-A3MX 
       43.36        49.71        83.57       139.00       108.66        57.63 
TCGA-EL-A3MZ TCGA-EL-A3N2 TCGA-EL-A3T0 TCGA-EL-A3T1 TCGA-EL-A3T2 TCGA-EL-A3T3 
       52.50        29.65       142.52       129.57        32.48       132.07 
TCGA-EL-A3T6 TCGA-EL-A3T7 TCGA-EL-A3T8 TCGA-EL-A3T9 TCGA-EL-A3TA TCGA-EL-A3TB 
       98.24        41.29       107.47         5.72        66.90        82.82 
TCGA-EL-A3ZG TCGA-EL-A3ZH TCGA-EL-A3ZK TCGA-EL-A3ZL TCGA-EL-A3ZM TCGA-EL-A3ZN 
       89.56        91.17        51.78        62.30        36.03        53.06 
TCGA-EL-A3ZO TCGA-EL-A3ZP TCGA-EL-A3ZQ TCGA-EL-A3ZR TCGA-EL-A3ZS TCGA-EL-A3ZT 
       72.69        65.49        61.22        60.16         7.07        59.44 
TCGA-EL-A4JV TCGA-EL-A4JW TCGA-EL-A4JX TCGA-EL-A4JZ TCGA-EL-A4K0 TCGA-EL-A4K1 
       57.47        34.72        45.96        61.02        31.04        34.39 
TCGA-EL-A4K2 TCGA-EL-A4K4 TCGA-EL-A4K6 TCGA-EL-A4K7 TCGA-EL-A4K9 TCGA-EL-A4KD 
       30.51        53.36        44.15        41.13        47.84        43.59 
TCGA-EL-A4KG TCGA-EL-A4KH TCGA-EL-A4KI TCGA-EM-A1CS TCGA-EM-A1CT TCGA-EM-A1CU 
       24.30        27.06        23.90        26.86        18.18        20.91 
TCGA-EM-A1CV TCGA-EM-A1CW TCGA-EM-A1YA TCGA-EM-A1YB TCGA-EM-A1YC TCGA-EM-A1YD 
       48.49        18.05        19.79        19.46        78.61        57.01 
TCGA-EM-A1YE TCGA-EM-A22I TCGA-EM-A22J TCGA-EM-A22K TCGA-EM-A22L TCGA-EM-A22M 
       54.08        14.73        14.50        15.75        10.45        14.53 
TCGA-EM-A22N TCGA-EM-A22O TCGA-EM-A22P TCGA-EM-A22Q TCGA-EM-A2CJ TCGA-EM-A2CK 
       10.65        44.19        41.29        14.24        47.57        17.88 
TCGA-EM-A2CL TCGA-EM-A2CN TCGA-EM-A2CO TCGA-EM-A2CP TCGA-EM-A2CQ TCGA-EM-A2CR 
       13.18        23.51         6.05         2.99        12.30        13.64 
TCGA-EM-A2CS TCGA-EM-A2CT TCGA-EM-A2CU TCGA-EM-A2OV TCGA-EM-A2OW TCGA-EM-A2OX 
       27.65        48.46        13.15        22.16        40.34        19.73 
TCGA-EM-A2OY TCGA-EM-A2OZ TCGA-EM-A2P0 TCGA-EM-A2P1 TCGA-EM-A2P2 TCGA-EM-A2P3 
       32.32        33.96        17.59        17.46        17.29        14.60 
TCGA-EM-A3AI TCGA-EM-A3AJ TCGA-EM-A3AK TCGA-EM-A3AL TCGA-EM-A3AN TCGA-EM-A3AO 
       22.52        30.94        15.68        14.14        33.07        44.52 
TCGA-EM-A3AP TCGA-EM-A3AR TCGA-EM-A3FJ TCGA-EM-A3FK TCGA-EM-A3FL TCGA-EM-A3FM 
        8.35        37.25        27.95        23.77        47.38        21.01 
TCGA-EM-A3FN TCGA-EM-A3FO TCGA-EM-A3FP TCGA-EM-A3FQ TCGA-EM-A3FR TCGA-EM-A3O3 
       12.07        17.49        17.39        16.18        15.02        14.50 
TCGA-EM-A3O6 TCGA-EM-A3O7 TCGA-EM-A3O8 TCGA-EM-A3O9 TCGA-EM-A3OA TCGA-EM-A3OB 
       15.06         7.33        12.53         9.24        27.02        38.66 
TCGA-EM-A3ST TCGA-EM-A3SU TCGA-EM-A3SX TCGA-EM-A3SY TCGA-EM-A3SZ TCGA-EM-A4FF 
       38.86        29.95        29.85        13.51        12.79        84.59 
TCGA-EM-A4FH TCGA-EM-A4FK TCGA-EM-A4FM TCGA-EM-A4FN TCGA-EM-A4FO TCGA-EM-A4FQ 
       29.33        21.34         5.33        26.37        26.37        22.45 
TCGA-EM-A4FR TCGA-EM-A4FU TCGA-EM-A4FV TCGA-EM-A4G1 TCGA-ET-A25G TCGA-ET-A25I 
       21.53        60.49        24.46        13.68        81.93        81.70 
TCGA-ET-A25J TCGA-ET-A25K TCGA-ET-A25O TCGA-ET-A25R TCGA-ET-A2MX TCGA-ET-A2MY 
       77.56        70.42        65.29        63.45        88.41        58.75 
TCGA-ET-A2MZ TCGA-ET-A2N0 TCGA-ET-A2N1 TCGA-ET-A2N3 TCGA-ET-A2N4 TCGA-ET-A2N5 
       37.25        52.60        54.35        83.34         2.66        80.88 
TCGA-ET-A39I TCGA-ET-A39J TCGA-ET-A39K TCGA-ET-A39L TCGA-ET-A39M TCGA-ET-A39N 
       33.24       106.09       107.41       108.46        84.89       123.32 
TCGA-ET-A39O TCGA-ET-A39P TCGA-ET-A39R TCGA-ET-A39S TCGA-ET-A39T TCGA-ET-A3BN 
      100.57        95.34        94.13        55.10        98.20        28.24 
TCGA-ET-A3BP TCGA-ET-A3BQ TCGA-ET-A3BS TCGA-ET-A3BT TCGA-ET-A3BU TCGA-ET-A3BX 
       79.10        76.64         5.79        87.62        77.82        52.47 
TCGA-ET-A3DO TCGA-ET-A3DP TCGA-ET-A3DQ TCGA-ET-A3DR TCGA-ET-A3DS TCGA-ET-A3DT 
      116.78        94.59        84.85        80.58        66.84        43.73 
TCGA-ET-A3DU TCGA-ET-A3DV TCGA-ET-A3DW TCGA-ET-A40P TCGA-ET-A40Q TCGA-ET-A40R 
       62.83       166.62        24.72        43.99        46.26        44.38 
TCGA-ET-A40S TCGA-ET-A40T TCGA-ET-A4KN TCGA-ET-A4KQ TCGA-FE-A22Z TCGA-FE-A230 
       40.21        37.48        33.17        31.40        73.74        71.44 
TCGA-FE-A231 TCGA-FE-A232 TCGA-FE-A233 TCGA-FE-A234 TCGA-FE-A235 TCGA-FE-A236 
       31.59        79.69        24.69        68.22       117.40        66.77 
TCGA-FE-A237 TCGA-FE-A23A TCGA-FE-A3PA TCGA-FE-A3PB TCGA-FE-A3PC TCGA-FE-A3PD 
      112.80        81.83       106.36        85.15        85.68        78.77 
TCGA-FK-A3S3 TCGA-FK-A3SB TCGA-FK-A3SE TCGA-FK-A3SG TCGA-FK-A3SH TCGA-FK-A4UB 
       71.08         4.11        22.03         0.92        48.10       116.09 
TCGA-FY-A2QD TCGA-FY-A3BL TCGA-FY-A3I4 TCGA-FY-A3I5 TCGA-FY-A3NM TCGA-FY-A3NP 
        1.25        20.42        17.82         7.82        29.10        16.14 
TCGA-FY-A3ON TCGA-FY-A3R6 TCGA-FY-A3R8 TCGA-FY-A3R9 TCGA-FY-A3RA TCGA-FY-A3TY 
       19.56        13.91        15.68        16.57        18.08        23.31 
TCGA-FY-A3W9 TCGA-FY-A3WA TCGA-FY-A3YR TCGA-FY-A40K TCGA-FY-A40L TCGA-FY-A40M 
       21.63        17.06        17.36        15.16        23.87        22.49 
TCGA-FY-A40N TCGA-FY-A4B0 TCGA-FY-A4B3 TCGA-FY-A4B4 TCGA-GE-A2C6 TCGA-H2-A26U 
       19.04        13.81        14.04        21.60        12.53        17.00 
TCGA-H2-A2K9 TCGA-H2-A3RH TCGA-H2-A3RI TCGA-H2-A421 TCGA-H2-A422 TCGA-IM-A3EB 
       21.67        12.46        11.01        20.05        18.61        48.92 
TCGA-IM-A3ED TCGA-IM-A3U2 TCGA-IM-A3U3 TCGA-IM-A41Y TCGA-IM-A41Z TCGA-IM-A420 
       47.41        18.51        16.90        21.83        31.10         8.22 
TCGA-IM-A4EB TCGA-J8-A3O0 TCGA-J8-A3O1 TCGA-J8-A3O2 TCGA-J8-A3YD TCGA-J8-A3YE 
       25.64        43.17        27.19        11.24        31.82        27.85 
TCGA-J8-A3YF TCGA-J8-A3YG TCGA-J8-A3YH TCGA-J8-A42S TCGA-J8-A4HY TCGA-KS-A41F 
       24.69        22.29         5.75         2.47         0.20       143.57 
TCGA-KS-A41I TCGA-KS-A41J TCGA-KS-A41L TCGA-KS-A4I1 TCGA-KS-A4I3 TCGA-KS-A4I5 
       15.98        15.68       113.85        26.70        43.69        18.64 
TCGA-KS-A4I7 TCGA-KS-A4I9 TCGA-KS-A4IB TCGA-KS-A4IC TCGA-KS-A4ID TCGA-L6-A4EP 
       32.45        87.39        84.72        35.28        33.24        33.40 
TCGA-L6-A4EQ TCGA-L6-A4EU TCGA-MK-A4N6 TCGA-MK-A4N7 TCGA-MK-A4N9 TCGA-QD-A8IV 
       40.37         9.50        36.10        32.45        30.21        12.89 

  PPM1D MUTATED PPM1D WILD-TYPE 
           3.02            0.20 
  PPM1D MUTATED PPM1D WILD-TYPE 
         135.91          178.29 
  PPM1D MUTATED PPM1D WILD-TYPE 
          34.85           31.07 
[1] "3.0 - 135.9 (34.9)" "0.2 - 178.3 (31.1)"
[1] "hr="     "9100000"
D17V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV STAGE IVA STAGE IVC
  PPM1D MUTATED         1        0         4        0         1         0
  PPM1D WILD-TYPE     277       50       104        2        45         6
D17V3, multiclass
           clus
vv          PPM1D MUTATED PPM1D WILD-TYPE
  STAGE I               1             277
  STAGE II              0              50
  STAGE III             4             104
  STAGE IV              0               2
  STAGE IVA             1              45
  STAGE IVC             0               6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus               T1  T2  T3  T4
  PPM1D MUTATED     1   1   3   1
  PPM1D WILD-TYPE 140 161 161  22
D17V4, multiclass
    clus
vv   PPM1D MUTATED PPM1D WILD-TYPE
  T1             1             140
  T2             1             161
  T3             3             161
  T4             1              22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D17V5, binary
                 cls
clus                0   1
  PPM1D MUTATED     2   3
  PPM1D WILD-TYPE 218 219
[1] "tbl2"
                 cls
clus              [,1] [,2]
  PPM1D MUTATED      2    3
  PPM1D WILD-TYPE  218  219
   clus
vv  PPM1D MUTATED PPM1D WILD-TYPE
  0             2             218
  1             3             219
[1] 2 2
[1] FALSE
D17V6, binary
                 cls
clus                0   1
  PPM1D MUTATED     3   0
  PPM1D WILD-TYPE 273   9
[1] "tbl2"
                 cls
clus              [,1] [,2]
  PPM1D MUTATED      3    0
  PPM1D WILD-TYPE  273    9
   clus
vv  PPM1D MUTATED PPM1D WILD-TYPE
  0             3             273
  1             0               9
[1] 2 2
[1] FALSE
D17V7, binary
                 cls
clus                0   1
  PPM1D MUTATED     5   1
  PPM1D WILD-TYPE 357 129
[1] "tbl2"
                 cls
clus              [,1] [,2]
  PPM1D MUTATED      5    1
  PPM1D WILD-TYPE  357  129
        clus
vv       PPM1D MUTATED PPM1D WILD-TYPE
  FEMALE             5             357
  MALE               1             129
[1] 2 2
[1] FALSE
D17V8, binary
                 cls
clus                0   1
  PPM1D MUTATED     2   2
  PPM1D WILD-TYPE 177 296
[1] "tbl2"
                 cls
clus              [,1] [,2]
  PPM1D MUTATED      2    2
  PPM1D WILD-TYPE  177  296
     clus
vv    PPM1D MUTATED PPM1D WILD-TYPE
  NO              2             177
  YES             2             296
[1] 2 2
[1] FALSE
                 vv
clus              OTHER, SPECIFY THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  PPM1D MUTATED                0                                             6
  PPM1D WILD-TYPE              7                                           342
                 vv
clus              THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  PPM1D MUTATED                                                                        0
  PPM1D WILD-TYPE                                                                    102
                 vv
clus              THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  PPM1D MUTATED                                                                     0
  PPM1D WILD-TYPE                                                                  35
D17V9, multiclass
                                                                        clus
vv                                                                       PPM1D MUTATED
  OTHER, SPECIFY                                                                     0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                      6
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)             0
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                0
                                                                        clus
vv                                                                       PPM1D WILD-TYPE
  OTHER, SPECIFY                                                                       7
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                      342
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)             102
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                 35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D17V10, binary
                 cls
clus                0   1
  PPM1D MUTATED     5   0
  PPM1D WILD-TYPE 410  17
[1] "tbl2"
                 cls
clus              [,1] [,2]
  PPM1D MUTATED      5    0
  PPM1D WILD-TYPE  410   17
     clus
vv    PPM1D MUTATED PPM1D WILD-TYPE
  NO              5             410
  YES             0              17
[1] 2 2
[1] FALSE
                 vv
clus              MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE VERY ADVANCED (T4B)
  PPM1D MUTATED              2                       1    3                   0
  PPM1D WILD-TYPE          128                      17  325                   1
D17V11, multiclass
                         clus
vv                        PPM1D MUTATED PPM1D WILD-TYPE
  MINIMAL (T3)                        2             128
  MODERATE/ADVANCED (T4A)             1              17
  NONE                                3             325
  VERY ADVANCED (T4B)                 0               1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus               R0  R1  R2  RX
  PPM1D MUTATED     4   0   0   1
  PPM1D WILD-TYPE 375  51   4  29
D17V12, multiclass
    clus
vv   PPM1D MUTATED PPM1D WILD-TYPE
  R0             4             375
  R1             0              51
  R2             0               4
  RX             1              29
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D17V13, continuous
D17V14, binary
                 cls
clus                0   1
  PPM1D MUTATED     3   3
  PPM1D WILD-TYPE 218 259
[1] "tbl2"
                 cls
clus              [,1] [,2]
  PPM1D MUTATED      3    3
  PPM1D WILD-TYPE  218  259
            clus
vv           PPM1D MUTATED PPM1D WILD-TYPE
  MULTIFOCAL             3             218
  UNIFOCAL               3             259
[1] 2 2
[1] FALSE
D17V15, continuous
                 vv
clus              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  PPM1D MUTATED                                  0     0
  PPM1D WILD-TYPE                                1    51
                 vv
clus              BLACK OR AFRICAN AMERICAN WHITE
  PPM1D MUTATED                           0     5
  PPM1D WILD-TYPE                        26   317
D17V16, multiclass
                                  clus
vv                                 PPM1D MUTATED PPM1D WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE             0               1
  ASIAN                                        0              51
  BLACK OR AFRICAN AMERICAN                    0              26
  WHITE                                        5             317
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D17V17, binary
                 cls
clus                0   1
  PPM1D MUTATED     0   4
  PPM1D WILD-TYPE  38 347
[1] "tbl2"
                 cls
clus              [,1] [,2]
  PPM1D MUTATED      0    4
  PPM1D WILD-TYPE   38  347
                        clus
vv                       PPM1D MUTATED PPM1D WILD-TYPE
  HISPANIC OR LATINO                 0              38
  NOT HISPANIC OR LATINO             4             347
[1] 2 2
[1] FALSE

Clustering(18) Variable = TG MUTATION ANALYSIS
D18V1, survival
              sevent
clus2            0   1
  TG MUTATED    19   1
  TG WILD-TYPE 458  13
  TG MUTATED TG WILD-TYPE 
          20          471 
  TG MUTATED TG WILD-TYPE 
           1           13 
$`TG MUTATED`
TCGA-ET-A3BO TCGA-BJ-A3F0 TCGA-BJ-A45D TCGA-BJ-A45F TCGA-CE-A3MD TCGA-DE-A2OL 
       50.40        13.94        10.88         3.45        12.79        37.64 
TCGA-DE-A4MD TCGA-DJ-A13S TCGA-DJ-A2PP TCGA-DJ-A2PY TCGA-DJ-A3UT TCGA-EL-A3GY 
       25.12         8.71        30.58         8.78        36.33       101.13 
TCGA-EL-A3H1 TCGA-EL-A3ZQ TCGA-EM-A3AI TCGA-EM-A3AO TCGA-EM-A3FR TCGA-ET-A25I 
       49.32        61.22        22.52        44.52        15.02        81.70 
TCGA-ET-A4KQ TCGA-IM-A3U3 
       31.40        16.90 

$`TG WILD-TYPE`
TCGA-BJ-A290 TCGA-BJ-A45K TCGA-CE-A13K TCGA-DE-A0XZ TCGA-DJ-A13L TCGA-DJ-A2PR 
       30.21        23.18        12.66        35.84         9.96        27.45 
TCGA-DJ-A3UU TCGA-DJ-A3UW TCGA-DJ-A3V4 TCGA-DJ-A3VI TCGA-DJ-A3VK TCGA-E3-A3E5 
       23.44        59.57        42.54         3.12        24.76        39.95 
TCGA-EL-A3CR TCGA-EL-A3CS TCGA-EL-A3CY TCGA-EL-A3D0 TCGA-EL-A3D5 TCGA-EL-A3GQ 
        7.66        45.53         4.18       139.86        57.11        50.24 
TCGA-EL-A3H2 TCGA-EL-A3H8 TCGA-EL-A3MY TCGA-EL-A3N3 TCGA-EM-A3AQ TCGA-ET-A3BV 
       33.50       150.48        17.52       178.29        29.72        75.42 
TCGA-FK-A3SD TCGA-FY-A76V TCGA-J8-A3NZ TCGA-J8-A4HW TCGA-L6-A4ET TCGA-MK-A84Z 
        1.05         1.68        17.23         2.60        21.83        23.93 
TCGA-4C-A93U TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0Z3 TCGA-BJ-A0Z9 
        4.24        24.79        13.78        49.78        16.34        41.33 
TCGA-BJ-A0ZA TCGA-BJ-A0ZB TCGA-BJ-A0ZC TCGA-BJ-A0ZE TCGA-BJ-A0ZG TCGA-BJ-A0ZH 
       18.87         4.01        11.57        16.73        25.48        15.12 
TCGA-BJ-A0ZJ TCGA-BJ-A18Y TCGA-BJ-A18Z TCGA-BJ-A191 TCGA-BJ-A192 TCGA-BJ-A28R 
       42.08        51.39        41.52         4.83        44.35        42.15 
TCGA-BJ-A28S TCGA-BJ-A28T TCGA-BJ-A28V TCGA-BJ-A28X TCGA-BJ-A28Z TCGA-BJ-A2N7 
       21.04        35.54        32.45        30.97        11.08        18.38 
TCGA-BJ-A2N8 TCGA-BJ-A2N9 TCGA-BJ-A2NA TCGA-BJ-A2P4 TCGA-BJ-A3EZ TCGA-BJ-A3PR 
       16.57        20.48        18.97        12.82        16.01        36.39 
TCGA-BJ-A3PT TCGA-BJ-A3PU TCGA-BJ-A45E TCGA-BJ-A45G TCGA-BJ-A45H TCGA-BJ-A45I 
       23.31        18.64        21.01        23.84        28.44        15.45 
TCGA-BJ-A45J TCGA-BJ-A4O8 TCGA-BJ-A4O9 TCGA-CE-A27D TCGA-CE-A3ME TCGA-CE-A481 
       21.63        19.43        23.47        12.30        12.46        11.38 
TCGA-CE-A482 TCGA-CE-A483 TCGA-CE-A484 TCGA-CE-A485 TCGA-DE-A0Y2 TCGA-DE-A0Y3 
       10.68        15.02        12.43        12.66        21.63        50.17 
TCGA-DE-A3KN TCGA-DE-A4M8 TCGA-DE-A4M9 TCGA-DE-A4MA TCGA-DE-A4MB TCGA-DE-A4MC 
       27.32        18.54        18.84        30.12        11.57        30.02 
TCGA-DE-A69J TCGA-DE-A69K TCGA-DE-A7U5 TCGA-DJ-A13M TCGA-DJ-A13O TCGA-DJ-A13P 
       14.70        14.27         2.76        48.79        38.17       169.32 
TCGA-DJ-A13R TCGA-DJ-A13T TCGA-DJ-A13U TCGA-DJ-A13V TCGA-DJ-A13W TCGA-DJ-A13X 
       18.58        56.19        52.27        43.17        52.37         8.32 
TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QG TCGA-DJ-A1QH TCGA-DJ-A1QI 
       48.07       135.91        30.61        44.98        42.51        14.96 
TCGA-DJ-A1QL TCGA-DJ-A1QM TCGA-DJ-A1QN TCGA-DJ-A1QO TCGA-DJ-A1QQ TCGA-DJ-A2PN 
       17.59         6.02        42.58        47.41        17.56        10.09 
TCGA-DJ-A2PO TCGA-DJ-A2PQ TCGA-DJ-A2PS TCGA-DJ-A2PT TCGA-DJ-A2PU TCGA-DJ-A2PV 
        7.99        35.41        26.20        38.83        33.96        31.99 
TCGA-DJ-A2PW TCGA-DJ-A2PX TCGA-DJ-A2PZ TCGA-DJ-A2Q0 TCGA-DJ-A2Q1 TCGA-DJ-A2Q2 
       34.85        28.96         8.42        34.36        37.74        43.96 
TCGA-DJ-A2Q3 TCGA-DJ-A2Q4 TCGA-DJ-A2Q5 TCGA-DJ-A2Q6 TCGA-DJ-A2Q7 TCGA-DJ-A2Q8 
       40.24        33.93        37.48        36.46        35.11        39.09 
TCGA-DJ-A2Q9 TCGA-DJ-A2QA TCGA-DJ-A2QB TCGA-DJ-A2QC TCGA-DJ-A3UK TCGA-DJ-A3UM 
       35.90        33.53        35.18        39.95        36.92        31.04 
TCGA-DJ-A3UN TCGA-DJ-A3UO TCGA-DJ-A3UP TCGA-DJ-A3UQ TCGA-DJ-A3UR TCGA-DJ-A3US 
       32.42        31.46        16.41        19.56        36.33        32.81 
TCGA-DJ-A3UX TCGA-DJ-A3UY TCGA-DJ-A3UZ TCGA-DJ-A3V0 TCGA-DJ-A3V2 TCGA-DJ-A3V3 
       11.34        35.87        40.96        36.99        20.22        30.61 
TCGA-DJ-A3V5 TCGA-DJ-A3V7 TCGA-DJ-A3V8 TCGA-DJ-A3V9 TCGA-DJ-A3VA TCGA-DJ-A3VB 
       19.20        23.21        21.27        20.48        24.82        22.92 
TCGA-DJ-A3VD TCGA-DJ-A3VE TCGA-DJ-A3VF TCGA-DJ-A3VG TCGA-DJ-A3VJ TCGA-DJ-A3VL 
       40.70        18.97         9.60        35.67        36.43        23.44 
TCGA-DJ-A3VM TCGA-DJ-A4UL TCGA-DJ-A4UP TCGA-DJ-A4UQ TCGA-DJ-A4UR TCGA-DJ-A4UT 
       27.62        30.87        30.12        33.04        34.78        27.06 
TCGA-DJ-A4UW TCGA-DJ-A4V0 TCGA-DJ-A4V2 TCGA-DJ-A4V4 TCGA-DJ-A4V5 TCGA-DO-A1JZ 
       26.93        35.54         3.12        15.81        35.38        54.90 
TCGA-DO-A1K0 TCGA-DO-A2HM TCGA-E3-A3DY TCGA-E3-A3DZ TCGA-E3-A3E0 TCGA-E3-A3E1 
       21.53         2.33        92.55        47.21        66.38        80.52 
TCGA-E3-A3E2 TCGA-E3-A3E3 TCGA-E8-A242 TCGA-E8-A2EA TCGA-E8-A2JQ TCGA-E8-A3X7 
       63.19        52.44        31.23        35.67        11.70        31.27 
TCGA-E8-A413 TCGA-E8-A414 TCGA-E8-A415 TCGA-E8-A416 TCGA-E8-A417 TCGA-E8-A419 
       29.98        31.50        31.04        31.30        30.84        25.45 
TCGA-E8-A432 TCGA-E8-A433 TCGA-E8-A434 TCGA-E8-A436 TCGA-E8-A437 TCGA-E8-A438 
       30.61        31.27        31.33        14.96        39.88        33.50 
TCGA-E8-A44K TCGA-E8-A44M TCGA-EL-A3CL TCGA-EL-A3CM TCGA-EL-A3CN TCGA-EL-A3CO 
       31.00        30.15        31.66        26.73       155.54        97.74 
TCGA-EL-A3CP TCGA-EL-A3CT TCGA-EL-A3CU TCGA-EL-A3CV TCGA-EL-A3CW TCGA-EL-A3CX 
      158.83        60.95       157.15        37.94        57.01       106.62 
TCGA-EL-A3CZ TCGA-EL-A3D1 TCGA-EL-A3D4 TCGA-EL-A3D6 TCGA-EL-A3GO TCGA-EL-A3GP 
       79.50        98.53        69.57       108.36        64.87        49.51 
TCGA-EL-A3GR TCGA-EL-A3GS TCGA-EL-A3GU TCGA-EL-A3GV TCGA-EL-A3GW TCGA-EL-A3GX 
      115.10        65.39       136.01        50.37        50.20       147.75 
TCGA-EL-A3GZ TCGA-EL-A3H3 TCGA-EL-A3H4 TCGA-EL-A3H5 TCGA-EL-A3H7 TCGA-EL-A3MW 
      139.99        43.36        49.71        83.57       139.00       108.66 
TCGA-EL-A3MX TCGA-EL-A3MZ TCGA-EL-A3N2 TCGA-EL-A3T0 TCGA-EL-A3T1 TCGA-EL-A3T2 
       57.63        52.50        29.65       142.52       129.57        32.48 
TCGA-EL-A3T3 TCGA-EL-A3T6 TCGA-EL-A3T7 TCGA-EL-A3T8 TCGA-EL-A3T9 TCGA-EL-A3TA 
      132.07        98.24        41.29       107.47         5.72        66.90 
TCGA-EL-A3TB TCGA-EL-A3ZG TCGA-EL-A3ZH TCGA-EL-A3ZK TCGA-EL-A3ZL TCGA-EL-A3ZM 
       82.82        89.56        91.17        51.78        62.30        36.03 
TCGA-EL-A3ZN TCGA-EL-A3ZO TCGA-EL-A3ZP TCGA-EL-A3ZR TCGA-EL-A3ZS TCGA-EL-A3ZT 
       53.06        72.69        65.49        60.16         7.07        59.44 
TCGA-EL-A4JV TCGA-EL-A4JW TCGA-EL-A4JX TCGA-EL-A4JZ TCGA-EL-A4K0 TCGA-EL-A4K1 
       57.47        34.72        45.96        61.02        31.04        34.39 
TCGA-EL-A4K2 TCGA-EL-A4K4 TCGA-EL-A4K6 TCGA-EL-A4K7 TCGA-EL-A4K9 TCGA-EL-A4KD 
       30.51        53.36        44.15        41.13        47.84        43.59 
TCGA-EL-A4KG TCGA-EL-A4KH TCGA-EL-A4KI TCGA-EM-A1CS TCGA-EM-A1CT TCGA-EM-A1CU 
       24.30        27.06        23.90        26.86        18.18        20.91 
TCGA-EM-A1CV TCGA-EM-A1CW TCGA-EM-A1YA TCGA-EM-A1YB TCGA-EM-A1YC TCGA-EM-A1YD 
       48.49        18.05        19.79        19.46        78.61        57.01 
TCGA-EM-A1YE TCGA-EM-A22I TCGA-EM-A22J TCGA-EM-A22K TCGA-EM-A22L TCGA-EM-A22M 
       54.08        14.73        14.50        15.75        10.45        14.53 
TCGA-EM-A22N TCGA-EM-A22O TCGA-EM-A22P TCGA-EM-A22Q TCGA-EM-A2CJ TCGA-EM-A2CK 
       10.65        44.19        41.29        14.24        47.57        17.88 
TCGA-EM-A2CL TCGA-EM-A2CN TCGA-EM-A2CO TCGA-EM-A2CP TCGA-EM-A2CQ TCGA-EM-A2CR 
       13.18        23.51         6.05         2.99        12.30        13.64 
TCGA-EM-A2CS TCGA-EM-A2CT TCGA-EM-A2CU TCGA-EM-A2OV TCGA-EM-A2OW TCGA-EM-A2OX 
       27.65        48.46        13.15        22.16        40.34        19.73 
TCGA-EM-A2OY TCGA-EM-A2OZ TCGA-EM-A2P0 TCGA-EM-A2P1 TCGA-EM-A2P2 TCGA-EM-A2P3 
       32.32        33.96        17.59        17.46        17.29        14.60 
TCGA-EM-A3AJ TCGA-EM-A3AK TCGA-EM-A3AL TCGA-EM-A3AN TCGA-EM-A3AP TCGA-EM-A3AR 
       30.94        15.68        14.14        33.07         8.35        37.25 
TCGA-EM-A3FJ TCGA-EM-A3FK TCGA-EM-A3FL TCGA-EM-A3FM TCGA-EM-A3FN TCGA-EM-A3FO 
       27.95        23.77        47.38        21.01        12.07        17.49 
TCGA-EM-A3FP TCGA-EM-A3FQ TCGA-EM-A3O3 TCGA-EM-A3O6 TCGA-EM-A3O7 TCGA-EM-A3O8 
       17.39        16.18        14.50        15.06         7.33        12.53 
TCGA-EM-A3O9 TCGA-EM-A3OA TCGA-EM-A3OB TCGA-EM-A3ST TCGA-EM-A3SU TCGA-EM-A3SX 
        9.24        27.02        38.66        38.86        29.95        29.85 
TCGA-EM-A3SY TCGA-EM-A3SZ TCGA-EM-A4FF TCGA-EM-A4FH TCGA-EM-A4FK TCGA-EM-A4FM 
       13.51        12.79        84.59        29.33        21.34         5.33 
TCGA-EM-A4FN TCGA-EM-A4FO TCGA-EM-A4FQ TCGA-EM-A4FR TCGA-EM-A4FU TCGA-EM-A4FV 
       26.37        26.37        22.45        21.53        60.49        24.46 
TCGA-EM-A4G1 TCGA-ET-A25G TCGA-ET-A25J TCGA-ET-A25K TCGA-ET-A25O TCGA-ET-A25R 
       13.68        81.93        77.56        70.42        65.29        63.45 
TCGA-ET-A2MX TCGA-ET-A2MY TCGA-ET-A2MZ TCGA-ET-A2N0 TCGA-ET-A2N1 TCGA-ET-A2N3 
       88.41        58.75        37.25        52.60        54.35        83.34 
TCGA-ET-A2N4 TCGA-ET-A2N5 TCGA-ET-A39I TCGA-ET-A39J TCGA-ET-A39K TCGA-ET-A39L 
        2.66        80.88        33.24       106.09       107.41       108.46 
TCGA-ET-A39M TCGA-ET-A39N TCGA-ET-A39O TCGA-ET-A39P TCGA-ET-A39R TCGA-ET-A39S 
       84.89       123.32       100.57        95.34        94.13        55.10 
TCGA-ET-A39T TCGA-ET-A3BN TCGA-ET-A3BP TCGA-ET-A3BQ TCGA-ET-A3BS TCGA-ET-A3BT 
       98.20        28.24        79.10        76.64         5.79        87.62 
TCGA-ET-A3BU TCGA-ET-A3BW TCGA-ET-A3BX TCGA-ET-A3DO TCGA-ET-A3DP TCGA-ET-A3DQ 
       77.82        46.65        52.47       116.78        94.59        84.85 
TCGA-ET-A3DR TCGA-ET-A3DS TCGA-ET-A3DT TCGA-ET-A3DU TCGA-ET-A3DV TCGA-ET-A3DW 
       80.58        66.84        43.73        62.83       166.62        24.72 
TCGA-ET-A40P TCGA-ET-A40Q TCGA-ET-A40R TCGA-ET-A40S TCGA-ET-A40T TCGA-ET-A4KN 
       43.99        46.26        44.38        40.21        37.48        33.17 
TCGA-FE-A22Z TCGA-FE-A230 TCGA-FE-A231 TCGA-FE-A232 TCGA-FE-A233 TCGA-FE-A234 
       73.74        71.44        31.59        79.69        24.69        68.22 
TCGA-FE-A235 TCGA-FE-A236 TCGA-FE-A237 TCGA-FE-A23A TCGA-FE-A3PA TCGA-FE-A3PB 
      117.40        66.77       112.80        81.83       106.36        85.15 
TCGA-FE-A3PC TCGA-FE-A3PD TCGA-FK-A3S3 TCGA-FK-A3SB TCGA-FK-A3SE TCGA-FK-A3SG 
       85.68        78.77        71.08         4.11        22.03         0.92 
TCGA-FK-A3SH TCGA-FK-A4UB TCGA-FY-A2QD TCGA-FY-A3BL TCGA-FY-A3I4 TCGA-FY-A3I5 
       48.10       116.09         1.25        20.42        17.82         7.82 
TCGA-FY-A3NM TCGA-FY-A3NP TCGA-FY-A3ON TCGA-FY-A3R6 TCGA-FY-A3R7 TCGA-FY-A3R8 
       29.10        16.14        19.56        13.91        16.27        15.68 
TCGA-FY-A3R9 TCGA-FY-A3RA TCGA-FY-A3TY TCGA-FY-A3W9 TCGA-FY-A3WA TCGA-FY-A3YR 
       16.57        18.08        23.31        21.63        17.06        17.36 
TCGA-FY-A40K TCGA-FY-A40L TCGA-FY-A40M TCGA-FY-A40N TCGA-FY-A4B0 TCGA-FY-A4B3 
       15.16        23.87        22.49        19.04        13.81        14.04 
TCGA-FY-A4B4 TCGA-GE-A2C6 TCGA-H2-A26U TCGA-H2-A2K9 TCGA-H2-A3RH TCGA-H2-A3RI 
       21.60        12.53        17.00        21.67        12.46        11.01 
TCGA-H2-A421 TCGA-H2-A422 TCGA-IM-A3EB TCGA-IM-A3ED TCGA-IM-A3U2 TCGA-IM-A41Y 
       20.05        18.61        48.92        47.41        18.51        21.83 
TCGA-IM-A41Z TCGA-IM-A420 TCGA-IM-A4EB TCGA-J8-A3O0 TCGA-J8-A3O1 TCGA-J8-A3O2 
       31.10         8.22        25.64        43.17        27.19        11.24 
TCGA-J8-A3YD TCGA-J8-A3YE TCGA-J8-A3YF TCGA-J8-A3YG TCGA-J8-A3YH TCGA-J8-A42S 
       31.82        27.85        24.69        22.29         5.75         2.47 
TCGA-J8-A4HY TCGA-KS-A41F TCGA-KS-A41I TCGA-KS-A41J TCGA-KS-A41L TCGA-KS-A4I1 
        0.20       143.57        15.98        15.68       113.85        26.70 
TCGA-KS-A4I3 TCGA-KS-A4I5 TCGA-KS-A4I7 TCGA-KS-A4I9 TCGA-KS-A4IB TCGA-KS-A4IC 
       43.69        18.64        32.45        87.39        84.72        35.28 
TCGA-KS-A4ID TCGA-L6-A4EP TCGA-L6-A4EQ TCGA-L6-A4EU TCGA-MK-A4N6 TCGA-MK-A4N7 
       33.24        33.40        40.37         9.50        36.10        32.45 
TCGA-MK-A4N9 TCGA-QD-A8IV TCGA-E8-A418 
       30.21        12.89         3.02 

  TG MUTATED TG WILD-TYPE 
        3.45         0.20 
  TG MUTATED TG WILD-TYPE 
      101.13       178.29 
  TG MUTATED TG WILD-TYPE 
       27.85        31.23 
[1] "3.5 - 101.1 (27.9)" "0.2 - 178.3 (31.2)"
[1] "hr=" "2.2"
D18V2, continuous
              vv
clus           STAGE I STAGE II STAGE III STAGE IV STAGE IVA STAGE IVC
  TG MUTATED        11        5         2        0         2         0
  TG WILD-TYPE     267       45       106        2        44         6
D18V3, multiclass
           clus
vv          TG MUTATED TG WILD-TYPE
  STAGE I           11          267
  STAGE II           5           45
  STAGE III          2          106
  STAGE IV           0            2
  STAGE IVA          2           44
  STAGE IVC          0            6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
              vv
clus            T1  T2  T3  T4
  TG MUTATED     7  10   3   0
  TG WILD-TYPE 134 152 161  23
D18V4, multiclass
    clus
vv   TG MUTATED TG WILD-TYPE
  T1          7          134
  T2         10          152
  T3          3          161
  T4          0           23
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D18V5, binary
              cls
clus             0   1
  TG MUTATED    10   7
  TG WILD-TYPE 210 215
[1] "tbl2"
              cls
clus           [,1] [,2]
  TG MUTATED     10    7
  TG WILD-TYPE  210  215
   clus
vv  TG MUTATED TG WILD-TYPE
  0         10          210
  1          7          215
[1] 2 2
[1] FALSE
D18V6, binary
              cls
clus             0   1
  TG MUTATED    11   1
  TG WILD-TYPE 265   8
[1] "tbl2"
              cls
clus           [,1] [,2]
  TG MUTATED     11    1
  TG WILD-TYPE  265    8
   clus
vv  TG MUTATED TG WILD-TYPE
  0         11          265
  1          1            8
[1] 2 2
[1] FALSE
D18V7, binary
              cls
clus             0   1
  TG MUTATED    15   5
  TG WILD-TYPE 347 125
[1] "tbl2"
              cls
clus           [,1] [,2]
  TG MUTATED     15    5
  TG WILD-TYPE  347  125
        clus
vv       TG MUTATED TG WILD-TYPE
  FEMALE         15          347
  MALE            5          125
[1] 2 2
[1] FALSE
D18V8, binary
              cls
clus             0   1
  TG MUTATED     8  12
  TG WILD-TYPE 171 286
[1] "tbl2"
              cls
clus           [,1] [,2]
  TG MUTATED      8   12
  TG WILD-TYPE  171  286
     clus
vv    TG MUTATED TG WILD-TYPE
  NO           8          171
  YES         12          286
[1] 2 2
[1] FALSE
              vv
clus           OTHER, SPECIFY THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  TG MUTATED                0                                             9
  TG WILD-TYPE              7                                           339
              vv
clus           THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  TG MUTATED                                                                        8
  TG WILD-TYPE                                                                     94
              vv
clus           THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  TG MUTATED                                                                     3
  TG WILD-TYPE                                                                  32
D18V9, multiclass
                                                                        clus
vv                                                                       TG MUTATED
  OTHER, SPECIFY                                                                  0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                   9
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)          8
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)             3
                                                                        clus
vv                                                                       TG WILD-TYPE
  OTHER, SPECIFY                                                                    7
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                   339
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)           94
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)              32
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D18V10, binary
              cls
clus             0   1
  TG MUTATED    16   0
  TG WILD-TYPE 399  17
[1] "tbl2"
              cls
clus           [,1] [,2]
  TG MUTATED     16    0
  TG WILD-TYPE  399   17
     clus
vv    TG MUTATED TG WILD-TYPE
  NO          16          399
  YES          0           17
[1] 2 2
[1] FALSE
              vv
clus           MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE VERY ADVANCED (T4B)
  TG MUTATED              2                       0   17                   0
  TG WILD-TYPE          128                      18  311                   1
D18V11, multiclass
                         clus
vv                        TG MUTATED TG WILD-TYPE
  MINIMAL (T3)                     2          128
  MODERATE/ADVANCED (T4A)          0           18
  NONE                            17          311
  VERY ADVANCED (T4B)              0            1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
              vv
clus            R0  R1  R2  RX
  TG MUTATED    16   1   0   1
  TG WILD-TYPE 363  50   4  29
D18V12, multiclass
    clus
vv   TG MUTATED TG WILD-TYPE
  R0         16          363
  R1          1           50
  R2          0            4
  RX          1           29
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D18V13, continuous
D18V14, binary
              cls
clus             0   1
  TG MUTATED     8  12
  TG WILD-TYPE 213 250
[1] "tbl2"
              cls
clus           [,1] [,2]
  TG MUTATED      8   12
  TG WILD-TYPE  213  250
            clus
vv           TG MUTATED TG WILD-TYPE
  MULTIFOCAL          8          213
  UNIFOCAL           12          250
[1] 2 2
[1] FALSE
D18V15, continuous
              vv
clus           AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN
  TG MUTATED                                  0     1                         1
  TG WILD-TYPE                                1    50                        25
              vv
clus           WHITE
  TG MUTATED      15
  TG WILD-TYPE   307
D18V16, multiclass
                                  clus
vv                                 TG MUTATED TG WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE          0            1
  ASIAN                                     1           50
  BLACK OR AFRICAN AMERICAN                 1           25
  WHITE                                    15          307
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D18V17, binary
              cls
clus             0   1
  TG MUTATED     3  14
  TG WILD-TYPE  35 337
[1] "tbl2"
              cls
clus           [,1] [,2]
  TG MUTATED      3   14
  TG WILD-TYPE   35  337
                        clus
vv                       TG MUTATED TG WILD-TYPE
  HISPANIC OR LATINO              3           35
  NOT HISPANIC OR LATINO         14          337
[1] 2 2
[1] FALSE

Clustering(19) Variable = PTCD1 MUTATION ANALYSIS
D19V1, survival
                 sevent
clus2               0   1
  PTCD1 MUTATED     2   1
  PTCD1 WILD-TYPE 475  13
  PTCD1 MUTATED PTCD1 WILD-TYPE 
              3             488 
  PTCD1 MUTATED PTCD1 WILD-TYPE 
              1              13 
$`PTCD1 MUTATED`
TCGA-EL-A3GU TCGA-EL-A3MZ TCGA-EM-A3AP 
      136.01        52.50         8.35 

$`PTCD1 WILD-TYPE`
TCGA-BJ-A290 TCGA-BJ-A45K TCGA-CE-A13K TCGA-DE-A0XZ TCGA-DJ-A13L TCGA-DJ-A2PR 
       30.21        23.18        12.66        35.84         9.96        27.45 
TCGA-DJ-A3UU TCGA-DJ-A3UW TCGA-DJ-A3V4 TCGA-DJ-A3VI TCGA-DJ-A3VK TCGA-E3-A3E5 
       23.44        59.57        42.54         3.12        24.76        39.95 
TCGA-EL-A3CR TCGA-EL-A3CS TCGA-EL-A3CY TCGA-EL-A3D0 TCGA-EL-A3D5 TCGA-EL-A3GQ 
        7.66        45.53         4.18       139.86        57.11        50.24 
TCGA-EL-A3H2 TCGA-EL-A3H8 TCGA-EL-A3MY TCGA-EL-A3N3 TCGA-EM-A3AQ TCGA-ET-A3BO 
       33.50       150.48        17.52       178.29        29.72        50.40 
TCGA-ET-A3BV TCGA-FK-A3SD TCGA-FY-A76V TCGA-J8-A3NZ TCGA-J8-A4HW TCGA-L6-A4ET 
       75.42         1.05         1.68        17.23         2.60        21.83 
TCGA-MK-A84Z TCGA-4C-A93U TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0Z3 
       23.93         4.24        24.79        13.78        49.78        16.34 
TCGA-BJ-A0Z9 TCGA-BJ-A0ZA TCGA-BJ-A0ZB TCGA-BJ-A0ZC TCGA-BJ-A0ZE TCGA-BJ-A0ZG 
       41.33        18.87         4.01        11.57        16.73        25.48 
TCGA-BJ-A0ZH TCGA-BJ-A0ZJ TCGA-BJ-A18Y TCGA-BJ-A18Z TCGA-BJ-A191 TCGA-BJ-A192 
       15.12        42.08        51.39        41.52         4.83        44.35 
TCGA-BJ-A28R TCGA-BJ-A28S TCGA-BJ-A28T TCGA-BJ-A28V TCGA-BJ-A28X TCGA-BJ-A28Z 
       42.15        21.04        35.54        32.45        30.97        11.08 
TCGA-BJ-A2N7 TCGA-BJ-A2N8 TCGA-BJ-A2N9 TCGA-BJ-A2NA TCGA-BJ-A2P4 TCGA-BJ-A3EZ 
       18.38        16.57        20.48        18.97        12.82        16.01 
TCGA-BJ-A3F0 TCGA-BJ-A3PR TCGA-BJ-A3PT TCGA-BJ-A3PU TCGA-BJ-A45D TCGA-BJ-A45E 
       13.94        36.39        23.31        18.64        10.88        21.01 
TCGA-BJ-A45F TCGA-BJ-A45G TCGA-BJ-A45H TCGA-BJ-A45I TCGA-BJ-A45J TCGA-BJ-A4O8 
        3.45        23.84        28.44        15.45        21.63        19.43 
TCGA-BJ-A4O9 TCGA-CE-A27D TCGA-CE-A3MD TCGA-CE-A3ME TCGA-CE-A481 TCGA-CE-A482 
       23.47        12.30        12.79        12.46        11.38        10.68 
TCGA-CE-A483 TCGA-CE-A484 TCGA-CE-A485 TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DE-A2OL 
       15.02        12.43        12.66        21.63        50.17        37.64 
TCGA-DE-A3KN TCGA-DE-A4M8 TCGA-DE-A4M9 TCGA-DE-A4MA TCGA-DE-A4MB TCGA-DE-A4MC 
       27.32        18.54        18.84        30.12        11.57        30.02 
TCGA-DE-A4MD TCGA-DE-A69J TCGA-DE-A69K TCGA-DE-A7U5 TCGA-DJ-A13M TCGA-DJ-A13O 
       25.12        14.70        14.27         2.76        48.79        38.17 
TCGA-DJ-A13P TCGA-DJ-A13R TCGA-DJ-A13S TCGA-DJ-A13T TCGA-DJ-A13U TCGA-DJ-A13V 
      169.32        18.58         8.71        56.19        52.27        43.17 
TCGA-DJ-A13W TCGA-DJ-A13X TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QG 
       52.37         8.32        48.07       135.91        30.61        44.98 
TCGA-DJ-A1QH TCGA-DJ-A1QI TCGA-DJ-A1QL TCGA-DJ-A1QM TCGA-DJ-A1QN TCGA-DJ-A1QO 
       42.51        14.96        17.59         6.02        42.58        47.41 
TCGA-DJ-A1QQ TCGA-DJ-A2PN TCGA-DJ-A2PO TCGA-DJ-A2PP TCGA-DJ-A2PQ TCGA-DJ-A2PS 
       17.56        10.09         7.99        30.58        35.41        26.20 
TCGA-DJ-A2PT TCGA-DJ-A2PU TCGA-DJ-A2PV TCGA-DJ-A2PW TCGA-DJ-A2PX TCGA-DJ-A2PY 
       38.83        33.96        31.99        34.85        28.96         8.78 
TCGA-DJ-A2PZ TCGA-DJ-A2Q0 TCGA-DJ-A2Q1 TCGA-DJ-A2Q2 TCGA-DJ-A2Q3 TCGA-DJ-A2Q4 
        8.42        34.36        37.74        43.96        40.24        33.93 
TCGA-DJ-A2Q5 TCGA-DJ-A2Q6 TCGA-DJ-A2Q7 TCGA-DJ-A2Q8 TCGA-DJ-A2Q9 TCGA-DJ-A2QA 
       37.48        36.46        35.11        39.09        35.90        33.53 
TCGA-DJ-A2QB TCGA-DJ-A2QC TCGA-DJ-A3UK TCGA-DJ-A3UM TCGA-DJ-A3UN TCGA-DJ-A3UO 
       35.18        39.95        36.92        31.04        32.42        31.46 
TCGA-DJ-A3UP TCGA-DJ-A3UQ TCGA-DJ-A3UR TCGA-DJ-A3US TCGA-DJ-A3UT TCGA-DJ-A3UX 
       16.41        19.56        36.33        32.81        36.33        11.34 
TCGA-DJ-A3UY TCGA-DJ-A3UZ TCGA-DJ-A3V0 TCGA-DJ-A3V2 TCGA-DJ-A3V3 TCGA-DJ-A3V5 
       35.87        40.96        36.99        20.22        30.61        19.20 
TCGA-DJ-A3V7 TCGA-DJ-A3V8 TCGA-DJ-A3V9 TCGA-DJ-A3VA TCGA-DJ-A3VB TCGA-DJ-A3VD 
       23.21        21.27        20.48        24.82        22.92        40.70 
TCGA-DJ-A3VE TCGA-DJ-A3VF TCGA-DJ-A3VG TCGA-DJ-A3VJ TCGA-DJ-A3VL TCGA-DJ-A3VM 
       18.97         9.60        35.67        36.43        23.44        27.62 
TCGA-DJ-A4UL TCGA-DJ-A4UP TCGA-DJ-A4UQ TCGA-DJ-A4UR TCGA-DJ-A4UT TCGA-DJ-A4UW 
       30.87        30.12        33.04        34.78        27.06        26.93 
TCGA-DJ-A4V0 TCGA-DJ-A4V2 TCGA-DJ-A4V4 TCGA-DJ-A4V5 TCGA-DO-A1JZ TCGA-DO-A1K0 
       35.54         3.12        15.81        35.38        54.90        21.53 
TCGA-DO-A2HM TCGA-E3-A3DY TCGA-E3-A3DZ TCGA-E3-A3E0 TCGA-E3-A3E1 TCGA-E3-A3E2 
        2.33        92.55        47.21        66.38        80.52        63.19 
TCGA-E3-A3E3 TCGA-E8-A242 TCGA-E8-A2EA TCGA-E8-A2JQ TCGA-E8-A3X7 TCGA-E8-A413 
       52.44        31.23        35.67        11.70        31.27        29.98 
TCGA-E8-A414 TCGA-E8-A415 TCGA-E8-A416 TCGA-E8-A417 TCGA-E8-A419 TCGA-E8-A432 
       31.50        31.04        31.30        30.84        25.45        30.61 
TCGA-E8-A433 TCGA-E8-A434 TCGA-E8-A436 TCGA-E8-A437 TCGA-E8-A438 TCGA-E8-A44K 
       31.27        31.33        14.96        39.88        33.50        31.00 
TCGA-E8-A44M TCGA-EL-A3CL TCGA-EL-A3CM TCGA-EL-A3CN TCGA-EL-A3CO TCGA-EL-A3CP 
       30.15        31.66        26.73       155.54        97.74       158.83 
TCGA-EL-A3CT TCGA-EL-A3CU TCGA-EL-A3CV TCGA-EL-A3CW TCGA-EL-A3CX TCGA-EL-A3CZ 
       60.95       157.15        37.94        57.01       106.62        79.50 
TCGA-EL-A3D1 TCGA-EL-A3D4 TCGA-EL-A3D6 TCGA-EL-A3GO TCGA-EL-A3GP TCGA-EL-A3GR 
       98.53        69.57       108.36        64.87        49.51       115.10 
TCGA-EL-A3GS TCGA-EL-A3GV TCGA-EL-A3GW TCGA-EL-A3GX TCGA-EL-A3GY TCGA-EL-A3GZ 
       65.39        50.37        50.20       147.75       101.13       139.99 
TCGA-EL-A3H1 TCGA-EL-A3H3 TCGA-EL-A3H4 TCGA-EL-A3H5 TCGA-EL-A3H7 TCGA-EL-A3MW 
       49.32        43.36        49.71        83.57       139.00       108.66 
TCGA-EL-A3MX TCGA-EL-A3N2 TCGA-EL-A3T0 TCGA-EL-A3T1 TCGA-EL-A3T2 TCGA-EL-A3T3 
       57.63        29.65       142.52       129.57        32.48       132.07 
TCGA-EL-A3T6 TCGA-EL-A3T7 TCGA-EL-A3T8 TCGA-EL-A3T9 TCGA-EL-A3TA TCGA-EL-A3TB 
       98.24        41.29       107.47         5.72        66.90        82.82 
TCGA-EL-A3ZG TCGA-EL-A3ZH TCGA-EL-A3ZK TCGA-EL-A3ZL TCGA-EL-A3ZM TCGA-EL-A3ZN 
       89.56        91.17        51.78        62.30        36.03        53.06 
TCGA-EL-A3ZO TCGA-EL-A3ZP TCGA-EL-A3ZQ TCGA-EL-A3ZR TCGA-EL-A3ZS TCGA-EL-A3ZT 
       72.69        65.49        61.22        60.16         7.07        59.44 
TCGA-EL-A4JV TCGA-EL-A4JW TCGA-EL-A4JX TCGA-EL-A4JZ TCGA-EL-A4K0 TCGA-EL-A4K1 
       57.47        34.72        45.96        61.02        31.04        34.39 
TCGA-EL-A4K2 TCGA-EL-A4K4 TCGA-EL-A4K6 TCGA-EL-A4K7 TCGA-EL-A4K9 TCGA-EL-A4KD 
       30.51        53.36        44.15        41.13        47.84        43.59 
TCGA-EL-A4KG TCGA-EL-A4KH TCGA-EL-A4KI TCGA-EM-A1CS TCGA-EM-A1CT TCGA-EM-A1CU 
       24.30        27.06        23.90        26.86        18.18        20.91 
TCGA-EM-A1CV TCGA-EM-A1CW TCGA-EM-A1YA TCGA-EM-A1YB TCGA-EM-A1YC TCGA-EM-A1YD 
       48.49        18.05        19.79        19.46        78.61        57.01 
TCGA-EM-A1YE TCGA-EM-A22I TCGA-EM-A22J TCGA-EM-A22K TCGA-EM-A22L TCGA-EM-A22M 
       54.08        14.73        14.50        15.75        10.45        14.53 
TCGA-EM-A22N TCGA-EM-A22O TCGA-EM-A22P TCGA-EM-A22Q TCGA-EM-A2CJ TCGA-EM-A2CK 
       10.65        44.19        41.29        14.24        47.57        17.88 
TCGA-EM-A2CL TCGA-EM-A2CN TCGA-EM-A2CO TCGA-EM-A2CP TCGA-EM-A2CQ TCGA-EM-A2CR 
       13.18        23.51         6.05         2.99        12.30        13.64 
TCGA-EM-A2CS TCGA-EM-A2CT TCGA-EM-A2CU TCGA-EM-A2OV TCGA-EM-A2OW TCGA-EM-A2OX 
       27.65        48.46        13.15        22.16        40.34        19.73 
TCGA-EM-A2OY TCGA-EM-A2OZ TCGA-EM-A2P0 TCGA-EM-A2P1 TCGA-EM-A2P2 TCGA-EM-A2P3 
       32.32        33.96        17.59        17.46        17.29        14.60 
TCGA-EM-A3AI TCGA-EM-A3AJ TCGA-EM-A3AK TCGA-EM-A3AL TCGA-EM-A3AN TCGA-EM-A3AO 
       22.52        30.94        15.68        14.14        33.07        44.52 
TCGA-EM-A3AR TCGA-EM-A3FJ TCGA-EM-A3FK TCGA-EM-A3FL TCGA-EM-A3FM TCGA-EM-A3FN 
       37.25        27.95        23.77        47.38        21.01        12.07 
TCGA-EM-A3FO TCGA-EM-A3FP TCGA-EM-A3FQ TCGA-EM-A3FR TCGA-EM-A3O3 TCGA-EM-A3O6 
       17.49        17.39        16.18        15.02        14.50        15.06 
TCGA-EM-A3O7 TCGA-EM-A3O8 TCGA-EM-A3O9 TCGA-EM-A3OA TCGA-EM-A3OB TCGA-EM-A3ST 
        7.33        12.53         9.24        27.02        38.66        38.86 
TCGA-EM-A3SU TCGA-EM-A3SX TCGA-EM-A3SY TCGA-EM-A3SZ TCGA-EM-A4FF TCGA-EM-A4FH 
       29.95        29.85        13.51        12.79        84.59        29.33 
TCGA-EM-A4FK TCGA-EM-A4FM TCGA-EM-A4FN TCGA-EM-A4FO TCGA-EM-A4FQ TCGA-EM-A4FR 
       21.34         5.33        26.37        26.37        22.45        21.53 
TCGA-EM-A4FU TCGA-EM-A4FV TCGA-EM-A4G1 TCGA-ET-A25G TCGA-ET-A25I TCGA-ET-A25J 
       60.49        24.46        13.68        81.93        81.70        77.56 
TCGA-ET-A25K TCGA-ET-A25O TCGA-ET-A25R TCGA-ET-A2MX TCGA-ET-A2MY TCGA-ET-A2MZ 
       70.42        65.29        63.45        88.41        58.75        37.25 
TCGA-ET-A2N0 TCGA-ET-A2N1 TCGA-ET-A2N3 TCGA-ET-A2N4 TCGA-ET-A2N5 TCGA-ET-A39I 
       52.60        54.35        83.34         2.66        80.88        33.24 
TCGA-ET-A39J TCGA-ET-A39K TCGA-ET-A39L TCGA-ET-A39M TCGA-ET-A39N TCGA-ET-A39O 
      106.09       107.41       108.46        84.89       123.32       100.57 
TCGA-ET-A39P TCGA-ET-A39R TCGA-ET-A39S TCGA-ET-A39T TCGA-ET-A3BN TCGA-ET-A3BP 
       95.34        94.13        55.10        98.20        28.24        79.10 
TCGA-ET-A3BQ TCGA-ET-A3BS TCGA-ET-A3BT TCGA-ET-A3BU TCGA-ET-A3BW TCGA-ET-A3BX 
       76.64         5.79        87.62        77.82        46.65        52.47 
TCGA-ET-A3DO TCGA-ET-A3DP TCGA-ET-A3DQ TCGA-ET-A3DR TCGA-ET-A3DS TCGA-ET-A3DT 
      116.78        94.59        84.85        80.58        66.84        43.73 
TCGA-ET-A3DU TCGA-ET-A3DV TCGA-ET-A3DW TCGA-ET-A40P TCGA-ET-A40Q TCGA-ET-A40R 
       62.83       166.62        24.72        43.99        46.26        44.38 
TCGA-ET-A40S TCGA-ET-A40T TCGA-ET-A4KN TCGA-ET-A4KQ TCGA-FE-A22Z TCGA-FE-A230 
       40.21        37.48        33.17        31.40        73.74        71.44 
TCGA-FE-A231 TCGA-FE-A232 TCGA-FE-A233 TCGA-FE-A234 TCGA-FE-A235 TCGA-FE-A236 
       31.59        79.69        24.69        68.22       117.40        66.77 
TCGA-FE-A237 TCGA-FE-A23A TCGA-FE-A3PA TCGA-FE-A3PB TCGA-FE-A3PC TCGA-FE-A3PD 
      112.80        81.83       106.36        85.15        85.68        78.77 
TCGA-FK-A3S3 TCGA-FK-A3SB TCGA-FK-A3SE TCGA-FK-A3SG TCGA-FK-A3SH TCGA-FK-A4UB 
       71.08         4.11        22.03         0.92        48.10       116.09 
TCGA-FY-A2QD TCGA-FY-A3BL TCGA-FY-A3I4 TCGA-FY-A3I5 TCGA-FY-A3NM TCGA-FY-A3NP 
        1.25        20.42        17.82         7.82        29.10        16.14 
TCGA-FY-A3ON TCGA-FY-A3R6 TCGA-FY-A3R7 TCGA-FY-A3R8 TCGA-FY-A3R9 TCGA-FY-A3RA 
       19.56        13.91        16.27        15.68        16.57        18.08 
TCGA-FY-A3TY TCGA-FY-A3W9 TCGA-FY-A3WA TCGA-FY-A3YR TCGA-FY-A40K TCGA-FY-A40L 
       23.31        21.63        17.06        17.36        15.16        23.87 
TCGA-FY-A40M TCGA-FY-A40N TCGA-FY-A4B0 TCGA-FY-A4B3 TCGA-FY-A4B4 TCGA-GE-A2C6 
       22.49        19.04        13.81        14.04        21.60        12.53 
TCGA-H2-A26U TCGA-H2-A2K9 TCGA-H2-A3RH TCGA-H2-A3RI TCGA-H2-A421 TCGA-H2-A422 
       17.00        21.67        12.46        11.01        20.05        18.61 
TCGA-IM-A3EB TCGA-IM-A3ED TCGA-IM-A3U2 TCGA-IM-A3U3 TCGA-IM-A41Y TCGA-IM-A41Z 
       48.92        47.41        18.51        16.90        21.83        31.10 
TCGA-IM-A420 TCGA-IM-A4EB TCGA-J8-A3O0 TCGA-J8-A3O1 TCGA-J8-A3O2 TCGA-J8-A3YD 
        8.22        25.64        43.17        27.19        11.24        31.82 
TCGA-J8-A3YE TCGA-J8-A3YF TCGA-J8-A3YG TCGA-J8-A3YH TCGA-J8-A42S TCGA-J8-A4HY 
       27.85        24.69        22.29         5.75         2.47         0.20 
TCGA-KS-A41F TCGA-KS-A41I TCGA-KS-A41J TCGA-KS-A41L TCGA-KS-A4I1 TCGA-KS-A4I3 
      143.57        15.98        15.68       113.85        26.70        43.69 
TCGA-KS-A4I5 TCGA-KS-A4I7 TCGA-KS-A4I9 TCGA-KS-A4IB TCGA-KS-A4IC TCGA-KS-A4ID 
       18.64        32.45        87.39        84.72        35.28        33.24 
TCGA-L6-A4EP TCGA-L6-A4EQ TCGA-L6-A4EU TCGA-MK-A4N6 TCGA-MK-A4N7 TCGA-MK-A4N9 
       33.40        40.37         9.50        36.10        32.45        30.21 
TCGA-QD-A8IV TCGA-E8-A418 
       12.89         3.02 

  PTCD1 MUTATED PTCD1 WILD-TYPE 
           8.35            0.20 
  PTCD1 MUTATED PTCD1 WILD-TYPE 
         136.01          178.29 
  PTCD1 MUTATED PTCD1 WILD-TYPE 
          52.50           31.07 
[1] "8.3 - 136.0 (52.5)" "0.2 - 178.3 (31.1)"
[1] "hr=" "6.9"
D19V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV STAGE IVA STAGE IVC
  PTCD1 MUTATED         1        0         2        0         0         0
  PTCD1 WILD-TYPE     277       50       106        2        46         6
D19V3, multiclass
           clus
vv          PTCD1 MUTATED PTCD1 WILD-TYPE
  STAGE I               1             277
  STAGE II              0              50
  STAGE III             2             106
  STAGE IV              0               2
  STAGE IVA             0              46
  STAGE IVC             0               6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus               T1  T2  T3  T4
  PTCD1 MUTATED     0   1   1   1
  PTCD1 WILD-TYPE 141 161 163  22
D19V4, multiclass
    clus
vv   PTCD1 MUTATED PTCD1 WILD-TYPE
  T1             0             141
  T2             1             161
  T3             1             163
  T4             1              22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D19V5, binary
                 cls
clus                0   1
  PTCD1 MUTATED     0   2
  PTCD1 WILD-TYPE 220 220
[1] "tbl2"
                 cls
clus              [,1] [,2]
  PTCD1 MUTATED      0    2
  PTCD1 WILD-TYPE  220  220
   clus
vv  PTCD1 MUTATED PTCD1 WILD-TYPE
  0             0             220
  1             2             220
[1] 2 2
[1] FALSE
D19V6, binary
                 cls
clus                0   1
  PTCD1 MUTATED     1   0
  PTCD1 WILD-TYPE 275   9
[1] "tbl2"
                 cls
clus              [,1] [,2]
  PTCD1 MUTATED      1    0
  PTCD1 WILD-TYPE  275    9
   clus
vv  PTCD1 MUTATED PTCD1 WILD-TYPE
  0             1             275
  1             0               9
[1] 2 2
[1] FALSE
D19V7, binary
                 cls
clus                0   1
  PTCD1 MUTATED     2   1
  PTCD1 WILD-TYPE 360 129
[1] "tbl2"
                 cls
clus              [,1] [,2]
  PTCD1 MUTATED      2    1
  PTCD1 WILD-TYPE  360  129
        clus
vv       PTCD1 MUTATED PTCD1 WILD-TYPE
  FEMALE             2             360
  MALE               1             129
[1] 2 2
[1] FALSE
D19V8, binary
                 cls
clus                0   1
  PTCD1 MUTATED     2   1
  PTCD1 WILD-TYPE 177 297
[1] "tbl2"
                 cls
clus              [,1] [,2]
  PTCD1 MUTATED      2    1
  PTCD1 WILD-TYPE  177  297
     clus
vv    PTCD1 MUTATED PTCD1 WILD-TYPE
  NO              2             177
  YES             1             297
[1] 2 2
[1] FALSE
                 vv
clus              OTHER, SPECIFY THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  PTCD1 MUTATED                0                                             2
  PTCD1 WILD-TYPE              7                                           346
                 vv
clus              THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  PTCD1 MUTATED                                                                        1
  PTCD1 WILD-TYPE                                                                    101
                 vv
clus              THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  PTCD1 MUTATED                                                                     0
  PTCD1 WILD-TYPE                                                                  35
D19V9, multiclass
                                                                        clus
vv                                                                       PTCD1 MUTATED
  OTHER, SPECIFY                                                                     0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                      2
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)             1
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                0
                                                                        clus
vv                                                                       PTCD1 WILD-TYPE
  OTHER, SPECIFY                                                                       7
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                      346
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)             101
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                 35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D19V10, binary
                 cls
clus                0   1
  PTCD1 MUTATED     3   0
  PTCD1 WILD-TYPE 412  17
[1] "tbl2"
                 cls
clus              [,1] [,2]
  PTCD1 MUTATED      3    0
  PTCD1 WILD-TYPE  412   17
     clus
vv    PTCD1 MUTATED PTCD1 WILD-TYPE
  NO              3             412
  YES             0              17
[1] 2 2
[1] FALSE
                 vv
clus              MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE VERY ADVANCED (T4B)
  PTCD1 MUTATED              1                       1    1                   0
  PTCD1 WILD-TYPE          129                      17  327                   1
D19V11, multiclass
                         clus
vv                        PTCD1 MUTATED PTCD1 WILD-TYPE
  MINIMAL (T3)                        1             129
  MODERATE/ADVANCED (T4A)             1              17
  NONE                                1             327
  VERY ADVANCED (T4B)                 0               1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus               R0  R1  R2  RX
  PTCD1 MUTATED     2   0   0   1
  PTCD1 WILD-TYPE 377  51   4  29
D19V12, multiclass
    clus
vv   PTCD1 MUTATED PTCD1 WILD-TYPE
  R0             2             377
  R1             0              51
  R2             0               4
  RX             1              29
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D19V13, continuous
[1] "Remove cluster labels:" "PTCD1 MUTATED"         
clus
  PTCD1 MUTATED PTCD1 WILD-TYPE 
              2             376 
     TCGA-BJ-A290      TCGA-BJ-A45K      TCGA-CE-A13K      TCGA-DE-A0XZ 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DJ-A2PR      TCGA-DJ-A3UU      TCGA-DJ-A3UW      TCGA-DJ-A3V4 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DJ-A3VI      TCGA-DJ-A3VK      TCGA-E3-A3E5      TCGA-EL-A3CR 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EL-A3CS      TCGA-EL-A3CY      TCGA-EL-A3D0      TCGA-EL-A3D5 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EL-A3GQ      TCGA-EL-A3H8      TCGA-EM-A3AQ      TCGA-ET-A3BO 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-ET-A3BV      TCGA-J8-A3NZ      TCGA-J8-A4HW      TCGA-4C-A93U 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-BJ-A0Z0      TCGA-BJ-A0Z3      TCGA-BJ-A0Z9      TCGA-BJ-A0ZA 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-BJ-A0ZB      TCGA-BJ-A0ZH      TCGA-BJ-A0ZJ      TCGA-BJ-A18Y 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-BJ-A18Z      TCGA-BJ-A191      TCGA-BJ-A28R      TCGA-BJ-A28T 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-BJ-A28X      TCGA-BJ-A28Z      TCGA-BJ-A2N8      TCGA-BJ-A2N9 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-BJ-A2NA      TCGA-BJ-A3EZ      TCGA-BJ-A3PR      TCGA-BJ-A3PU 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-BJ-A45D      TCGA-BJ-A45E      TCGA-BJ-A45G      TCGA-BJ-A45I 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-BJ-A45J      TCGA-BJ-A4O8      TCGA-BJ-A4O9      TCGA-CE-A3MD 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-CE-A483      TCGA-CE-A484      TCGA-CE-A485      TCGA-DE-A0Y2 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DE-A0Y3      TCGA-DE-A3KN      TCGA-DE-A4M8      TCGA-DE-A4MA 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DE-A4MB      TCGA-DE-A4MC      TCGA-DE-A4MD      TCGA-DE-A69K 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DE-A7U5      TCGA-DJ-A13M      TCGA-DJ-A13O      TCGA-DJ-A13R 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DJ-A13T      TCGA-DJ-A13V      TCGA-DJ-A13W      TCGA-DJ-A13X 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DJ-A1QG      TCGA-DJ-A1QH      TCGA-DJ-A1QM      TCGA-DJ-A2PO 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DJ-A2PP      TCGA-DJ-A2PQ      TCGA-DJ-A2PS      TCGA-DJ-A2PT 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DJ-A2PU      TCGA-DJ-A2PV      TCGA-DJ-A2PW      TCGA-DJ-A2PX 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DJ-A2PY      TCGA-DJ-A2PZ      TCGA-DJ-A2Q0      TCGA-DJ-A2Q1 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DJ-A2Q2      TCGA-DJ-A2Q3      TCGA-DJ-A2Q4      TCGA-DJ-A2Q5 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DJ-A2Q6      TCGA-DJ-A2Q7      TCGA-DJ-A2Q8      TCGA-DJ-A2Q9 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DJ-A2QA      TCGA-DJ-A2QB      TCGA-DJ-A3UK      TCGA-DJ-A3UM 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DJ-A3UN      TCGA-DJ-A3UO      TCGA-DJ-A3UP      TCGA-DJ-A3UQ 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DJ-A3UR      TCGA-DJ-A3UX      TCGA-DJ-A3UZ      TCGA-DJ-A3V0 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DJ-A3V2      TCGA-DJ-A3V3      TCGA-DJ-A3V5      TCGA-DJ-A3V7 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DJ-A3V8      TCGA-DJ-A3V9      TCGA-DJ-A3VA      TCGA-DJ-A3VB 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DJ-A3VD      TCGA-DJ-A3VF      TCGA-DJ-A3VG      TCGA-DJ-A3VJ 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DJ-A3VL      TCGA-DJ-A4UL      TCGA-DJ-A4UP      TCGA-DJ-A4UQ 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DJ-A4UR      TCGA-DJ-A4UW      TCGA-DJ-A4V2      TCGA-DJ-A4V5 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DO-A1K0      TCGA-DO-A2HM      TCGA-E3-A3DY      TCGA-E3-A3DZ 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-E3-A3E0      TCGA-E3-A3E1      TCGA-E3-A3E2      TCGA-E3-A3E3 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-E8-A242      TCGA-E8-A2EA      TCGA-E8-A2JQ      TCGA-E8-A414 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-E8-A415      TCGA-E8-A417      TCGA-E8-A419      TCGA-E8-A433 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-E8-A436      TCGA-E8-A438      TCGA-E8-A44K      TCGA-EL-A3CM 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EL-A3CN      TCGA-EL-A3CO      TCGA-EL-A3CT      TCGA-EL-A3CU 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EL-A3CV      TCGA-EL-A3CW      TCGA-EL-A3CX      TCGA-EL-A3CZ 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EL-A3D1      TCGA-EL-A3D4      TCGA-EL-A3D6      TCGA-EL-A3GO 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EL-A3GP      TCGA-EL-A3GS      TCGA-EL-A3GV      TCGA-EL-A3GX 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EL-A3H3      TCGA-EL-A3H4      TCGA-EL-A3H5      TCGA-EL-A3H7 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EL-A3MW      TCGA-EL-A3MX      TCGA-EL-A3N2      TCGA-EL-A3T0 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EL-A3T1      TCGA-EL-A3T2      TCGA-EL-A3TB      TCGA-EL-A3ZH 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EL-A3ZK      TCGA-EL-A3ZL      TCGA-EL-A3ZM      TCGA-EL-A3ZN 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EL-A3ZO      TCGA-EL-A3ZP      TCGA-EL-A3ZS      TCGA-EL-A4JV 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EL-A4JW      TCGA-EL-A4JX      TCGA-EL-A4JZ      TCGA-EL-A4K0 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EL-A4K1      TCGA-EL-A4K2      TCGA-EL-A4K4      TCGA-EL-A4K6 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EL-A4K7      TCGA-EL-A4KD      TCGA-EL-A4KG      TCGA-EL-A4KI 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EM-A1CS      TCGA-EM-A1CT      TCGA-EM-A1CU      TCGA-EM-A1CV 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EM-A1CW      TCGA-EM-A1YC      TCGA-EM-A1YD      TCGA-EM-A1YE 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EM-A22I      TCGA-EM-A22J      TCGA-EM-A22K      TCGA-EM-A22L 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EM-A22M      TCGA-EM-A22N      TCGA-EM-A22O      TCGA-EM-A22P 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EM-A22Q      TCGA-EM-A2CK      TCGA-EM-A2CN      TCGA-EM-A2CP 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EM-A2CQ      TCGA-EM-A2CR      TCGA-EM-A2CS      TCGA-EM-A2CT 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EM-A2CU      TCGA-EM-A2OV      TCGA-EM-A2OX      TCGA-EM-A2OY 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EM-A2OZ      TCGA-EM-A2P0      TCGA-EM-A2P1      TCGA-EM-A2P2 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EM-A3AJ      TCGA-EM-A3AK      TCGA-EM-A3AL      TCGA-EM-A3AN 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EM-A3AO      TCGA-EM-A3AR      TCGA-EM-A3FJ      TCGA-EM-A3FK 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EM-A3FM      TCGA-EM-A3FN      TCGA-EM-A3FO      TCGA-EM-A3FP 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EM-A3FQ      TCGA-EM-A3FR      TCGA-EM-A3O3      TCGA-EM-A3O8 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EM-A3O9      TCGA-EM-A3OA      TCGA-EM-A3OB      TCGA-EM-A3ST 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EM-A3SU      TCGA-EM-A3SX      TCGA-EM-A3SZ      TCGA-EM-A4FF 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EM-A4FM      TCGA-EM-A4FN      TCGA-EM-A4FO      TCGA-EM-A4FQ 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EM-A4FR      TCGA-EM-A4FV      TCGA-EM-A4G1      TCGA-ET-A25G 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-ET-A25I      TCGA-ET-A25J      TCGA-ET-A25K      TCGA-ET-A25O 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-ET-A2MX      TCGA-ET-A2MZ      TCGA-ET-A2N0      TCGA-ET-A2N1 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-ET-A2N4      TCGA-ET-A39K      TCGA-ET-A39L      TCGA-ET-A39O 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-ET-A39P      TCGA-ET-A39R      TCGA-ET-A39S      TCGA-ET-A39T 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-ET-A3BP      TCGA-ET-A3BQ      TCGA-ET-A3BS      TCGA-ET-A3BT 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-ET-A3BU      TCGA-ET-A3BX      TCGA-ET-A3DQ      TCGA-ET-A3DR 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-ET-A3DS      TCGA-ET-A3DT      TCGA-ET-A3DU      TCGA-ET-A3DV 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-ET-A3DW      TCGA-ET-A40P      TCGA-ET-A40Q      TCGA-ET-A40R 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-ET-A40S      TCGA-ET-A40T      TCGA-ET-A4KN      TCGA-FE-A22Z 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-FE-A230      TCGA-FE-A231      TCGA-FE-A232      TCGA-FE-A233 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-FE-A234      TCGA-FE-A235      TCGA-FE-A236      TCGA-FE-A237 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-FE-A23A      TCGA-FE-A3PB      TCGA-FE-A3PC      TCGA-FE-A3PD 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-FK-A3S3      TCGA-FK-A3SB      TCGA-FK-A3SE      TCGA-FK-A3SG 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-FK-A3SH      TCGA-FK-A4UB      TCGA-FY-A2QD      TCGA-FY-A3I4 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-FY-A3I5      TCGA-FY-A3NM      TCGA-FY-A3NN      TCGA-FY-A3ON 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-FY-A3R6      TCGA-FY-A3R7      TCGA-FY-A3R9      TCGA-FY-A3TY 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-FY-A3W9      TCGA-FY-A3YR      TCGA-FY-A40K      TCGA-FY-A40L 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-FY-A40M      TCGA-FY-A40N      TCGA-FY-A4B3      TCGA-FY-A4B4 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-GE-A2C6      TCGA-H2-A26U      TCGA-H2-A2K9      TCGA-H2-A3RH 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-H2-A3RI      TCGA-H2-A421      TCGA-H2-A422      TCGA-IM-A3EB 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-IM-A3ED      TCGA-IM-A3U2      TCGA-IM-A3U3      TCGA-IM-A41Y 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-IM-A41Z      TCGA-IM-A420      TCGA-IM-A4EB      TCGA-J8-A3O0 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-J8-A3O1      TCGA-J8-A3O2      TCGA-J8-A3YD      TCGA-J8-A3YE 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-J8-A3YF      TCGA-J8-A3YG      TCGA-J8-A3YH      TCGA-J8-A42S 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-J8-A4HY      TCGA-KS-A41F      TCGA-KS-A41I      TCGA-KS-A41J 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-KS-A41L      TCGA-KS-A4I1      TCGA-KS-A4I3      TCGA-KS-A4I5 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-KS-A4I7      TCGA-KS-A4I9      TCGA-KS-A4IB      TCGA-KS-A4IC 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-KS-A4ID      TCGA-L6-A4EP      TCGA-L6-A4EQ      TCGA-L6-A4EU 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-MK-A4N6      TCGA-MK-A4N7      TCGA-MK-A4N9      TCGA-QD-A8IV 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
D19V14, binary
                 cls
clus                0   1
  PTCD1 MUTATED     0   3
  PTCD1 WILD-TYPE 221 259
[1] "tbl2"
                 cls
clus              [,1] [,2]
  PTCD1 MUTATED      0    3
  PTCD1 WILD-TYPE  221  259
            clus
vv           PTCD1 MUTATED PTCD1 WILD-TYPE
  MULTIFOCAL             0             221
  UNIFOCAL               3             259
[1] 2 2
[1] FALSE
D19V15, continuous
                 vv
clus              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  PTCD1 MUTATED                                  0     0
  PTCD1 WILD-TYPE                                1    51
                 vv
clus              BLACK OR AFRICAN AMERICAN WHITE
  PTCD1 MUTATED                           0     2
  PTCD1 WILD-TYPE                        26   320
D19V16, multiclass
[1] "Remove cluster labels:" "PTCD1 MUTATED"         
clus
  PTCD1 MUTATED PTCD1 WILD-TYPE 
              2             398 
     TCGA-BJ-A290      TCGA-BJ-A45K      TCGA-CE-A13K      TCGA-DE-A0XZ 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DJ-A13L      TCGA-DJ-A2PR      TCGA-DJ-A3UU      TCGA-DJ-A3UW 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DJ-A3V4      TCGA-DJ-A3VI      TCGA-DJ-A3VK      TCGA-E3-A3E5 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EL-A3CR      TCGA-EL-A3CS      TCGA-EL-A3CY      TCGA-EL-A3D0 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EL-A3D5      TCGA-EL-A3GQ      TCGA-EL-A3H2      TCGA-EL-A3H8 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EL-A3MY      TCGA-EL-A3N3      TCGA-ET-A3BO      TCGA-ET-A3BV 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-FK-A3SD      TCGA-FY-A76V      TCGA-J8-A3NZ      TCGA-J8-A4HW 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-L6-A4ET      TCGA-MK-A84Z      TCGA-4C-A93U      TCGA-BJ-A0YZ 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-BJ-A0Z2      TCGA-BJ-A0Z3      TCGA-BJ-A0Z9      TCGA-BJ-A0ZA 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-BJ-A0ZB      TCGA-BJ-A0ZC      TCGA-BJ-A0ZE      TCGA-BJ-A0ZG 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-BJ-A0ZH      TCGA-BJ-A0ZJ      TCGA-BJ-A18Y      TCGA-BJ-A18Z 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-BJ-A191      TCGA-BJ-A192      TCGA-BJ-A28R      TCGA-BJ-A28S 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-BJ-A28T      TCGA-BJ-A28V      TCGA-BJ-A28X      TCGA-BJ-A28Z 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-BJ-A2N7      TCGA-BJ-A2N8      TCGA-BJ-A2N9      TCGA-BJ-A2NA 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-BJ-A2P4      TCGA-BJ-A3EZ      TCGA-BJ-A3F0      TCGA-BJ-A3PR 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-BJ-A3PT      TCGA-BJ-A3PU      TCGA-BJ-A45D      TCGA-BJ-A45E 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-BJ-A45F      TCGA-BJ-A45G      TCGA-BJ-A45H      TCGA-BJ-A45I 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-BJ-A45J      TCGA-BJ-A4O8      TCGA-BJ-A4O9      TCGA-CE-A27D 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-CE-A3MD      TCGA-CE-A3ME      TCGA-CE-A481      TCGA-CE-A482 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-CE-A483      TCGA-CE-A484      TCGA-CE-A485      TCGA-DE-A0Y2 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DE-A0Y3      TCGA-DE-A2OL      TCGA-DE-A3KN      TCGA-DE-A4M8 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DE-A4M9      TCGA-DE-A4MA      TCGA-DE-A4MB      TCGA-DE-A4MC 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DE-A4MD      TCGA-DE-A69J      TCGA-DE-A69K      TCGA-DE-A7U5 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DJ-A13M      TCGA-DJ-A13O      TCGA-DJ-A13P      TCGA-DJ-A13R 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DJ-A13S      TCGA-DJ-A13T      TCGA-DJ-A13U      TCGA-DJ-A13W 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DJ-A1QD      TCGA-DJ-A1QE      TCGA-DJ-A1QF      TCGA-DJ-A1QG 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DJ-A1QH      TCGA-DJ-A1QI      TCGA-DJ-A1QM      TCGA-DJ-A1QO 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DJ-A1QQ      TCGA-DJ-A2PN      TCGA-DJ-A2PO      TCGA-DJ-A2PQ 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DJ-A2PS      TCGA-DJ-A2PT      TCGA-DJ-A2PU      TCGA-DJ-A2PV 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DJ-A2PW      TCGA-DJ-A2PX      TCGA-DJ-A2PY      TCGA-DJ-A2PZ 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DJ-A2Q0      TCGA-DJ-A2Q1      TCGA-DJ-A2Q2      TCGA-DJ-A2Q3 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DJ-A2Q4      TCGA-DJ-A2Q5      TCGA-DJ-A2Q6      TCGA-DJ-A2Q7 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DJ-A2Q9      TCGA-DJ-A2QA      TCGA-DJ-A2QB      TCGA-DJ-A3UK 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DJ-A3UM      TCGA-DJ-A3UN      TCGA-DJ-A3UO      TCGA-DJ-A3UQ 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DJ-A3UR      TCGA-DJ-A3US      TCGA-DJ-A3UT      TCGA-DJ-A3UX 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DJ-A3UY      TCGA-DJ-A3UZ      TCGA-DJ-A3V2      TCGA-DJ-A3V3 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DJ-A3V5      TCGA-DJ-A3V7      TCGA-DJ-A3V8      TCGA-DJ-A3V9 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DJ-A3VD      TCGA-DJ-A3VE      TCGA-DJ-A3VF      TCGA-DJ-A3VG 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DJ-A3VJ      TCGA-DJ-A3VL      TCGA-DJ-A3VM      TCGA-DJ-A4UL 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DJ-A4UP      TCGA-DJ-A4UQ      TCGA-DJ-A4UR      TCGA-DJ-A4UT 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DJ-A4UW      TCGA-DJ-A4V0      TCGA-DJ-A4V4      TCGA-DJ-A4V5 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-DO-A1JZ      TCGA-DO-A1K0      TCGA-DO-A2HM      TCGA-E3-A3DY 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-E3-A3DZ      TCGA-E3-A3E0      TCGA-E3-A3E1      TCGA-E3-A3E2 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-E3-A3E3      TCGA-E8-A242      TCGA-E8-A2EA      TCGA-E8-A2JQ 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-E8-A3X7      TCGA-E8-A413      TCGA-E8-A414      TCGA-E8-A415 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-E8-A416      TCGA-E8-A417      TCGA-E8-A419      TCGA-E8-A432 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-E8-A433      TCGA-E8-A434      TCGA-E8-A436      TCGA-E8-A437 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-E8-A438      TCGA-E8-A44K      TCGA-E8-A44M      TCGA-EL-A3CL 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EL-A3CM      TCGA-EL-A3CN      TCGA-EL-A3CO      TCGA-EL-A3CP 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EL-A3CT      TCGA-EL-A3CU      TCGA-EL-A3CV      TCGA-EL-A3CW 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EL-A3CX      TCGA-EL-A3CZ      TCGA-EL-A3D1      TCGA-EL-A3D4 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EL-A3D6      TCGA-EL-A3GO      TCGA-EL-A3GP      TCGA-EL-A3GR 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EL-A3GS      TCGA-EL-A3GV      TCGA-EL-A3GW      TCGA-EL-A3GX 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EL-A3GY      TCGA-EL-A3GZ      TCGA-EL-A3H1      TCGA-EL-A3H3 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EL-A3H4      TCGA-EL-A3H5      TCGA-EL-A3H7      TCGA-EL-A3MW 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EL-A3MX      TCGA-EL-A3N2      TCGA-EL-A3T0      TCGA-EL-A3T1 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EL-A3T2      TCGA-EL-A3T3      TCGA-EL-A3T6      TCGA-EL-A3T7 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EL-A3T8      TCGA-EL-A3T9      TCGA-EL-A3TA      TCGA-EL-A3TB 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EL-A3ZG      TCGA-EL-A3ZH      TCGA-EL-A3ZK      TCGA-EL-A3ZL 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EL-A3ZN      TCGA-EL-A3ZO      TCGA-EL-A3ZP      TCGA-EL-A3ZQ 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EL-A3ZR      TCGA-EL-A3ZS      TCGA-EL-A3ZT      TCGA-EL-A4JV 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EL-A4JW      TCGA-EL-A4JX      TCGA-EL-A4JZ      TCGA-EL-A4K0 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EL-A4K1      TCGA-EL-A4K2      TCGA-EL-A4K4      TCGA-EL-A4K6 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EL-A4K7      TCGA-EL-A4K9      TCGA-EL-A4KD      TCGA-EL-A4KG 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EL-A4KH      TCGA-EL-A4KI      TCGA-EM-A22M      TCGA-EM-A22O 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-EM-A2OV      TCGA-EM-A3AI      TCGA-ET-A25G      TCGA-ET-A25I 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-ET-A25J      TCGA-ET-A25K      TCGA-ET-A25O      TCGA-ET-A25R 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-ET-A2MX      TCGA-ET-A2MY      TCGA-ET-A2MZ      TCGA-ET-A2N0 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-ET-A2N1      TCGA-ET-A2N3      TCGA-ET-A2N4      TCGA-ET-A2N5 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-ET-A39I      TCGA-ET-A39J      TCGA-ET-A39K      TCGA-ET-A39M 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-ET-A39N      TCGA-ET-A39O      TCGA-ET-A39P      TCGA-ET-A39R 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-ET-A39S      TCGA-ET-A39T      TCGA-ET-A3BN      TCGA-ET-A3BP 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-ET-A3BQ      TCGA-ET-A3BS      TCGA-ET-A3BT      TCGA-ET-A3BU 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-ET-A3BW      TCGA-ET-A3BX      TCGA-ET-A3DO      TCGA-ET-A3DP 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-ET-A3DQ      TCGA-ET-A3DR      TCGA-ET-A3DS      TCGA-ET-A3DT 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-ET-A3DU      TCGA-ET-A3DV      TCGA-ET-A3DW      TCGA-ET-A40P 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-ET-A40Q      TCGA-ET-A40R      TCGA-ET-A40S      TCGA-ET-A40T 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-ET-A4KN      TCGA-ET-A4KQ      TCGA-FE-A22Z      TCGA-FE-A230 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-FE-A231      TCGA-FE-A232      TCGA-FE-A233      TCGA-FE-A234 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-FE-A235      TCGA-FE-A236      TCGA-FE-A237      TCGA-FE-A23A 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-FE-A3PA      TCGA-FE-A3PB      TCGA-FE-A3PC      TCGA-FE-A3PD 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-FK-A3S3      TCGA-FK-A3SB      TCGA-FK-A3SE      TCGA-FK-A3SG 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-FK-A3SH      TCGA-FK-A4UB      TCGA-FY-A2QD      TCGA-FY-A3BL 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-FY-A3I4      TCGA-FY-A3I5      TCGA-FY-A3NM      TCGA-FY-A3NP 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-FY-A3ON      TCGA-FY-A3R6      TCGA-FY-A3R7      TCGA-FY-A3R8 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-FY-A3R9      TCGA-FY-A3RA      TCGA-FY-A3TY      TCGA-FY-A3W9 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-FY-A3WA      TCGA-FY-A3YR      TCGA-FY-A40K      TCGA-FY-A40L 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-FY-A40M      TCGA-FY-A40N      TCGA-FY-A4B0      TCGA-FY-A4B3 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-FY-A4B4      TCGA-GE-A2C6      TCGA-H2-A26U      TCGA-H2-A2K9 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-H2-A3RH      TCGA-H2-A3RI      TCGA-H2-A421      TCGA-H2-A422 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-IM-A3EB      TCGA-IM-A3ED      TCGA-IM-A3U2      TCGA-IM-A3U3 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-IM-A41Y      TCGA-IM-A41Z      TCGA-IM-A420      TCGA-IM-A4EB 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-J8-A3O0      TCGA-J8-A3O1      TCGA-J8-A3O2      TCGA-J8-A3YD 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-J8-A3YE      TCGA-J8-A3YF      TCGA-J8-A3YG      TCGA-J8-A3YH 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-J8-A42S      TCGA-J8-A4HY      TCGA-KS-A41F      TCGA-KS-A41I 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-KS-A41J      TCGA-KS-A41L      TCGA-KS-A4I1      TCGA-KS-A4I3 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-KS-A4I5      TCGA-KS-A4I7      TCGA-KS-A4I9      TCGA-KS-A4IB 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-KS-A4IC      TCGA-KS-A4ID      TCGA-L6-A4EP      TCGA-L6-A4EQ 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-L6-A4EU      TCGA-MK-A4N6      TCGA-MK-A4N7      TCGA-MK-A4N9 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
     TCGA-QD-A8IV      TCGA-E8-A418 
"PTCD1 WILD-TYPE" "PTCD1 WILD-TYPE" 
D19V17, binary
                 cls
clus                0   1
  PTCD1 MUTATED     1   1
  PTCD1 WILD-TYPE  37 350
[1] "tbl2"
                 cls
clus              [,1] [,2]
  PTCD1 MUTATED      1    1
  PTCD1 WILD-TYPE   37  350
                        clus
vv                       PTCD1 MUTATED PTCD1 WILD-TYPE
  HISPANIC OR LATINO                 1              37
  NOT HISPANIC OR LATINO             1             350
[1] 2 2
[1] FALSE

Clustering(20) Variable = TSC22D1 MUTATION ANALYSIS
D20V1, survival
                   sevent
clus2                 0   1
  TSC22D1 MUTATED     4   0
  TSC22D1 WILD-TYPE 473  14
  TSC22D1 MUTATED TSC22D1 WILD-TYPE 
                4               487 
  TSC22D1 MUTATED TSC22D1 WILD-TYPE 
                0                14 
$`TSC22D1 MUTATED`
TCGA-DJ-A1QO TCGA-EM-A2CN TCGA-KS-A41F TCGA-KS-A41L 
       47.41        23.51       143.57       113.85 

$`TSC22D1 WILD-TYPE`
TCGA-BJ-A290 TCGA-BJ-A45K TCGA-CE-A13K TCGA-DE-A0XZ TCGA-DJ-A13L TCGA-DJ-A2PR 
       30.21        23.18        12.66        35.84         9.96        27.45 
TCGA-DJ-A3UU TCGA-DJ-A3UW TCGA-DJ-A3V4 TCGA-DJ-A3VI TCGA-DJ-A3VK TCGA-E3-A3E5 
       23.44        59.57        42.54         3.12        24.76        39.95 
TCGA-EL-A3CR TCGA-EL-A3CS TCGA-EL-A3CY TCGA-EL-A3D0 TCGA-EL-A3D5 TCGA-EL-A3GQ 
        7.66        45.53         4.18       139.86        57.11        50.24 
TCGA-EL-A3H2 TCGA-EL-A3H8 TCGA-EL-A3MY TCGA-EL-A3N3 TCGA-EM-A3AQ TCGA-ET-A3BO 
       33.50       150.48        17.52       178.29        29.72        50.40 
TCGA-ET-A3BV TCGA-FK-A3SD TCGA-FY-A76V TCGA-J8-A3NZ TCGA-J8-A4HW TCGA-L6-A4ET 
       75.42         1.05         1.68        17.23         2.60        21.83 
TCGA-MK-A84Z TCGA-4C-A93U TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0Z3 
       23.93         4.24        24.79        13.78        49.78        16.34 
TCGA-BJ-A0Z9 TCGA-BJ-A0ZA TCGA-BJ-A0ZB TCGA-BJ-A0ZC TCGA-BJ-A0ZE TCGA-BJ-A0ZG 
       41.33        18.87         4.01        11.57        16.73        25.48 
TCGA-BJ-A0ZH TCGA-BJ-A0ZJ TCGA-BJ-A18Y TCGA-BJ-A18Z TCGA-BJ-A191 TCGA-BJ-A192 
       15.12        42.08        51.39        41.52         4.83        44.35 
TCGA-BJ-A28R TCGA-BJ-A28S TCGA-BJ-A28T TCGA-BJ-A28V TCGA-BJ-A28X TCGA-BJ-A28Z 
       42.15        21.04        35.54        32.45        30.97        11.08 
TCGA-BJ-A2N7 TCGA-BJ-A2N8 TCGA-BJ-A2N9 TCGA-BJ-A2NA TCGA-BJ-A2P4 TCGA-BJ-A3EZ 
       18.38        16.57        20.48        18.97        12.82        16.01 
TCGA-BJ-A3F0 TCGA-BJ-A3PR TCGA-BJ-A3PT TCGA-BJ-A3PU TCGA-BJ-A45D TCGA-BJ-A45E 
       13.94        36.39        23.31        18.64        10.88        21.01 
TCGA-BJ-A45F TCGA-BJ-A45G TCGA-BJ-A45H TCGA-BJ-A45I TCGA-BJ-A45J TCGA-BJ-A4O8 
        3.45        23.84        28.44        15.45        21.63        19.43 
TCGA-BJ-A4O9 TCGA-CE-A27D TCGA-CE-A3MD TCGA-CE-A3ME TCGA-CE-A481 TCGA-CE-A482 
       23.47        12.30        12.79        12.46        11.38        10.68 
TCGA-CE-A483 TCGA-CE-A484 TCGA-CE-A485 TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DE-A2OL 
       15.02        12.43        12.66        21.63        50.17        37.64 
TCGA-DE-A3KN TCGA-DE-A4M8 TCGA-DE-A4M9 TCGA-DE-A4MA TCGA-DE-A4MB TCGA-DE-A4MC 
       27.32        18.54        18.84        30.12        11.57        30.02 
TCGA-DE-A4MD TCGA-DE-A69J TCGA-DE-A69K TCGA-DE-A7U5 TCGA-DJ-A13M TCGA-DJ-A13O 
       25.12        14.70        14.27         2.76        48.79        38.17 
TCGA-DJ-A13P TCGA-DJ-A13R TCGA-DJ-A13S TCGA-DJ-A13T TCGA-DJ-A13U TCGA-DJ-A13V 
      169.32        18.58         8.71        56.19        52.27        43.17 
TCGA-DJ-A13W TCGA-DJ-A13X TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QG 
       52.37         8.32        48.07       135.91        30.61        44.98 
TCGA-DJ-A1QH TCGA-DJ-A1QI TCGA-DJ-A1QL TCGA-DJ-A1QM TCGA-DJ-A1QN TCGA-DJ-A1QQ 
       42.51        14.96        17.59         6.02        42.58        17.56 
TCGA-DJ-A2PN TCGA-DJ-A2PO TCGA-DJ-A2PP TCGA-DJ-A2PQ TCGA-DJ-A2PS TCGA-DJ-A2PT 
       10.09         7.99        30.58        35.41        26.20        38.83 
TCGA-DJ-A2PU TCGA-DJ-A2PV TCGA-DJ-A2PW TCGA-DJ-A2PX TCGA-DJ-A2PY TCGA-DJ-A2PZ 
       33.96        31.99        34.85        28.96         8.78         8.42 
TCGA-DJ-A2Q0 TCGA-DJ-A2Q1 TCGA-DJ-A2Q2 TCGA-DJ-A2Q3 TCGA-DJ-A2Q4 TCGA-DJ-A2Q5 
       34.36        37.74        43.96        40.24        33.93        37.48 
TCGA-DJ-A2Q6 TCGA-DJ-A2Q7 TCGA-DJ-A2Q8 TCGA-DJ-A2Q9 TCGA-DJ-A2QA TCGA-DJ-A2QB 
       36.46        35.11        39.09        35.90        33.53        35.18 
TCGA-DJ-A2QC TCGA-DJ-A3UK TCGA-DJ-A3UM TCGA-DJ-A3UN TCGA-DJ-A3UO TCGA-DJ-A3UP 
       39.95        36.92        31.04        32.42        31.46        16.41 
TCGA-DJ-A3UQ TCGA-DJ-A3UR TCGA-DJ-A3US TCGA-DJ-A3UT TCGA-DJ-A3UX TCGA-DJ-A3UY 
       19.56        36.33        32.81        36.33        11.34        35.87 
TCGA-DJ-A3UZ TCGA-DJ-A3V0 TCGA-DJ-A3V2 TCGA-DJ-A3V3 TCGA-DJ-A3V5 TCGA-DJ-A3V7 
       40.96        36.99        20.22        30.61        19.20        23.21 
TCGA-DJ-A3V8 TCGA-DJ-A3V9 TCGA-DJ-A3VA TCGA-DJ-A3VB TCGA-DJ-A3VD TCGA-DJ-A3VE 
       21.27        20.48        24.82        22.92        40.70        18.97 
TCGA-DJ-A3VF TCGA-DJ-A3VG TCGA-DJ-A3VJ TCGA-DJ-A3VL TCGA-DJ-A3VM TCGA-DJ-A4UL 
        9.60        35.67        36.43        23.44        27.62        30.87 
TCGA-DJ-A4UP TCGA-DJ-A4UQ TCGA-DJ-A4UR TCGA-DJ-A4UT TCGA-DJ-A4UW TCGA-DJ-A4V0 
       30.12        33.04        34.78        27.06        26.93        35.54 
TCGA-DJ-A4V2 TCGA-DJ-A4V4 TCGA-DJ-A4V5 TCGA-DO-A1JZ TCGA-DO-A1K0 TCGA-DO-A2HM 
        3.12        15.81        35.38        54.90        21.53         2.33 
TCGA-E3-A3DY TCGA-E3-A3DZ TCGA-E3-A3E0 TCGA-E3-A3E1 TCGA-E3-A3E2 TCGA-E3-A3E3 
       92.55        47.21        66.38        80.52        63.19        52.44 
TCGA-E8-A242 TCGA-E8-A2EA TCGA-E8-A2JQ TCGA-E8-A3X7 TCGA-E8-A413 TCGA-E8-A414 
       31.23        35.67        11.70        31.27        29.98        31.50 
TCGA-E8-A415 TCGA-E8-A416 TCGA-E8-A417 TCGA-E8-A419 TCGA-E8-A432 TCGA-E8-A433 
       31.04        31.30        30.84        25.45        30.61        31.27 
TCGA-E8-A434 TCGA-E8-A436 TCGA-E8-A437 TCGA-E8-A438 TCGA-E8-A44K TCGA-E8-A44M 
       31.33        14.96        39.88        33.50        31.00        30.15 
TCGA-EL-A3CL TCGA-EL-A3CM TCGA-EL-A3CN TCGA-EL-A3CO TCGA-EL-A3CP TCGA-EL-A3CT 
       31.66        26.73       155.54        97.74       158.83        60.95 
TCGA-EL-A3CU TCGA-EL-A3CV TCGA-EL-A3CW TCGA-EL-A3CX TCGA-EL-A3CZ TCGA-EL-A3D1 
      157.15        37.94        57.01       106.62        79.50        98.53 
TCGA-EL-A3D4 TCGA-EL-A3D6 TCGA-EL-A3GO TCGA-EL-A3GP TCGA-EL-A3GR TCGA-EL-A3GS 
       69.57       108.36        64.87        49.51       115.10        65.39 
TCGA-EL-A3GU TCGA-EL-A3GV TCGA-EL-A3GW TCGA-EL-A3GX TCGA-EL-A3GY TCGA-EL-A3GZ 
      136.01        50.37        50.20       147.75       101.13       139.99 
TCGA-EL-A3H1 TCGA-EL-A3H3 TCGA-EL-A3H4 TCGA-EL-A3H5 TCGA-EL-A3H7 TCGA-EL-A3MW 
       49.32        43.36        49.71        83.57       139.00       108.66 
TCGA-EL-A3MX TCGA-EL-A3MZ TCGA-EL-A3N2 TCGA-EL-A3T0 TCGA-EL-A3T1 TCGA-EL-A3T2 
       57.63        52.50        29.65       142.52       129.57        32.48 
TCGA-EL-A3T3 TCGA-EL-A3T6 TCGA-EL-A3T7 TCGA-EL-A3T8 TCGA-EL-A3T9 TCGA-EL-A3TA 
      132.07        98.24        41.29       107.47         5.72        66.90 
TCGA-EL-A3TB TCGA-EL-A3ZG TCGA-EL-A3ZH TCGA-EL-A3ZK TCGA-EL-A3ZL TCGA-EL-A3ZM 
       82.82        89.56        91.17        51.78        62.30        36.03 
TCGA-EL-A3ZN TCGA-EL-A3ZO TCGA-EL-A3ZP TCGA-EL-A3ZQ TCGA-EL-A3ZR TCGA-EL-A3ZS 
       53.06        72.69        65.49        61.22        60.16         7.07 
TCGA-EL-A3ZT TCGA-EL-A4JV TCGA-EL-A4JW TCGA-EL-A4JX TCGA-EL-A4JZ TCGA-EL-A4K0 
       59.44        57.47        34.72        45.96        61.02        31.04 
TCGA-EL-A4K1 TCGA-EL-A4K2 TCGA-EL-A4K4 TCGA-EL-A4K6 TCGA-EL-A4K7 TCGA-EL-A4K9 
       34.39        30.51        53.36        44.15        41.13        47.84 
TCGA-EL-A4KD TCGA-EL-A4KG TCGA-EL-A4KH TCGA-EL-A4KI TCGA-EM-A1CS TCGA-EM-A1CT 
       43.59        24.30        27.06        23.90        26.86        18.18 
TCGA-EM-A1CU TCGA-EM-A1CV TCGA-EM-A1CW TCGA-EM-A1YA TCGA-EM-A1YB TCGA-EM-A1YC 
       20.91        48.49        18.05        19.79        19.46        78.61 
TCGA-EM-A1YD TCGA-EM-A1YE TCGA-EM-A22I TCGA-EM-A22J TCGA-EM-A22K TCGA-EM-A22L 
       57.01        54.08        14.73        14.50        15.75        10.45 
TCGA-EM-A22M TCGA-EM-A22N TCGA-EM-A22O TCGA-EM-A22P TCGA-EM-A22Q TCGA-EM-A2CJ 
       14.53        10.65        44.19        41.29        14.24        47.57 
TCGA-EM-A2CK TCGA-EM-A2CL TCGA-EM-A2CO TCGA-EM-A2CP TCGA-EM-A2CQ TCGA-EM-A2CR 
       17.88        13.18         6.05         2.99        12.30        13.64 
TCGA-EM-A2CS TCGA-EM-A2CT TCGA-EM-A2CU TCGA-EM-A2OV TCGA-EM-A2OW TCGA-EM-A2OX 
       27.65        48.46        13.15        22.16        40.34        19.73 
TCGA-EM-A2OY TCGA-EM-A2OZ TCGA-EM-A2P0 TCGA-EM-A2P1 TCGA-EM-A2P2 TCGA-EM-A2P3 
       32.32        33.96        17.59        17.46        17.29        14.60 
TCGA-EM-A3AI TCGA-EM-A3AJ TCGA-EM-A3AK TCGA-EM-A3AL TCGA-EM-A3AN TCGA-EM-A3AO 
       22.52        30.94        15.68        14.14        33.07        44.52 
TCGA-EM-A3AP TCGA-EM-A3AR TCGA-EM-A3FJ TCGA-EM-A3FK TCGA-EM-A3FL TCGA-EM-A3FM 
        8.35        37.25        27.95        23.77        47.38        21.01 
TCGA-EM-A3FN TCGA-EM-A3FO TCGA-EM-A3FP TCGA-EM-A3FQ TCGA-EM-A3FR TCGA-EM-A3O3 
       12.07        17.49        17.39        16.18        15.02        14.50 
TCGA-EM-A3O6 TCGA-EM-A3O7 TCGA-EM-A3O8 TCGA-EM-A3O9 TCGA-EM-A3OA TCGA-EM-A3OB 
       15.06         7.33        12.53         9.24        27.02        38.66 
TCGA-EM-A3ST TCGA-EM-A3SU TCGA-EM-A3SX TCGA-EM-A3SY TCGA-EM-A3SZ TCGA-EM-A4FF 
       38.86        29.95        29.85        13.51        12.79        84.59 
TCGA-EM-A4FH TCGA-EM-A4FK TCGA-EM-A4FM TCGA-EM-A4FN TCGA-EM-A4FO TCGA-EM-A4FQ 
       29.33        21.34         5.33        26.37        26.37        22.45 
TCGA-EM-A4FR TCGA-EM-A4FU TCGA-EM-A4FV TCGA-EM-A4G1 TCGA-ET-A25G TCGA-ET-A25I 
       21.53        60.49        24.46        13.68        81.93        81.70 
TCGA-ET-A25J TCGA-ET-A25K TCGA-ET-A25O TCGA-ET-A25R TCGA-ET-A2MX TCGA-ET-A2MY 
       77.56        70.42        65.29        63.45        88.41        58.75 
TCGA-ET-A2MZ TCGA-ET-A2N0 TCGA-ET-A2N1 TCGA-ET-A2N3 TCGA-ET-A2N4 TCGA-ET-A2N5 
       37.25        52.60        54.35        83.34         2.66        80.88 
TCGA-ET-A39I TCGA-ET-A39J TCGA-ET-A39K TCGA-ET-A39L TCGA-ET-A39M TCGA-ET-A39N 
       33.24       106.09       107.41       108.46        84.89       123.32 
TCGA-ET-A39O TCGA-ET-A39P TCGA-ET-A39R TCGA-ET-A39S TCGA-ET-A39T TCGA-ET-A3BN 
      100.57        95.34        94.13        55.10        98.20        28.24 
TCGA-ET-A3BP TCGA-ET-A3BQ TCGA-ET-A3BS TCGA-ET-A3BT TCGA-ET-A3BU TCGA-ET-A3BW 
       79.10        76.64         5.79        87.62        77.82        46.65 
TCGA-ET-A3BX TCGA-ET-A3DO TCGA-ET-A3DP TCGA-ET-A3DQ TCGA-ET-A3DR TCGA-ET-A3DS 
       52.47       116.78        94.59        84.85        80.58        66.84 
TCGA-ET-A3DT TCGA-ET-A3DU TCGA-ET-A3DV TCGA-ET-A3DW TCGA-ET-A40P TCGA-ET-A40Q 
       43.73        62.83       166.62        24.72        43.99        46.26 
TCGA-ET-A40R TCGA-ET-A40S TCGA-ET-A40T TCGA-ET-A4KN TCGA-ET-A4KQ TCGA-FE-A22Z 
       44.38        40.21        37.48        33.17        31.40        73.74 
TCGA-FE-A230 TCGA-FE-A231 TCGA-FE-A232 TCGA-FE-A233 TCGA-FE-A234 TCGA-FE-A235 
       71.44        31.59        79.69        24.69        68.22       117.40 
TCGA-FE-A236 TCGA-FE-A237 TCGA-FE-A23A TCGA-FE-A3PA TCGA-FE-A3PB TCGA-FE-A3PC 
       66.77       112.80        81.83       106.36        85.15        85.68 
TCGA-FE-A3PD TCGA-FK-A3S3 TCGA-FK-A3SB TCGA-FK-A3SE TCGA-FK-A3SG TCGA-FK-A3SH 
       78.77        71.08         4.11        22.03         0.92        48.10 
TCGA-FK-A4UB TCGA-FY-A2QD TCGA-FY-A3BL TCGA-FY-A3I4 TCGA-FY-A3I5 TCGA-FY-A3NM 
      116.09         1.25        20.42        17.82         7.82        29.10 
TCGA-FY-A3NP TCGA-FY-A3ON TCGA-FY-A3R6 TCGA-FY-A3R7 TCGA-FY-A3R8 TCGA-FY-A3R9 
       16.14        19.56        13.91        16.27        15.68        16.57 
TCGA-FY-A3RA TCGA-FY-A3TY TCGA-FY-A3W9 TCGA-FY-A3WA TCGA-FY-A3YR TCGA-FY-A40K 
       18.08        23.31        21.63        17.06        17.36        15.16 
TCGA-FY-A40L TCGA-FY-A40M TCGA-FY-A40N TCGA-FY-A4B0 TCGA-FY-A4B3 TCGA-FY-A4B4 
       23.87        22.49        19.04        13.81        14.04        21.60 
TCGA-GE-A2C6 TCGA-H2-A26U TCGA-H2-A2K9 TCGA-H2-A3RH TCGA-H2-A3RI TCGA-H2-A421 
       12.53        17.00        21.67        12.46        11.01        20.05 
TCGA-H2-A422 TCGA-IM-A3EB TCGA-IM-A3ED TCGA-IM-A3U2 TCGA-IM-A3U3 TCGA-IM-A41Y 
       18.61        48.92        47.41        18.51        16.90        21.83 
TCGA-IM-A41Z TCGA-IM-A420 TCGA-IM-A4EB TCGA-J8-A3O0 TCGA-J8-A3O1 TCGA-J8-A3O2 
       31.10         8.22        25.64        43.17        27.19        11.24 
TCGA-J8-A3YD TCGA-J8-A3YE TCGA-J8-A3YF TCGA-J8-A3YG TCGA-J8-A3YH TCGA-J8-A42S 
       31.82        27.85        24.69        22.29         5.75         2.47 
TCGA-J8-A4HY TCGA-KS-A41I TCGA-KS-A41J TCGA-KS-A4I1 TCGA-KS-A4I3 TCGA-KS-A4I5 
        0.20        15.98        15.68        26.70        43.69        18.64 
TCGA-KS-A4I7 TCGA-KS-A4I9 TCGA-KS-A4IB TCGA-KS-A4IC TCGA-KS-A4ID TCGA-L6-A4EP 
       32.45        87.39        84.72        35.28        33.24        33.40 
TCGA-L6-A4EQ TCGA-L6-A4EU TCGA-MK-A4N6 TCGA-MK-A4N7 TCGA-MK-A4N9 TCGA-QD-A8IV 
       40.37         9.50        36.10        32.45        30.21        12.89 
TCGA-E8-A418 
        3.02 

  TSC22D1 MUTATED TSC22D1 WILD-TYPE 
            23.51              0.20 
  TSC22D1 MUTATED TSC22D1 WILD-TYPE 
           143.57            178.29 
  TSC22D1 MUTATED TSC22D1 WILD-TYPE 
            80.63             31.04 
[1] "23.5 - 143.6 (80.6)" "0.2 - 178.3 (31.0)" 
[1] "hr="     "9200000"
D20V2, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV STAGE IVA STAGE IVC
  TSC22D1 MUTATED         2        0         1        0         0         1
  TSC22D1 WILD-TYPE     276       50       107        2        46         5
D20V3, multiclass
           clus
vv          TSC22D1 MUTATED TSC22D1 WILD-TYPE
  STAGE I                 2               276
  STAGE II                0                50
  STAGE III               1               107
  STAGE IV                0                 2
  STAGE IVA               0                46
  STAGE IVC               1                 5
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                 T1  T2  T3  T4
  TSC22D1 MUTATED     0   2   2   0
  TSC22D1 WILD-TYPE 141 160 162  23
D20V4, multiclass
    clus
vv   TSC22D1 MUTATED TSC22D1 WILD-TYPE
  T1               0               141
  T2               2               160
  T3               2               162
  T4               0                23
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D20V5, binary
                   cls
clus                  0   1
  TSC22D1 MUTATED     3   1
  TSC22D1 WILD-TYPE 217 221
[1] "tbl2"
                   cls
clus                [,1] [,2]
  TSC22D1 MUTATED      3    1
  TSC22D1 WILD-TYPE  217  221
   clus
vv  TSC22D1 MUTATED TSC22D1 WILD-TYPE
  0               3               217
  1               1               221
[1] 2 2
[1] FALSE
D20V6, binary
                   cls
clus                  0   1
  TSC22D1 MUTATED     3   1
  TSC22D1 WILD-TYPE 273   8
[1] "tbl2"
                   cls
clus                [,1] [,2]
  TSC22D1 MUTATED      3    1
  TSC22D1 WILD-TYPE  273    8
   clus
vv  TSC22D1 MUTATED TSC22D1 WILD-TYPE
  0               3               273
  1               1                 8
[1] 2 2
[1] FALSE
D20V7, binary
                   cls
clus                  0   1
  TSC22D1 MUTATED     2   2
  TSC22D1 WILD-TYPE 360 128
[1] "tbl2"
                   cls
clus                [,1] [,2]
  TSC22D1 MUTATED      2    2
  TSC22D1 WILD-TYPE  360  128
        clus
vv       TSC22D1 MUTATED TSC22D1 WILD-TYPE
  FEMALE               2               360
  MALE                 2               128
[1] 2 2
[1] FALSE
D20V8, binary
                   cls
clus                  0   1
  TSC22D1 MUTATED     0   4
  TSC22D1 WILD-TYPE 179 294
[1] "tbl2"
                   cls
clus                [,1] [,2]
  TSC22D1 MUTATED      0    4
  TSC22D1 WILD-TYPE  179  294
     clus
vv    TSC22D1 MUTATED TSC22D1 WILD-TYPE
  NO                0               179
  YES               4               294
[1] 2 2
[1] FALSE
                   vv
clus                OTHER, SPECIFY
  TSC22D1 MUTATED                0
  TSC22D1 WILD-TYPE              7
                   vv
clus                THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  TSC22D1 MUTATED                                               1
  TSC22D1 WILD-TYPE                                           347
                   vv
clus                THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  TSC22D1 MUTATED                                                                        2
  TSC22D1 WILD-TYPE                                                                    100
                   vv
clus                THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  TSC22D1 MUTATED                                                                     1
  TSC22D1 WILD-TYPE                                                                  34
D20V9, multiclass
                                                                        clus
vv                                                                       TSC22D1 MUTATED
  OTHER, SPECIFY                                                                       0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                        1
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)               2
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                  1
                                                                        clus
vv                                                                       TSC22D1 WILD-TYPE
  OTHER, SPECIFY                                                                         7
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                        347
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)               100
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                   34
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D20V10, binary
                   cls
clus                  0   1
  TSC22D1 MUTATED     4   0
  TSC22D1 WILD-TYPE 411  17
[1] "tbl2"
                   cls
clus                [,1] [,2]
  TSC22D1 MUTATED      4    0
  TSC22D1 WILD-TYPE  411   17
     clus
vv    TSC22D1 MUTATED TSC22D1 WILD-TYPE
  NO                4               411
  YES               0                17
[1] 2 2
[1] FALSE
                   vv
clus                MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  TSC22D1 MUTATED              1                       0    3
  TSC22D1 WILD-TYPE          129                      18  325
                   vv
clus                VERY ADVANCED (T4B)
  TSC22D1 MUTATED                     0
  TSC22D1 WILD-TYPE                   1
D20V11, multiclass
                         clus
vv                        TSC22D1 MUTATED TSC22D1 WILD-TYPE
  MINIMAL (T3)                          1               129
  MODERATE/ADVANCED (T4A)               0                18
  NONE                                  3               325
  VERY ADVANCED (T4B)                   0                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                 R0  R1  R2  RX
  TSC22D1 MUTATED     4   0   0   0
  TSC22D1 WILD-TYPE 375  51   4  30
D20V12, multiclass
    clus
vv   TSC22D1 MUTATED TSC22D1 WILD-TYPE
  R0               4               375
  R1               0                51
  R2               0                 4
  RX               0                30
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D20V13, continuous
D20V14, binary
                   cls
clus                  0   1
  TSC22D1 MUTATED     1   3
  TSC22D1 WILD-TYPE 220 259
[1] "tbl2"
                   cls
clus                [,1] [,2]
  TSC22D1 MUTATED      1    3
  TSC22D1 WILD-TYPE  220  259
            clus
vv           TSC22D1 MUTATED TSC22D1 WILD-TYPE
  MULTIFOCAL               1               220
  UNIFOCAL                 3               259
[1] 2 2
[1] FALSE
D20V15, continuous
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  TSC22D1 MUTATED                                  0     0
  TSC22D1 WILD-TYPE                                1    51
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  TSC22D1 MUTATED                           0     3
  TSC22D1 WILD-TYPE                        26   319
D20V16, multiclass
                                  clus
vv                                 TSC22D1 MUTATED TSC22D1 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          0                51
  BLACK OR AFRICAN AMERICAN                      0                26
  WHITE                                          3               319
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D20V17, binary
                   cls
clus                  0   1
  TSC22D1 MUTATED     0   1
  TSC22D1 WILD-TYPE  38 350
[1] "tbl2"
                   cls
clus                [,1] [,2]
  TSC22D1 MUTATED      0    1
  TSC22D1 WILD-TYPE   38  350
                        clus
vv                       TSC22D1 MUTATED TSC22D1 WILD-TYPE
  HISPANIC OR LATINO                   0                38
  NOT HISPANIC OR LATINO               1               350
[1] 2 2
[1] FALSE

Clustering(21) Variable = AKT1 MUTATION ANALYSIS
D21V1, survival
                sevent
clus2              0   1
  AKT1 MUTATED     5   0
  AKT1 WILD-TYPE 472  14
  AKT1 MUTATED AKT1 WILD-TYPE 
             5            486 
  AKT1 MUTATED AKT1 WILD-TYPE 
             0             14 
$`AKT1 MUTATED`
TCGA-BJ-A4O9 TCGA-DE-A4MB TCGA-DJ-A3VJ TCGA-FY-A4B4 TCGA-E8-A418 
       23.47        11.57        36.43        21.60         3.02 

$`AKT1 WILD-TYPE`
TCGA-BJ-A290 TCGA-BJ-A45K TCGA-CE-A13K TCGA-DE-A0XZ TCGA-DJ-A13L TCGA-DJ-A2PR 
       30.21        23.18        12.66        35.84         9.96        27.45 
TCGA-DJ-A3UU TCGA-DJ-A3UW TCGA-DJ-A3V4 TCGA-DJ-A3VI TCGA-DJ-A3VK TCGA-E3-A3E5 
       23.44        59.57        42.54         3.12        24.76        39.95 
TCGA-EL-A3CR TCGA-EL-A3CS TCGA-EL-A3CY TCGA-EL-A3D0 TCGA-EL-A3D5 TCGA-EL-A3GQ 
        7.66        45.53         4.18       139.86        57.11        50.24 
TCGA-EL-A3H2 TCGA-EL-A3H8 TCGA-EL-A3MY TCGA-EL-A3N3 TCGA-EM-A3AQ TCGA-ET-A3BO 
       33.50       150.48        17.52       178.29        29.72        50.40 
TCGA-ET-A3BV TCGA-FK-A3SD TCGA-FY-A76V TCGA-J8-A3NZ TCGA-J8-A4HW TCGA-L6-A4ET 
       75.42         1.05         1.68        17.23         2.60        21.83 
TCGA-MK-A84Z TCGA-4C-A93U TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0Z3 
       23.93         4.24        24.79        13.78        49.78        16.34 
TCGA-BJ-A0Z9 TCGA-BJ-A0ZA TCGA-BJ-A0ZB TCGA-BJ-A0ZC TCGA-BJ-A0ZE TCGA-BJ-A0ZG 
       41.33        18.87         4.01        11.57        16.73        25.48 
TCGA-BJ-A0ZH TCGA-BJ-A0ZJ TCGA-BJ-A18Y TCGA-BJ-A18Z TCGA-BJ-A191 TCGA-BJ-A192 
       15.12        42.08        51.39        41.52         4.83        44.35 
TCGA-BJ-A28R TCGA-BJ-A28S TCGA-BJ-A28T TCGA-BJ-A28V TCGA-BJ-A28X TCGA-BJ-A28Z 
       42.15        21.04        35.54        32.45        30.97        11.08 
TCGA-BJ-A2N7 TCGA-BJ-A2N8 TCGA-BJ-A2N9 TCGA-BJ-A2NA TCGA-BJ-A2P4 TCGA-BJ-A3EZ 
       18.38        16.57        20.48        18.97        12.82        16.01 
TCGA-BJ-A3F0 TCGA-BJ-A3PR TCGA-BJ-A3PT TCGA-BJ-A3PU TCGA-BJ-A45D TCGA-BJ-A45E 
       13.94        36.39        23.31        18.64        10.88        21.01 
TCGA-BJ-A45F TCGA-BJ-A45G TCGA-BJ-A45H TCGA-BJ-A45I TCGA-BJ-A45J TCGA-BJ-A4O8 
        3.45        23.84        28.44        15.45        21.63        19.43 
TCGA-CE-A27D TCGA-CE-A3MD TCGA-CE-A3ME TCGA-CE-A481 TCGA-CE-A482 TCGA-CE-A483 
       12.30        12.79        12.46        11.38        10.68        15.02 
TCGA-CE-A484 TCGA-CE-A485 TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DE-A2OL TCGA-DE-A3KN 
       12.43        12.66        21.63        50.17        37.64        27.32 
TCGA-DE-A4M8 TCGA-DE-A4M9 TCGA-DE-A4MA TCGA-DE-A4MC TCGA-DE-A4MD TCGA-DE-A69J 
       18.54        18.84        30.12        30.02        25.12        14.70 
TCGA-DE-A69K TCGA-DE-A7U5 TCGA-DJ-A13M TCGA-DJ-A13O TCGA-DJ-A13P TCGA-DJ-A13R 
       14.27         2.76        48.79        38.17       169.32        18.58 
TCGA-DJ-A13S TCGA-DJ-A13T TCGA-DJ-A13U TCGA-DJ-A13V TCGA-DJ-A13W TCGA-DJ-A13X 
        8.71        56.19        52.27        43.17        52.37         8.32 
TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QG TCGA-DJ-A1QH TCGA-DJ-A1QI 
       48.07       135.91        30.61        44.98        42.51        14.96 
TCGA-DJ-A1QL TCGA-DJ-A1QM TCGA-DJ-A1QN TCGA-DJ-A1QO TCGA-DJ-A1QQ TCGA-DJ-A2PN 
       17.59         6.02        42.58        47.41        17.56        10.09 
TCGA-DJ-A2PO TCGA-DJ-A2PP TCGA-DJ-A2PQ TCGA-DJ-A2PS TCGA-DJ-A2PT TCGA-DJ-A2PU 
        7.99        30.58        35.41        26.20        38.83        33.96 
TCGA-DJ-A2PV TCGA-DJ-A2PW TCGA-DJ-A2PX TCGA-DJ-A2PY TCGA-DJ-A2PZ TCGA-DJ-A2Q0 
       31.99        34.85        28.96         8.78         8.42        34.36 
TCGA-DJ-A2Q1 TCGA-DJ-A2Q2 TCGA-DJ-A2Q3 TCGA-DJ-A2Q4 TCGA-DJ-A2Q5 TCGA-DJ-A2Q6 
       37.74        43.96        40.24        33.93        37.48        36.46 
TCGA-DJ-A2Q7 TCGA-DJ-A2Q8 TCGA-DJ-A2Q9 TCGA-DJ-A2QA TCGA-DJ-A2QB TCGA-DJ-A2QC 
       35.11        39.09        35.90        33.53        35.18        39.95 
TCGA-DJ-A3UK TCGA-DJ-A3UM TCGA-DJ-A3UN TCGA-DJ-A3UO TCGA-DJ-A3UP TCGA-DJ-A3UQ 
       36.92        31.04        32.42        31.46        16.41        19.56 
TCGA-DJ-A3UR TCGA-DJ-A3US TCGA-DJ-A3UT TCGA-DJ-A3UX TCGA-DJ-A3UY TCGA-DJ-A3UZ 
       36.33        32.81        36.33        11.34        35.87        40.96 
TCGA-DJ-A3V0 TCGA-DJ-A3V2 TCGA-DJ-A3V3 TCGA-DJ-A3V5 TCGA-DJ-A3V7 TCGA-DJ-A3V8 
       36.99        20.22        30.61        19.20        23.21        21.27 
TCGA-DJ-A3V9 TCGA-DJ-A3VA TCGA-DJ-A3VB TCGA-DJ-A3VD TCGA-DJ-A3VE TCGA-DJ-A3VF 
       20.48        24.82        22.92        40.70        18.97         9.60 
TCGA-DJ-A3VG TCGA-DJ-A3VL TCGA-DJ-A3VM TCGA-DJ-A4UL TCGA-DJ-A4UP TCGA-DJ-A4UQ 
       35.67        23.44        27.62        30.87        30.12        33.04 
TCGA-DJ-A4UR TCGA-DJ-A4UT TCGA-DJ-A4UW TCGA-DJ-A4V0 TCGA-DJ-A4V2 TCGA-DJ-A4V4 
       34.78        27.06        26.93        35.54         3.12        15.81 
TCGA-DJ-A4V5 TCGA-DO-A1JZ TCGA-DO-A1K0 TCGA-DO-A2HM TCGA-E3-A3DY TCGA-E3-A3DZ 
       35.38        54.90        21.53         2.33        92.55        47.21 
TCGA-E3-A3E0 TCGA-E3-A3E1 TCGA-E3-A3E2 TCGA-E3-A3E3 TCGA-E8-A242 TCGA-E8-A2EA 
       66.38        80.52        63.19        52.44        31.23        35.67 
TCGA-E8-A2JQ TCGA-E8-A3X7 TCGA-E8-A413 TCGA-E8-A414 TCGA-E8-A415 TCGA-E8-A416 
       11.70        31.27        29.98        31.50        31.04        31.30 
TCGA-E8-A417 TCGA-E8-A419 TCGA-E8-A432 TCGA-E8-A433 TCGA-E8-A434 TCGA-E8-A436 
       30.84        25.45        30.61        31.27        31.33        14.96 
TCGA-E8-A437 TCGA-E8-A438 TCGA-E8-A44K TCGA-E8-A44M TCGA-EL-A3CL TCGA-EL-A3CM 
       39.88        33.50        31.00        30.15        31.66        26.73 
TCGA-EL-A3CN TCGA-EL-A3CO TCGA-EL-A3CP TCGA-EL-A3CT TCGA-EL-A3CU TCGA-EL-A3CV 
      155.54        97.74       158.83        60.95       157.15        37.94 
TCGA-EL-A3CW TCGA-EL-A3CX TCGA-EL-A3CZ TCGA-EL-A3D1 TCGA-EL-A3D4 TCGA-EL-A3D6 
       57.01       106.62        79.50        98.53        69.57       108.36 
TCGA-EL-A3GO TCGA-EL-A3GP TCGA-EL-A3GR TCGA-EL-A3GS TCGA-EL-A3GU TCGA-EL-A3GV 
       64.87        49.51       115.10        65.39       136.01        50.37 
TCGA-EL-A3GW TCGA-EL-A3GX TCGA-EL-A3GY TCGA-EL-A3GZ TCGA-EL-A3H1 TCGA-EL-A3H3 
       50.20       147.75       101.13       139.99        49.32        43.36 
TCGA-EL-A3H4 TCGA-EL-A3H5 TCGA-EL-A3H7 TCGA-EL-A3MW TCGA-EL-A3MX TCGA-EL-A3MZ 
       49.71        83.57       139.00       108.66        57.63        52.50 
TCGA-EL-A3N2 TCGA-EL-A3T0 TCGA-EL-A3T1 TCGA-EL-A3T2 TCGA-EL-A3T3 TCGA-EL-A3T6 
       29.65       142.52       129.57        32.48       132.07        98.24 
TCGA-EL-A3T7 TCGA-EL-A3T8 TCGA-EL-A3T9 TCGA-EL-A3TA TCGA-EL-A3TB TCGA-EL-A3ZG 
       41.29       107.47         5.72        66.90        82.82        89.56 
TCGA-EL-A3ZH TCGA-EL-A3ZK TCGA-EL-A3ZL TCGA-EL-A3ZM TCGA-EL-A3ZN TCGA-EL-A3ZO 
       91.17        51.78        62.30        36.03        53.06        72.69 
TCGA-EL-A3ZP TCGA-EL-A3ZQ TCGA-EL-A3ZR TCGA-EL-A3ZS TCGA-EL-A3ZT TCGA-EL-A4JV 
       65.49        61.22        60.16         7.07        59.44        57.47 
TCGA-EL-A4JW TCGA-EL-A4JX TCGA-EL-A4JZ TCGA-EL-A4K0 TCGA-EL-A4K1 TCGA-EL-A4K2 
       34.72        45.96        61.02        31.04        34.39        30.51 
TCGA-EL-A4K4 TCGA-EL-A4K6 TCGA-EL-A4K7 TCGA-EL-A4K9 TCGA-EL-A4KD TCGA-EL-A4KG 
       53.36        44.15        41.13        47.84        43.59        24.30 
TCGA-EL-A4KH TCGA-EL-A4KI TCGA-EM-A1CS TCGA-EM-A1CT TCGA-EM-A1CU TCGA-EM-A1CV 
       27.06        23.90        26.86        18.18        20.91        48.49 
TCGA-EM-A1CW TCGA-EM-A1YA TCGA-EM-A1YB TCGA-EM-A1YC TCGA-EM-A1YD TCGA-EM-A1YE 
       18.05        19.79        19.46        78.61        57.01        54.08 
TCGA-EM-A22I TCGA-EM-A22J TCGA-EM-A22K TCGA-EM-A22L TCGA-EM-A22M TCGA-EM-A22N 
       14.73        14.50        15.75        10.45        14.53        10.65 
TCGA-EM-A22O TCGA-EM-A22P TCGA-EM-A22Q TCGA-EM-A2CJ TCGA-EM-A2CK TCGA-EM-A2CL 
       44.19        41.29        14.24        47.57        17.88        13.18 
TCGA-EM-A2CN TCGA-EM-A2CO TCGA-EM-A2CP TCGA-EM-A2CQ TCGA-EM-A2CR TCGA-EM-A2CS 
       23.51         6.05         2.99        12.30        13.64        27.65 
TCGA-EM-A2CT TCGA-EM-A2CU TCGA-EM-A2OV TCGA-EM-A2OW TCGA-EM-A2OX TCGA-EM-A2OY 
       48.46        13.15        22.16        40.34        19.73        32.32 
TCGA-EM-A2OZ TCGA-EM-A2P0 TCGA-EM-A2P1 TCGA-EM-A2P2 TCGA-EM-A2P3 TCGA-EM-A3AI 
       33.96        17.59        17.46        17.29        14.60        22.52 
TCGA-EM-A3AJ TCGA-EM-A3AK TCGA-EM-A3AL TCGA-EM-A3AN TCGA-EM-A3AO TCGA-EM-A3AP 
       30.94        15.68        14.14        33.07        44.52         8.35 
TCGA-EM-A3AR TCGA-EM-A3FJ TCGA-EM-A3FK TCGA-EM-A3FL TCGA-EM-A3FM TCGA-EM-A3FN 
       37.25        27.95        23.77        47.38        21.01        12.07 
TCGA-EM-A3FO TCGA-EM-A3FP TCGA-EM-A3FQ TCGA-EM-A3FR TCGA-EM-A3O3 TCGA-EM-A3O6 
       17.49        17.39        16.18        15.02        14.50        15.06 
TCGA-EM-A3O7 TCGA-EM-A3O8 TCGA-EM-A3O9 TCGA-EM-A3OA TCGA-EM-A3OB TCGA-EM-A3ST 
        7.33        12.53         9.24        27.02        38.66        38.86 
TCGA-EM-A3SU TCGA-EM-A3SX TCGA-EM-A3SY TCGA-EM-A3SZ TCGA-EM-A4FF TCGA-EM-A4FH 
       29.95        29.85        13.51        12.79        84.59        29.33 
TCGA-EM-A4FK TCGA-EM-A4FM TCGA-EM-A4FN TCGA-EM-A4FO TCGA-EM-A4FQ TCGA-EM-A4FR 
       21.34         5.33        26.37        26.37        22.45        21.53 
TCGA-EM-A4FU TCGA-EM-A4FV TCGA-EM-A4G1 TCGA-ET-A25G TCGA-ET-A25I TCGA-ET-A25J 
       60.49        24.46        13.68        81.93        81.70        77.56 
TCGA-ET-A25K TCGA-ET-A25O TCGA-ET-A25R TCGA-ET-A2MX TCGA-ET-A2MY TCGA-ET-A2MZ 
       70.42        65.29        63.45        88.41        58.75        37.25 
TCGA-ET-A2N0 TCGA-ET-A2N1 TCGA-ET-A2N3 TCGA-ET-A2N4 TCGA-ET-A2N5 TCGA-ET-A39I 
       52.60        54.35        83.34         2.66        80.88        33.24 
TCGA-ET-A39J TCGA-ET-A39K TCGA-ET-A39L TCGA-ET-A39M TCGA-ET-A39N TCGA-ET-A39O 
      106.09       107.41       108.46        84.89       123.32       100.57 
TCGA-ET-A39P TCGA-ET-A39R TCGA-ET-A39S TCGA-ET-A39T TCGA-ET-A3BN TCGA-ET-A3BP 
       95.34        94.13        55.10        98.20        28.24        79.10 
TCGA-ET-A3BQ TCGA-ET-A3BS TCGA-ET-A3BT TCGA-ET-A3BU TCGA-ET-A3BW TCGA-ET-A3BX 
       76.64         5.79        87.62        77.82        46.65        52.47 
TCGA-ET-A3DO TCGA-ET-A3DP TCGA-ET-A3DQ TCGA-ET-A3DR TCGA-ET-A3DS TCGA-ET-A3DT 
      116.78        94.59        84.85        80.58        66.84        43.73 
TCGA-ET-A3DU TCGA-ET-A3DV TCGA-ET-A3DW TCGA-ET-A40P TCGA-ET-A40Q TCGA-ET-A40R 
       62.83       166.62        24.72        43.99        46.26        44.38 
TCGA-ET-A40S TCGA-ET-A40T TCGA-ET-A4KN TCGA-ET-A4KQ TCGA-FE-A22Z TCGA-FE-A230 
       40.21        37.48        33.17        31.40        73.74        71.44 
TCGA-FE-A231 TCGA-FE-A232 TCGA-FE-A233 TCGA-FE-A234 TCGA-FE-A235 TCGA-FE-A236 
       31.59        79.69        24.69        68.22       117.40        66.77 
TCGA-FE-A237 TCGA-FE-A23A TCGA-FE-A3PA TCGA-FE-A3PB TCGA-FE-A3PC TCGA-FE-A3PD 
      112.80        81.83       106.36        85.15        85.68        78.77 
TCGA-FK-A3S3 TCGA-FK-A3SB TCGA-FK-A3SE TCGA-FK-A3SG TCGA-FK-A3SH TCGA-FK-A4UB 
       71.08         4.11        22.03         0.92        48.10       116.09 
TCGA-FY-A2QD TCGA-FY-A3BL TCGA-FY-A3I4 TCGA-FY-A3I5 TCGA-FY-A3NM TCGA-FY-A3NP 
        1.25        20.42        17.82         7.82        29.10        16.14 
TCGA-FY-A3ON TCGA-FY-A3R6 TCGA-FY-A3R7 TCGA-FY-A3R8 TCGA-FY-A3R9 TCGA-FY-A3RA 
       19.56        13.91        16.27        15.68        16.57        18.08 
TCGA-FY-A3TY TCGA-FY-A3W9 TCGA-FY-A3WA TCGA-FY-A3YR TCGA-FY-A40K TCGA-FY-A40L 
       23.31        21.63        17.06        17.36        15.16        23.87 
TCGA-FY-A40M TCGA-FY-A40N TCGA-FY-A4B0 TCGA-FY-A4B3 TCGA-GE-A2C6 TCGA-H2-A26U 
       22.49        19.04        13.81        14.04        12.53        17.00 
TCGA-H2-A2K9 TCGA-H2-A3RH TCGA-H2-A3RI TCGA-H2-A421 TCGA-H2-A422 TCGA-IM-A3EB 
       21.67        12.46        11.01        20.05        18.61        48.92 
TCGA-IM-A3ED TCGA-IM-A3U2 TCGA-IM-A3U3 TCGA-IM-A41Y TCGA-IM-A41Z TCGA-IM-A420 
       47.41        18.51        16.90        21.83        31.10         8.22 
TCGA-IM-A4EB TCGA-J8-A3O0 TCGA-J8-A3O1 TCGA-J8-A3O2 TCGA-J8-A3YD TCGA-J8-A3YE 
       25.64        43.17        27.19        11.24        31.82        27.85 
TCGA-J8-A3YF TCGA-J8-A3YG TCGA-J8-A3YH TCGA-J8-A42S TCGA-J8-A4HY TCGA-KS-A41F 
       24.69        22.29         5.75         2.47         0.20       143.57 
TCGA-KS-A41I TCGA-KS-A41J TCGA-KS-A41L TCGA-KS-A4I1 TCGA-KS-A4I3 TCGA-KS-A4I5 
       15.98        15.68       113.85        26.70        43.69        18.64 
TCGA-KS-A4I7 TCGA-KS-A4I9 TCGA-KS-A4IB TCGA-KS-A4IC TCGA-KS-A4ID TCGA-L6-A4EP 
       32.45        87.39        84.72        35.28        33.24        33.40 
TCGA-L6-A4EQ TCGA-L6-A4EU TCGA-MK-A4N6 TCGA-MK-A4N7 TCGA-MK-A4N9 TCGA-QD-A8IV 
       40.37         9.50        36.10        32.45        30.21        12.89 

  AKT1 MUTATED AKT1 WILD-TYPE 
          3.02           0.20 
  AKT1 MUTATED AKT1 WILD-TYPE 
         36.43         178.29 
  AKT1 MUTATED AKT1 WILD-TYPE 
         21.60          31.25 
[1] "3.0 - 36.4 (21.6)"  "0.2 - 178.3 (31.2)"
[1] "hr="     "1200000"
D21V2, continuous
                vv
clus             STAGE I STAGE II STAGE III STAGE IV STAGE IVA STAGE IVC
  AKT1 MUTATED         1        1         1        0         2         0
  AKT1 WILD-TYPE     277       49       107        2        44         6
D21V3, multiclass
           clus
vv          AKT1 MUTATED AKT1 WILD-TYPE
  STAGE I              1            277
  STAGE II             1             49
  STAGE III            1            107
  STAGE IV             0              2
  STAGE IVA            2             44
  STAGE IVC            0              6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus              T1  T2  T3  T4
  AKT1 MUTATED     1   1   2   1
  AKT1 WILD-TYPE 140 161 162  22
D21V4, multiclass
    clus
vv   AKT1 MUTATED AKT1 WILD-TYPE
  T1            1            140
  T2            1            161
  T3            2            162
  T4            1             22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D21V5, binary
                cls
clus               0   1
  AKT1 MUTATED     2   3
  AKT1 WILD-TYPE 218 219
[1] "tbl2"
                cls
clus             [,1] [,2]
  AKT1 MUTATED      2    3
  AKT1 WILD-TYPE  218  219
   clus
vv  AKT1 MUTATED AKT1 WILD-TYPE
  0            2            218
  1            3            219
[1] 2 2
[1] FALSE
D21V6, binary
                cls
clus               0   1
  AKT1 MUTATED     4   0
  AKT1 WILD-TYPE 272   9
[1] "tbl2"
                cls
clus             [,1] [,2]
  AKT1 MUTATED      4    0
  AKT1 WILD-TYPE  272    9
   clus
vv  AKT1 MUTATED AKT1 WILD-TYPE
  0            4            272
  1            0              9
[1] 2 2
[1] FALSE
D21V7, binary
                cls
clus               0   1
  AKT1 MUTATED     4   1
  AKT1 WILD-TYPE 358 129
[1] "tbl2"
                cls
clus             [,1] [,2]
  AKT1 MUTATED      4    1
  AKT1 WILD-TYPE  358  129
        clus
vv       AKT1 MUTATED AKT1 WILD-TYPE
  FEMALE            4            358
  MALE              1            129
[1] 2 2
[1] FALSE
D21V8, binary
                cls
clus               0   1
  AKT1 MUTATED     2   3
  AKT1 WILD-TYPE 177 295
[1] "tbl2"
                cls
clus             [,1] [,2]
  AKT1 MUTATED      2    3
  AKT1 WILD-TYPE  177  295
     clus
vv    AKT1 MUTATED AKT1 WILD-TYPE
  NO             2            177
  YES            3            295
[1] 2 2
[1] FALSE
                vv
clus             OTHER, SPECIFY THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  AKT1 MUTATED                1                                             3
  AKT1 WILD-TYPE              6                                           345
                vv
clus             THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  AKT1 MUTATED                                                                        1
  AKT1 WILD-TYPE                                                                    101
                vv
clus             THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  AKT1 MUTATED                                                                     0
  AKT1 WILD-TYPE                                                                  35
D21V9, multiclass
                                                                        clus
vv                                                                       AKT1 MUTATED
  OTHER, SPECIFY                                                                    1
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                     3
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)            1
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)               0
                                                                        clus
vv                                                                       AKT1 WILD-TYPE
  OTHER, SPECIFY                                                                      6
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                     345
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)            101
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D21V10, binary
                cls
clus               0   1
  AKT1 MUTATED     4   0
  AKT1 WILD-TYPE 411  17
[1] "tbl2"
                cls
clus             [,1] [,2]
  AKT1 MUTATED      4    0
  AKT1 WILD-TYPE  411   17
     clus
vv    AKT1 MUTATED AKT1 WILD-TYPE
  NO             4            411
  YES            0             17
[1] 2 2
[1] FALSE
                vv
clus             MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE VERY ADVANCED (T4B)
  AKT1 MUTATED              2                       1    2                   0
  AKT1 WILD-TYPE          128                      17  326                   1
D21V11, multiclass
                         clus
vv                        AKT1 MUTATED AKT1 WILD-TYPE
  MINIMAL (T3)                       2            128
  MODERATE/ADVANCED (T4A)            1             17
  NONE                               2            326
  VERY ADVANCED (T4B)                0              1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus              R0  R1  R2  RX
  AKT1 MUTATED     1   2   0   1
  AKT1 WILD-TYPE 378  49   4  29
D21V12, multiclass
    clus
vv   AKT1 MUTATED AKT1 WILD-TYPE
  R0            1            378
  R1            2             49
  R2            0              4
  RX            1             29
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D21V13, continuous
D21V14, binary
                cls
clus               0   1
  AKT1 MUTATED     2   3
  AKT1 WILD-TYPE 219 259
[1] "tbl2"
                cls
clus             [,1] [,2]
  AKT1 MUTATED      2    3
  AKT1 WILD-TYPE  219  259
            clus
vv           AKT1 MUTATED AKT1 WILD-TYPE
  MULTIFOCAL            2            219
  UNIFOCAL              3            259
[1] 2 2
[1] FALSE
D21V15, continuous
                vv
clus             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AKT1 MUTATED                                  0     0
  AKT1 WILD-TYPE                                1    51
                vv
clus             BLACK OR AFRICAN AMERICAN WHITE
  AKT1 MUTATED                           0     5
  AKT1 WILD-TYPE                        26   317
D21V16, multiclass
                                  clus
vv                                 AKT1 MUTATED AKT1 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE            0              1
  ASIAN                                       0             51
  BLACK OR AFRICAN AMERICAN                   0             26
  WHITE                                       5            317
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D21V17, binary
                cls
clus               0   1
  AKT1 MUTATED     1   4
  AKT1 WILD-TYPE  37 347
[1] "tbl2"
                cls
clus             [,1] [,2]
  AKT1 MUTATED      1    4
  AKT1 WILD-TYPE   37  347
                        clus
vv                       AKT1 MUTATED AKT1 WILD-TYPE
  HISPANIC OR LATINO                1             37
  NOT HISPANIC OR LATINO            4            347
[1] 2 2
[1] FALSE

Clustering(22) Variable = ZNF878 MUTATION ANALYSIS
D22V1, survival
                  sevent
clus2                0   1
  ZNF878 MUTATED     3   0
  ZNF878 WILD-TYPE 474  14
  ZNF878 MUTATED ZNF878 WILD-TYPE 
               3              488 
  ZNF878 MUTATED ZNF878 WILD-TYPE 
               0               14 
$`ZNF878 MUTATED`
TCGA-EL-A3H3 TCGA-EL-A3T0 TCGA-FY-A3NP 
       43.36       142.52        16.14 

$`ZNF878 WILD-TYPE`
TCGA-BJ-A290 TCGA-BJ-A45K TCGA-CE-A13K TCGA-DE-A0XZ TCGA-DJ-A13L TCGA-DJ-A2PR 
       30.21        23.18        12.66        35.84         9.96        27.45 
TCGA-DJ-A3UU TCGA-DJ-A3UW TCGA-DJ-A3V4 TCGA-DJ-A3VI TCGA-DJ-A3VK TCGA-E3-A3E5 
       23.44        59.57        42.54         3.12        24.76        39.95 
TCGA-EL-A3CR TCGA-EL-A3CS TCGA-EL-A3CY TCGA-EL-A3D0 TCGA-EL-A3D5 TCGA-EL-A3GQ 
        7.66        45.53         4.18       139.86        57.11        50.24 
TCGA-EL-A3H2 TCGA-EL-A3H8 TCGA-EL-A3MY TCGA-EL-A3N3 TCGA-EM-A3AQ TCGA-ET-A3BO 
       33.50       150.48        17.52       178.29        29.72        50.40 
TCGA-ET-A3BV TCGA-FK-A3SD TCGA-FY-A76V TCGA-J8-A3NZ TCGA-J8-A4HW TCGA-L6-A4ET 
       75.42         1.05         1.68        17.23         2.60        21.83 
TCGA-MK-A84Z TCGA-4C-A93U TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0Z3 
       23.93         4.24        24.79        13.78        49.78        16.34 
TCGA-BJ-A0Z9 TCGA-BJ-A0ZA TCGA-BJ-A0ZB TCGA-BJ-A0ZC TCGA-BJ-A0ZE TCGA-BJ-A0ZG 
       41.33        18.87         4.01        11.57        16.73        25.48 
TCGA-BJ-A0ZH TCGA-BJ-A0ZJ TCGA-BJ-A18Y TCGA-BJ-A18Z TCGA-BJ-A191 TCGA-BJ-A192 
       15.12        42.08        51.39        41.52         4.83        44.35 
TCGA-BJ-A28R TCGA-BJ-A28S TCGA-BJ-A28T TCGA-BJ-A28V TCGA-BJ-A28X TCGA-BJ-A28Z 
       42.15        21.04        35.54        32.45        30.97        11.08 
TCGA-BJ-A2N7 TCGA-BJ-A2N8 TCGA-BJ-A2N9 TCGA-BJ-A2NA TCGA-BJ-A2P4 TCGA-BJ-A3EZ 
       18.38        16.57        20.48        18.97        12.82        16.01 
TCGA-BJ-A3F0 TCGA-BJ-A3PR TCGA-BJ-A3PT TCGA-BJ-A3PU TCGA-BJ-A45D TCGA-BJ-A45E 
       13.94        36.39        23.31        18.64        10.88        21.01 
TCGA-BJ-A45F TCGA-BJ-A45G TCGA-BJ-A45H TCGA-BJ-A45I TCGA-BJ-A45J TCGA-BJ-A4O8 
        3.45        23.84        28.44        15.45        21.63        19.43 
TCGA-BJ-A4O9 TCGA-CE-A27D TCGA-CE-A3MD TCGA-CE-A3ME TCGA-CE-A481 TCGA-CE-A482 
       23.47        12.30        12.79        12.46        11.38        10.68 
TCGA-CE-A483 TCGA-CE-A484 TCGA-CE-A485 TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DE-A2OL 
       15.02        12.43        12.66        21.63        50.17        37.64 
TCGA-DE-A3KN TCGA-DE-A4M8 TCGA-DE-A4M9 TCGA-DE-A4MA TCGA-DE-A4MB TCGA-DE-A4MC 
       27.32        18.54        18.84        30.12        11.57        30.02 
TCGA-DE-A4MD TCGA-DE-A69J TCGA-DE-A69K TCGA-DE-A7U5 TCGA-DJ-A13M TCGA-DJ-A13O 
       25.12        14.70        14.27         2.76        48.79        38.17 
TCGA-DJ-A13P TCGA-DJ-A13R TCGA-DJ-A13S TCGA-DJ-A13T TCGA-DJ-A13U TCGA-DJ-A13V 
      169.32        18.58         8.71        56.19        52.27        43.17 
TCGA-DJ-A13W TCGA-DJ-A13X TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QG 
       52.37         8.32        48.07       135.91        30.61        44.98 
TCGA-DJ-A1QH TCGA-DJ-A1QI TCGA-DJ-A1QL TCGA-DJ-A1QM TCGA-DJ-A1QN TCGA-DJ-A1QO 
       42.51        14.96        17.59         6.02        42.58        47.41 
TCGA-DJ-A1QQ TCGA-DJ-A2PN TCGA-DJ-A2PO TCGA-DJ-A2PP TCGA-DJ-A2PQ TCGA-DJ-A2PS 
       17.56        10.09         7.99        30.58        35.41        26.20 
TCGA-DJ-A2PT TCGA-DJ-A2PU TCGA-DJ-A2PV TCGA-DJ-A2PW TCGA-DJ-A2PX TCGA-DJ-A2PY 
       38.83        33.96        31.99        34.85        28.96         8.78 
TCGA-DJ-A2PZ TCGA-DJ-A2Q0 TCGA-DJ-A2Q1 TCGA-DJ-A2Q2 TCGA-DJ-A2Q3 TCGA-DJ-A2Q4 
        8.42        34.36        37.74        43.96        40.24        33.93 
TCGA-DJ-A2Q5 TCGA-DJ-A2Q6 TCGA-DJ-A2Q7 TCGA-DJ-A2Q8 TCGA-DJ-A2Q9 TCGA-DJ-A2QA 
       37.48        36.46        35.11        39.09        35.90        33.53 
TCGA-DJ-A2QB TCGA-DJ-A2QC TCGA-DJ-A3UK TCGA-DJ-A3UM TCGA-DJ-A3UN TCGA-DJ-A3UO 
       35.18        39.95        36.92        31.04        32.42        31.46 
TCGA-DJ-A3UP TCGA-DJ-A3UQ TCGA-DJ-A3UR TCGA-DJ-A3US TCGA-DJ-A3UT TCGA-DJ-A3UX 
       16.41        19.56        36.33        32.81        36.33        11.34 
TCGA-DJ-A3UY TCGA-DJ-A3UZ TCGA-DJ-A3V0 TCGA-DJ-A3V2 TCGA-DJ-A3V3 TCGA-DJ-A3V5 
       35.87        40.96        36.99        20.22        30.61        19.20 
TCGA-DJ-A3V7 TCGA-DJ-A3V8 TCGA-DJ-A3V9 TCGA-DJ-A3VA TCGA-DJ-A3VB TCGA-DJ-A3VD 
       23.21        21.27        20.48        24.82        22.92        40.70 
TCGA-DJ-A3VE TCGA-DJ-A3VF TCGA-DJ-A3VG TCGA-DJ-A3VJ TCGA-DJ-A3VL TCGA-DJ-A3VM 
       18.97         9.60        35.67        36.43        23.44        27.62 
TCGA-DJ-A4UL TCGA-DJ-A4UP TCGA-DJ-A4UQ TCGA-DJ-A4UR TCGA-DJ-A4UT TCGA-DJ-A4UW 
       30.87        30.12        33.04        34.78        27.06        26.93 
TCGA-DJ-A4V0 TCGA-DJ-A4V2 TCGA-DJ-A4V4 TCGA-DJ-A4V5 TCGA-DO-A1JZ TCGA-DO-A1K0 
       35.54         3.12        15.81        35.38        54.90        21.53 
TCGA-DO-A2HM TCGA-E3-A3DY TCGA-E3-A3DZ TCGA-E3-A3E0 TCGA-E3-A3E1 TCGA-E3-A3E2 
        2.33        92.55        47.21        66.38        80.52        63.19 
TCGA-E3-A3E3 TCGA-E8-A242 TCGA-E8-A2EA TCGA-E8-A2JQ TCGA-E8-A3X7 TCGA-E8-A413 
       52.44        31.23        35.67        11.70        31.27        29.98 
TCGA-E8-A414 TCGA-E8-A415 TCGA-E8-A416 TCGA-E8-A417 TCGA-E8-A419 TCGA-E8-A432 
       31.50        31.04        31.30        30.84        25.45        30.61 
TCGA-E8-A433 TCGA-E8-A434 TCGA-E8-A436 TCGA-E8-A437 TCGA-E8-A438 TCGA-E8-A44K 
       31.27        31.33        14.96        39.88        33.50        31.00 
TCGA-E8-A44M TCGA-EL-A3CL TCGA-EL-A3CM TCGA-EL-A3CN TCGA-EL-A3CO TCGA-EL-A3CP 
       30.15        31.66        26.73       155.54        97.74       158.83 
TCGA-EL-A3CT TCGA-EL-A3CU TCGA-EL-A3CV TCGA-EL-A3CW TCGA-EL-A3CX TCGA-EL-A3CZ 
       60.95       157.15        37.94        57.01       106.62        79.50 
TCGA-EL-A3D1 TCGA-EL-A3D4 TCGA-EL-A3D6 TCGA-EL-A3GO TCGA-EL-A3GP TCGA-EL-A3GR 
       98.53        69.57       108.36        64.87        49.51       115.10 
TCGA-EL-A3GS TCGA-EL-A3GU TCGA-EL-A3GV TCGA-EL-A3GW TCGA-EL-A3GX TCGA-EL-A3GY 
       65.39       136.01        50.37        50.20       147.75       101.13 
TCGA-EL-A3GZ TCGA-EL-A3H1 TCGA-EL-A3H4 TCGA-EL-A3H5 TCGA-EL-A3H7 TCGA-EL-A3MW 
      139.99        49.32        49.71        83.57       139.00       108.66 
TCGA-EL-A3MX TCGA-EL-A3MZ TCGA-EL-A3N2 TCGA-EL-A3T1 TCGA-EL-A3T2 TCGA-EL-A3T3 
       57.63        52.50        29.65       129.57        32.48       132.07 
TCGA-EL-A3T6 TCGA-EL-A3T7 TCGA-EL-A3T8 TCGA-EL-A3T9 TCGA-EL-A3TA TCGA-EL-A3TB 
       98.24        41.29       107.47         5.72        66.90        82.82 
TCGA-EL-A3ZG TCGA-EL-A3ZH TCGA-EL-A3ZK TCGA-EL-A3ZL TCGA-EL-A3ZM TCGA-EL-A3ZN 
       89.56        91.17        51.78        62.30        36.03        53.06 
TCGA-EL-A3ZO TCGA-EL-A3ZP TCGA-EL-A3ZQ TCGA-EL-A3ZR TCGA-EL-A3ZS TCGA-EL-A3ZT 
       72.69        65.49        61.22        60.16         7.07        59.44 
TCGA-EL-A4JV TCGA-EL-A4JW TCGA-EL-A4JX TCGA-EL-A4JZ TCGA-EL-A4K0 TCGA-EL-A4K1 
       57.47        34.72        45.96        61.02        31.04        34.39 
TCGA-EL-A4K2 TCGA-EL-A4K4 TCGA-EL-A4K6 TCGA-EL-A4K7 TCGA-EL-A4K9 TCGA-EL-A4KD 
       30.51        53.36        44.15        41.13        47.84        43.59 
TCGA-EL-A4KG TCGA-EL-A4KH TCGA-EL-A4KI TCGA-EM-A1CS TCGA-EM-A1CT TCGA-EM-A1CU 
       24.30        27.06        23.90        26.86        18.18        20.91 
TCGA-EM-A1CV TCGA-EM-A1CW TCGA-EM-A1YA TCGA-EM-A1YB TCGA-EM-A1YC TCGA-EM-A1YD 
       48.49        18.05        19.79        19.46        78.61        57.01 
TCGA-EM-A1YE TCGA-EM-A22I TCGA-EM-A22J TCGA-EM-A22K TCGA-EM-A22L TCGA-EM-A22M 
       54.08        14.73        14.50        15.75        10.45        14.53 
TCGA-EM-A22N TCGA-EM-A22O TCGA-EM-A22P TCGA-EM-A22Q TCGA-EM-A2CJ TCGA-EM-A2CK 
       10.65        44.19        41.29        14.24        47.57        17.88 
TCGA-EM-A2CL TCGA-EM-A2CN TCGA-EM-A2CO TCGA-EM-A2CP TCGA-EM-A2CQ TCGA-EM-A2CR 
       13.18        23.51         6.05         2.99        12.30        13.64 
TCGA-EM-A2CS TCGA-EM-A2CT TCGA-EM-A2CU TCGA-EM-A2OV TCGA-EM-A2OW TCGA-EM-A2OX 
       27.65        48.46        13.15        22.16        40.34        19.73 
TCGA-EM-A2OY TCGA-EM-A2OZ TCGA-EM-A2P0 TCGA-EM-A2P1 TCGA-EM-A2P2 TCGA-EM-A2P3 
       32.32        33.96        17.59        17.46        17.29        14.60 
TCGA-EM-A3AI TCGA-EM-A3AJ TCGA-EM-A3AK TCGA-EM-A3AL TCGA-EM-A3AN TCGA-EM-A3AO 
       22.52        30.94        15.68        14.14        33.07        44.52 
TCGA-EM-A3AP TCGA-EM-A3AR TCGA-EM-A3FJ TCGA-EM-A3FK TCGA-EM-A3FL TCGA-EM-A3FM 
        8.35        37.25        27.95        23.77        47.38        21.01 
TCGA-EM-A3FN TCGA-EM-A3FO TCGA-EM-A3FP TCGA-EM-A3FQ TCGA-EM-A3FR TCGA-EM-A3O3 
       12.07        17.49        17.39        16.18        15.02        14.50 
TCGA-EM-A3O6 TCGA-EM-A3O7 TCGA-EM-A3O8 TCGA-EM-A3O9 TCGA-EM-A3OA TCGA-EM-A3OB 
       15.06         7.33        12.53         9.24        27.02        38.66 
TCGA-EM-A3ST TCGA-EM-A3SU TCGA-EM-A3SX TCGA-EM-A3SY TCGA-EM-A3SZ TCGA-EM-A4FF 
       38.86        29.95        29.85        13.51        12.79        84.59 
TCGA-EM-A4FH TCGA-EM-A4FK TCGA-EM-A4FM TCGA-EM-A4FN TCGA-EM-A4FO TCGA-EM-A4FQ 
       29.33        21.34         5.33        26.37        26.37        22.45 
TCGA-EM-A4FR TCGA-EM-A4FU TCGA-EM-A4FV TCGA-EM-A4G1 TCGA-ET-A25G TCGA-ET-A25I 
       21.53        60.49        24.46        13.68        81.93        81.70 
TCGA-ET-A25J TCGA-ET-A25K TCGA-ET-A25O TCGA-ET-A25R TCGA-ET-A2MX TCGA-ET-A2MY 
       77.56        70.42        65.29        63.45        88.41        58.75 
TCGA-ET-A2MZ TCGA-ET-A2N0 TCGA-ET-A2N1 TCGA-ET-A2N3 TCGA-ET-A2N4 TCGA-ET-A2N5 
       37.25        52.60        54.35        83.34         2.66        80.88 
TCGA-ET-A39I TCGA-ET-A39J TCGA-ET-A39K TCGA-ET-A39L TCGA-ET-A39M TCGA-ET-A39N 
       33.24       106.09       107.41       108.46        84.89       123.32 
TCGA-ET-A39O TCGA-ET-A39P TCGA-ET-A39R TCGA-ET-A39S TCGA-ET-A39T TCGA-ET-A3BN 
      100.57        95.34        94.13        55.10        98.20        28.24 
TCGA-ET-A3BP TCGA-ET-A3BQ TCGA-ET-A3BS TCGA-ET-A3BT TCGA-ET-A3BU TCGA-ET-A3BW 
       79.10        76.64         5.79        87.62        77.82        46.65 
TCGA-ET-A3BX TCGA-ET-A3DO TCGA-ET-A3DP TCGA-ET-A3DQ TCGA-ET-A3DR TCGA-ET-A3DS 
       52.47       116.78        94.59        84.85        80.58        66.84 
TCGA-ET-A3DT TCGA-ET-A3DU TCGA-ET-A3DV TCGA-ET-A3DW TCGA-ET-A40P TCGA-ET-A40Q 
       43.73        62.83       166.62        24.72        43.99        46.26 
TCGA-ET-A40R TCGA-ET-A40S TCGA-ET-A40T TCGA-ET-A4KN TCGA-ET-A4KQ TCGA-FE-A22Z 
       44.38        40.21        37.48        33.17        31.40        73.74 
TCGA-FE-A230 TCGA-FE-A231 TCGA-FE-A232 TCGA-FE-A233 TCGA-FE-A234 TCGA-FE-A235 
       71.44        31.59        79.69        24.69        68.22       117.40 
TCGA-FE-A236 TCGA-FE-A237 TCGA-FE-A23A TCGA-FE-A3PA TCGA-FE-A3PB TCGA-FE-A3PC 
       66.77       112.80        81.83       106.36        85.15        85.68 
TCGA-FE-A3PD TCGA-FK-A3S3 TCGA-FK-A3SB TCGA-FK-A3SE TCGA-FK-A3SG TCGA-FK-A3SH 
       78.77        71.08         4.11        22.03         0.92        48.10 
TCGA-FK-A4UB TCGA-FY-A2QD TCGA-FY-A3BL TCGA-FY-A3I4 TCGA-FY-A3I5 TCGA-FY-A3NM 
      116.09         1.25        20.42        17.82         7.82        29.10 
TCGA-FY-A3ON TCGA-FY-A3R6 TCGA-FY-A3R7 TCGA-FY-A3R8 TCGA-FY-A3R9 TCGA-FY-A3RA 
       19.56        13.91        16.27        15.68        16.57        18.08 
TCGA-FY-A3TY TCGA-FY-A3W9 TCGA-FY-A3WA TCGA-FY-A3YR TCGA-FY-A40K TCGA-FY-A40L 
       23.31        21.63        17.06        17.36        15.16        23.87 
TCGA-FY-A40M TCGA-FY-A40N TCGA-FY-A4B0 TCGA-FY-A4B3 TCGA-FY-A4B4 TCGA-GE-A2C6 
       22.49        19.04        13.81        14.04        21.60        12.53 
TCGA-H2-A26U TCGA-H2-A2K9 TCGA-H2-A3RH TCGA-H2-A3RI TCGA-H2-A421 TCGA-H2-A422 
       17.00        21.67        12.46        11.01        20.05        18.61 
TCGA-IM-A3EB TCGA-IM-A3ED TCGA-IM-A3U2 TCGA-IM-A3U3 TCGA-IM-A41Y TCGA-IM-A41Z 
       48.92        47.41        18.51        16.90        21.83        31.10 
TCGA-IM-A420 TCGA-IM-A4EB TCGA-J8-A3O0 TCGA-J8-A3O1 TCGA-J8-A3O2 TCGA-J8-A3YD 
        8.22        25.64        43.17        27.19        11.24        31.82 
TCGA-J8-A3YE TCGA-J8-A3YF TCGA-J8-A3YG TCGA-J8-A3YH TCGA-J8-A42S TCGA-J8-A4HY 
       27.85        24.69        22.29         5.75         2.47         0.20 
TCGA-KS-A41F TCGA-KS-A41I TCGA-KS-A41J TCGA-KS-A41L TCGA-KS-A4I1 TCGA-KS-A4I3 
      143.57        15.98        15.68       113.85        26.70        43.69 
TCGA-KS-A4I5 TCGA-KS-A4I7 TCGA-KS-A4I9 TCGA-KS-A4IB TCGA-KS-A4IC TCGA-KS-A4ID 
       18.64        32.45        87.39        84.72        35.28        33.24 
TCGA-L6-A4EP TCGA-L6-A4EQ TCGA-L6-A4EU TCGA-MK-A4N6 TCGA-MK-A4N7 TCGA-MK-A4N9 
       33.40        40.37         9.50        36.10        32.45        30.21 
TCGA-QD-A8IV TCGA-E8-A418 
       12.89         3.02 

  ZNF878 MUTATED ZNF878 WILD-TYPE 
           16.14             0.20 
  ZNF878 MUTATED ZNF878 WILD-TYPE 
          142.52           178.29 
  ZNF878 MUTATED ZNF878 WILD-TYPE 
           43.36            31.07 
[1] "16.1 - 142.5 (43.4)" "0.2 - 178.3 (31.1)" 
[1] "hr="     "3300000"
D22V2, continuous
                  vv
clus               STAGE I STAGE II STAGE III STAGE IV STAGE IVA STAGE IVC
  ZNF878 MUTATED         2        0         1        0         0         0
  ZNF878 WILD-TYPE     276       50       107        2        46         6
D22V3, multiclass
           clus
vv          ZNF878 MUTATED ZNF878 WILD-TYPE
  STAGE I                2              276
  STAGE II               0               50
  STAGE III              1              107
  STAGE IV               0                2
  STAGE IVA              0               46
  STAGE IVC              0                6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus                T1  T2  T3  T4
  ZNF878 MUTATED     1   1   1   0
  ZNF878 WILD-TYPE 140 161 163  23
D22V4, multiclass
    clus
vv   ZNF878 MUTATED ZNF878 WILD-TYPE
  T1              1              140
  T2              1              161
  T3              1              163
  T4              0               23
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D22V5, binary
                  cls
clus                 0   1
  ZNF878 MUTATED     1   2
  ZNF878 WILD-TYPE 219 220
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ZNF878 MUTATED      1    2
  ZNF878 WILD-TYPE  219  220
   clus
vv  ZNF878 MUTATED ZNF878 WILD-TYPE
  0              1              219
  1              2              220
[1] 2 2
[1] FALSE
D22V6, binary
                  cls
clus                 0   1
  ZNF878 MUTATED     3   0
  ZNF878 WILD-TYPE 273   9
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ZNF878 MUTATED      3    0
  ZNF878 WILD-TYPE  273    9
   clus
vv  ZNF878 MUTATED ZNF878 WILD-TYPE
  0              3              273
  1              0                9
[1] 2 2
[1] FALSE
D22V7, binary
                  cls
clus                 0   1
  ZNF878 MUTATED     2   1
  ZNF878 WILD-TYPE 360 129
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ZNF878 MUTATED      2    1
  ZNF878 WILD-TYPE  360  129
        clus
vv       ZNF878 MUTATED ZNF878 WILD-TYPE
  FEMALE              2              360
  MALE                1              129
[1] 2 2
[1] FALSE
D22V8, binary
                  cls
clus                 0   1
  ZNF878 MUTATED     0   3
  ZNF878 WILD-TYPE 179 295
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ZNF878 MUTATED      0    3
  ZNF878 WILD-TYPE  179  295
     clus
vv    ZNF878 MUTATED ZNF878 WILD-TYPE
  NO               0              179
  YES              3              295
[1] 2 2
[1] FALSE
                  vv
clus               OTHER, SPECIFY THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  ZNF878 MUTATED                0                                             2
  ZNF878 WILD-TYPE              7                                           346
                  vv
clus               THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  ZNF878 MUTATED                                                                        1
  ZNF878 WILD-TYPE                                                                    101
                  vv
clus               THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  ZNF878 MUTATED                                                                     0
  ZNF878 WILD-TYPE                                                                  35
D22V9, multiclass
                                                                        clus
vv                                                                       ZNF878 MUTATED
  OTHER, SPECIFY                                                                      0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                       2
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)              1
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                 0
                                                                        clus
vv                                                                       ZNF878 WILD-TYPE
  OTHER, SPECIFY                                                                        7
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                       346
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)              101
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                  35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D22V10, binary
                  cls
clus                 0   1
  ZNF878 MUTATED     2   0
  ZNF878 WILD-TYPE 413  17
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ZNF878 MUTATED      2    0
  ZNF878 WILD-TYPE  413   17
     clus
vv    ZNF878 MUTATED ZNF878 WILD-TYPE
  NO               2              413
  YES              0               17
[1] 2 2
[1] FALSE
                  vv
clus               MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  ZNF878 MUTATED              1                       0    2
  ZNF878 WILD-TYPE          129                      18  326
                  vv
clus               VERY ADVANCED (T4B)
  ZNF878 MUTATED                     0
  ZNF878 WILD-TYPE                   1
D22V11, multiclass
                         clus
vv                        ZNF878 MUTATED ZNF878 WILD-TYPE
  MINIMAL (T3)                         1              129
  MODERATE/ADVANCED (T4A)              0               18
  NONE                                 2              326
  VERY ADVANCED (T4B)                  0                1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus                R0  R1  R2  RX
  ZNF878 MUTATED     3   0   0   0
  ZNF878 WILD-TYPE 376  51   4  30
D22V12, multiclass
    clus
vv   ZNF878 MUTATED ZNF878 WILD-TYPE
  R0              3              376
  R1              0               51
  R2              0                4
  RX              0               30
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D22V13, continuous
[1] "Remove cluster labels:" "ZNF878 MUTATED"        
clus
  ZNF878 MUTATED ZNF878 WILD-TYPE 
               2              376 
      TCGA-BJ-A290       TCGA-BJ-A45K       TCGA-CE-A13K       TCGA-DE-A0XZ 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DJ-A2PR       TCGA-DJ-A3UU       TCGA-DJ-A3UW       TCGA-DJ-A3V4 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DJ-A3VI       TCGA-DJ-A3VK       TCGA-E3-A3E5       TCGA-EL-A3CR 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EL-A3CS       TCGA-EL-A3CY       TCGA-EL-A3D0       TCGA-EL-A3D5 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EL-A3GQ       TCGA-EL-A3H8       TCGA-EM-A3AQ       TCGA-ET-A3BO 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-ET-A3BV       TCGA-J8-A3NZ       TCGA-J8-A4HW       TCGA-4C-A93U 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-BJ-A0Z0       TCGA-BJ-A0Z3       TCGA-BJ-A0Z9       TCGA-BJ-A0ZA 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-BJ-A0ZB       TCGA-BJ-A0ZH       TCGA-BJ-A0ZJ       TCGA-BJ-A18Y 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-BJ-A18Z       TCGA-BJ-A191       TCGA-BJ-A28R       TCGA-BJ-A28T 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-BJ-A28X       TCGA-BJ-A28Z       TCGA-BJ-A2N8       TCGA-BJ-A2N9 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-BJ-A2NA       TCGA-BJ-A3EZ       TCGA-BJ-A3PR       TCGA-BJ-A3PU 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-BJ-A45D       TCGA-BJ-A45E       TCGA-BJ-A45G       TCGA-BJ-A45I 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-BJ-A45J       TCGA-BJ-A4O8       TCGA-BJ-A4O9       TCGA-CE-A3MD 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-CE-A483       TCGA-CE-A484       TCGA-CE-A485       TCGA-DE-A0Y2 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DE-A0Y3       TCGA-DE-A3KN       TCGA-DE-A4M8       TCGA-DE-A4MA 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DE-A4MB       TCGA-DE-A4MC       TCGA-DE-A4MD       TCGA-DE-A69K 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DE-A7U5       TCGA-DJ-A13M       TCGA-DJ-A13O       TCGA-DJ-A13R 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DJ-A13T       TCGA-DJ-A13V       TCGA-DJ-A13W       TCGA-DJ-A13X 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DJ-A1QG       TCGA-DJ-A1QH       TCGA-DJ-A1QM       TCGA-DJ-A2PO 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DJ-A2PP       TCGA-DJ-A2PQ       TCGA-DJ-A2PS       TCGA-DJ-A2PT 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DJ-A2PU       TCGA-DJ-A2PV       TCGA-DJ-A2PW       TCGA-DJ-A2PX 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DJ-A2PY       TCGA-DJ-A2PZ       TCGA-DJ-A2Q0       TCGA-DJ-A2Q1 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DJ-A2Q2       TCGA-DJ-A2Q3       TCGA-DJ-A2Q4       TCGA-DJ-A2Q5 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DJ-A2Q6       TCGA-DJ-A2Q7       TCGA-DJ-A2Q8       TCGA-DJ-A2Q9 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DJ-A2QA       TCGA-DJ-A2QB       TCGA-DJ-A3UK       TCGA-DJ-A3UM 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DJ-A3UN       TCGA-DJ-A3UO       TCGA-DJ-A3UP       TCGA-DJ-A3UQ 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DJ-A3UR       TCGA-DJ-A3UX       TCGA-DJ-A3UZ       TCGA-DJ-A3V0 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DJ-A3V2       TCGA-DJ-A3V3       TCGA-DJ-A3V5       TCGA-DJ-A3V7 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DJ-A3V8       TCGA-DJ-A3V9       TCGA-DJ-A3VA       TCGA-DJ-A3VB 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DJ-A3VD       TCGA-DJ-A3VF       TCGA-DJ-A3VG       TCGA-DJ-A3VJ 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DJ-A3VL       TCGA-DJ-A4UL       TCGA-DJ-A4UP       TCGA-DJ-A4UQ 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DJ-A4UR       TCGA-DJ-A4UW       TCGA-DJ-A4V2       TCGA-DJ-A4V5 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DO-A1K0       TCGA-DO-A2HM       TCGA-E3-A3DY       TCGA-E3-A3DZ 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-E3-A3E0       TCGA-E3-A3E1       TCGA-E3-A3E2       TCGA-E3-A3E3 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-E8-A242       TCGA-E8-A2EA       TCGA-E8-A2JQ       TCGA-E8-A414 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-E8-A415       TCGA-E8-A417       TCGA-E8-A419       TCGA-E8-A433 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-E8-A436       TCGA-E8-A438       TCGA-E8-A44K       TCGA-EL-A3CM 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EL-A3CN       TCGA-EL-A3CO       TCGA-EL-A3CT       TCGA-EL-A3CU 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EL-A3CV       TCGA-EL-A3CW       TCGA-EL-A3CX       TCGA-EL-A3CZ 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EL-A3D1       TCGA-EL-A3D4       TCGA-EL-A3D6       TCGA-EL-A3GO 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EL-A3GP       TCGA-EL-A3GS       TCGA-EL-A3GU       TCGA-EL-A3GV 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EL-A3GX       TCGA-EL-A3H4       TCGA-EL-A3H5       TCGA-EL-A3H7 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EL-A3MW       TCGA-EL-A3MX       TCGA-EL-A3MZ       TCGA-EL-A3N2 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EL-A3T1       TCGA-EL-A3T2       TCGA-EL-A3TB       TCGA-EL-A3ZH 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EL-A3ZK       TCGA-EL-A3ZL       TCGA-EL-A3ZM       TCGA-EL-A3ZN 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EL-A3ZO       TCGA-EL-A3ZP       TCGA-EL-A3ZS       TCGA-EL-A4JV 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EL-A4JW       TCGA-EL-A4JX       TCGA-EL-A4JZ       TCGA-EL-A4K0 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EL-A4K1       TCGA-EL-A4K2       TCGA-EL-A4K4       TCGA-EL-A4K6 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EL-A4K7       TCGA-EL-A4KD       TCGA-EL-A4KG       TCGA-EL-A4KI 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EM-A1CS       TCGA-EM-A1CT       TCGA-EM-A1CU       TCGA-EM-A1CV 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EM-A1CW       TCGA-EM-A1YC       TCGA-EM-A1YD       TCGA-EM-A1YE 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EM-A22I       TCGA-EM-A22J       TCGA-EM-A22K       TCGA-EM-A22L 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EM-A22M       TCGA-EM-A22N       TCGA-EM-A22O       TCGA-EM-A22P 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EM-A22Q       TCGA-EM-A2CK       TCGA-EM-A2CN       TCGA-EM-A2CP 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EM-A2CQ       TCGA-EM-A2CR       TCGA-EM-A2CS       TCGA-EM-A2CT 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EM-A2CU       TCGA-EM-A2OV       TCGA-EM-A2OX       TCGA-EM-A2OY 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EM-A2OZ       TCGA-EM-A2P0       TCGA-EM-A2P1       TCGA-EM-A2P2 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EM-A3AJ       TCGA-EM-A3AK       TCGA-EM-A3AL       TCGA-EM-A3AN 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EM-A3AO       TCGA-EM-A3AR       TCGA-EM-A3FJ       TCGA-EM-A3FK 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EM-A3FM       TCGA-EM-A3FN       TCGA-EM-A3FO       TCGA-EM-A3FP 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EM-A3FQ       TCGA-EM-A3FR       TCGA-EM-A3O3       TCGA-EM-A3O8 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EM-A3O9       TCGA-EM-A3OA       TCGA-EM-A3OB       TCGA-EM-A3ST 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EM-A3SU       TCGA-EM-A3SX       TCGA-EM-A3SZ       TCGA-EM-A4FF 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EM-A4FM       TCGA-EM-A4FN       TCGA-EM-A4FO       TCGA-EM-A4FQ 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EM-A4FR       TCGA-EM-A4FV       TCGA-EM-A4G1       TCGA-ET-A25G 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-ET-A25I       TCGA-ET-A25J       TCGA-ET-A25K       TCGA-ET-A25O 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-ET-A2MX       TCGA-ET-A2MZ       TCGA-ET-A2N0       TCGA-ET-A2N1 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-ET-A2N4       TCGA-ET-A39K       TCGA-ET-A39L       TCGA-ET-A39O 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-ET-A39P       TCGA-ET-A39R       TCGA-ET-A39S       TCGA-ET-A39T 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-ET-A3BP       TCGA-ET-A3BQ       TCGA-ET-A3BS       TCGA-ET-A3BT 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-ET-A3BU       TCGA-ET-A3BX       TCGA-ET-A3DQ       TCGA-ET-A3DR 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-ET-A3DS       TCGA-ET-A3DT       TCGA-ET-A3DU       TCGA-ET-A3DV 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-ET-A3DW       TCGA-ET-A40P       TCGA-ET-A40Q       TCGA-ET-A40R 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-ET-A40S       TCGA-ET-A40T       TCGA-ET-A4KN       TCGA-FE-A22Z 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-FE-A230       TCGA-FE-A231       TCGA-FE-A232       TCGA-FE-A233 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-FE-A234       TCGA-FE-A235       TCGA-FE-A236       TCGA-FE-A237 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-FE-A23A       TCGA-FE-A3PB       TCGA-FE-A3PC       TCGA-FE-A3PD 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-FK-A3S3       TCGA-FK-A3SB       TCGA-FK-A3SE       TCGA-FK-A3SG 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-FK-A3SH       TCGA-FK-A4UB       TCGA-FY-A2QD       TCGA-FY-A3I4 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-FY-A3I5       TCGA-FY-A3NM       TCGA-FY-A3NN       TCGA-FY-A3ON 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-FY-A3R6       TCGA-FY-A3R7       TCGA-FY-A3R9       TCGA-FY-A3TY 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-FY-A3W9       TCGA-FY-A3YR       TCGA-FY-A40K       TCGA-FY-A40L 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-FY-A40M       TCGA-FY-A40N       TCGA-FY-A4B3       TCGA-FY-A4B4 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-GE-A2C6       TCGA-H2-A26U       TCGA-H2-A2K9       TCGA-H2-A3RH 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-H2-A3RI       TCGA-H2-A421       TCGA-H2-A422       TCGA-IM-A3EB 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-IM-A3ED       TCGA-IM-A3U2       TCGA-IM-A3U3       TCGA-IM-A41Y 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-IM-A41Z       TCGA-IM-A420       TCGA-IM-A4EB       TCGA-J8-A3O0 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-J8-A3O1       TCGA-J8-A3O2       TCGA-J8-A3YD       TCGA-J8-A3YE 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-J8-A3YF       TCGA-J8-A3YG       TCGA-J8-A3YH       TCGA-J8-A42S 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-J8-A4HY       TCGA-KS-A41F       TCGA-KS-A41I       TCGA-KS-A41J 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-KS-A41L       TCGA-KS-A4I1       TCGA-KS-A4I3       TCGA-KS-A4I5 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-KS-A4I7       TCGA-KS-A4I9       TCGA-KS-A4IB       TCGA-KS-A4IC 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-KS-A4ID       TCGA-L6-A4EP       TCGA-L6-A4EQ       TCGA-L6-A4EU 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-MK-A4N6       TCGA-MK-A4N7       TCGA-MK-A4N9       TCGA-QD-A8IV 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
D22V14, binary
                  cls
clus                 0   1
  ZNF878 MUTATED     0   3
  ZNF878 WILD-TYPE 221 259
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ZNF878 MUTATED      0    3
  ZNF878 WILD-TYPE  221  259
            clus
vv           ZNF878 MUTATED ZNF878 WILD-TYPE
  MULTIFOCAL              0              221
  UNIFOCAL                3              259
[1] 2 2
[1] FALSE
D22V15, continuous
[1] "Remove cluster labels:" "ZNF878 MUTATED"        
clus
  ZNF878 MUTATED ZNF878 WILD-TYPE 
               1              392 
      TCGA-BJ-A290       TCGA-BJ-A45K       TCGA-CE-A13K       TCGA-DE-A0XZ 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DJ-A13L       TCGA-DJ-A2PR       TCGA-DJ-A3UU       TCGA-DJ-A3UW 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DJ-A3V4       TCGA-DJ-A3VK       TCGA-EL-A3CR       TCGA-EL-A3CS 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EL-A3CY       TCGA-EL-A3D0       TCGA-EL-A3D5       TCGA-EL-A3GQ 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EL-A3H2       TCGA-EL-A3H8       TCGA-EL-A3MY       TCGA-EL-A3N3 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EM-A3AQ       TCGA-ET-A3BO       TCGA-ET-A3BV       TCGA-FY-A76V 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-L6-A4ET       TCGA-MK-A84Z       TCGA-4C-A93U       TCGA-BJ-A0Z2 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-BJ-A0Z3       TCGA-BJ-A0Z9       TCGA-BJ-A0ZA       TCGA-BJ-A0ZB 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-BJ-A0ZC       TCGA-BJ-A0ZE       TCGA-BJ-A0ZG       TCGA-BJ-A0ZH 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-BJ-A0ZJ       TCGA-BJ-A18Y       TCGA-BJ-A18Z       TCGA-BJ-A191 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-BJ-A192       TCGA-BJ-A28R       TCGA-BJ-A28S       TCGA-BJ-A28T 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-BJ-A28V       TCGA-BJ-A28Z       TCGA-BJ-A2N8       TCGA-BJ-A2N9 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-BJ-A2P4       TCGA-BJ-A3PU       TCGA-BJ-A45D       TCGA-BJ-A45E 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-BJ-A45F       TCGA-BJ-A45G       TCGA-BJ-A45H       TCGA-BJ-A45I 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-BJ-A45J       TCGA-BJ-A4O8       TCGA-BJ-A4O9       TCGA-CE-A27D 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-CE-A3MD       TCGA-CE-A3ME       TCGA-CE-A481       TCGA-CE-A482 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-CE-A483       TCGA-CE-A484       TCGA-CE-A485       TCGA-DE-A0Y2 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DE-A0Y3       TCGA-DE-A2OL       TCGA-DE-A3KN       TCGA-DE-A4M8 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DE-A4M9       TCGA-DE-A4MA       TCGA-DE-A4MB       TCGA-DE-A4MC 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DE-A4MD       TCGA-DE-A69J       TCGA-DE-A69K       TCGA-DE-A7U5 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DJ-A13M       TCGA-DJ-A13O       TCGA-DJ-A13R       TCGA-DJ-A13S 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DJ-A13U       TCGA-DJ-A13V       TCGA-DJ-A13W       TCGA-DJ-A13X 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DJ-A1QD       TCGA-DJ-A1QE       TCGA-DJ-A1QF       TCGA-DJ-A1QG 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DJ-A1QH       TCGA-DJ-A1QI       TCGA-DJ-A1QL       TCGA-DJ-A1QM 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DJ-A1QN       TCGA-DJ-A1QO       TCGA-DJ-A1QQ       TCGA-DJ-A2PN 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DJ-A2PO       TCGA-DJ-A2PP       TCGA-DJ-A2PQ       TCGA-DJ-A2PS 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DJ-A2PT       TCGA-DJ-A2PU       TCGA-DJ-A2PV       TCGA-DJ-A2PW 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DJ-A2PY       TCGA-DJ-A2PZ       TCGA-DJ-A2Q0       TCGA-DJ-A2Q1 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DJ-A2Q2       TCGA-DJ-A2Q3       TCGA-DJ-A2Q4       TCGA-DJ-A2Q5 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DJ-A2Q6       TCGA-DJ-A2Q7       TCGA-DJ-A2Q8       TCGA-DJ-A2Q9 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DJ-A2QA       TCGA-DJ-A2QC       TCGA-DJ-A3UK       TCGA-DJ-A3UM 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DJ-A3UN       TCGA-DJ-A3UO       TCGA-DJ-A3UP       TCGA-DJ-A3UQ 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DJ-A3UR       TCGA-DJ-A3US       TCGA-DJ-A3UT       TCGA-DJ-A3UX 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DJ-A3UY       TCGA-DJ-A3V0       TCGA-DJ-A3V2       TCGA-DJ-A3V3 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DJ-A3V5       TCGA-DJ-A3V7       TCGA-DJ-A3V8       TCGA-DJ-A3VA 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DJ-A3VB       TCGA-DJ-A3VD       TCGA-DJ-A3VE       TCGA-DJ-A3VF 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DJ-A3VG       TCGA-DJ-A3VJ       TCGA-DJ-A3VL       TCGA-DJ-A3VM 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DJ-A4UL       TCGA-DJ-A4UP       TCGA-DJ-A4UQ       TCGA-DJ-A4UT 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DJ-A4V0       TCGA-DJ-A4V2       TCGA-DJ-A4V4       TCGA-DJ-A4V5 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-DO-A1JZ       TCGA-DO-A1K0       TCGA-DO-A2HM       TCGA-E3-A3DY 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-E3-A3DZ       TCGA-E3-A3E0       TCGA-E3-A3E1       TCGA-E3-A3E2 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-E3-A3E3       TCGA-E8-A419       TCGA-EL-A3CN       TCGA-EL-A3CO 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EL-A3CT       TCGA-EL-A3CU       TCGA-EL-A3CV       TCGA-EL-A3CW 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EL-A3CX       TCGA-EL-A3CZ       TCGA-EL-A3D1       TCGA-EL-A3D4 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EL-A3D6       TCGA-EL-A3GO       TCGA-EL-A3GP       TCGA-EL-A3GR 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EL-A3GS       TCGA-EL-A3GU       TCGA-EL-A3GV       TCGA-EL-A3GW 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EL-A3GX       TCGA-EL-A3GY       TCGA-EL-A3GZ       TCGA-EL-A3H4 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EL-A3H5       TCGA-EL-A3H7       TCGA-EL-A3MW       TCGA-EL-A3MX 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EL-A3MZ       TCGA-EL-A3N2       TCGA-EL-A3T1       TCGA-EL-A3T2 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EL-A3T3       TCGA-EL-A3T6       TCGA-EL-A3T7       TCGA-EL-A3T8 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EL-A3T9       TCGA-EL-A3TA       TCGA-EL-A3TB       TCGA-EL-A3ZG 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EL-A3ZH       TCGA-EL-A3ZK       TCGA-EL-A3ZL       TCGA-EL-A3ZM 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EL-A3ZN       TCGA-EL-A3ZO       TCGA-EL-A3ZP       TCGA-EL-A3ZQ 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EL-A3ZR       TCGA-EL-A3ZS       TCGA-EL-A3ZT       TCGA-EL-A4JV 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EL-A4JW       TCGA-EL-A4JX       TCGA-EL-A4JZ       TCGA-EL-A4K0 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EL-A4K1       TCGA-EL-A4K2       TCGA-EL-A4K4       TCGA-EL-A4K6 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EL-A4K7       TCGA-EL-A4K9       TCGA-EL-A4KD       TCGA-EL-A4KG 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EL-A4KH       TCGA-EL-A4KI       TCGA-EM-A1CS       TCGA-EM-A1CT 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EM-A1CU       TCGA-EM-A1CV       TCGA-EM-A1CW       TCGA-EM-A1YA 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EM-A1YB       TCGA-EM-A1YC       TCGA-EM-A1YD       TCGA-EM-A1YE 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EM-A22I       TCGA-EM-A22J       TCGA-EM-A22K       TCGA-EM-A22L 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EM-A22N       TCGA-EM-A22O       TCGA-EM-A22P       TCGA-EM-A22Q 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EM-A2CJ       TCGA-EM-A2CK       TCGA-EM-A2CL       TCGA-EM-A2CN 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EM-A2CO       TCGA-EM-A2CP       TCGA-EM-A2CQ       TCGA-EM-A2CR 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EM-A2CS       TCGA-EM-A2CT       TCGA-EM-A2CU       TCGA-EM-A2OW 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EM-A2OX       TCGA-EM-A2OY       TCGA-EM-A2P0       TCGA-EM-A2P1 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EM-A2P2       TCGA-EM-A2P3       TCGA-EM-A3AI       TCGA-EM-A3AJ 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EM-A3AK       TCGA-EM-A3AL       TCGA-EM-A3AN       TCGA-EM-A3AO 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EM-A3AP       TCGA-EM-A3AR       TCGA-EM-A3FJ       TCGA-EM-A3FM 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EM-A3FN       TCGA-EM-A3FO       TCGA-EM-A3FP       TCGA-EM-A3FR 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EM-A3O3       TCGA-EM-A3O6       TCGA-EM-A3O7       TCGA-EM-A3O8 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EM-A3O9       TCGA-EM-A3OA       TCGA-EM-A3OB       TCGA-EM-A3ST 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EM-A3SU       TCGA-EM-A3SX       TCGA-EM-A3SY       TCGA-EM-A3SZ 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EM-A4FF       TCGA-EM-A4FH       TCGA-EM-A4FK       TCGA-EM-A4FM 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EM-A4FN       TCGA-EM-A4FQ       TCGA-EM-A4FR       TCGA-EM-A4FU 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-EM-A4FV       TCGA-EM-A4G1       TCGA-ET-A25G       TCGA-ET-A25I 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-ET-A25J       TCGA-ET-A25K       TCGA-ET-A25O       TCGA-ET-A25R 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-ET-A2MY       TCGA-ET-A2MZ       TCGA-ET-A2N0       TCGA-ET-A2N5 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-ET-A39J       TCGA-ET-A39M       TCGA-ET-A39N       TCGA-ET-A39O 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-ET-A39P       TCGA-ET-A39T       TCGA-ET-A3BN       TCGA-ET-A3BP 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-ET-A3BQ       TCGA-ET-A3BS       TCGA-ET-A3BT       TCGA-ET-A3BU 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-ET-A3BW       TCGA-ET-A3BX       TCGA-ET-A3DO       TCGA-ET-A3DS 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-ET-A3DT       TCGA-ET-A40P       TCGA-ET-A40Q       TCGA-ET-A40R 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-ET-A40S       TCGA-ET-A4KN       TCGA-ET-A4KQ       TCGA-FE-A22Z 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-FE-A230       TCGA-FE-A232       TCGA-FE-A233       TCGA-FE-A234 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-FE-A235       TCGA-FE-A236       TCGA-FE-A237       TCGA-FE-A23A 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-FE-A3PA       TCGA-FE-A3PB       TCGA-FE-A3PC       TCGA-FE-A3PD 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-FY-A2QD       TCGA-FY-A3I4       TCGA-FY-A3I5       TCGA-FY-A3ON 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-FY-A3R8       TCGA-FY-A3TY       TCGA-FY-A3W9       TCGA-FY-A3YR 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-FY-A40K       TCGA-FY-A40L       TCGA-FY-A40M       TCGA-FY-A40N 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-FY-A4B3       TCGA-GE-A2C6       TCGA-H2-A421       TCGA-IM-A3EB 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-IM-A3ED       TCGA-IM-A3U2       TCGA-IM-A3U3       TCGA-IM-A41Y 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-IM-A41Z       TCGA-IM-A420       TCGA-IM-A4EB       TCGA-J8-A3O0 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-J8-A3YD       TCGA-J8-A3YG       TCGA-KS-A41F       TCGA-KS-A41I 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-KS-A41J       TCGA-KS-A41L       TCGA-KS-A4I3       TCGA-KS-A4I5 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-KS-A4I7       TCGA-KS-A4I9       TCGA-KS-A4IB       TCGA-KS-A4IC 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-KS-A4ID       TCGA-L6-A4EP       TCGA-L6-A4EQ       TCGA-L6-A4EU 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
      TCGA-MK-A4N6       TCGA-MK-A4N7       TCGA-MK-A4N9       TCGA-QD-A8IV 
"ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" "ZNF878 WILD-TYPE" 
                  vv
clus               AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  ZNF878 MUTATED                                  0     0
  ZNF878 WILD-TYPE                                1    51
                  vv
clus               BLACK OR AFRICAN AMERICAN WHITE
  ZNF878 MUTATED                           0     3
  ZNF878 WILD-TYPE                        26   319
D22V16, multiclass
                                  clus
vv                                 ZNF878 MUTATED ZNF878 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE              0                1
  ASIAN                                         0               51
  BLACK OR AFRICAN AMERICAN                     0               26
  WHITE                                         3              319
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D22V17, binary
                  cls
clus                 0   1
  ZNF878 MUTATED     0   3
  ZNF878 WILD-TYPE  38 348
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ZNF878 MUTATED      0    3
  ZNF878 WILD-TYPE   38  348
                        clus
vv                       ZNF878 MUTATED ZNF878 WILD-TYPE
  HISPANIC OR LATINO                  0               38
  NOT HISPANIC OR LATINO              3              348
[1] 2 2
[1] FALSE

Clustering(23) Variable = RBM10 MUTATION ANALYSIS
D23V1, survival
                 sevent
clus2               0   1
  RBM10 MUTATED     4   0
  RBM10 WILD-TYPE 473  14
  RBM10 MUTATED RBM10 WILD-TYPE 
              4             487 
  RBM10 MUTATED RBM10 WILD-TYPE 
              0              14 
$`RBM10 MUTATED`
TCGA-BJ-A28X TCGA-DJ-A3UR TCGA-EM-A3FR TCGA-IM-A3U3 
       30.97        36.33        15.02        16.90 

$`RBM10 WILD-TYPE`
TCGA-BJ-A290 TCGA-BJ-A45K TCGA-CE-A13K TCGA-DE-A0XZ TCGA-DJ-A13L TCGA-DJ-A2PR 
       30.21        23.18        12.66        35.84         9.96        27.45 
TCGA-DJ-A3UU TCGA-DJ-A3UW TCGA-DJ-A3V4 TCGA-DJ-A3VI TCGA-DJ-A3VK TCGA-E3-A3E5 
       23.44        59.57        42.54         3.12        24.76        39.95 
TCGA-EL-A3CR TCGA-EL-A3CS TCGA-EL-A3CY TCGA-EL-A3D0 TCGA-EL-A3D5 TCGA-EL-A3GQ 
        7.66        45.53         4.18       139.86        57.11        50.24 
TCGA-EL-A3H2 TCGA-EL-A3H8 TCGA-EL-A3MY TCGA-EL-A3N3 TCGA-EM-A3AQ TCGA-ET-A3BO 
       33.50       150.48        17.52       178.29        29.72        50.40 
TCGA-ET-A3BV TCGA-FK-A3SD TCGA-FY-A76V TCGA-J8-A3NZ TCGA-J8-A4HW TCGA-L6-A4ET 
       75.42         1.05         1.68        17.23         2.60        21.83 
TCGA-MK-A84Z TCGA-4C-A93U TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0Z3 
       23.93         4.24        24.79        13.78        49.78        16.34 
TCGA-BJ-A0Z9 TCGA-BJ-A0ZA TCGA-BJ-A0ZB TCGA-BJ-A0ZC TCGA-BJ-A0ZE TCGA-BJ-A0ZG 
       41.33        18.87         4.01        11.57        16.73        25.48 
TCGA-BJ-A0ZH TCGA-BJ-A0ZJ TCGA-BJ-A18Y TCGA-BJ-A18Z TCGA-BJ-A191 TCGA-BJ-A192 
       15.12        42.08        51.39        41.52         4.83        44.35 
TCGA-BJ-A28R TCGA-BJ-A28S TCGA-BJ-A28T TCGA-BJ-A28V TCGA-BJ-A28Z TCGA-BJ-A2N7 
       42.15        21.04        35.54        32.45        11.08        18.38 
TCGA-BJ-A2N8 TCGA-BJ-A2N9 TCGA-BJ-A2NA TCGA-BJ-A2P4 TCGA-BJ-A3EZ TCGA-BJ-A3F0 
       16.57        20.48        18.97        12.82        16.01        13.94 
TCGA-BJ-A3PR TCGA-BJ-A3PT TCGA-BJ-A3PU TCGA-BJ-A45D TCGA-BJ-A45E TCGA-BJ-A45F 
       36.39        23.31        18.64        10.88        21.01         3.45 
TCGA-BJ-A45G TCGA-BJ-A45H TCGA-BJ-A45I TCGA-BJ-A45J TCGA-BJ-A4O8 TCGA-BJ-A4O9 
       23.84        28.44        15.45        21.63        19.43        23.47 
TCGA-CE-A27D TCGA-CE-A3MD TCGA-CE-A3ME TCGA-CE-A481 TCGA-CE-A482 TCGA-CE-A483 
       12.30        12.79        12.46        11.38        10.68        15.02 
TCGA-CE-A484 TCGA-CE-A485 TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DE-A2OL TCGA-DE-A3KN 
       12.43        12.66        21.63        50.17        37.64        27.32 
TCGA-DE-A4M8 TCGA-DE-A4M9 TCGA-DE-A4MA TCGA-DE-A4MB TCGA-DE-A4MC TCGA-DE-A4MD 
       18.54        18.84        30.12        11.57        30.02        25.12 
TCGA-DE-A69J TCGA-DE-A69K TCGA-DE-A7U5 TCGA-DJ-A13M TCGA-DJ-A13O TCGA-DJ-A13P 
       14.70        14.27         2.76        48.79        38.17       169.32 
TCGA-DJ-A13R TCGA-DJ-A13S TCGA-DJ-A13T TCGA-DJ-A13U TCGA-DJ-A13V TCGA-DJ-A13W 
       18.58         8.71        56.19        52.27        43.17        52.37 
TCGA-DJ-A13X TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QG TCGA-DJ-A1QH 
        8.32        48.07       135.91        30.61        44.98        42.51 
TCGA-DJ-A1QI TCGA-DJ-A1QL TCGA-DJ-A1QM TCGA-DJ-A1QN TCGA-DJ-A1QO TCGA-DJ-A1QQ 
       14.96        17.59         6.02        42.58        47.41        17.56 
TCGA-DJ-A2PN TCGA-DJ-A2PO TCGA-DJ-A2PP TCGA-DJ-A2PQ TCGA-DJ-A2PS TCGA-DJ-A2PT 
       10.09         7.99        30.58        35.41        26.20        38.83 
TCGA-DJ-A2PU TCGA-DJ-A2PV TCGA-DJ-A2PW TCGA-DJ-A2PX TCGA-DJ-A2PY TCGA-DJ-A2PZ 
       33.96        31.99        34.85        28.96         8.78         8.42 
TCGA-DJ-A2Q0 TCGA-DJ-A2Q1 TCGA-DJ-A2Q2 TCGA-DJ-A2Q3 TCGA-DJ-A2Q4 TCGA-DJ-A2Q5 
       34.36        37.74        43.96        40.24        33.93        37.48 
TCGA-DJ-A2Q6 TCGA-DJ-A2Q7 TCGA-DJ-A2Q8 TCGA-DJ-A2Q9 TCGA-DJ-A2QA TCGA-DJ-A2QB 
       36.46        35.11        39.09        35.90        33.53        35.18 
TCGA-DJ-A2QC TCGA-DJ-A3UK TCGA-DJ-A3UM TCGA-DJ-A3UN TCGA-DJ-A3UO TCGA-DJ-A3UP 
       39.95        36.92        31.04        32.42        31.46        16.41 
TCGA-DJ-A3UQ TCGA-DJ-A3US TCGA-DJ-A3UT TCGA-DJ-A3UX TCGA-DJ-A3UY TCGA-DJ-A3UZ 
       19.56        32.81        36.33        11.34        35.87        40.96 
TCGA-DJ-A3V0 TCGA-DJ-A3V2 TCGA-DJ-A3V3 TCGA-DJ-A3V5 TCGA-DJ-A3V7 TCGA-DJ-A3V8 
       36.99        20.22        30.61        19.20        23.21        21.27 
TCGA-DJ-A3V9 TCGA-DJ-A3VA TCGA-DJ-A3VB TCGA-DJ-A3VD TCGA-DJ-A3VE TCGA-DJ-A3VF 
       20.48        24.82        22.92        40.70        18.97         9.60 
TCGA-DJ-A3VG TCGA-DJ-A3VJ TCGA-DJ-A3VL TCGA-DJ-A3VM TCGA-DJ-A4UL TCGA-DJ-A4UP 
       35.67        36.43        23.44        27.62        30.87        30.12 
TCGA-DJ-A4UQ TCGA-DJ-A4UR TCGA-DJ-A4UT TCGA-DJ-A4UW TCGA-DJ-A4V0 TCGA-DJ-A4V2 
       33.04        34.78        27.06        26.93        35.54         3.12 
TCGA-DJ-A4V4 TCGA-DJ-A4V5 TCGA-DO-A1JZ TCGA-DO-A1K0 TCGA-DO-A2HM TCGA-E3-A3DY 
       15.81        35.38        54.90        21.53         2.33        92.55 
TCGA-E3-A3DZ TCGA-E3-A3E0 TCGA-E3-A3E1 TCGA-E3-A3E2 TCGA-E3-A3E3 TCGA-E8-A242 
       47.21        66.38        80.52        63.19        52.44        31.23 
TCGA-E8-A2EA TCGA-E8-A2JQ TCGA-E8-A3X7 TCGA-E8-A413 TCGA-E8-A414 TCGA-E8-A415 
       35.67        11.70        31.27        29.98        31.50        31.04 
TCGA-E8-A416 TCGA-E8-A417 TCGA-E8-A419 TCGA-E8-A432 TCGA-E8-A433 TCGA-E8-A434 
       31.30        30.84        25.45        30.61        31.27        31.33 
TCGA-E8-A436 TCGA-E8-A437 TCGA-E8-A438 TCGA-E8-A44K TCGA-E8-A44M TCGA-EL-A3CL 
       14.96        39.88        33.50        31.00        30.15        31.66 
TCGA-EL-A3CM TCGA-EL-A3CN TCGA-EL-A3CO TCGA-EL-A3CP TCGA-EL-A3CT TCGA-EL-A3CU 
       26.73       155.54        97.74       158.83        60.95       157.15 
TCGA-EL-A3CV TCGA-EL-A3CW TCGA-EL-A3CX TCGA-EL-A3CZ TCGA-EL-A3D1 TCGA-EL-A3D4 
       37.94        57.01       106.62        79.50        98.53        69.57 
TCGA-EL-A3D6 TCGA-EL-A3GO TCGA-EL-A3GP TCGA-EL-A3GR TCGA-EL-A3GS TCGA-EL-A3GU 
      108.36        64.87        49.51       115.10        65.39       136.01 
TCGA-EL-A3GV TCGA-EL-A3GW TCGA-EL-A3GX TCGA-EL-A3GY TCGA-EL-A3GZ TCGA-EL-A3H1 
       50.37        50.20       147.75       101.13       139.99        49.32 
TCGA-EL-A3H3 TCGA-EL-A3H4 TCGA-EL-A3H5 TCGA-EL-A3H7 TCGA-EL-A3MW TCGA-EL-A3MX 
       43.36        49.71        83.57       139.00       108.66        57.63 
TCGA-EL-A3MZ TCGA-EL-A3N2 TCGA-EL-A3T0 TCGA-EL-A3T1 TCGA-EL-A3T2 TCGA-EL-A3T3 
       52.50        29.65       142.52       129.57        32.48       132.07 
TCGA-EL-A3T6 TCGA-EL-A3T7 TCGA-EL-A3T8 TCGA-EL-A3T9 TCGA-EL-A3TA TCGA-EL-A3TB 
       98.24        41.29       107.47         5.72        66.90        82.82 
TCGA-EL-A3ZG TCGA-EL-A3ZH TCGA-EL-A3ZK TCGA-EL-A3ZL TCGA-EL-A3ZM TCGA-EL-A3ZN 
       89.56        91.17        51.78        62.30        36.03        53.06 
TCGA-EL-A3ZO TCGA-EL-A3ZP TCGA-EL-A3ZQ TCGA-EL-A3ZR TCGA-EL-A3ZS TCGA-EL-A3ZT 
       72.69        65.49        61.22        60.16         7.07        59.44 
TCGA-EL-A4JV TCGA-EL-A4JW TCGA-EL-A4JX TCGA-EL-A4JZ TCGA-EL-A4K0 TCGA-EL-A4K1 
       57.47        34.72        45.96        61.02        31.04        34.39 
TCGA-EL-A4K2 TCGA-EL-A4K4 TCGA-EL-A4K6 TCGA-EL-A4K7 TCGA-EL-A4K9 TCGA-EL-A4KD 
       30.51        53.36        44.15        41.13        47.84        43.59 
TCGA-EL-A4KG TCGA-EL-A4KH TCGA-EL-A4KI TCGA-EM-A1CS TCGA-EM-A1CT TCGA-EM-A1CU 
       24.30        27.06        23.90        26.86        18.18        20.91 
TCGA-EM-A1CV TCGA-EM-A1CW TCGA-EM-A1YA TCGA-EM-A1YB TCGA-EM-A1YC TCGA-EM-A1YD 
       48.49        18.05        19.79        19.46        78.61        57.01 
TCGA-EM-A1YE TCGA-EM-A22I TCGA-EM-A22J TCGA-EM-A22K TCGA-EM-A22L TCGA-EM-A22M 
       54.08        14.73        14.50        15.75        10.45        14.53 
TCGA-EM-A22N TCGA-EM-A22O TCGA-EM-A22P TCGA-EM-A22Q TCGA-EM-A2CJ TCGA-EM-A2CK 
       10.65        44.19        41.29        14.24        47.57        17.88 
TCGA-EM-A2CL TCGA-EM-A2CN TCGA-EM-A2CO TCGA-EM-A2CP TCGA-EM-A2CQ TCGA-EM-A2CR 
       13.18        23.51         6.05         2.99        12.30        13.64 
TCGA-EM-A2CS TCGA-EM-A2CT TCGA-EM-A2CU TCGA-EM-A2OV TCGA-EM-A2OW TCGA-EM-A2OX 
       27.65        48.46        13.15        22.16        40.34        19.73 
TCGA-EM-A2OY TCGA-EM-A2OZ TCGA-EM-A2P0 TCGA-EM-A2P1 TCGA-EM-A2P2 TCGA-EM-A2P3 
       32.32        33.96        17.59        17.46        17.29        14.60 
TCGA-EM-A3AI TCGA-EM-A3AJ TCGA-EM-A3AK TCGA-EM-A3AL TCGA-EM-A3AN TCGA-EM-A3AO 
       22.52        30.94        15.68        14.14        33.07        44.52 
TCGA-EM-A3AP TCGA-EM-A3AR TCGA-EM-A3FJ TCGA-EM-A3FK TCGA-EM-A3FL TCGA-EM-A3FM 
        8.35        37.25        27.95        23.77        47.38        21.01 
TCGA-EM-A3FN TCGA-EM-A3FO TCGA-EM-A3FP TCGA-EM-A3FQ TCGA-EM-A3O3 TCGA-EM-A3O6 
       12.07        17.49        17.39        16.18        14.50        15.06 
TCGA-EM-A3O7 TCGA-EM-A3O8 TCGA-EM-A3O9 TCGA-EM-A3OA TCGA-EM-A3OB TCGA-EM-A3ST 
        7.33        12.53         9.24        27.02        38.66        38.86 
TCGA-EM-A3SU TCGA-EM-A3SX TCGA-EM-A3SY TCGA-EM-A3SZ TCGA-EM-A4FF TCGA-EM-A4FH 
       29.95        29.85        13.51        12.79        84.59        29.33 
TCGA-EM-A4FK TCGA-EM-A4FM TCGA-EM-A4FN TCGA-EM-A4FO TCGA-EM-A4FQ TCGA-EM-A4FR 
       21.34         5.33        26.37        26.37        22.45        21.53 
TCGA-EM-A4FU TCGA-EM-A4FV TCGA-EM-A4G1 TCGA-ET-A25G TCGA-ET-A25I TCGA-ET-A25J 
       60.49        24.46        13.68        81.93        81.70        77.56 
TCGA-ET-A25K TCGA-ET-A25O TCGA-ET-A25R TCGA-ET-A2MX TCGA-ET-A2MY TCGA-ET-A2MZ 
       70.42        65.29        63.45        88.41        58.75        37.25 
TCGA-ET-A2N0 TCGA-ET-A2N1 TCGA-ET-A2N3 TCGA-ET-A2N4 TCGA-ET-A2N5 TCGA-ET-A39I 
       52.60        54.35        83.34         2.66        80.88        33.24 
TCGA-ET-A39J TCGA-ET-A39K TCGA-ET-A39L TCGA-ET-A39M TCGA-ET-A39N TCGA-ET-A39O 
      106.09       107.41       108.46        84.89       123.32       100.57 
TCGA-ET-A39P TCGA-ET-A39R TCGA-ET-A39S TCGA-ET-A39T TCGA-ET-A3BN TCGA-ET-A3BP 
       95.34        94.13        55.10        98.20        28.24        79.10 
TCGA-ET-A3BQ TCGA-ET-A3BS TCGA-ET-A3BT TCGA-ET-A3BU TCGA-ET-A3BW TCGA-ET-A3BX 
       76.64         5.79        87.62        77.82        46.65        52.47 
TCGA-ET-A3DO TCGA-ET-A3DP TCGA-ET-A3DQ TCGA-ET-A3DR TCGA-ET-A3DS TCGA-ET-A3DT 
      116.78        94.59        84.85        80.58        66.84        43.73 
TCGA-ET-A3DU TCGA-ET-A3DV TCGA-ET-A3DW TCGA-ET-A40P TCGA-ET-A40Q TCGA-ET-A40R 
       62.83       166.62        24.72        43.99        46.26        44.38 
TCGA-ET-A40S TCGA-ET-A40T TCGA-ET-A4KN TCGA-ET-A4KQ TCGA-FE-A22Z TCGA-FE-A230 
       40.21        37.48        33.17        31.40        73.74        71.44 
TCGA-FE-A231 TCGA-FE-A232 TCGA-FE-A233 TCGA-FE-A234 TCGA-FE-A235 TCGA-FE-A236 
       31.59        79.69        24.69        68.22       117.40        66.77 
TCGA-FE-A237 TCGA-FE-A23A TCGA-FE-A3PA TCGA-FE-A3PB TCGA-FE-A3PC TCGA-FE-A3PD 
      112.80        81.83       106.36        85.15        85.68        78.77 
TCGA-FK-A3S3 TCGA-FK-A3SB TCGA-FK-A3SE TCGA-FK-A3SG TCGA-FK-A3SH TCGA-FK-A4UB 
       71.08         4.11        22.03         0.92        48.10       116.09 
TCGA-FY-A2QD TCGA-FY-A3BL TCGA-FY-A3I4 TCGA-FY-A3I5 TCGA-FY-A3NM TCGA-FY-A3NP 
        1.25        20.42        17.82         7.82        29.10        16.14 
TCGA-FY-A3ON TCGA-FY-A3R6 TCGA-FY-A3R7 TCGA-FY-A3R8 TCGA-FY-A3R9 TCGA-FY-A3RA 
       19.56        13.91        16.27        15.68        16.57        18.08 
TCGA-FY-A3TY TCGA-FY-A3W9 TCGA-FY-A3WA TCGA-FY-A3YR TCGA-FY-A40K TCGA-FY-A40L 
       23.31        21.63        17.06        17.36        15.16        23.87 
TCGA-FY-A40M TCGA-FY-A40N TCGA-FY-A4B0 TCGA-FY-A4B3 TCGA-FY-A4B4 TCGA-GE-A2C6 
       22.49        19.04        13.81        14.04        21.60        12.53 
TCGA-H2-A26U TCGA-H2-A2K9 TCGA-H2-A3RH TCGA-H2-A3RI TCGA-H2-A421 TCGA-H2-A422 
       17.00        21.67        12.46        11.01        20.05        18.61 
TCGA-IM-A3EB TCGA-IM-A3ED TCGA-IM-A3U2 TCGA-IM-A41Y TCGA-IM-A41Z TCGA-IM-A420 
       48.92        47.41        18.51        21.83        31.10         8.22 
TCGA-IM-A4EB TCGA-J8-A3O0 TCGA-J8-A3O1 TCGA-J8-A3O2 TCGA-J8-A3YD TCGA-J8-A3YE 
       25.64        43.17        27.19        11.24        31.82        27.85 
TCGA-J8-A3YF TCGA-J8-A3YG TCGA-J8-A3YH TCGA-J8-A42S TCGA-J8-A4HY TCGA-KS-A41F 
       24.69        22.29         5.75         2.47         0.20       143.57 
TCGA-KS-A41I TCGA-KS-A41J TCGA-KS-A41L TCGA-KS-A4I1 TCGA-KS-A4I3 TCGA-KS-A4I5 
       15.98        15.68       113.85        26.70        43.69        18.64 
TCGA-KS-A4I7 TCGA-KS-A4I9 TCGA-KS-A4IB TCGA-KS-A4IC TCGA-KS-A4ID TCGA-L6-A4EP 
       32.45        87.39        84.72        35.28        33.24        33.40 
TCGA-L6-A4EQ TCGA-L6-A4EU TCGA-MK-A4N6 TCGA-MK-A4N7 TCGA-MK-A4N9 TCGA-QD-A8IV 
       40.37         9.50        36.10        32.45        30.21        12.89 
TCGA-E8-A418 
        3.02 

  RBM10 MUTATED RBM10 WILD-TYPE 
          15.02            0.20 
  RBM10 MUTATED RBM10 WILD-TYPE 
          36.33          178.29 
  RBM10 MUTATED RBM10 WILD-TYPE 
         23.935          31.230 
[1] "15.0 - 36.3 (23.9)" "0.2 - 178.3 (31.2)"
[1] "hr="     "1200000"
D23V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV STAGE IVA STAGE IVC
  RBM10 MUTATED         2        0         2        0         0         0
  RBM10 WILD-TYPE     276       50       106        2        46         6
D23V3, multiclass
           clus
vv          RBM10 MUTATED RBM10 WILD-TYPE
  STAGE I               2             276
  STAGE II              0              50
  STAGE III             2             106
  STAGE IV              0               2
  STAGE IVA             0              46
  STAGE IVC             0               6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus               T1  T2  T3  T4
  RBM10 MUTATED     1   1   2   0
  RBM10 WILD-TYPE 140 161 162  23
D23V4, multiclass
    clus
vv   RBM10 MUTATED RBM10 WILD-TYPE
  T1             1             140
  T2             1             161
  T3             2             162
  T4             0              23
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D23V5, binary
                 cls
clus                0   1
  RBM10 MUTATED     1   3
  RBM10 WILD-TYPE 219 219
[1] "tbl2"
                 cls
clus              [,1] [,2]
  RBM10 MUTATED      1    3
  RBM10 WILD-TYPE  219  219
   clus
vv  RBM10 MUTATED RBM10 WILD-TYPE
  0             1             219
  1             3             219
[1] 2 2
[1] FALSE
D23V6, binary
                 cls
clus                0   1
  RBM10 MUTATED     2   0
  RBM10 WILD-TYPE 274   9
[1] "tbl2"
                 cls
clus              [,1] [,2]
  RBM10 MUTATED      2    0
  RBM10 WILD-TYPE  274    9
   clus
vv  RBM10 MUTATED RBM10 WILD-TYPE
  0             2             274
  1             0               9
[1] 2 2
[1] FALSE
D23V7, binary
                 cls
clus                0   1
  RBM10 MUTATED     4   0
  RBM10 WILD-TYPE 358 130
[1] "tbl2"
                 cls
clus              [,1] [,2]
  RBM10 MUTATED      4    0
  RBM10 WILD-TYPE  358  130
        clus
vv       RBM10 MUTATED RBM10 WILD-TYPE
  FEMALE             4             358
  MALE               0             130
[1] 2 2
[1] FALSE
D23V8, binary
                 cls
clus                0   1
  RBM10 MUTATED     1   3
  RBM10 WILD-TYPE 178 295
[1] "tbl2"
                 cls
clus              [,1] [,2]
  RBM10 MUTATED      1    3
  RBM10 WILD-TYPE  178  295
     clus
vv    RBM10 MUTATED RBM10 WILD-TYPE
  NO              1             178
  YES             3             295
[1] 2 2
[1] FALSE
                 vv
clus              OTHER, SPECIFY THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  RBM10 MUTATED                0                                             1
  RBM10 WILD-TYPE              7                                           347
                 vv
clus              THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  RBM10 MUTATED                                                                        1
  RBM10 WILD-TYPE                                                                    101
                 vv
clus              THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  RBM10 MUTATED                                                                     2
  RBM10 WILD-TYPE                                                                  33
D23V9, multiclass
                                                                        clus
vv                                                                       RBM10 MUTATED
  OTHER, SPECIFY                                                                     0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                      1
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)             1
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                2
                                                                        clus
vv                                                                       RBM10 WILD-TYPE
  OTHER, SPECIFY                                                                       7
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                      347
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)             101
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                 33
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D23V10, binary
                 cls
clus                0   1
  RBM10 MUTATED     4   0
  RBM10 WILD-TYPE 411  17
[1] "tbl2"
                 cls
clus              [,1] [,2]
  RBM10 MUTATED      4    0
  RBM10 WILD-TYPE  411   17
     clus
vv    RBM10 MUTATED RBM10 WILD-TYPE
  NO              4             411
  YES             0              17
[1] 2 2
[1] FALSE
                 vv
clus              MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE VERY ADVANCED (T4B)
  RBM10 MUTATED              2                       0    2                   0
  RBM10 WILD-TYPE          128                      18  326                   1
D23V11, multiclass
                         clus
vv                        RBM10 MUTATED RBM10 WILD-TYPE
  MINIMAL (T3)                        2             128
  MODERATE/ADVANCED (T4A)             0              18
  NONE                                2             326
  VERY ADVANCED (T4B)                 0               1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus               R0  R1  R2  RX
  RBM10 MUTATED     3   0   0   1
  RBM10 WILD-TYPE 376  51   4  29
D23V12, multiclass
    clus
vv   RBM10 MUTATED RBM10 WILD-TYPE
  R0             3             376
  R1             0              51
  R2             0               4
  RX             1              29
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D23V13, continuous
D23V14, binary
                 cls
clus                0   1
  RBM10 MUTATED     4   0
  RBM10 WILD-TYPE 217 262
[1] "tbl2"
                 cls
clus              [,1] [,2]
  RBM10 MUTATED      4    0
  RBM10 WILD-TYPE  217  262
            clus
vv           RBM10 MUTATED RBM10 WILD-TYPE
  MULTIFOCAL             4             217
  UNIFOCAL               0             262
[1] 2 2
[1] FALSE
D23V15, continuous
                 vv
clus              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  RBM10 MUTATED                                  0     0
  RBM10 WILD-TYPE                                1    51
                 vv
clus              BLACK OR AFRICAN AMERICAN WHITE
  RBM10 MUTATED                           0     3
  RBM10 WILD-TYPE                        26   319
D23V16, multiclass
                                  clus
vv                                 RBM10 MUTATED RBM10 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE             0               1
  ASIAN                                        0              51
  BLACK OR AFRICAN AMERICAN                    0              26
  WHITE                                        3             319
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D23V17, binary
                 cls
clus                0   1
  RBM10 MUTATED     1   2
  RBM10 WILD-TYPE  37 349
[1] "tbl2"
                 cls
clus              [,1] [,2]
  RBM10 MUTATED      1    2
  RBM10 WILD-TYPE   37  349
                        clus
vv                       RBM10 MUTATED RBM10 WILD-TYPE
  HISPANIC OR LATINO                 1              37
  NOT HISPANIC OR LATINO             2             349
[1] 2 2
[1] FALSE

Clustering(24) Variable = EP400 MUTATION ANALYSIS
D24V1, survival
                 sevent
clus2               0   1
  EP400 MUTATED     3   0
  EP400 WILD-TYPE 474  14
  EP400 MUTATED EP400 WILD-TYPE 
              3             488 
  EP400 MUTATED EP400 WILD-TYPE 
              0              14 
$`EP400 MUTATED`
TCGA-EL-A3ZP TCGA-EM-A3SZ TCGA-FY-A3YR 
       65.49        12.79        17.36 

$`EP400 WILD-TYPE`
TCGA-BJ-A290 TCGA-BJ-A45K TCGA-CE-A13K TCGA-DE-A0XZ TCGA-DJ-A13L TCGA-DJ-A2PR 
       30.21        23.18        12.66        35.84         9.96        27.45 
TCGA-DJ-A3UU TCGA-DJ-A3UW TCGA-DJ-A3V4 TCGA-DJ-A3VI TCGA-DJ-A3VK TCGA-E3-A3E5 
       23.44        59.57        42.54         3.12        24.76        39.95 
TCGA-EL-A3CR TCGA-EL-A3CS TCGA-EL-A3CY TCGA-EL-A3D0 TCGA-EL-A3D5 TCGA-EL-A3GQ 
        7.66        45.53         4.18       139.86        57.11        50.24 
TCGA-EL-A3H2 TCGA-EL-A3H8 TCGA-EL-A3MY TCGA-EL-A3N3 TCGA-EM-A3AQ TCGA-ET-A3BO 
       33.50       150.48        17.52       178.29        29.72        50.40 
TCGA-ET-A3BV TCGA-FK-A3SD TCGA-FY-A76V TCGA-J8-A3NZ TCGA-J8-A4HW TCGA-L6-A4ET 
       75.42         1.05         1.68        17.23         2.60        21.83 
TCGA-MK-A84Z TCGA-4C-A93U TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0Z3 
       23.93         4.24        24.79        13.78        49.78        16.34 
TCGA-BJ-A0Z9 TCGA-BJ-A0ZA TCGA-BJ-A0ZB TCGA-BJ-A0ZC TCGA-BJ-A0ZE TCGA-BJ-A0ZG 
       41.33        18.87         4.01        11.57        16.73        25.48 
TCGA-BJ-A0ZH TCGA-BJ-A0ZJ TCGA-BJ-A18Y TCGA-BJ-A18Z TCGA-BJ-A191 TCGA-BJ-A192 
       15.12        42.08        51.39        41.52         4.83        44.35 
TCGA-BJ-A28R TCGA-BJ-A28S TCGA-BJ-A28T TCGA-BJ-A28V TCGA-BJ-A28X TCGA-BJ-A28Z 
       42.15        21.04        35.54        32.45        30.97        11.08 
TCGA-BJ-A2N7 TCGA-BJ-A2N8 TCGA-BJ-A2N9 TCGA-BJ-A2NA TCGA-BJ-A2P4 TCGA-BJ-A3EZ 
       18.38        16.57        20.48        18.97        12.82        16.01 
TCGA-BJ-A3F0 TCGA-BJ-A3PR TCGA-BJ-A3PT TCGA-BJ-A3PU TCGA-BJ-A45D TCGA-BJ-A45E 
       13.94        36.39        23.31        18.64        10.88        21.01 
TCGA-BJ-A45F TCGA-BJ-A45G TCGA-BJ-A45H TCGA-BJ-A45I TCGA-BJ-A45J TCGA-BJ-A4O8 
        3.45        23.84        28.44        15.45        21.63        19.43 
TCGA-BJ-A4O9 TCGA-CE-A27D TCGA-CE-A3MD TCGA-CE-A3ME TCGA-CE-A481 TCGA-CE-A482 
       23.47        12.30        12.79        12.46        11.38        10.68 
TCGA-CE-A483 TCGA-CE-A484 TCGA-CE-A485 TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DE-A2OL 
       15.02        12.43        12.66        21.63        50.17        37.64 
TCGA-DE-A3KN TCGA-DE-A4M8 TCGA-DE-A4M9 TCGA-DE-A4MA TCGA-DE-A4MB TCGA-DE-A4MC 
       27.32        18.54        18.84        30.12        11.57        30.02 
TCGA-DE-A4MD TCGA-DE-A69J TCGA-DE-A69K TCGA-DE-A7U5 TCGA-DJ-A13M TCGA-DJ-A13O 
       25.12        14.70        14.27         2.76        48.79        38.17 
TCGA-DJ-A13P TCGA-DJ-A13R TCGA-DJ-A13S TCGA-DJ-A13T TCGA-DJ-A13U TCGA-DJ-A13V 
      169.32        18.58         8.71        56.19        52.27        43.17 
TCGA-DJ-A13W TCGA-DJ-A13X TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QG 
       52.37         8.32        48.07       135.91        30.61        44.98 
TCGA-DJ-A1QH TCGA-DJ-A1QI TCGA-DJ-A1QL TCGA-DJ-A1QM TCGA-DJ-A1QN TCGA-DJ-A1QO 
       42.51        14.96        17.59         6.02        42.58        47.41 
TCGA-DJ-A1QQ TCGA-DJ-A2PN TCGA-DJ-A2PO TCGA-DJ-A2PP TCGA-DJ-A2PQ TCGA-DJ-A2PS 
       17.56        10.09         7.99        30.58        35.41        26.20 
TCGA-DJ-A2PT TCGA-DJ-A2PU TCGA-DJ-A2PV TCGA-DJ-A2PW TCGA-DJ-A2PX TCGA-DJ-A2PY 
       38.83        33.96        31.99        34.85        28.96         8.78 
TCGA-DJ-A2PZ TCGA-DJ-A2Q0 TCGA-DJ-A2Q1 TCGA-DJ-A2Q2 TCGA-DJ-A2Q3 TCGA-DJ-A2Q4 
        8.42        34.36        37.74        43.96        40.24        33.93 
TCGA-DJ-A2Q5 TCGA-DJ-A2Q6 TCGA-DJ-A2Q7 TCGA-DJ-A2Q8 TCGA-DJ-A2Q9 TCGA-DJ-A2QA 
       37.48        36.46        35.11        39.09        35.90        33.53 
TCGA-DJ-A2QB TCGA-DJ-A2QC TCGA-DJ-A3UK TCGA-DJ-A3UM TCGA-DJ-A3UN TCGA-DJ-A3UO 
       35.18        39.95        36.92        31.04        32.42        31.46 
TCGA-DJ-A3UP TCGA-DJ-A3UQ TCGA-DJ-A3UR TCGA-DJ-A3US TCGA-DJ-A3UT TCGA-DJ-A3UX 
       16.41        19.56        36.33        32.81        36.33        11.34 
TCGA-DJ-A3UY TCGA-DJ-A3UZ TCGA-DJ-A3V0 TCGA-DJ-A3V2 TCGA-DJ-A3V3 TCGA-DJ-A3V5 
       35.87        40.96        36.99        20.22        30.61        19.20 
TCGA-DJ-A3V7 TCGA-DJ-A3V8 TCGA-DJ-A3V9 TCGA-DJ-A3VA TCGA-DJ-A3VB TCGA-DJ-A3VD 
       23.21        21.27        20.48        24.82        22.92        40.70 
TCGA-DJ-A3VE TCGA-DJ-A3VF TCGA-DJ-A3VG TCGA-DJ-A3VJ TCGA-DJ-A3VL TCGA-DJ-A3VM 
       18.97         9.60        35.67        36.43        23.44        27.62 
TCGA-DJ-A4UL TCGA-DJ-A4UP TCGA-DJ-A4UQ TCGA-DJ-A4UR TCGA-DJ-A4UT TCGA-DJ-A4UW 
       30.87        30.12        33.04        34.78        27.06        26.93 
TCGA-DJ-A4V0 TCGA-DJ-A4V2 TCGA-DJ-A4V4 TCGA-DJ-A4V5 TCGA-DO-A1JZ TCGA-DO-A1K0 
       35.54         3.12        15.81        35.38        54.90        21.53 
TCGA-DO-A2HM TCGA-E3-A3DY TCGA-E3-A3DZ TCGA-E3-A3E0 TCGA-E3-A3E1 TCGA-E3-A3E2 
        2.33        92.55        47.21        66.38        80.52        63.19 
TCGA-E3-A3E3 TCGA-E8-A242 TCGA-E8-A2EA TCGA-E8-A2JQ TCGA-E8-A3X7 TCGA-E8-A413 
       52.44        31.23        35.67        11.70        31.27        29.98 
TCGA-E8-A414 TCGA-E8-A415 TCGA-E8-A416 TCGA-E8-A417 TCGA-E8-A419 TCGA-E8-A432 
       31.50        31.04        31.30        30.84        25.45        30.61 
TCGA-E8-A433 TCGA-E8-A434 TCGA-E8-A436 TCGA-E8-A437 TCGA-E8-A438 TCGA-E8-A44K 
       31.27        31.33        14.96        39.88        33.50        31.00 
TCGA-E8-A44M TCGA-EL-A3CL TCGA-EL-A3CM TCGA-EL-A3CN TCGA-EL-A3CO TCGA-EL-A3CP 
       30.15        31.66        26.73       155.54        97.74       158.83 
TCGA-EL-A3CT TCGA-EL-A3CU TCGA-EL-A3CV TCGA-EL-A3CW TCGA-EL-A3CX TCGA-EL-A3CZ 
       60.95       157.15        37.94        57.01       106.62        79.50 
TCGA-EL-A3D1 TCGA-EL-A3D4 TCGA-EL-A3D6 TCGA-EL-A3GO TCGA-EL-A3GP TCGA-EL-A3GR 
       98.53        69.57       108.36        64.87        49.51       115.10 
TCGA-EL-A3GS TCGA-EL-A3GU TCGA-EL-A3GV TCGA-EL-A3GW TCGA-EL-A3GX TCGA-EL-A3GY 
       65.39       136.01        50.37        50.20       147.75       101.13 
TCGA-EL-A3GZ TCGA-EL-A3H1 TCGA-EL-A3H3 TCGA-EL-A3H4 TCGA-EL-A3H5 TCGA-EL-A3H7 
      139.99        49.32        43.36        49.71        83.57       139.00 
TCGA-EL-A3MW TCGA-EL-A3MX TCGA-EL-A3MZ TCGA-EL-A3N2 TCGA-EL-A3T0 TCGA-EL-A3T1 
      108.66        57.63        52.50        29.65       142.52       129.57 
TCGA-EL-A3T2 TCGA-EL-A3T3 TCGA-EL-A3T6 TCGA-EL-A3T7 TCGA-EL-A3T8 TCGA-EL-A3T9 
       32.48       132.07        98.24        41.29       107.47         5.72 
TCGA-EL-A3TA TCGA-EL-A3TB TCGA-EL-A3ZG TCGA-EL-A3ZH TCGA-EL-A3ZK TCGA-EL-A3ZL 
       66.90        82.82        89.56        91.17        51.78        62.30 
TCGA-EL-A3ZM TCGA-EL-A3ZN TCGA-EL-A3ZO TCGA-EL-A3ZQ TCGA-EL-A3ZR TCGA-EL-A3ZS 
       36.03        53.06        72.69        61.22        60.16         7.07 
TCGA-EL-A3ZT TCGA-EL-A4JV TCGA-EL-A4JW TCGA-EL-A4JX TCGA-EL-A4JZ TCGA-EL-A4K0 
       59.44        57.47        34.72        45.96        61.02        31.04 
TCGA-EL-A4K1 TCGA-EL-A4K2 TCGA-EL-A4K4 TCGA-EL-A4K6 TCGA-EL-A4K7 TCGA-EL-A4K9 
       34.39        30.51        53.36        44.15        41.13        47.84 
TCGA-EL-A4KD TCGA-EL-A4KG TCGA-EL-A4KH TCGA-EL-A4KI TCGA-EM-A1CS TCGA-EM-A1CT 
       43.59        24.30        27.06        23.90        26.86        18.18 
TCGA-EM-A1CU TCGA-EM-A1CV TCGA-EM-A1CW TCGA-EM-A1YA TCGA-EM-A1YB TCGA-EM-A1YC 
       20.91        48.49        18.05        19.79        19.46        78.61 
TCGA-EM-A1YD TCGA-EM-A1YE TCGA-EM-A22I TCGA-EM-A22J TCGA-EM-A22K TCGA-EM-A22L 
       57.01        54.08        14.73        14.50        15.75        10.45 
TCGA-EM-A22M TCGA-EM-A22N TCGA-EM-A22O TCGA-EM-A22P TCGA-EM-A22Q TCGA-EM-A2CJ 
       14.53        10.65        44.19        41.29        14.24        47.57 
TCGA-EM-A2CK TCGA-EM-A2CL TCGA-EM-A2CN TCGA-EM-A2CO TCGA-EM-A2CP TCGA-EM-A2CQ 
       17.88        13.18        23.51         6.05         2.99        12.30 
TCGA-EM-A2CR TCGA-EM-A2CS TCGA-EM-A2CT TCGA-EM-A2CU TCGA-EM-A2OV TCGA-EM-A2OW 
       13.64        27.65        48.46        13.15        22.16        40.34 
TCGA-EM-A2OX TCGA-EM-A2OY TCGA-EM-A2OZ TCGA-EM-A2P0 TCGA-EM-A2P1 TCGA-EM-A2P2 
       19.73        32.32        33.96        17.59        17.46        17.29 
TCGA-EM-A2P3 TCGA-EM-A3AI TCGA-EM-A3AJ TCGA-EM-A3AK TCGA-EM-A3AL TCGA-EM-A3AN 
       14.60        22.52        30.94        15.68        14.14        33.07 
TCGA-EM-A3AO TCGA-EM-A3AP TCGA-EM-A3AR TCGA-EM-A3FJ TCGA-EM-A3FK TCGA-EM-A3FL 
       44.52         8.35        37.25        27.95        23.77        47.38 
TCGA-EM-A3FM TCGA-EM-A3FN TCGA-EM-A3FO TCGA-EM-A3FP TCGA-EM-A3FQ TCGA-EM-A3FR 
       21.01        12.07        17.49        17.39        16.18        15.02 
TCGA-EM-A3O3 TCGA-EM-A3O6 TCGA-EM-A3O7 TCGA-EM-A3O8 TCGA-EM-A3O9 TCGA-EM-A3OA 
       14.50        15.06         7.33        12.53         9.24        27.02 
TCGA-EM-A3OB TCGA-EM-A3ST TCGA-EM-A3SU TCGA-EM-A3SX TCGA-EM-A3SY TCGA-EM-A4FF 
       38.66        38.86        29.95        29.85        13.51        84.59 
TCGA-EM-A4FH TCGA-EM-A4FK TCGA-EM-A4FM TCGA-EM-A4FN TCGA-EM-A4FO TCGA-EM-A4FQ 
       29.33        21.34         5.33        26.37        26.37        22.45 
TCGA-EM-A4FR TCGA-EM-A4FU TCGA-EM-A4FV TCGA-EM-A4G1 TCGA-ET-A25G TCGA-ET-A25I 
       21.53        60.49        24.46        13.68        81.93        81.70 
TCGA-ET-A25J TCGA-ET-A25K TCGA-ET-A25O TCGA-ET-A25R TCGA-ET-A2MX TCGA-ET-A2MY 
       77.56        70.42        65.29        63.45        88.41        58.75 
TCGA-ET-A2MZ TCGA-ET-A2N0 TCGA-ET-A2N1 TCGA-ET-A2N3 TCGA-ET-A2N4 TCGA-ET-A2N5 
       37.25        52.60        54.35        83.34         2.66        80.88 
TCGA-ET-A39I TCGA-ET-A39J TCGA-ET-A39K TCGA-ET-A39L TCGA-ET-A39M TCGA-ET-A39N 
       33.24       106.09       107.41       108.46        84.89       123.32 
TCGA-ET-A39O TCGA-ET-A39P TCGA-ET-A39R TCGA-ET-A39S TCGA-ET-A39T TCGA-ET-A3BN 
      100.57        95.34        94.13        55.10        98.20        28.24 
TCGA-ET-A3BP TCGA-ET-A3BQ TCGA-ET-A3BS TCGA-ET-A3BT TCGA-ET-A3BU TCGA-ET-A3BW 
       79.10        76.64         5.79        87.62        77.82        46.65 
TCGA-ET-A3BX TCGA-ET-A3DO TCGA-ET-A3DP TCGA-ET-A3DQ TCGA-ET-A3DR TCGA-ET-A3DS 
       52.47       116.78        94.59        84.85        80.58        66.84 
TCGA-ET-A3DT TCGA-ET-A3DU TCGA-ET-A3DV TCGA-ET-A3DW TCGA-ET-A40P TCGA-ET-A40Q 
       43.73        62.83       166.62        24.72        43.99        46.26 
TCGA-ET-A40R TCGA-ET-A40S TCGA-ET-A40T TCGA-ET-A4KN TCGA-ET-A4KQ TCGA-FE-A22Z 
       44.38        40.21        37.48        33.17        31.40        73.74 
TCGA-FE-A230 TCGA-FE-A231 TCGA-FE-A232 TCGA-FE-A233 TCGA-FE-A234 TCGA-FE-A235 
       71.44        31.59        79.69        24.69        68.22       117.40 
TCGA-FE-A236 TCGA-FE-A237 TCGA-FE-A23A TCGA-FE-A3PA TCGA-FE-A3PB TCGA-FE-A3PC 
       66.77       112.80        81.83       106.36        85.15        85.68 
TCGA-FE-A3PD TCGA-FK-A3S3 TCGA-FK-A3SB TCGA-FK-A3SE TCGA-FK-A3SG TCGA-FK-A3SH 
       78.77        71.08         4.11        22.03         0.92        48.10 
TCGA-FK-A4UB TCGA-FY-A2QD TCGA-FY-A3BL TCGA-FY-A3I4 TCGA-FY-A3I5 TCGA-FY-A3NM 
      116.09         1.25        20.42        17.82         7.82        29.10 
TCGA-FY-A3NP TCGA-FY-A3ON TCGA-FY-A3R6 TCGA-FY-A3R7 TCGA-FY-A3R8 TCGA-FY-A3R9 
       16.14        19.56        13.91        16.27        15.68        16.57 
TCGA-FY-A3RA TCGA-FY-A3TY TCGA-FY-A3W9 TCGA-FY-A3WA TCGA-FY-A40K TCGA-FY-A40L 
       18.08        23.31        21.63        17.06        15.16        23.87 
TCGA-FY-A40M TCGA-FY-A40N TCGA-FY-A4B0 TCGA-FY-A4B3 TCGA-FY-A4B4 TCGA-GE-A2C6 
       22.49        19.04        13.81        14.04        21.60        12.53 
TCGA-H2-A26U TCGA-H2-A2K9 TCGA-H2-A3RH TCGA-H2-A3RI TCGA-H2-A421 TCGA-H2-A422 
       17.00        21.67        12.46        11.01        20.05        18.61 
TCGA-IM-A3EB TCGA-IM-A3ED TCGA-IM-A3U2 TCGA-IM-A3U3 TCGA-IM-A41Y TCGA-IM-A41Z 
       48.92        47.41        18.51        16.90        21.83        31.10 
TCGA-IM-A420 TCGA-IM-A4EB TCGA-J8-A3O0 TCGA-J8-A3O1 TCGA-J8-A3O2 TCGA-J8-A3YD 
        8.22        25.64        43.17        27.19        11.24        31.82 
TCGA-J8-A3YE TCGA-J8-A3YF TCGA-J8-A3YG TCGA-J8-A3YH TCGA-J8-A42S TCGA-J8-A4HY 
       27.85        24.69        22.29         5.75         2.47         0.20 
TCGA-KS-A41F TCGA-KS-A41I TCGA-KS-A41J TCGA-KS-A41L TCGA-KS-A4I1 TCGA-KS-A4I3 
      143.57        15.98        15.68       113.85        26.70        43.69 
TCGA-KS-A4I5 TCGA-KS-A4I7 TCGA-KS-A4I9 TCGA-KS-A4IB TCGA-KS-A4IC TCGA-KS-A4ID 
       18.64        32.45        87.39        84.72        35.28        33.24 
TCGA-L6-A4EP TCGA-L6-A4EQ TCGA-L6-A4EU TCGA-MK-A4N6 TCGA-MK-A4N7 TCGA-MK-A4N9 
       33.40        40.37         9.50        36.10        32.45        30.21 
TCGA-QD-A8IV TCGA-E8-A418 
       12.89         3.02 

  EP400 MUTATED EP400 WILD-TYPE 
          12.79            0.20 
  EP400 MUTATED EP400 WILD-TYPE 
          65.49          178.29 
  EP400 MUTATED EP400 WILD-TYPE 
         17.360          31.165 
[1] "12.8 - 65.5 (17.4)" "0.2 - 178.3 (31.2)"
[1] "hr="     "3300000"
D24V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV STAGE IVA STAGE IVC
  EP400 MUTATED         2        0         1        0         0         0
  EP400 WILD-TYPE     276       50       107        2        46         6
D24V3, multiclass
           clus
vv          EP400 MUTATED EP400 WILD-TYPE
  STAGE I               2             276
  STAGE II              0              50
  STAGE III             1             107
  STAGE IV              0               2
  STAGE IVA             0              46
  STAGE IVC             0               6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus               T1  T2  T3  T4
  EP400 MUTATED     0   1   1   1
  EP400 WILD-TYPE 141 161 163  22
D24V4, multiclass
    clus
vv   EP400 MUTATED EP400 WILD-TYPE
  T1             0             141
  T2             1             161
  T3             1             163
  T4             1              22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D24V5, binary
                 cls
clus                0   1
  EP400 MUTATED     1   2
  EP400 WILD-TYPE 219 220
[1] "tbl2"
                 cls
clus              [,1] [,2]
  EP400 MUTATED      1    2
  EP400 WILD-TYPE  219  220
   clus
vv  EP400 MUTATED EP400 WILD-TYPE
  0             1             219
  1             2             220
[1] 2 2
[1] FALSE
D24V6, binary
                 cls
clus                0   1
  EP400 MUTATED     1   0
  EP400 WILD-TYPE 275   9
[1] "tbl2"
                 cls
clus              [,1] [,2]
  EP400 MUTATED      1    0
  EP400 WILD-TYPE  275    9
   clus
vv  EP400 MUTATED EP400 WILD-TYPE
  0             1             275
  1             0               9
[1] 2 2
[1] FALSE
D24V7, binary
                 cls
clus                0   1
  EP400 MUTATED     2   1
  EP400 WILD-TYPE 360 129
[1] "tbl2"
                 cls
clus              [,1] [,2]
  EP400 MUTATED      2    1
  EP400 WILD-TYPE  360  129
        clus
vv       EP400 MUTATED EP400 WILD-TYPE
  FEMALE             2             360
  MALE               1             129
[1] 2 2
[1] FALSE
D24V8, binary
                 cls
clus                0   1
  EP400 MUTATED     1   2
  EP400 WILD-TYPE 178 296
[1] "tbl2"
                 cls
clus              [,1] [,2]
  EP400 MUTATED      1    2
  EP400 WILD-TYPE  178  296
     clus
vv    EP400 MUTATED EP400 WILD-TYPE
  NO              1             178
  YES             2             296
[1] 2 2
[1] FALSE
                 vv
clus              OTHER, SPECIFY THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  EP400 MUTATED                0                                             3
  EP400 WILD-TYPE              7                                           345
                 vv
clus              THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  EP400 MUTATED                                                                        0
  EP400 WILD-TYPE                                                                    102
                 vv
clus              THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  EP400 MUTATED                                                                     0
  EP400 WILD-TYPE                                                                  35
D24V9, multiclass
                                                                        clus
vv                                                                       EP400 MUTATED
  OTHER, SPECIFY                                                                     0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                      3
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)             0
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                0
                                                                        clus
vv                                                                       EP400 WILD-TYPE
  OTHER, SPECIFY                                                                       7
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                      345
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)             102
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                 35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D24V10, binary
                 cls
clus                0   1
  EP400 MUTATED     3   0
  EP400 WILD-TYPE 412  17
[1] "tbl2"
                 cls
clus              [,1] [,2]
  EP400 MUTATED      3    0
  EP400 WILD-TYPE  412   17
     clus
vv    EP400 MUTATED EP400 WILD-TYPE
  NO              3             412
  YES             0              17
[1] 2 2
[1] FALSE
                 vv
clus              MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE VERY ADVANCED (T4B)
  EP400 MUTATED              1                       1    1                   0
  EP400 WILD-TYPE          129                      17  327                   1
D24V11, multiclass
                         clus
vv                        EP400 MUTATED EP400 WILD-TYPE
  MINIMAL (T3)                        1             129
  MODERATE/ADVANCED (T4A)             1              17
  NONE                                1             327
  VERY ADVANCED (T4B)                 0               1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus               R0  R1  R2  RX
  EP400 MUTATED     3   0   0   0
  EP400 WILD-TYPE 376  51   4  30
D24V12, multiclass
    clus
vv   EP400 MUTATED EP400 WILD-TYPE
  R0             3             376
  R1             0              51
  R2             0               4
  RX             0              30
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D24V13, continuous
D24V14, binary
                 cls
clus                0   1
  EP400 MUTATED     1   2
  EP400 WILD-TYPE 220 260
[1] "tbl2"
                 cls
clus              [,1] [,2]
  EP400 MUTATED      1    2
  EP400 WILD-TYPE  220  260
            clus
vv           EP400 MUTATED EP400 WILD-TYPE
  MULTIFOCAL             1             220
  UNIFOCAL               2             260
[1] 2 2
[1] FALSE
D24V15, continuous
                 vv
clus              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  EP400 MUTATED                                  0     0
  EP400 WILD-TYPE                                1    51
                 vv
clus              BLACK OR AFRICAN AMERICAN WHITE
  EP400 MUTATED                           0     2
  EP400 WILD-TYPE                        26   320
D24V16, multiclass
[1] "Remove cluster labels:" "EP400 MUTATED"         
clus
  EP400 MUTATED EP400 WILD-TYPE 
              2             398 
     TCGA-BJ-A290      TCGA-BJ-A45K      TCGA-CE-A13K      TCGA-DE-A0XZ 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-DJ-A13L      TCGA-DJ-A2PR      TCGA-DJ-A3UU      TCGA-DJ-A3UW 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-DJ-A3V4      TCGA-DJ-A3VI      TCGA-DJ-A3VK      TCGA-E3-A3E5 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-EL-A3CR      TCGA-EL-A3CS      TCGA-EL-A3CY      TCGA-EL-A3D0 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-EL-A3D5      TCGA-EL-A3GQ      TCGA-EL-A3H2      TCGA-EL-A3H8 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-EL-A3MY      TCGA-EL-A3N3      TCGA-ET-A3BO      TCGA-ET-A3BV 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-FK-A3SD      TCGA-FY-A76V      TCGA-J8-A3NZ      TCGA-J8-A4HW 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-L6-A4ET      TCGA-MK-A84Z      TCGA-4C-A93U      TCGA-BJ-A0YZ 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-BJ-A0Z2      TCGA-BJ-A0Z3      TCGA-BJ-A0Z9      TCGA-BJ-A0ZA 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-BJ-A0ZB      TCGA-BJ-A0ZC      TCGA-BJ-A0ZE      TCGA-BJ-A0ZG 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-BJ-A0ZH      TCGA-BJ-A0ZJ      TCGA-BJ-A18Y      TCGA-BJ-A18Z 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-BJ-A191      TCGA-BJ-A192      TCGA-BJ-A28R      TCGA-BJ-A28S 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-BJ-A28T      TCGA-BJ-A28V      TCGA-BJ-A28X      TCGA-BJ-A28Z 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-BJ-A2N7      TCGA-BJ-A2N8      TCGA-BJ-A2N9      TCGA-BJ-A2NA 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-BJ-A2P4      TCGA-BJ-A3EZ      TCGA-BJ-A3F0      TCGA-BJ-A3PR 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-BJ-A3PT      TCGA-BJ-A3PU      TCGA-BJ-A45D      TCGA-BJ-A45E 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-BJ-A45F      TCGA-BJ-A45G      TCGA-BJ-A45H      TCGA-BJ-A45I 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-BJ-A45J      TCGA-BJ-A4O8      TCGA-BJ-A4O9      TCGA-CE-A27D 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-CE-A3MD      TCGA-CE-A3ME      TCGA-CE-A481      TCGA-CE-A482 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-CE-A483      TCGA-CE-A484      TCGA-CE-A485      TCGA-DE-A0Y2 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-DE-A0Y3      TCGA-DE-A2OL      TCGA-DE-A3KN      TCGA-DE-A4M8 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-DE-A4M9      TCGA-DE-A4MA      TCGA-DE-A4MB      TCGA-DE-A4MC 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-DE-A4MD      TCGA-DE-A69J      TCGA-DE-A69K      TCGA-DE-A7U5 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-DJ-A13M      TCGA-DJ-A13O      TCGA-DJ-A13P      TCGA-DJ-A13R 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-DJ-A13S      TCGA-DJ-A13T      TCGA-DJ-A13U      TCGA-DJ-A13W 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-DJ-A1QD      TCGA-DJ-A1QE      TCGA-DJ-A1QF      TCGA-DJ-A1QG 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-DJ-A1QH      TCGA-DJ-A1QI      TCGA-DJ-A1QM      TCGA-DJ-A1QO 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-DJ-A1QQ      TCGA-DJ-A2PN      TCGA-DJ-A2PO      TCGA-DJ-A2PQ 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-DJ-A2PS      TCGA-DJ-A2PT      TCGA-DJ-A2PU      TCGA-DJ-A2PV 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-DJ-A2PW      TCGA-DJ-A2PX      TCGA-DJ-A2PY      TCGA-DJ-A2PZ 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-DJ-A2Q0      TCGA-DJ-A2Q1      TCGA-DJ-A2Q2      TCGA-DJ-A2Q3 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-DJ-A2Q4      TCGA-DJ-A2Q5      TCGA-DJ-A2Q6      TCGA-DJ-A2Q7 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-DJ-A2Q9      TCGA-DJ-A2QA      TCGA-DJ-A2QB      TCGA-DJ-A3UK 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-DJ-A3UM      TCGA-DJ-A3UN      TCGA-DJ-A3UO      TCGA-DJ-A3UQ 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-DJ-A3UR      TCGA-DJ-A3US      TCGA-DJ-A3UT      TCGA-DJ-A3UX 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-DJ-A3UY      TCGA-DJ-A3UZ      TCGA-DJ-A3V2      TCGA-DJ-A3V3 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-DJ-A3V5      TCGA-DJ-A3V7      TCGA-DJ-A3V8      TCGA-DJ-A3V9 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-DJ-A3VD      TCGA-DJ-A3VE      TCGA-DJ-A3VF      TCGA-DJ-A3VG 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-DJ-A3VJ      TCGA-DJ-A3VL      TCGA-DJ-A3VM      TCGA-DJ-A4UL 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-DJ-A4UP      TCGA-DJ-A4UQ      TCGA-DJ-A4UR      TCGA-DJ-A4UT 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-DJ-A4UW      TCGA-DJ-A4V0      TCGA-DJ-A4V4      TCGA-DJ-A4V5 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-DO-A1JZ      TCGA-DO-A1K0      TCGA-DO-A2HM      TCGA-E3-A3DY 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-E3-A3DZ      TCGA-E3-A3E0      TCGA-E3-A3E1      TCGA-E3-A3E2 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-E3-A3E3      TCGA-E8-A242      TCGA-E8-A2EA      TCGA-E8-A2JQ 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-E8-A3X7      TCGA-E8-A413      TCGA-E8-A414      TCGA-E8-A415 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-E8-A416      TCGA-E8-A417      TCGA-E8-A419      TCGA-E8-A432 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-E8-A433      TCGA-E8-A434      TCGA-E8-A436      TCGA-E8-A437 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-E8-A438      TCGA-E8-A44K      TCGA-E8-A44M      TCGA-EL-A3CL 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-EL-A3CM      TCGA-EL-A3CN      TCGA-EL-A3CO      TCGA-EL-A3CP 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-EL-A3CT      TCGA-EL-A3CU      TCGA-EL-A3CV      TCGA-EL-A3CW 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-EL-A3CX      TCGA-EL-A3CZ      TCGA-EL-A3D1      TCGA-EL-A3D4 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-EL-A3D6      TCGA-EL-A3GO      TCGA-EL-A3GP      TCGA-EL-A3GR 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-EL-A3GS      TCGA-EL-A3GU      TCGA-EL-A3GV      TCGA-EL-A3GW 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-EL-A3GX      TCGA-EL-A3GY      TCGA-EL-A3GZ      TCGA-EL-A3H1 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-EL-A3H3      TCGA-EL-A3H4      TCGA-EL-A3H5      TCGA-EL-A3H7 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-EL-A3MW      TCGA-EL-A3MX      TCGA-EL-A3MZ      TCGA-EL-A3N2 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-EL-A3T0      TCGA-EL-A3T1      TCGA-EL-A3T2      TCGA-EL-A3T3 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-EL-A3T6      TCGA-EL-A3T7      TCGA-EL-A3T8      TCGA-EL-A3T9 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-EL-A3TA      TCGA-EL-A3TB      TCGA-EL-A3ZG      TCGA-EL-A3ZH 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-EL-A3ZK      TCGA-EL-A3ZL      TCGA-EL-A3ZN      TCGA-EL-A3ZO 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-EL-A3ZQ      TCGA-EL-A3ZR      TCGA-EL-A3ZS      TCGA-EL-A3ZT 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-EL-A4JV      TCGA-EL-A4JW      TCGA-EL-A4JX      TCGA-EL-A4JZ 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-EL-A4K0      TCGA-EL-A4K1      TCGA-EL-A4K2      TCGA-EL-A4K4 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-EL-A4K6      TCGA-EL-A4K7      TCGA-EL-A4K9      TCGA-EL-A4KD 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-EL-A4KG      TCGA-EL-A4KH      TCGA-EL-A4KI      TCGA-EM-A22M 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-EM-A22O      TCGA-EM-A2OV      TCGA-EM-A3AI      TCGA-ET-A25G 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-ET-A25I      TCGA-ET-A25J      TCGA-ET-A25K      TCGA-ET-A25O 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-ET-A25R      TCGA-ET-A2MX      TCGA-ET-A2MY      TCGA-ET-A2MZ 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-ET-A2N0      TCGA-ET-A2N1      TCGA-ET-A2N3      TCGA-ET-A2N4 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-ET-A2N5      TCGA-ET-A39I      TCGA-ET-A39J      TCGA-ET-A39K 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-ET-A39M      TCGA-ET-A39N      TCGA-ET-A39O      TCGA-ET-A39P 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-ET-A39R      TCGA-ET-A39S      TCGA-ET-A39T      TCGA-ET-A3BN 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-ET-A3BP      TCGA-ET-A3BQ      TCGA-ET-A3BS      TCGA-ET-A3BT 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-ET-A3BU      TCGA-ET-A3BW      TCGA-ET-A3BX      TCGA-ET-A3DO 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-ET-A3DP      TCGA-ET-A3DQ      TCGA-ET-A3DR      TCGA-ET-A3DS 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-ET-A3DT      TCGA-ET-A3DU      TCGA-ET-A3DV      TCGA-ET-A3DW 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-ET-A40P      TCGA-ET-A40Q      TCGA-ET-A40R      TCGA-ET-A40S 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-ET-A40T      TCGA-ET-A4KN      TCGA-ET-A4KQ      TCGA-FE-A22Z 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-FE-A230      TCGA-FE-A231      TCGA-FE-A232      TCGA-FE-A233 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-FE-A234      TCGA-FE-A235      TCGA-FE-A236      TCGA-FE-A237 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-FE-A23A      TCGA-FE-A3PA      TCGA-FE-A3PB      TCGA-FE-A3PC 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-FE-A3PD      TCGA-FK-A3S3      TCGA-FK-A3SB      TCGA-FK-A3SE 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-FK-A3SG      TCGA-FK-A3SH      TCGA-FK-A4UB      TCGA-FY-A2QD 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-FY-A3BL      TCGA-FY-A3I4      TCGA-FY-A3I5      TCGA-FY-A3NM 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-FY-A3NP      TCGA-FY-A3ON      TCGA-FY-A3R6      TCGA-FY-A3R7 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-FY-A3R8      TCGA-FY-A3R9      TCGA-FY-A3RA      TCGA-FY-A3TY 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-FY-A3W9      TCGA-FY-A3WA      TCGA-FY-A40K      TCGA-FY-A40L 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-FY-A40M      TCGA-FY-A40N      TCGA-FY-A4B0      TCGA-FY-A4B3 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-FY-A4B4      TCGA-GE-A2C6      TCGA-H2-A26U      TCGA-H2-A2K9 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-H2-A3RH      TCGA-H2-A3RI      TCGA-H2-A421      TCGA-H2-A422 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-IM-A3EB      TCGA-IM-A3ED      TCGA-IM-A3U2      TCGA-IM-A3U3 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-IM-A41Y      TCGA-IM-A41Z      TCGA-IM-A420      TCGA-IM-A4EB 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-J8-A3O0      TCGA-J8-A3O1      TCGA-J8-A3O2      TCGA-J8-A3YD 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-J8-A3YE      TCGA-J8-A3YF      TCGA-J8-A3YG      TCGA-J8-A3YH 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-J8-A42S      TCGA-J8-A4HY      TCGA-KS-A41F      TCGA-KS-A41I 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-KS-A41J      TCGA-KS-A41L      TCGA-KS-A4I1      TCGA-KS-A4I3 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-KS-A4I5      TCGA-KS-A4I7      TCGA-KS-A4I9      TCGA-KS-A4IB 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-KS-A4IC      TCGA-KS-A4ID      TCGA-L6-A4EP      TCGA-L6-A4EQ 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-L6-A4EU      TCGA-MK-A4N6      TCGA-MK-A4N7      TCGA-MK-A4N9 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" "EP400 WILD-TYPE" 
     TCGA-QD-A8IV      TCGA-E8-A418 
"EP400 WILD-TYPE" "EP400 WILD-TYPE" 
D24V17, binary
                 cls
clus                0   1
  EP400 MUTATED     0   2
  EP400 WILD-TYPE  38 349
[1] "tbl2"
                 cls
clus              [,1] [,2]
  EP400 MUTATED      0    2
  EP400 WILD-TYPE   38  349
                        clus
vv                       EP400 MUTATED EP400 WILD-TYPE
  HISPANIC OR LATINO                 0              38
  NOT HISPANIC OR LATINO             2             349
[1] 2 2
[1] FALSE

Clustering(25) Variable = ABCD1 MUTATION ANALYSIS
D25V1, survival
                 sevent
clus2               0   1
  ABCD1 MUTATED     4   0
  ABCD1 WILD-TYPE 473  14
  ABCD1 MUTATED ABCD1 WILD-TYPE 
              4             487 
  ABCD1 MUTATED ABCD1 WILD-TYPE 
              0              14 
$`ABCD1 MUTATED`
TCGA-BJ-A0ZG TCGA-DJ-A2PU TCGA-IM-A3U3 TCGA-KS-A41I 
       25.48        33.96        16.90        15.98 

$`ABCD1 WILD-TYPE`
TCGA-BJ-A290 TCGA-BJ-A45K TCGA-CE-A13K TCGA-DE-A0XZ TCGA-DJ-A13L TCGA-DJ-A2PR 
       30.21        23.18        12.66        35.84         9.96        27.45 
TCGA-DJ-A3UU TCGA-DJ-A3UW TCGA-DJ-A3V4 TCGA-DJ-A3VI TCGA-DJ-A3VK TCGA-E3-A3E5 
       23.44        59.57        42.54         3.12        24.76        39.95 
TCGA-EL-A3CR TCGA-EL-A3CS TCGA-EL-A3CY TCGA-EL-A3D0 TCGA-EL-A3D5 TCGA-EL-A3GQ 
        7.66        45.53         4.18       139.86        57.11        50.24 
TCGA-EL-A3H2 TCGA-EL-A3H8 TCGA-EL-A3MY TCGA-EL-A3N3 TCGA-EM-A3AQ TCGA-ET-A3BO 
       33.50       150.48        17.52       178.29        29.72        50.40 
TCGA-ET-A3BV TCGA-FK-A3SD TCGA-FY-A76V TCGA-J8-A3NZ TCGA-J8-A4HW TCGA-L6-A4ET 
       75.42         1.05         1.68        17.23         2.60        21.83 
TCGA-MK-A84Z TCGA-4C-A93U TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0Z3 
       23.93         4.24        24.79        13.78        49.78        16.34 
TCGA-BJ-A0Z9 TCGA-BJ-A0ZA TCGA-BJ-A0ZB TCGA-BJ-A0ZC TCGA-BJ-A0ZE TCGA-BJ-A0ZH 
       41.33        18.87         4.01        11.57        16.73        15.12 
TCGA-BJ-A0ZJ TCGA-BJ-A18Y TCGA-BJ-A18Z TCGA-BJ-A191 TCGA-BJ-A192 TCGA-BJ-A28R 
       42.08        51.39        41.52         4.83        44.35        42.15 
TCGA-BJ-A28S TCGA-BJ-A28T TCGA-BJ-A28V TCGA-BJ-A28X TCGA-BJ-A28Z TCGA-BJ-A2N7 
       21.04        35.54        32.45        30.97        11.08        18.38 
TCGA-BJ-A2N8 TCGA-BJ-A2N9 TCGA-BJ-A2NA TCGA-BJ-A2P4 TCGA-BJ-A3EZ TCGA-BJ-A3F0 
       16.57        20.48        18.97        12.82        16.01        13.94 
TCGA-BJ-A3PR TCGA-BJ-A3PT TCGA-BJ-A3PU TCGA-BJ-A45D TCGA-BJ-A45E TCGA-BJ-A45F 
       36.39        23.31        18.64        10.88        21.01         3.45 
TCGA-BJ-A45G TCGA-BJ-A45H TCGA-BJ-A45I TCGA-BJ-A45J TCGA-BJ-A4O8 TCGA-BJ-A4O9 
       23.84        28.44        15.45        21.63        19.43        23.47 
TCGA-CE-A27D TCGA-CE-A3MD TCGA-CE-A3ME TCGA-CE-A481 TCGA-CE-A482 TCGA-CE-A483 
       12.30        12.79        12.46        11.38        10.68        15.02 
TCGA-CE-A484 TCGA-CE-A485 TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DE-A2OL TCGA-DE-A3KN 
       12.43        12.66        21.63        50.17        37.64        27.32 
TCGA-DE-A4M8 TCGA-DE-A4M9 TCGA-DE-A4MA TCGA-DE-A4MB TCGA-DE-A4MC TCGA-DE-A4MD 
       18.54        18.84        30.12        11.57        30.02        25.12 
TCGA-DE-A69J TCGA-DE-A69K TCGA-DE-A7U5 TCGA-DJ-A13M TCGA-DJ-A13O TCGA-DJ-A13P 
       14.70        14.27         2.76        48.79        38.17       169.32 
TCGA-DJ-A13R TCGA-DJ-A13S TCGA-DJ-A13T TCGA-DJ-A13U TCGA-DJ-A13V TCGA-DJ-A13W 
       18.58         8.71        56.19        52.27        43.17        52.37 
TCGA-DJ-A13X TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QG TCGA-DJ-A1QH 
        8.32        48.07       135.91        30.61        44.98        42.51 
TCGA-DJ-A1QI TCGA-DJ-A1QL TCGA-DJ-A1QM TCGA-DJ-A1QN TCGA-DJ-A1QO TCGA-DJ-A1QQ 
       14.96        17.59         6.02        42.58        47.41        17.56 
TCGA-DJ-A2PN TCGA-DJ-A2PO TCGA-DJ-A2PP TCGA-DJ-A2PQ TCGA-DJ-A2PS TCGA-DJ-A2PT 
       10.09         7.99        30.58        35.41        26.20        38.83 
TCGA-DJ-A2PV TCGA-DJ-A2PW TCGA-DJ-A2PX TCGA-DJ-A2PY TCGA-DJ-A2PZ TCGA-DJ-A2Q0 
       31.99        34.85        28.96         8.78         8.42        34.36 
TCGA-DJ-A2Q1 TCGA-DJ-A2Q2 TCGA-DJ-A2Q3 TCGA-DJ-A2Q4 TCGA-DJ-A2Q5 TCGA-DJ-A2Q6 
       37.74        43.96        40.24        33.93        37.48        36.46 
TCGA-DJ-A2Q7 TCGA-DJ-A2Q8 TCGA-DJ-A2Q9 TCGA-DJ-A2QA TCGA-DJ-A2QB TCGA-DJ-A2QC 
       35.11        39.09        35.90        33.53        35.18        39.95 
TCGA-DJ-A3UK TCGA-DJ-A3UM TCGA-DJ-A3UN TCGA-DJ-A3UO TCGA-DJ-A3UP TCGA-DJ-A3UQ 
       36.92        31.04        32.42        31.46        16.41        19.56 
TCGA-DJ-A3UR TCGA-DJ-A3US TCGA-DJ-A3UT TCGA-DJ-A3UX TCGA-DJ-A3UY TCGA-DJ-A3UZ 
       36.33        32.81        36.33        11.34        35.87        40.96 
TCGA-DJ-A3V0 TCGA-DJ-A3V2 TCGA-DJ-A3V3 TCGA-DJ-A3V5 TCGA-DJ-A3V7 TCGA-DJ-A3V8 
       36.99        20.22        30.61        19.20        23.21        21.27 
TCGA-DJ-A3V9 TCGA-DJ-A3VA TCGA-DJ-A3VB TCGA-DJ-A3VD TCGA-DJ-A3VE TCGA-DJ-A3VF 
       20.48        24.82        22.92        40.70        18.97         9.60 
TCGA-DJ-A3VG TCGA-DJ-A3VJ TCGA-DJ-A3VL TCGA-DJ-A3VM TCGA-DJ-A4UL TCGA-DJ-A4UP 
       35.67        36.43        23.44        27.62        30.87        30.12 
TCGA-DJ-A4UQ TCGA-DJ-A4UR TCGA-DJ-A4UT TCGA-DJ-A4UW TCGA-DJ-A4V0 TCGA-DJ-A4V2 
       33.04        34.78        27.06        26.93        35.54         3.12 
TCGA-DJ-A4V4 TCGA-DJ-A4V5 TCGA-DO-A1JZ TCGA-DO-A1K0 TCGA-DO-A2HM TCGA-E3-A3DY 
       15.81        35.38        54.90        21.53         2.33        92.55 
TCGA-E3-A3DZ TCGA-E3-A3E0 TCGA-E3-A3E1 TCGA-E3-A3E2 TCGA-E3-A3E3 TCGA-E8-A242 
       47.21        66.38        80.52        63.19        52.44        31.23 
TCGA-E8-A2EA TCGA-E8-A2JQ TCGA-E8-A3X7 TCGA-E8-A413 TCGA-E8-A414 TCGA-E8-A415 
       35.67        11.70        31.27        29.98        31.50        31.04 
TCGA-E8-A416 TCGA-E8-A417 TCGA-E8-A419 TCGA-E8-A432 TCGA-E8-A433 TCGA-E8-A434 
       31.30        30.84        25.45        30.61        31.27        31.33 
TCGA-E8-A436 TCGA-E8-A437 TCGA-E8-A438 TCGA-E8-A44K TCGA-E8-A44M TCGA-EL-A3CL 
       14.96        39.88        33.50        31.00        30.15        31.66 
TCGA-EL-A3CM TCGA-EL-A3CN TCGA-EL-A3CO TCGA-EL-A3CP TCGA-EL-A3CT TCGA-EL-A3CU 
       26.73       155.54        97.74       158.83        60.95       157.15 
TCGA-EL-A3CV TCGA-EL-A3CW TCGA-EL-A3CX TCGA-EL-A3CZ TCGA-EL-A3D1 TCGA-EL-A3D4 
       37.94        57.01       106.62        79.50        98.53        69.57 
TCGA-EL-A3D6 TCGA-EL-A3GO TCGA-EL-A3GP TCGA-EL-A3GR TCGA-EL-A3GS TCGA-EL-A3GU 
      108.36        64.87        49.51       115.10        65.39       136.01 
TCGA-EL-A3GV TCGA-EL-A3GW TCGA-EL-A3GX TCGA-EL-A3GY TCGA-EL-A3GZ TCGA-EL-A3H1 
       50.37        50.20       147.75       101.13       139.99        49.32 
TCGA-EL-A3H3 TCGA-EL-A3H4 TCGA-EL-A3H5 TCGA-EL-A3H7 TCGA-EL-A3MW TCGA-EL-A3MX 
       43.36        49.71        83.57       139.00       108.66        57.63 
TCGA-EL-A3MZ TCGA-EL-A3N2 TCGA-EL-A3T0 TCGA-EL-A3T1 TCGA-EL-A3T2 TCGA-EL-A3T3 
       52.50        29.65       142.52       129.57        32.48       132.07 
TCGA-EL-A3T6 TCGA-EL-A3T7 TCGA-EL-A3T8 TCGA-EL-A3T9 TCGA-EL-A3TA TCGA-EL-A3TB 
       98.24        41.29       107.47         5.72        66.90        82.82 
TCGA-EL-A3ZG TCGA-EL-A3ZH TCGA-EL-A3ZK TCGA-EL-A3ZL TCGA-EL-A3ZM TCGA-EL-A3ZN 
       89.56        91.17        51.78        62.30        36.03        53.06 
TCGA-EL-A3ZO TCGA-EL-A3ZP TCGA-EL-A3ZQ TCGA-EL-A3ZR TCGA-EL-A3ZS TCGA-EL-A3ZT 
       72.69        65.49        61.22        60.16         7.07        59.44 
TCGA-EL-A4JV TCGA-EL-A4JW TCGA-EL-A4JX TCGA-EL-A4JZ TCGA-EL-A4K0 TCGA-EL-A4K1 
       57.47        34.72        45.96        61.02        31.04        34.39 
TCGA-EL-A4K2 TCGA-EL-A4K4 TCGA-EL-A4K6 TCGA-EL-A4K7 TCGA-EL-A4K9 TCGA-EL-A4KD 
       30.51        53.36        44.15        41.13        47.84        43.59 
TCGA-EL-A4KG TCGA-EL-A4KH TCGA-EL-A4KI TCGA-EM-A1CS TCGA-EM-A1CT TCGA-EM-A1CU 
       24.30        27.06        23.90        26.86        18.18        20.91 
TCGA-EM-A1CV TCGA-EM-A1CW TCGA-EM-A1YA TCGA-EM-A1YB TCGA-EM-A1YC TCGA-EM-A1YD 
       48.49        18.05        19.79        19.46        78.61        57.01 
TCGA-EM-A1YE TCGA-EM-A22I TCGA-EM-A22J TCGA-EM-A22K TCGA-EM-A22L TCGA-EM-A22M 
       54.08        14.73        14.50        15.75        10.45        14.53 
TCGA-EM-A22N TCGA-EM-A22O TCGA-EM-A22P TCGA-EM-A22Q TCGA-EM-A2CJ TCGA-EM-A2CK 
       10.65        44.19        41.29        14.24        47.57        17.88 
TCGA-EM-A2CL TCGA-EM-A2CN TCGA-EM-A2CO TCGA-EM-A2CP TCGA-EM-A2CQ TCGA-EM-A2CR 
       13.18        23.51         6.05         2.99        12.30        13.64 
TCGA-EM-A2CS TCGA-EM-A2CT TCGA-EM-A2CU TCGA-EM-A2OV TCGA-EM-A2OW TCGA-EM-A2OX 
       27.65        48.46        13.15        22.16        40.34        19.73 
TCGA-EM-A2OY TCGA-EM-A2OZ TCGA-EM-A2P0 TCGA-EM-A2P1 TCGA-EM-A2P2 TCGA-EM-A2P3 
       32.32        33.96        17.59        17.46        17.29        14.60 
TCGA-EM-A3AI TCGA-EM-A3AJ TCGA-EM-A3AK TCGA-EM-A3AL TCGA-EM-A3AN TCGA-EM-A3AO 
       22.52        30.94        15.68        14.14        33.07        44.52 
TCGA-EM-A3AP TCGA-EM-A3AR TCGA-EM-A3FJ TCGA-EM-A3FK TCGA-EM-A3FL TCGA-EM-A3FM 
        8.35        37.25        27.95        23.77        47.38        21.01 
TCGA-EM-A3FN TCGA-EM-A3FO TCGA-EM-A3FP TCGA-EM-A3FQ TCGA-EM-A3FR TCGA-EM-A3O3 
       12.07        17.49        17.39        16.18        15.02        14.50 
TCGA-EM-A3O6 TCGA-EM-A3O7 TCGA-EM-A3O8 TCGA-EM-A3O9 TCGA-EM-A3OA TCGA-EM-A3OB 
       15.06         7.33        12.53         9.24        27.02        38.66 
TCGA-EM-A3ST TCGA-EM-A3SU TCGA-EM-A3SX TCGA-EM-A3SY TCGA-EM-A3SZ TCGA-EM-A4FF 
       38.86        29.95        29.85        13.51        12.79        84.59 
TCGA-EM-A4FH TCGA-EM-A4FK TCGA-EM-A4FM TCGA-EM-A4FN TCGA-EM-A4FO TCGA-EM-A4FQ 
       29.33        21.34         5.33        26.37        26.37        22.45 
TCGA-EM-A4FR TCGA-EM-A4FU TCGA-EM-A4FV TCGA-EM-A4G1 TCGA-ET-A25G TCGA-ET-A25I 
       21.53        60.49        24.46        13.68        81.93        81.70 
TCGA-ET-A25J TCGA-ET-A25K TCGA-ET-A25O TCGA-ET-A25R TCGA-ET-A2MX TCGA-ET-A2MY 
       77.56        70.42        65.29        63.45        88.41        58.75 
TCGA-ET-A2MZ TCGA-ET-A2N0 TCGA-ET-A2N1 TCGA-ET-A2N3 TCGA-ET-A2N4 TCGA-ET-A2N5 
       37.25        52.60        54.35        83.34         2.66        80.88 
TCGA-ET-A39I TCGA-ET-A39J TCGA-ET-A39K TCGA-ET-A39L TCGA-ET-A39M TCGA-ET-A39N 
       33.24       106.09       107.41       108.46        84.89       123.32 
TCGA-ET-A39O TCGA-ET-A39P TCGA-ET-A39R TCGA-ET-A39S TCGA-ET-A39T TCGA-ET-A3BN 
      100.57        95.34        94.13        55.10        98.20        28.24 
TCGA-ET-A3BP TCGA-ET-A3BQ TCGA-ET-A3BS TCGA-ET-A3BT TCGA-ET-A3BU TCGA-ET-A3BW 
       79.10        76.64         5.79        87.62        77.82        46.65 
TCGA-ET-A3BX TCGA-ET-A3DO TCGA-ET-A3DP TCGA-ET-A3DQ TCGA-ET-A3DR TCGA-ET-A3DS 
       52.47       116.78        94.59        84.85        80.58        66.84 
TCGA-ET-A3DT TCGA-ET-A3DU TCGA-ET-A3DV TCGA-ET-A3DW TCGA-ET-A40P TCGA-ET-A40Q 
       43.73        62.83       166.62        24.72        43.99        46.26 
TCGA-ET-A40R TCGA-ET-A40S TCGA-ET-A40T TCGA-ET-A4KN TCGA-ET-A4KQ TCGA-FE-A22Z 
       44.38        40.21        37.48        33.17        31.40        73.74 
TCGA-FE-A230 TCGA-FE-A231 TCGA-FE-A232 TCGA-FE-A233 TCGA-FE-A234 TCGA-FE-A235 
       71.44        31.59        79.69        24.69        68.22       117.40 
TCGA-FE-A236 TCGA-FE-A237 TCGA-FE-A23A TCGA-FE-A3PA TCGA-FE-A3PB TCGA-FE-A3PC 
       66.77       112.80        81.83       106.36        85.15        85.68 
TCGA-FE-A3PD TCGA-FK-A3S3 TCGA-FK-A3SB TCGA-FK-A3SE TCGA-FK-A3SG TCGA-FK-A3SH 
       78.77        71.08         4.11        22.03         0.92        48.10 
TCGA-FK-A4UB TCGA-FY-A2QD TCGA-FY-A3BL TCGA-FY-A3I4 TCGA-FY-A3I5 TCGA-FY-A3NM 
      116.09         1.25        20.42        17.82         7.82        29.10 
TCGA-FY-A3NP TCGA-FY-A3ON TCGA-FY-A3R6 TCGA-FY-A3R7 TCGA-FY-A3R8 TCGA-FY-A3R9 
       16.14        19.56        13.91        16.27        15.68        16.57 
TCGA-FY-A3RA TCGA-FY-A3TY TCGA-FY-A3W9 TCGA-FY-A3WA TCGA-FY-A3YR TCGA-FY-A40K 
       18.08        23.31        21.63        17.06        17.36        15.16 
TCGA-FY-A40L TCGA-FY-A40M TCGA-FY-A40N TCGA-FY-A4B0 TCGA-FY-A4B3 TCGA-FY-A4B4 
       23.87        22.49        19.04        13.81        14.04        21.60 
TCGA-GE-A2C6 TCGA-H2-A26U TCGA-H2-A2K9 TCGA-H2-A3RH TCGA-H2-A3RI TCGA-H2-A421 
       12.53        17.00        21.67        12.46        11.01        20.05 
TCGA-H2-A422 TCGA-IM-A3EB TCGA-IM-A3ED TCGA-IM-A3U2 TCGA-IM-A41Y TCGA-IM-A41Z 
       18.61        48.92        47.41        18.51        21.83        31.10 
TCGA-IM-A420 TCGA-IM-A4EB TCGA-J8-A3O0 TCGA-J8-A3O1 TCGA-J8-A3O2 TCGA-J8-A3YD 
        8.22        25.64        43.17        27.19        11.24        31.82 
TCGA-J8-A3YE TCGA-J8-A3YF TCGA-J8-A3YG TCGA-J8-A3YH TCGA-J8-A42S TCGA-J8-A4HY 
       27.85        24.69        22.29         5.75         2.47         0.20 
TCGA-KS-A41F TCGA-KS-A41J TCGA-KS-A41L TCGA-KS-A4I1 TCGA-KS-A4I3 TCGA-KS-A4I5 
      143.57        15.68       113.85        26.70        43.69        18.64 
TCGA-KS-A4I7 TCGA-KS-A4I9 TCGA-KS-A4IB TCGA-KS-A4IC TCGA-KS-A4ID TCGA-L6-A4EP 
       32.45        87.39        84.72        35.28        33.24        33.40 
TCGA-L6-A4EQ TCGA-L6-A4EU TCGA-MK-A4N6 TCGA-MK-A4N7 TCGA-MK-A4N9 TCGA-QD-A8IV 
       40.37         9.50        36.10        32.45        30.21        12.89 
TCGA-E8-A418 
        3.02 

  ABCD1 MUTATED ABCD1 WILD-TYPE 
          15.98            0.20 
  ABCD1 MUTATED ABCD1 WILD-TYPE 
          33.96          178.29 
  ABCD1 MUTATED ABCD1 WILD-TYPE 
          21.19           31.23 
[1] "16.0 - 34.0 (21.2)" "0.2 - 178.3 (31.2)"
[1] "hr="     "1200000"
D25V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV STAGE IVA STAGE IVC
  ABCD1 MUTATED         3        1         0        0         0         0
  ABCD1 WILD-TYPE     275       49       108        2        46         6
D25V3, multiclass
           clus
vv          ABCD1 MUTATED ABCD1 WILD-TYPE
  STAGE I               3             275
  STAGE II              1              49
  STAGE III             0             108
  STAGE IV              0               2
  STAGE IVA             0              46
  STAGE IVC             0               6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus               T1  T2  T3  T4
  ABCD1 MUTATED     3   1   0   0
  ABCD1 WILD-TYPE 138 161 164  23
D25V4, multiclass
    clus
vv   ABCD1 MUTATED ABCD1 WILD-TYPE
  T1             3             138
  T2             1             161
  T3             0             164
  T4             0              23
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D25V5, binary
                 cls
clus                0   1
  ABCD1 MUTATED     4   0
  ABCD1 WILD-TYPE 216 222
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ABCD1 MUTATED      4    0
  ABCD1 WILD-TYPE  216  222
   clus
vv  ABCD1 MUTATED ABCD1 WILD-TYPE
  0             4             216
  1             0             222
[1] 2 2
[1] FALSE
D25V6, binary
                 cls
clus                0   1
  ABCD1 MUTATED     3   0
  ABCD1 WILD-TYPE 273   9
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ABCD1 MUTATED      3    0
  ABCD1 WILD-TYPE  273    9
   clus
vv  ABCD1 MUTATED ABCD1 WILD-TYPE
  0             3             273
  1             0               9
[1] 2 2
[1] FALSE
D25V7, binary
                 cls
clus                0   1
  ABCD1 MUTATED     3   1
  ABCD1 WILD-TYPE 359 129
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ABCD1 MUTATED      3    1
  ABCD1 WILD-TYPE  359  129
        clus
vv       ABCD1 MUTATED ABCD1 WILD-TYPE
  FEMALE             3             359
  MALE               1             129
[1] 2 2
[1] FALSE
D25V8, binary
                 cls
clus                0   1
  ABCD1 MUTATED     2   2
  ABCD1 WILD-TYPE 177 296
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ABCD1 MUTATED      2    2
  ABCD1 WILD-TYPE  177  296
     clus
vv    ABCD1 MUTATED ABCD1 WILD-TYPE
  NO              2             177
  YES             2             296
[1] 2 2
[1] FALSE
                 vv
clus              OTHER, SPECIFY THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  ABCD1 MUTATED                0                                             1
  ABCD1 WILD-TYPE              7                                           347
                 vv
clus              THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  ABCD1 MUTATED                                                                        2
  ABCD1 WILD-TYPE                                                                    100
                 vv
clus              THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  ABCD1 MUTATED                                                                     1
  ABCD1 WILD-TYPE                                                                  34
D25V9, multiclass
                                                                        clus
vv                                                                       ABCD1 MUTATED
  OTHER, SPECIFY                                                                     0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                      1
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)             2
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                1
                                                                        clus
vv                                                                       ABCD1 WILD-TYPE
  OTHER, SPECIFY                                                                       7
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                      347
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)             100
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                 34
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D25V10, binary
                 cls
clus                0   1
  ABCD1 MUTATED     4   0
  ABCD1 WILD-TYPE 411  17
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ABCD1 MUTATED      4    0
  ABCD1 WILD-TYPE  411   17
     clus
vv    ABCD1 MUTATED ABCD1 WILD-TYPE
  NO              4             411
  YES             0              17
[1] 2 2
[1] FALSE
                 vv
clus              MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE VERY ADVANCED (T4B)
  ABCD1 MUTATED              0                       0    4                   0
  ABCD1 WILD-TYPE          130                      18  324                   1
D25V11, multiclass
                         clus
vv                        ABCD1 MUTATED ABCD1 WILD-TYPE
  MINIMAL (T3)                        0             130
  MODERATE/ADVANCED (T4A)             0              18
  NONE                                4             324
  VERY ADVANCED (T4B)                 0               1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus               R0  R1  R2  RX
  ABCD1 MUTATED     2   0   0   2
  ABCD1 WILD-TYPE 377  51   4  28
D25V12, multiclass
    clus
vv   ABCD1 MUTATED ABCD1 WILD-TYPE
  R0             2             377
  R1             0              51
  R2             0               4
  RX             2              28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D25V13, continuous
D25V14, binary
                 cls
clus                0   1
  ABCD1 MUTATED     2   1
  ABCD1 WILD-TYPE 219 261
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ABCD1 MUTATED      2    1
  ABCD1 WILD-TYPE  219  261
            clus
vv           ABCD1 MUTATED ABCD1 WILD-TYPE
  MULTIFOCAL             2             219
  UNIFOCAL               1             261
[1] 2 2
[1] FALSE
D25V15, continuous
                 vv
clus              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  ABCD1 MUTATED                                  0     0
  ABCD1 WILD-TYPE                                1    51
                 vv
clus              BLACK OR AFRICAN AMERICAN WHITE
  ABCD1 MUTATED                           0     4
  ABCD1 WILD-TYPE                        26   318
D25V16, multiclass
                                  clus
vv                                 ABCD1 MUTATED ABCD1 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE             0               1
  ASIAN                                        0              51
  BLACK OR AFRICAN AMERICAN                    0              26
  WHITE                                        4             318
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D25V17, binary
                 cls
clus                0   1
  ABCD1 MUTATED     1   2
  ABCD1 WILD-TYPE  37 349
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ABCD1 MUTATED      1    2
  ABCD1 WILD-TYPE   37  349
                        clus
vv                       ABCD1 MUTATED ABCD1 WILD-TYPE
  HISPANIC OR LATINO                 1              37
  NOT HISPANIC OR LATINO             2             349
[1] 2 2
[1] FALSE

Clustering(26) Variable = MYH10 MUTATION ANALYSIS
D26V1, survival
                 sevent
clus2               0   1
  MYH10 MUTATED     4   0
  MYH10 WILD-TYPE 473  14
  MYH10 MUTATED MYH10 WILD-TYPE 
              4             487 
  MYH10 MUTATED MYH10 WILD-TYPE 
              0              14 
$`MYH10 MUTATED`
TCGA-EL-A3ZO TCGA-EM-A3FR TCGA-FK-A3SB TCGA-FY-A3R7 
       72.69        15.02         4.11        16.27 

$`MYH10 WILD-TYPE`
TCGA-BJ-A290 TCGA-BJ-A45K TCGA-CE-A13K TCGA-DE-A0XZ TCGA-DJ-A13L TCGA-DJ-A2PR 
       30.21        23.18        12.66        35.84         9.96        27.45 
TCGA-DJ-A3UU TCGA-DJ-A3UW TCGA-DJ-A3V4 TCGA-DJ-A3VI TCGA-DJ-A3VK TCGA-E3-A3E5 
       23.44        59.57        42.54         3.12        24.76        39.95 
TCGA-EL-A3CR TCGA-EL-A3CS TCGA-EL-A3CY TCGA-EL-A3D0 TCGA-EL-A3D5 TCGA-EL-A3GQ 
        7.66        45.53         4.18       139.86        57.11        50.24 
TCGA-EL-A3H2 TCGA-EL-A3H8 TCGA-EL-A3MY TCGA-EL-A3N3 TCGA-EM-A3AQ TCGA-ET-A3BO 
       33.50       150.48        17.52       178.29        29.72        50.40 
TCGA-ET-A3BV TCGA-FK-A3SD TCGA-FY-A76V TCGA-J8-A3NZ TCGA-J8-A4HW TCGA-L6-A4ET 
       75.42         1.05         1.68        17.23         2.60        21.83 
TCGA-MK-A84Z TCGA-4C-A93U TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0Z3 
       23.93         4.24        24.79        13.78        49.78        16.34 
TCGA-BJ-A0Z9 TCGA-BJ-A0ZA TCGA-BJ-A0ZB TCGA-BJ-A0ZC TCGA-BJ-A0ZE TCGA-BJ-A0ZG 
       41.33        18.87         4.01        11.57        16.73        25.48 
TCGA-BJ-A0ZH TCGA-BJ-A0ZJ TCGA-BJ-A18Y TCGA-BJ-A18Z TCGA-BJ-A191 TCGA-BJ-A192 
       15.12        42.08        51.39        41.52         4.83        44.35 
TCGA-BJ-A28R TCGA-BJ-A28S TCGA-BJ-A28T TCGA-BJ-A28V TCGA-BJ-A28X TCGA-BJ-A28Z 
       42.15        21.04        35.54        32.45        30.97        11.08 
TCGA-BJ-A2N7 TCGA-BJ-A2N8 TCGA-BJ-A2N9 TCGA-BJ-A2NA TCGA-BJ-A2P4 TCGA-BJ-A3EZ 
       18.38        16.57        20.48        18.97        12.82        16.01 
TCGA-BJ-A3F0 TCGA-BJ-A3PR TCGA-BJ-A3PT TCGA-BJ-A3PU TCGA-BJ-A45D TCGA-BJ-A45E 
       13.94        36.39        23.31        18.64        10.88        21.01 
TCGA-BJ-A45F TCGA-BJ-A45G TCGA-BJ-A45H TCGA-BJ-A45I TCGA-BJ-A45J TCGA-BJ-A4O8 
        3.45        23.84        28.44        15.45        21.63        19.43 
TCGA-BJ-A4O9 TCGA-CE-A27D TCGA-CE-A3MD TCGA-CE-A3ME TCGA-CE-A481 TCGA-CE-A482 
       23.47        12.30        12.79        12.46        11.38        10.68 
TCGA-CE-A483 TCGA-CE-A484 TCGA-CE-A485 TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DE-A2OL 
       15.02        12.43        12.66        21.63        50.17        37.64 
TCGA-DE-A3KN TCGA-DE-A4M8 TCGA-DE-A4M9 TCGA-DE-A4MA TCGA-DE-A4MB TCGA-DE-A4MC 
       27.32        18.54        18.84        30.12        11.57        30.02 
TCGA-DE-A4MD TCGA-DE-A69J TCGA-DE-A69K TCGA-DE-A7U5 TCGA-DJ-A13M TCGA-DJ-A13O 
       25.12        14.70        14.27         2.76        48.79        38.17 
TCGA-DJ-A13P TCGA-DJ-A13R TCGA-DJ-A13S TCGA-DJ-A13T TCGA-DJ-A13U TCGA-DJ-A13V 
      169.32        18.58         8.71        56.19        52.27        43.17 
TCGA-DJ-A13W TCGA-DJ-A13X TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QG 
       52.37         8.32        48.07       135.91        30.61        44.98 
TCGA-DJ-A1QH TCGA-DJ-A1QI TCGA-DJ-A1QL TCGA-DJ-A1QM TCGA-DJ-A1QN TCGA-DJ-A1QO 
       42.51        14.96        17.59         6.02        42.58        47.41 
TCGA-DJ-A1QQ TCGA-DJ-A2PN TCGA-DJ-A2PO TCGA-DJ-A2PP TCGA-DJ-A2PQ TCGA-DJ-A2PS 
       17.56        10.09         7.99        30.58        35.41        26.20 
TCGA-DJ-A2PT TCGA-DJ-A2PU TCGA-DJ-A2PV TCGA-DJ-A2PW TCGA-DJ-A2PX TCGA-DJ-A2PY 
       38.83        33.96        31.99        34.85        28.96         8.78 
TCGA-DJ-A2PZ TCGA-DJ-A2Q0 TCGA-DJ-A2Q1 TCGA-DJ-A2Q2 TCGA-DJ-A2Q3 TCGA-DJ-A2Q4 
        8.42        34.36        37.74        43.96        40.24        33.93 
TCGA-DJ-A2Q5 TCGA-DJ-A2Q6 TCGA-DJ-A2Q7 TCGA-DJ-A2Q8 TCGA-DJ-A2Q9 TCGA-DJ-A2QA 
       37.48        36.46        35.11        39.09        35.90        33.53 
TCGA-DJ-A2QB TCGA-DJ-A2QC TCGA-DJ-A3UK TCGA-DJ-A3UM TCGA-DJ-A3UN TCGA-DJ-A3UO 
       35.18        39.95        36.92        31.04        32.42        31.46 
TCGA-DJ-A3UP TCGA-DJ-A3UQ TCGA-DJ-A3UR TCGA-DJ-A3US TCGA-DJ-A3UT TCGA-DJ-A3UX 
       16.41        19.56        36.33        32.81        36.33        11.34 
TCGA-DJ-A3UY TCGA-DJ-A3UZ TCGA-DJ-A3V0 TCGA-DJ-A3V2 TCGA-DJ-A3V3 TCGA-DJ-A3V5 
       35.87        40.96        36.99        20.22        30.61        19.20 
TCGA-DJ-A3V7 TCGA-DJ-A3V8 TCGA-DJ-A3V9 TCGA-DJ-A3VA TCGA-DJ-A3VB TCGA-DJ-A3VD 
       23.21        21.27        20.48        24.82        22.92        40.70 
TCGA-DJ-A3VE TCGA-DJ-A3VF TCGA-DJ-A3VG TCGA-DJ-A3VJ TCGA-DJ-A3VL TCGA-DJ-A3VM 
       18.97         9.60        35.67        36.43        23.44        27.62 
TCGA-DJ-A4UL TCGA-DJ-A4UP TCGA-DJ-A4UQ TCGA-DJ-A4UR TCGA-DJ-A4UT TCGA-DJ-A4UW 
       30.87        30.12        33.04        34.78        27.06        26.93 
TCGA-DJ-A4V0 TCGA-DJ-A4V2 TCGA-DJ-A4V4 TCGA-DJ-A4V5 TCGA-DO-A1JZ TCGA-DO-A1K0 
       35.54         3.12        15.81        35.38        54.90        21.53 
TCGA-DO-A2HM TCGA-E3-A3DY TCGA-E3-A3DZ TCGA-E3-A3E0 TCGA-E3-A3E1 TCGA-E3-A3E2 
        2.33        92.55        47.21        66.38        80.52        63.19 
TCGA-E3-A3E3 TCGA-E8-A242 TCGA-E8-A2EA TCGA-E8-A2JQ TCGA-E8-A3X7 TCGA-E8-A413 
       52.44        31.23        35.67        11.70        31.27        29.98 
TCGA-E8-A414 TCGA-E8-A415 TCGA-E8-A416 TCGA-E8-A417 TCGA-E8-A419 TCGA-E8-A432 
       31.50        31.04        31.30        30.84        25.45        30.61 
TCGA-E8-A433 TCGA-E8-A434 TCGA-E8-A436 TCGA-E8-A437 TCGA-E8-A438 TCGA-E8-A44K 
       31.27        31.33        14.96        39.88        33.50        31.00 
TCGA-E8-A44M TCGA-EL-A3CL TCGA-EL-A3CM TCGA-EL-A3CN TCGA-EL-A3CO TCGA-EL-A3CP 
       30.15        31.66        26.73       155.54        97.74       158.83 
TCGA-EL-A3CT TCGA-EL-A3CU TCGA-EL-A3CV TCGA-EL-A3CW TCGA-EL-A3CX TCGA-EL-A3CZ 
       60.95       157.15        37.94        57.01       106.62        79.50 
TCGA-EL-A3D1 TCGA-EL-A3D4 TCGA-EL-A3D6 TCGA-EL-A3GO TCGA-EL-A3GP TCGA-EL-A3GR 
       98.53        69.57       108.36        64.87        49.51       115.10 
TCGA-EL-A3GS TCGA-EL-A3GU TCGA-EL-A3GV TCGA-EL-A3GW TCGA-EL-A3GX TCGA-EL-A3GY 
       65.39       136.01        50.37        50.20       147.75       101.13 
TCGA-EL-A3GZ TCGA-EL-A3H1 TCGA-EL-A3H3 TCGA-EL-A3H4 TCGA-EL-A3H5 TCGA-EL-A3H7 
      139.99        49.32        43.36        49.71        83.57       139.00 
TCGA-EL-A3MW TCGA-EL-A3MX TCGA-EL-A3MZ TCGA-EL-A3N2 TCGA-EL-A3T0 TCGA-EL-A3T1 
      108.66        57.63        52.50        29.65       142.52       129.57 
TCGA-EL-A3T2 TCGA-EL-A3T3 TCGA-EL-A3T6 TCGA-EL-A3T7 TCGA-EL-A3T8 TCGA-EL-A3T9 
       32.48       132.07        98.24        41.29       107.47         5.72 
TCGA-EL-A3TA TCGA-EL-A3TB TCGA-EL-A3ZG TCGA-EL-A3ZH TCGA-EL-A3ZK TCGA-EL-A3ZL 
       66.90        82.82        89.56        91.17        51.78        62.30 
TCGA-EL-A3ZM TCGA-EL-A3ZN TCGA-EL-A3ZP TCGA-EL-A3ZQ TCGA-EL-A3ZR TCGA-EL-A3ZS 
       36.03        53.06        65.49        61.22        60.16         7.07 
TCGA-EL-A3ZT TCGA-EL-A4JV TCGA-EL-A4JW TCGA-EL-A4JX TCGA-EL-A4JZ TCGA-EL-A4K0 
       59.44        57.47        34.72        45.96        61.02        31.04 
TCGA-EL-A4K1 TCGA-EL-A4K2 TCGA-EL-A4K4 TCGA-EL-A4K6 TCGA-EL-A4K7 TCGA-EL-A4K9 
       34.39        30.51        53.36        44.15        41.13        47.84 
TCGA-EL-A4KD TCGA-EL-A4KG TCGA-EL-A4KH TCGA-EL-A4KI TCGA-EM-A1CS TCGA-EM-A1CT 
       43.59        24.30        27.06        23.90        26.86        18.18 
TCGA-EM-A1CU TCGA-EM-A1CV TCGA-EM-A1CW TCGA-EM-A1YA TCGA-EM-A1YB TCGA-EM-A1YC 
       20.91        48.49        18.05        19.79        19.46        78.61 
TCGA-EM-A1YD TCGA-EM-A1YE TCGA-EM-A22I TCGA-EM-A22J TCGA-EM-A22K TCGA-EM-A22L 
       57.01        54.08        14.73        14.50        15.75        10.45 
TCGA-EM-A22M TCGA-EM-A22N TCGA-EM-A22O TCGA-EM-A22P TCGA-EM-A22Q TCGA-EM-A2CJ 
       14.53        10.65        44.19        41.29        14.24        47.57 
TCGA-EM-A2CK TCGA-EM-A2CL TCGA-EM-A2CN TCGA-EM-A2CO TCGA-EM-A2CP TCGA-EM-A2CQ 
       17.88        13.18        23.51         6.05         2.99        12.30 
TCGA-EM-A2CR TCGA-EM-A2CS TCGA-EM-A2CT TCGA-EM-A2CU TCGA-EM-A2OV TCGA-EM-A2OW 
       13.64        27.65        48.46        13.15        22.16        40.34 
TCGA-EM-A2OX TCGA-EM-A2OY TCGA-EM-A2OZ TCGA-EM-A2P0 TCGA-EM-A2P1 TCGA-EM-A2P2 
       19.73        32.32        33.96        17.59        17.46        17.29 
TCGA-EM-A2P3 TCGA-EM-A3AI TCGA-EM-A3AJ TCGA-EM-A3AK TCGA-EM-A3AL TCGA-EM-A3AN 
       14.60        22.52        30.94        15.68        14.14        33.07 
TCGA-EM-A3AO TCGA-EM-A3AP TCGA-EM-A3AR TCGA-EM-A3FJ TCGA-EM-A3FK TCGA-EM-A3FL 
       44.52         8.35        37.25        27.95        23.77        47.38 
TCGA-EM-A3FM TCGA-EM-A3FN TCGA-EM-A3FO TCGA-EM-A3FP TCGA-EM-A3FQ TCGA-EM-A3O3 
       21.01        12.07        17.49        17.39        16.18        14.50 
TCGA-EM-A3O6 TCGA-EM-A3O7 TCGA-EM-A3O8 TCGA-EM-A3O9 TCGA-EM-A3OA TCGA-EM-A3OB 
       15.06         7.33        12.53         9.24        27.02        38.66 
TCGA-EM-A3ST TCGA-EM-A3SU TCGA-EM-A3SX TCGA-EM-A3SY TCGA-EM-A3SZ TCGA-EM-A4FF 
       38.86        29.95        29.85        13.51        12.79        84.59 
TCGA-EM-A4FH TCGA-EM-A4FK TCGA-EM-A4FM TCGA-EM-A4FN TCGA-EM-A4FO TCGA-EM-A4FQ 
       29.33        21.34         5.33        26.37        26.37        22.45 
TCGA-EM-A4FR TCGA-EM-A4FU TCGA-EM-A4FV TCGA-EM-A4G1 TCGA-ET-A25G TCGA-ET-A25I 
       21.53        60.49        24.46        13.68        81.93        81.70 
TCGA-ET-A25J TCGA-ET-A25K TCGA-ET-A25O TCGA-ET-A25R TCGA-ET-A2MX TCGA-ET-A2MY 
       77.56        70.42        65.29        63.45        88.41        58.75 
TCGA-ET-A2MZ TCGA-ET-A2N0 TCGA-ET-A2N1 TCGA-ET-A2N3 TCGA-ET-A2N4 TCGA-ET-A2N5 
       37.25        52.60        54.35        83.34         2.66        80.88 
TCGA-ET-A39I TCGA-ET-A39J TCGA-ET-A39K TCGA-ET-A39L TCGA-ET-A39M TCGA-ET-A39N 
       33.24       106.09       107.41       108.46        84.89       123.32 
TCGA-ET-A39O TCGA-ET-A39P TCGA-ET-A39R TCGA-ET-A39S TCGA-ET-A39T TCGA-ET-A3BN 
      100.57        95.34        94.13        55.10        98.20        28.24 
TCGA-ET-A3BP TCGA-ET-A3BQ TCGA-ET-A3BS TCGA-ET-A3BT TCGA-ET-A3BU TCGA-ET-A3BW 
       79.10        76.64         5.79        87.62        77.82        46.65 
TCGA-ET-A3BX TCGA-ET-A3DO TCGA-ET-A3DP TCGA-ET-A3DQ TCGA-ET-A3DR TCGA-ET-A3DS 
       52.47       116.78        94.59        84.85        80.58        66.84 
TCGA-ET-A3DT TCGA-ET-A3DU TCGA-ET-A3DV TCGA-ET-A3DW TCGA-ET-A40P TCGA-ET-A40Q 
       43.73        62.83       166.62        24.72        43.99        46.26 
TCGA-ET-A40R TCGA-ET-A40S TCGA-ET-A40T TCGA-ET-A4KN TCGA-ET-A4KQ TCGA-FE-A22Z 
       44.38        40.21        37.48        33.17        31.40        73.74 
TCGA-FE-A230 TCGA-FE-A231 TCGA-FE-A232 TCGA-FE-A233 TCGA-FE-A234 TCGA-FE-A235 
       71.44        31.59        79.69        24.69        68.22       117.40 
TCGA-FE-A236 TCGA-FE-A237 TCGA-FE-A23A TCGA-FE-A3PA TCGA-FE-A3PB TCGA-FE-A3PC 
       66.77       112.80        81.83       106.36        85.15        85.68 
TCGA-FE-A3PD TCGA-FK-A3S3 TCGA-FK-A3SE TCGA-FK-A3SG TCGA-FK-A3SH TCGA-FK-A4UB 
       78.77        71.08        22.03         0.92        48.10       116.09 
TCGA-FY-A2QD TCGA-FY-A3BL TCGA-FY-A3I4 TCGA-FY-A3I5 TCGA-FY-A3NM TCGA-FY-A3NP 
        1.25        20.42        17.82         7.82        29.10        16.14 
TCGA-FY-A3ON TCGA-FY-A3R6 TCGA-FY-A3R8 TCGA-FY-A3R9 TCGA-FY-A3RA TCGA-FY-A3TY 
       19.56        13.91        15.68        16.57        18.08        23.31 
TCGA-FY-A3W9 TCGA-FY-A3WA TCGA-FY-A3YR TCGA-FY-A40K TCGA-FY-A40L TCGA-FY-A40M 
       21.63        17.06        17.36        15.16        23.87        22.49 
TCGA-FY-A40N TCGA-FY-A4B0 TCGA-FY-A4B3 TCGA-FY-A4B4 TCGA-GE-A2C6 TCGA-H2-A26U 
       19.04        13.81        14.04        21.60        12.53        17.00 
TCGA-H2-A2K9 TCGA-H2-A3RH TCGA-H2-A3RI TCGA-H2-A421 TCGA-H2-A422 TCGA-IM-A3EB 
       21.67        12.46        11.01        20.05        18.61        48.92 
TCGA-IM-A3ED TCGA-IM-A3U2 TCGA-IM-A3U3 TCGA-IM-A41Y TCGA-IM-A41Z TCGA-IM-A420 
       47.41        18.51        16.90        21.83        31.10         8.22 
TCGA-IM-A4EB TCGA-J8-A3O0 TCGA-J8-A3O1 TCGA-J8-A3O2 TCGA-J8-A3YD TCGA-J8-A3YE 
       25.64        43.17        27.19        11.24        31.82        27.85 
TCGA-J8-A3YF TCGA-J8-A3YG TCGA-J8-A3YH TCGA-J8-A42S TCGA-J8-A4HY TCGA-KS-A41F 
       24.69        22.29         5.75         2.47         0.20       143.57 
TCGA-KS-A41I TCGA-KS-A41J TCGA-KS-A41L TCGA-KS-A4I1 TCGA-KS-A4I3 TCGA-KS-A4I5 
       15.98        15.68       113.85        26.70        43.69        18.64 
TCGA-KS-A4I7 TCGA-KS-A4I9 TCGA-KS-A4IB TCGA-KS-A4IC TCGA-KS-A4ID TCGA-L6-A4EP 
       32.45        87.39        84.72        35.28        33.24        33.40 
TCGA-L6-A4EQ TCGA-L6-A4EU TCGA-MK-A4N6 TCGA-MK-A4N7 TCGA-MK-A4N9 TCGA-QD-A8IV 
       40.37         9.50        36.10        32.45        30.21        12.89 
TCGA-E8-A418 
        3.02 

  MYH10 MUTATED MYH10 WILD-TYPE 
           4.11            0.20 
  MYH10 MUTATED MYH10 WILD-TYPE 
          72.69          178.29 
  MYH10 MUTATED MYH10 WILD-TYPE 
         15.645          31.230 
[1] "4.1 - 72.7 (15.6)"  "0.2 - 178.3 (31.2)"
[1] "hr="     "3300000"
D26V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV STAGE IVA STAGE IVC
  MYH10 MUTATED         1        0         3        0         0         0
  MYH10 WILD-TYPE     277       50       105        2        46         6
D26V3, multiclass
           clus
vv          MYH10 MUTATED MYH10 WILD-TYPE
  STAGE I               1             277
  STAGE II              0              50
  STAGE III             3             105
  STAGE IV              0               2
  STAGE IVA             0              46
  STAGE IVC             0               6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus               T1  T2  T3  T4
  MYH10 MUTATED     0   1   3   0
  MYH10 WILD-TYPE 141 161 161  23
D26V4, multiclass
    clus
vv   MYH10 MUTATED MYH10 WILD-TYPE
  T1             0             141
  T2             1             161
  T3             3             161
  T4             0              23
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D26V5, binary
                 cls
clus                0   1
  MYH10 MUTATED     0   4
  MYH10 WILD-TYPE 220 218
[1] "tbl2"
                 cls
clus              [,1] [,2]
  MYH10 MUTATED      0    4
  MYH10 WILD-TYPE  220  218
   clus
vv  MYH10 MUTATED MYH10 WILD-TYPE
  0             0             220
  1             4             218
[1] 2 2
[1] FALSE
D26V6, binary
                 cls
clus                0   1
  MYH10 MUTATED     1   0
  MYH10 WILD-TYPE 275   9
[1] "tbl2"
                 cls
clus              [,1] [,2]
  MYH10 MUTATED      1    0
  MYH10 WILD-TYPE  275    9
   clus
vv  MYH10 MUTATED MYH10 WILD-TYPE
  0             1             275
  1             0               9
[1] 2 2
[1] FALSE
D26V7, binary
                 cls
clus                0   1
  MYH10 MUTATED     4   0
  MYH10 WILD-TYPE 358 130
[1] "tbl2"
                 cls
clus              [,1] [,2]
  MYH10 MUTATED      4    0
  MYH10 WILD-TYPE  358  130
        clus
vv       MYH10 MUTATED MYH10 WILD-TYPE
  FEMALE             4             358
  MALE               0             130
[1] 2 2
[1] FALSE
D26V8, binary
                 cls
clus                0   1
  MYH10 MUTATED     1   2
  MYH10 WILD-TYPE 178 296
[1] "tbl2"
                 cls
clus              [,1] [,2]
  MYH10 MUTATED      1    2
  MYH10 WILD-TYPE  178  296
     clus
vv    MYH10 MUTATED MYH10 WILD-TYPE
  NO              1             178
  YES             2             296
[1] 2 2
[1] FALSE
                 vv
clus              OTHER, SPECIFY THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  MYH10 MUTATED                0                                             4
  MYH10 WILD-TYPE              7                                           344
                 vv
clus              THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  MYH10 MUTATED                                                                        0
  MYH10 WILD-TYPE                                                                    102
                 vv
clus              THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  MYH10 MUTATED                                                                     0
  MYH10 WILD-TYPE                                                                  35
D26V9, multiclass
                                                                        clus
vv                                                                       MYH10 MUTATED
  OTHER, SPECIFY                                                                     0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                      4
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)             0
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                0
                                                                        clus
vv                                                                       MYH10 WILD-TYPE
  OTHER, SPECIFY                                                                       7
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                      344
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)             102
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                 35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D26V10, binary
                 cls
clus                0   1
  MYH10 MUTATED     4   0
  MYH10 WILD-TYPE 411  17
[1] "tbl2"
                 cls
clus              [,1] [,2]
  MYH10 MUTATED      4    0
  MYH10 WILD-TYPE  411   17
     clus
vv    MYH10 MUTATED MYH10 WILD-TYPE
  NO              4             411
  YES             0              17
[1] 2 2
[1] FALSE
                 vv
clus              MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE VERY ADVANCED (T4B)
  MYH10 MUTATED              3                       0    1                   0
  MYH10 WILD-TYPE          127                      18  327                   1
D26V11, multiclass
                         clus
vv                        MYH10 MUTATED MYH10 WILD-TYPE
  MINIMAL (T3)                        3             127
  MODERATE/ADVANCED (T4A)             0              18
  NONE                                1             327
  VERY ADVANCED (T4B)                 0               1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus               R0  R1  R2  RX
  MYH10 MUTATED     3   0   0   0
  MYH10 WILD-TYPE 376  51   4  30
D26V12, multiclass
    clus
vv   MYH10 MUTATED MYH10 WILD-TYPE
  R0             3             376
  R1             0              51
  R2             0               4
  RX             0              30
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D26V13, continuous
D26V14, binary
                 cls
clus                0   1
  MYH10 MUTATED     2   2
  MYH10 WILD-TYPE 219 260
[1] "tbl2"
                 cls
clus              [,1] [,2]
  MYH10 MUTATED      2    2
  MYH10 WILD-TYPE  219  260
            clus
vv           MYH10 MUTATED MYH10 WILD-TYPE
  MULTIFOCAL             2             219
  UNIFOCAL               2             260
[1] 2 2
[1] FALSE
D26V15, continuous
[1] "Remove cluster labels:" "MYH10 MUTATED"         
clus
  MYH10 MUTATED MYH10 WILD-TYPE 
              2             391 
     TCGA-BJ-A290      TCGA-BJ-A45K      TCGA-CE-A13K      TCGA-DE-A0XZ 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-DJ-A13L      TCGA-DJ-A2PR      TCGA-DJ-A3UU      TCGA-DJ-A3UW 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-DJ-A3V4      TCGA-DJ-A3VK      TCGA-EL-A3CR      TCGA-EL-A3CS 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-EL-A3CY      TCGA-EL-A3D0      TCGA-EL-A3D5      TCGA-EL-A3GQ 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-EL-A3H2      TCGA-EL-A3H8      TCGA-EL-A3MY      TCGA-EL-A3N3 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-EM-A3AQ      TCGA-ET-A3BO      TCGA-ET-A3BV      TCGA-FY-A76V 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-L6-A4ET      TCGA-MK-A84Z      TCGA-4C-A93U      TCGA-BJ-A0Z2 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-BJ-A0Z3      TCGA-BJ-A0Z9      TCGA-BJ-A0ZA      TCGA-BJ-A0ZB 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-BJ-A0ZC      TCGA-BJ-A0ZE      TCGA-BJ-A0ZG      TCGA-BJ-A0ZH 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-BJ-A0ZJ      TCGA-BJ-A18Y      TCGA-BJ-A18Z      TCGA-BJ-A191 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-BJ-A192      TCGA-BJ-A28R      TCGA-BJ-A28S      TCGA-BJ-A28T 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-BJ-A28V      TCGA-BJ-A28Z      TCGA-BJ-A2N8      TCGA-BJ-A2N9 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-BJ-A2P4      TCGA-BJ-A3PU      TCGA-BJ-A45D      TCGA-BJ-A45E 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-BJ-A45F      TCGA-BJ-A45G      TCGA-BJ-A45H      TCGA-BJ-A45I 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-BJ-A45J      TCGA-BJ-A4O8      TCGA-BJ-A4O9      TCGA-CE-A27D 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-CE-A3MD      TCGA-CE-A3ME      TCGA-CE-A481      TCGA-CE-A482 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-CE-A483      TCGA-CE-A484      TCGA-CE-A485      TCGA-DE-A0Y2 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-DE-A0Y3      TCGA-DE-A2OL      TCGA-DE-A3KN      TCGA-DE-A4M8 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-DE-A4M9      TCGA-DE-A4MA      TCGA-DE-A4MB      TCGA-DE-A4MC 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-DE-A4MD      TCGA-DE-A69J      TCGA-DE-A69K      TCGA-DE-A7U5 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-DJ-A13M      TCGA-DJ-A13O      TCGA-DJ-A13R      TCGA-DJ-A13S 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-DJ-A13U      TCGA-DJ-A13V      TCGA-DJ-A13W      TCGA-DJ-A13X 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-DJ-A1QD      TCGA-DJ-A1QE      TCGA-DJ-A1QF      TCGA-DJ-A1QG 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-DJ-A1QH      TCGA-DJ-A1QI      TCGA-DJ-A1QL      TCGA-DJ-A1QM 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-DJ-A1QN      TCGA-DJ-A1QO      TCGA-DJ-A1QQ      TCGA-DJ-A2PN 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-DJ-A2PO      TCGA-DJ-A2PP      TCGA-DJ-A2PQ      TCGA-DJ-A2PS 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-DJ-A2PT      TCGA-DJ-A2PU      TCGA-DJ-A2PV      TCGA-DJ-A2PW 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-DJ-A2PY      TCGA-DJ-A2PZ      TCGA-DJ-A2Q0      TCGA-DJ-A2Q1 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-DJ-A2Q2      TCGA-DJ-A2Q3      TCGA-DJ-A2Q4      TCGA-DJ-A2Q5 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-DJ-A2Q6      TCGA-DJ-A2Q7      TCGA-DJ-A2Q8      TCGA-DJ-A2Q9 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-DJ-A2QA      TCGA-DJ-A2QC      TCGA-DJ-A3UK      TCGA-DJ-A3UM 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-DJ-A3UN      TCGA-DJ-A3UO      TCGA-DJ-A3UP      TCGA-DJ-A3UQ 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-DJ-A3UR      TCGA-DJ-A3US      TCGA-DJ-A3UT      TCGA-DJ-A3UX 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-DJ-A3UY      TCGA-DJ-A3V0      TCGA-DJ-A3V2      TCGA-DJ-A3V3 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-DJ-A3V5      TCGA-DJ-A3V7      TCGA-DJ-A3V8      TCGA-DJ-A3VA 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-DJ-A3VB      TCGA-DJ-A3VD      TCGA-DJ-A3VE      TCGA-DJ-A3VF 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-DJ-A3VG      TCGA-DJ-A3VJ      TCGA-DJ-A3VL      TCGA-DJ-A3VM 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-DJ-A4UL      TCGA-DJ-A4UP      TCGA-DJ-A4UQ      TCGA-DJ-A4UT 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-DJ-A4V0      TCGA-DJ-A4V2      TCGA-DJ-A4V4      TCGA-DJ-A4V5 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-DO-A1JZ      TCGA-DO-A1K0      TCGA-DO-A2HM      TCGA-E3-A3DY 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-E3-A3DZ      TCGA-E3-A3E0      TCGA-E3-A3E1      TCGA-E3-A3E2 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-E3-A3E3      TCGA-E8-A419      TCGA-EL-A3CN      TCGA-EL-A3CO 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-EL-A3CT      TCGA-EL-A3CU      TCGA-EL-A3CV      TCGA-EL-A3CW 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-EL-A3CX      TCGA-EL-A3CZ      TCGA-EL-A3D1      TCGA-EL-A3D4 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-EL-A3D6      TCGA-EL-A3GO      TCGA-EL-A3GP      TCGA-EL-A3GR 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-EL-A3GS      TCGA-EL-A3GU      TCGA-EL-A3GV      TCGA-EL-A3GW 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-EL-A3GX      TCGA-EL-A3GY      TCGA-EL-A3GZ      TCGA-EL-A3H3 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-EL-A3H4      TCGA-EL-A3H5      TCGA-EL-A3H7      TCGA-EL-A3MW 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-EL-A3MX      TCGA-EL-A3MZ      TCGA-EL-A3N2      TCGA-EL-A3T1 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-EL-A3T2      TCGA-EL-A3T3      TCGA-EL-A3T6      TCGA-EL-A3T7 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-EL-A3T8      TCGA-EL-A3T9      TCGA-EL-A3TA      TCGA-EL-A3TB 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-EL-A3ZG      TCGA-EL-A3ZH      TCGA-EL-A3ZK      TCGA-EL-A3ZL 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-EL-A3ZM      TCGA-EL-A3ZN      TCGA-EL-A3ZP      TCGA-EL-A3ZQ 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-EL-A3ZR      TCGA-EL-A3ZS      TCGA-EL-A3ZT      TCGA-EL-A4JV 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-EL-A4JW      TCGA-EL-A4JX      TCGA-EL-A4JZ      TCGA-EL-A4K0 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-EL-A4K1      TCGA-EL-A4K2      TCGA-EL-A4K4      TCGA-EL-A4K6 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-EL-A4K7      TCGA-EL-A4K9      TCGA-EL-A4KD      TCGA-EL-A4KG 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-EL-A4KH      TCGA-EL-A4KI      TCGA-EM-A1CS      TCGA-EM-A1CT 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-EM-A1CU      TCGA-EM-A1CV      TCGA-EM-A1CW      TCGA-EM-A1YA 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-EM-A1YB      TCGA-EM-A1YC      TCGA-EM-A1YD      TCGA-EM-A1YE 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-EM-A22I      TCGA-EM-A22J      TCGA-EM-A22K      TCGA-EM-A22L 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-EM-A22N      TCGA-EM-A22O      TCGA-EM-A22P      TCGA-EM-A22Q 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-EM-A2CJ      TCGA-EM-A2CK      TCGA-EM-A2CL      TCGA-EM-A2CN 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-EM-A2CO      TCGA-EM-A2CP      TCGA-EM-A2CQ      TCGA-EM-A2CR 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-EM-A2CS      TCGA-EM-A2CT      TCGA-EM-A2CU      TCGA-EM-A2OW 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-EM-A2OX      TCGA-EM-A2OY      TCGA-EM-A2P0      TCGA-EM-A2P1 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-EM-A2P2      TCGA-EM-A2P3      TCGA-EM-A3AI      TCGA-EM-A3AJ 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-EM-A3AK      TCGA-EM-A3AL      TCGA-EM-A3AN      TCGA-EM-A3AO 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-EM-A3AP      TCGA-EM-A3AR      TCGA-EM-A3FJ      TCGA-EM-A3FM 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-EM-A3FN      TCGA-EM-A3FO      TCGA-EM-A3FP      TCGA-EM-A3O3 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-EM-A3O6      TCGA-EM-A3O7      TCGA-EM-A3O8      TCGA-EM-A3O9 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-EM-A3OA      TCGA-EM-A3OB      TCGA-EM-A3ST      TCGA-EM-A3SU 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-EM-A3SX      TCGA-EM-A3SY      TCGA-EM-A3SZ      TCGA-EM-A4FF 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-EM-A4FH      TCGA-EM-A4FK      TCGA-EM-A4FM      TCGA-EM-A4FN 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-EM-A4FQ      TCGA-EM-A4FR      TCGA-EM-A4FU      TCGA-EM-A4FV 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-EM-A4G1      TCGA-ET-A25G      TCGA-ET-A25I      TCGA-ET-A25J 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-ET-A25K      TCGA-ET-A25O      TCGA-ET-A25R      TCGA-ET-A2MY 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-ET-A2MZ      TCGA-ET-A2N0      TCGA-ET-A2N5      TCGA-ET-A39J 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-ET-A39M      TCGA-ET-A39N      TCGA-ET-A39O      TCGA-ET-A39P 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-ET-A39T      TCGA-ET-A3BN      TCGA-ET-A3BP      TCGA-ET-A3BQ 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-ET-A3BS      TCGA-ET-A3BT      TCGA-ET-A3BU      TCGA-ET-A3BW 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-ET-A3BX      TCGA-ET-A3DO      TCGA-ET-A3DS      TCGA-ET-A3DT 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-ET-A40P      TCGA-ET-A40Q      TCGA-ET-A40R      TCGA-ET-A40S 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-ET-A4KN      TCGA-ET-A4KQ      TCGA-FE-A22Z      TCGA-FE-A230 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-FE-A232      TCGA-FE-A233      TCGA-FE-A234      TCGA-FE-A235 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-FE-A236      TCGA-FE-A237      TCGA-FE-A23A      TCGA-FE-A3PA 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-FE-A3PB      TCGA-FE-A3PC      TCGA-FE-A3PD      TCGA-FY-A2QD 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-FY-A3I4      TCGA-FY-A3I5      TCGA-FY-A3ON      TCGA-FY-A3R8 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-FY-A3TY      TCGA-FY-A3W9      TCGA-FY-A3YR      TCGA-FY-A40K 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-FY-A40L      TCGA-FY-A40M      TCGA-FY-A40N      TCGA-FY-A4B3 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-GE-A2C6      TCGA-H2-A421      TCGA-IM-A3EB      TCGA-IM-A3ED 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-IM-A3U2      TCGA-IM-A3U3      TCGA-IM-A41Y      TCGA-IM-A41Z 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-IM-A420      TCGA-IM-A4EB      TCGA-J8-A3O0      TCGA-J8-A3YD 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-J8-A3YG      TCGA-KS-A41F      TCGA-KS-A41I      TCGA-KS-A41J 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-KS-A41L      TCGA-KS-A4I3      TCGA-KS-A4I5      TCGA-KS-A4I7 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-KS-A4I9      TCGA-KS-A4IB      TCGA-KS-A4IC      TCGA-KS-A4ID 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-L6-A4EP      TCGA-L6-A4EQ      TCGA-L6-A4EU      TCGA-MK-A4N6 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
     TCGA-MK-A4N7      TCGA-MK-A4N9      TCGA-QD-A8IV 
"MYH10 WILD-TYPE" "MYH10 WILD-TYPE" "MYH10 WILD-TYPE" 
                 vv
clus              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  MYH10 MUTATED                                  0     1
  MYH10 WILD-TYPE                                1    50
                 vv
clus              BLACK OR AFRICAN AMERICAN WHITE
  MYH10 MUTATED                           0     2
  MYH10 WILD-TYPE                        26   320
D26V16, multiclass
                                  clus
vv                                 MYH10 MUTATED MYH10 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE             0               1
  ASIAN                                        1              50
  BLACK OR AFRICAN AMERICAN                    0              26
  WHITE                                        2             320
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D26V17, binary
                 cls
clus                0   1
  MYH10 MUTATED     0   3
  MYH10 WILD-TYPE  38 348
[1] "tbl2"
                 cls
clus              [,1] [,2]
  MYH10 MUTATED      0    3
  MYH10 WILD-TYPE   38  348
                        clus
vv                       MYH10 MUTATED MYH10 WILD-TYPE
  HISPANIC OR LATINO                 0              38
  NOT HISPANIC OR LATINO             3             348
[1] 2 2
[1] FALSE

Clustering(27) Variable = NLRP6 MUTATION ANALYSIS
D27V1, survival
                 sevent
clus2               0   1
  NLRP6 MUTATED     4   0
  NLRP6 WILD-TYPE 473  14
  NLRP6 MUTATED NLRP6 WILD-TYPE 
              4             487 
  NLRP6 MUTATED NLRP6 WILD-TYPE 
              0              14 
$`NLRP6 MUTATED`
TCGA-EM-A3FO TCGA-FE-A3PC TCGA-FK-A3S3 TCGA-QD-A8IV 
       17.49        85.68        71.08        12.89 

$`NLRP6 WILD-TYPE`
TCGA-BJ-A290 TCGA-BJ-A45K TCGA-CE-A13K TCGA-DE-A0XZ TCGA-DJ-A13L TCGA-DJ-A2PR 
       30.21        23.18        12.66        35.84         9.96        27.45 
TCGA-DJ-A3UU TCGA-DJ-A3UW TCGA-DJ-A3V4 TCGA-DJ-A3VI TCGA-DJ-A3VK TCGA-E3-A3E5 
       23.44        59.57        42.54         3.12        24.76        39.95 
TCGA-EL-A3CR TCGA-EL-A3CS TCGA-EL-A3CY TCGA-EL-A3D0 TCGA-EL-A3D5 TCGA-EL-A3GQ 
        7.66        45.53         4.18       139.86        57.11        50.24 
TCGA-EL-A3H2 TCGA-EL-A3H8 TCGA-EL-A3MY TCGA-EL-A3N3 TCGA-EM-A3AQ TCGA-ET-A3BO 
       33.50       150.48        17.52       178.29        29.72        50.40 
TCGA-ET-A3BV TCGA-FK-A3SD TCGA-FY-A76V TCGA-J8-A3NZ TCGA-J8-A4HW TCGA-L6-A4ET 
       75.42         1.05         1.68        17.23         2.60        21.83 
TCGA-MK-A84Z TCGA-4C-A93U TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0Z3 
       23.93         4.24        24.79        13.78        49.78        16.34 
TCGA-BJ-A0Z9 TCGA-BJ-A0ZA TCGA-BJ-A0ZB TCGA-BJ-A0ZC TCGA-BJ-A0ZE TCGA-BJ-A0ZG 
       41.33        18.87         4.01        11.57        16.73        25.48 
TCGA-BJ-A0ZH TCGA-BJ-A0ZJ TCGA-BJ-A18Y TCGA-BJ-A18Z TCGA-BJ-A191 TCGA-BJ-A192 
       15.12        42.08        51.39        41.52         4.83        44.35 
TCGA-BJ-A28R TCGA-BJ-A28S TCGA-BJ-A28T TCGA-BJ-A28V TCGA-BJ-A28X TCGA-BJ-A28Z 
       42.15        21.04        35.54        32.45        30.97        11.08 
TCGA-BJ-A2N7 TCGA-BJ-A2N8 TCGA-BJ-A2N9 TCGA-BJ-A2NA TCGA-BJ-A2P4 TCGA-BJ-A3EZ 
       18.38        16.57        20.48        18.97        12.82        16.01 
TCGA-BJ-A3F0 TCGA-BJ-A3PR TCGA-BJ-A3PT TCGA-BJ-A3PU TCGA-BJ-A45D TCGA-BJ-A45E 
       13.94        36.39        23.31        18.64        10.88        21.01 
TCGA-BJ-A45F TCGA-BJ-A45G TCGA-BJ-A45H TCGA-BJ-A45I TCGA-BJ-A45J TCGA-BJ-A4O8 
        3.45        23.84        28.44        15.45        21.63        19.43 
TCGA-BJ-A4O9 TCGA-CE-A27D TCGA-CE-A3MD TCGA-CE-A3ME TCGA-CE-A481 TCGA-CE-A482 
       23.47        12.30        12.79        12.46        11.38        10.68 
TCGA-CE-A483 TCGA-CE-A484 TCGA-CE-A485 TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DE-A2OL 
       15.02        12.43        12.66        21.63        50.17        37.64 
TCGA-DE-A3KN TCGA-DE-A4M8 TCGA-DE-A4M9 TCGA-DE-A4MA TCGA-DE-A4MB TCGA-DE-A4MC 
       27.32        18.54        18.84        30.12        11.57        30.02 
TCGA-DE-A4MD TCGA-DE-A69J TCGA-DE-A69K TCGA-DE-A7U5 TCGA-DJ-A13M TCGA-DJ-A13O 
       25.12        14.70        14.27         2.76        48.79        38.17 
TCGA-DJ-A13P TCGA-DJ-A13R TCGA-DJ-A13S TCGA-DJ-A13T TCGA-DJ-A13U TCGA-DJ-A13V 
      169.32        18.58         8.71        56.19        52.27        43.17 
TCGA-DJ-A13W TCGA-DJ-A13X TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QG 
       52.37         8.32        48.07       135.91        30.61        44.98 
TCGA-DJ-A1QH TCGA-DJ-A1QI TCGA-DJ-A1QL TCGA-DJ-A1QM TCGA-DJ-A1QN TCGA-DJ-A1QO 
       42.51        14.96        17.59         6.02        42.58        47.41 
TCGA-DJ-A1QQ TCGA-DJ-A2PN TCGA-DJ-A2PO TCGA-DJ-A2PP TCGA-DJ-A2PQ TCGA-DJ-A2PS 
       17.56        10.09         7.99        30.58        35.41        26.20 
TCGA-DJ-A2PT TCGA-DJ-A2PU TCGA-DJ-A2PV TCGA-DJ-A2PW TCGA-DJ-A2PX TCGA-DJ-A2PY 
       38.83        33.96        31.99        34.85        28.96         8.78 
TCGA-DJ-A2PZ TCGA-DJ-A2Q0 TCGA-DJ-A2Q1 TCGA-DJ-A2Q2 TCGA-DJ-A2Q3 TCGA-DJ-A2Q4 
        8.42        34.36        37.74        43.96        40.24        33.93 
TCGA-DJ-A2Q5 TCGA-DJ-A2Q6 TCGA-DJ-A2Q7 TCGA-DJ-A2Q8 TCGA-DJ-A2Q9 TCGA-DJ-A2QA 
       37.48        36.46        35.11        39.09        35.90        33.53 
TCGA-DJ-A2QB TCGA-DJ-A2QC TCGA-DJ-A3UK TCGA-DJ-A3UM TCGA-DJ-A3UN TCGA-DJ-A3UO 
       35.18        39.95        36.92        31.04        32.42        31.46 
TCGA-DJ-A3UP TCGA-DJ-A3UQ TCGA-DJ-A3UR TCGA-DJ-A3US TCGA-DJ-A3UT TCGA-DJ-A3UX 
       16.41        19.56        36.33        32.81        36.33        11.34 
TCGA-DJ-A3UY TCGA-DJ-A3UZ TCGA-DJ-A3V0 TCGA-DJ-A3V2 TCGA-DJ-A3V3 TCGA-DJ-A3V5 
       35.87        40.96        36.99        20.22        30.61        19.20 
TCGA-DJ-A3V7 TCGA-DJ-A3V8 TCGA-DJ-A3V9 TCGA-DJ-A3VA TCGA-DJ-A3VB TCGA-DJ-A3VD 
       23.21        21.27        20.48        24.82        22.92        40.70 
TCGA-DJ-A3VE TCGA-DJ-A3VF TCGA-DJ-A3VG TCGA-DJ-A3VJ TCGA-DJ-A3VL TCGA-DJ-A3VM 
       18.97         9.60        35.67        36.43        23.44        27.62 
TCGA-DJ-A4UL TCGA-DJ-A4UP TCGA-DJ-A4UQ TCGA-DJ-A4UR TCGA-DJ-A4UT TCGA-DJ-A4UW 
       30.87        30.12        33.04        34.78        27.06        26.93 
TCGA-DJ-A4V0 TCGA-DJ-A4V2 TCGA-DJ-A4V4 TCGA-DJ-A4V5 TCGA-DO-A1JZ TCGA-DO-A1K0 
       35.54         3.12        15.81        35.38        54.90        21.53 
TCGA-DO-A2HM TCGA-E3-A3DY TCGA-E3-A3DZ TCGA-E3-A3E0 TCGA-E3-A3E1 TCGA-E3-A3E2 
        2.33        92.55        47.21        66.38        80.52        63.19 
TCGA-E3-A3E3 TCGA-E8-A242 TCGA-E8-A2EA TCGA-E8-A2JQ TCGA-E8-A3X7 TCGA-E8-A413 
       52.44        31.23        35.67        11.70        31.27        29.98 
TCGA-E8-A414 TCGA-E8-A415 TCGA-E8-A416 TCGA-E8-A417 TCGA-E8-A419 TCGA-E8-A432 
       31.50        31.04        31.30        30.84        25.45        30.61 
TCGA-E8-A433 TCGA-E8-A434 TCGA-E8-A436 TCGA-E8-A437 TCGA-E8-A438 TCGA-E8-A44K 
       31.27        31.33        14.96        39.88        33.50        31.00 
TCGA-E8-A44M TCGA-EL-A3CL TCGA-EL-A3CM TCGA-EL-A3CN TCGA-EL-A3CO TCGA-EL-A3CP 
       30.15        31.66        26.73       155.54        97.74       158.83 
TCGA-EL-A3CT TCGA-EL-A3CU TCGA-EL-A3CV TCGA-EL-A3CW TCGA-EL-A3CX TCGA-EL-A3CZ 
       60.95       157.15        37.94        57.01       106.62        79.50 
TCGA-EL-A3D1 TCGA-EL-A3D4 TCGA-EL-A3D6 TCGA-EL-A3GO TCGA-EL-A3GP TCGA-EL-A3GR 
       98.53        69.57       108.36        64.87        49.51       115.10 
TCGA-EL-A3GS TCGA-EL-A3GU TCGA-EL-A3GV TCGA-EL-A3GW TCGA-EL-A3GX TCGA-EL-A3GY 
       65.39       136.01        50.37        50.20       147.75       101.13 
TCGA-EL-A3GZ TCGA-EL-A3H1 TCGA-EL-A3H3 TCGA-EL-A3H4 TCGA-EL-A3H5 TCGA-EL-A3H7 
      139.99        49.32        43.36        49.71        83.57       139.00 
TCGA-EL-A3MW TCGA-EL-A3MX TCGA-EL-A3MZ TCGA-EL-A3N2 TCGA-EL-A3T0 TCGA-EL-A3T1 
      108.66        57.63        52.50        29.65       142.52       129.57 
TCGA-EL-A3T2 TCGA-EL-A3T3 TCGA-EL-A3T6 TCGA-EL-A3T7 TCGA-EL-A3T8 TCGA-EL-A3T9 
       32.48       132.07        98.24        41.29       107.47         5.72 
TCGA-EL-A3TA TCGA-EL-A3TB TCGA-EL-A3ZG TCGA-EL-A3ZH TCGA-EL-A3ZK TCGA-EL-A3ZL 
       66.90        82.82        89.56        91.17        51.78        62.30 
TCGA-EL-A3ZM TCGA-EL-A3ZN TCGA-EL-A3ZO TCGA-EL-A3ZP TCGA-EL-A3ZQ TCGA-EL-A3ZR 
       36.03        53.06        72.69        65.49        61.22        60.16 
TCGA-EL-A3ZS TCGA-EL-A3ZT TCGA-EL-A4JV TCGA-EL-A4JW TCGA-EL-A4JX TCGA-EL-A4JZ 
        7.07        59.44        57.47        34.72        45.96        61.02 
TCGA-EL-A4K0 TCGA-EL-A4K1 TCGA-EL-A4K2 TCGA-EL-A4K4 TCGA-EL-A4K6 TCGA-EL-A4K7 
       31.04        34.39        30.51        53.36        44.15        41.13 
TCGA-EL-A4K9 TCGA-EL-A4KD TCGA-EL-A4KG TCGA-EL-A4KH TCGA-EL-A4KI TCGA-EM-A1CS 
       47.84        43.59        24.30        27.06        23.90        26.86 
TCGA-EM-A1CT TCGA-EM-A1CU TCGA-EM-A1CV TCGA-EM-A1CW TCGA-EM-A1YA TCGA-EM-A1YB 
       18.18        20.91        48.49        18.05        19.79        19.46 
TCGA-EM-A1YC TCGA-EM-A1YD TCGA-EM-A1YE TCGA-EM-A22I TCGA-EM-A22J TCGA-EM-A22K 
       78.61        57.01        54.08        14.73        14.50        15.75 
TCGA-EM-A22L TCGA-EM-A22M TCGA-EM-A22N TCGA-EM-A22O TCGA-EM-A22P TCGA-EM-A22Q 
       10.45        14.53        10.65        44.19        41.29        14.24 
TCGA-EM-A2CJ TCGA-EM-A2CK TCGA-EM-A2CL TCGA-EM-A2CN TCGA-EM-A2CO TCGA-EM-A2CP 
       47.57        17.88        13.18        23.51         6.05         2.99 
TCGA-EM-A2CQ TCGA-EM-A2CR TCGA-EM-A2CS TCGA-EM-A2CT TCGA-EM-A2CU TCGA-EM-A2OV 
       12.30        13.64        27.65        48.46        13.15        22.16 
TCGA-EM-A2OW TCGA-EM-A2OX TCGA-EM-A2OY TCGA-EM-A2OZ TCGA-EM-A2P0 TCGA-EM-A2P1 
       40.34        19.73        32.32        33.96        17.59        17.46 
TCGA-EM-A2P2 TCGA-EM-A2P3 TCGA-EM-A3AI TCGA-EM-A3AJ TCGA-EM-A3AK TCGA-EM-A3AL 
       17.29        14.60        22.52        30.94        15.68        14.14 
TCGA-EM-A3AN TCGA-EM-A3AO TCGA-EM-A3AP TCGA-EM-A3AR TCGA-EM-A3FJ TCGA-EM-A3FK 
       33.07        44.52         8.35        37.25        27.95        23.77 
TCGA-EM-A3FL TCGA-EM-A3FM TCGA-EM-A3FN TCGA-EM-A3FP TCGA-EM-A3FQ TCGA-EM-A3FR 
       47.38        21.01        12.07        17.39        16.18        15.02 
TCGA-EM-A3O3 TCGA-EM-A3O6 TCGA-EM-A3O7 TCGA-EM-A3O8 TCGA-EM-A3O9 TCGA-EM-A3OA 
       14.50        15.06         7.33        12.53         9.24        27.02 
TCGA-EM-A3OB TCGA-EM-A3ST TCGA-EM-A3SU TCGA-EM-A3SX TCGA-EM-A3SY TCGA-EM-A3SZ 
       38.66        38.86        29.95        29.85        13.51        12.79 
TCGA-EM-A4FF TCGA-EM-A4FH TCGA-EM-A4FK TCGA-EM-A4FM TCGA-EM-A4FN TCGA-EM-A4FO 
       84.59        29.33        21.34         5.33        26.37        26.37 
TCGA-EM-A4FQ TCGA-EM-A4FR TCGA-EM-A4FU TCGA-EM-A4FV TCGA-EM-A4G1 TCGA-ET-A25G 
       22.45        21.53        60.49        24.46        13.68        81.93 
TCGA-ET-A25I TCGA-ET-A25J TCGA-ET-A25K TCGA-ET-A25O TCGA-ET-A25R TCGA-ET-A2MX 
       81.70        77.56        70.42        65.29        63.45        88.41 
TCGA-ET-A2MY TCGA-ET-A2MZ TCGA-ET-A2N0 TCGA-ET-A2N1 TCGA-ET-A2N3 TCGA-ET-A2N4 
       58.75        37.25        52.60        54.35        83.34         2.66 
TCGA-ET-A2N5 TCGA-ET-A39I TCGA-ET-A39J TCGA-ET-A39K TCGA-ET-A39L TCGA-ET-A39M 
       80.88        33.24       106.09       107.41       108.46        84.89 
TCGA-ET-A39N TCGA-ET-A39O TCGA-ET-A39P TCGA-ET-A39R TCGA-ET-A39S TCGA-ET-A39T 
      123.32       100.57        95.34        94.13        55.10        98.20 
TCGA-ET-A3BN TCGA-ET-A3BP TCGA-ET-A3BQ TCGA-ET-A3BS TCGA-ET-A3BT TCGA-ET-A3BU 
       28.24        79.10        76.64         5.79        87.62        77.82 
TCGA-ET-A3BW TCGA-ET-A3BX TCGA-ET-A3DO TCGA-ET-A3DP TCGA-ET-A3DQ TCGA-ET-A3DR 
       46.65        52.47       116.78        94.59        84.85        80.58 
TCGA-ET-A3DS TCGA-ET-A3DT TCGA-ET-A3DU TCGA-ET-A3DV TCGA-ET-A3DW TCGA-ET-A40P 
       66.84        43.73        62.83       166.62        24.72        43.99 
TCGA-ET-A40Q TCGA-ET-A40R TCGA-ET-A40S TCGA-ET-A40T TCGA-ET-A4KN TCGA-ET-A4KQ 
       46.26        44.38        40.21        37.48        33.17        31.40 
TCGA-FE-A22Z TCGA-FE-A230 TCGA-FE-A231 TCGA-FE-A232 TCGA-FE-A233 TCGA-FE-A234 
       73.74        71.44        31.59        79.69        24.69        68.22 
TCGA-FE-A235 TCGA-FE-A236 TCGA-FE-A237 TCGA-FE-A23A TCGA-FE-A3PA TCGA-FE-A3PB 
      117.40        66.77       112.80        81.83       106.36        85.15 
TCGA-FE-A3PD TCGA-FK-A3SB TCGA-FK-A3SE TCGA-FK-A3SG TCGA-FK-A3SH TCGA-FK-A4UB 
       78.77         4.11        22.03         0.92        48.10       116.09 
TCGA-FY-A2QD TCGA-FY-A3BL TCGA-FY-A3I4 TCGA-FY-A3I5 TCGA-FY-A3NM TCGA-FY-A3NP 
        1.25        20.42        17.82         7.82        29.10        16.14 
TCGA-FY-A3ON TCGA-FY-A3R6 TCGA-FY-A3R7 TCGA-FY-A3R8 TCGA-FY-A3R9 TCGA-FY-A3RA 
       19.56        13.91        16.27        15.68        16.57        18.08 
TCGA-FY-A3TY TCGA-FY-A3W9 TCGA-FY-A3WA TCGA-FY-A3YR TCGA-FY-A40K TCGA-FY-A40L 
       23.31        21.63        17.06        17.36        15.16        23.87 
TCGA-FY-A40M TCGA-FY-A40N TCGA-FY-A4B0 TCGA-FY-A4B3 TCGA-FY-A4B4 TCGA-GE-A2C6 
       22.49        19.04        13.81        14.04        21.60        12.53 
TCGA-H2-A26U TCGA-H2-A2K9 TCGA-H2-A3RH TCGA-H2-A3RI TCGA-H2-A421 TCGA-H2-A422 
       17.00        21.67        12.46        11.01        20.05        18.61 
TCGA-IM-A3EB TCGA-IM-A3ED TCGA-IM-A3U2 TCGA-IM-A3U3 TCGA-IM-A41Y TCGA-IM-A41Z 
       48.92        47.41        18.51        16.90        21.83        31.10 
TCGA-IM-A420 TCGA-IM-A4EB TCGA-J8-A3O0 TCGA-J8-A3O1 TCGA-J8-A3O2 TCGA-J8-A3YD 
        8.22        25.64        43.17        27.19        11.24        31.82 
TCGA-J8-A3YE TCGA-J8-A3YF TCGA-J8-A3YG TCGA-J8-A3YH TCGA-J8-A42S TCGA-J8-A4HY 
       27.85        24.69        22.29         5.75         2.47         0.20 
TCGA-KS-A41F TCGA-KS-A41I TCGA-KS-A41J TCGA-KS-A41L TCGA-KS-A4I1 TCGA-KS-A4I3 
      143.57        15.98        15.68       113.85        26.70        43.69 
TCGA-KS-A4I5 TCGA-KS-A4I7 TCGA-KS-A4I9 TCGA-KS-A4IB TCGA-KS-A4IC TCGA-KS-A4ID 
       18.64        32.45        87.39        84.72        35.28        33.24 
TCGA-L6-A4EP TCGA-L6-A4EQ TCGA-L6-A4EU TCGA-MK-A4N6 TCGA-MK-A4N7 TCGA-MK-A4N9 
       33.40        40.37         9.50        36.10        32.45        30.21 
TCGA-E8-A418 
        3.02 

  NLRP6 MUTATED NLRP6 WILD-TYPE 
          12.89            0.20 
  NLRP6 MUTATED NLRP6 WILD-TYPE 
          85.68          178.29 
  NLRP6 MUTATED NLRP6 WILD-TYPE 
         44.285          31.100 
[1] "12.9 - 85.7 (44.3)" "0.2 - 178.3 (31.1)"
[1] "hr="     "9100000"
D27V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV STAGE IVA STAGE IVC
  NLRP6 MUTATED         3        0         0        0         1         0
  NLRP6 WILD-TYPE     275       50       108        2        45         6
D27V3, multiclass
           clus
vv          NLRP6 MUTATED NLRP6 WILD-TYPE
  STAGE I               3             275
  STAGE II              0              50
  STAGE III             0             108
  STAGE IV              0               2
  STAGE IVA             1              45
  STAGE IVC             0               6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus               T1  T2  T3  T4
  NLRP6 MUTATED     0   0   4   0
  NLRP6 WILD-TYPE 141 162 160  23
D27V4, multiclass
    clus
vv   NLRP6 MUTATED NLRP6 WILD-TYPE
  T1             0             141
  T2             0             162
  T3             4             160
  T4             0              23
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D27V5, binary
                 cls
clus                0   1
  NLRP6 MUTATED     1   3
  NLRP6 WILD-TYPE 219 219
[1] "tbl2"
                 cls
clus              [,1] [,2]
  NLRP6 MUTATED      1    3
  NLRP6 WILD-TYPE  219  219
   clus
vv  NLRP6 MUTATED NLRP6 WILD-TYPE
  0             1             219
  1             3             219
[1] 2 2
[1] FALSE
D27V6, binary
                 cls
clus                0   1
  NLRP6 MUTATED     0   0
  NLRP6 WILD-TYPE 276   9
[1] "tbl2"
                 cls
clus              [,1] [,2]
  NLRP6 MUTATED      0    0
  NLRP6 WILD-TYPE  276    9
D27V7, binary
                 cls
clus                0   1
  NLRP6 MUTATED     3   1
  NLRP6 WILD-TYPE 359 129
[1] "tbl2"
                 cls
clus              [,1] [,2]
  NLRP6 MUTATED      3    1
  NLRP6 WILD-TYPE  359  129
        clus
vv       NLRP6 MUTATED NLRP6 WILD-TYPE
  FEMALE             3             359
  MALE               1             129
[1] 2 2
[1] FALSE
D27V8, binary
                 cls
clus                0   1
  NLRP6 MUTATED     0   4
  NLRP6 WILD-TYPE 179 294
[1] "tbl2"
                 cls
clus              [,1] [,2]
  NLRP6 MUTATED      0    4
  NLRP6 WILD-TYPE  179  294
     clus
vv    NLRP6 MUTATED NLRP6 WILD-TYPE
  NO              0             179
  YES             4             294
[1] 2 2
[1] FALSE
                 vv
clus              OTHER, SPECIFY THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  NLRP6 MUTATED                0                                             3
  NLRP6 WILD-TYPE              7                                           345
                 vv
clus              THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  NLRP6 MUTATED                                                                        1
  NLRP6 WILD-TYPE                                                                    101
                 vv
clus              THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  NLRP6 MUTATED                                                                     0
  NLRP6 WILD-TYPE                                                                  35
D27V9, multiclass
                                                                        clus
vv                                                                       NLRP6 MUTATED
  OTHER, SPECIFY                                                                     0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                      3
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)             1
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                0
                                                                        clus
vv                                                                       NLRP6 WILD-TYPE
  OTHER, SPECIFY                                                                       7
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                      345
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)             101
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                 35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D27V10, binary
                 cls
clus                0   1
  NLRP6 MUTATED     4   0
  NLRP6 WILD-TYPE 411  17
[1] "tbl2"
                 cls
clus              [,1] [,2]
  NLRP6 MUTATED      4    0
  NLRP6 WILD-TYPE  411   17
     clus
vv    NLRP6 MUTATED NLRP6 WILD-TYPE
  NO              4             411
  YES             0              17
[1] 2 2
[1] FALSE
                 vv
clus              MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE VERY ADVANCED (T4B)
  NLRP6 MUTATED              2                       0    2                   0
  NLRP6 WILD-TYPE          128                      18  326                   1
D27V11, multiclass
                         clus
vv                        NLRP6 MUTATED NLRP6 WILD-TYPE
  MINIMAL (T3)                        2             128
  MODERATE/ADVANCED (T4A)             0              18
  NONE                                2             326
  VERY ADVANCED (T4B)                 0               1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus               R0  R1  R2  RX
  NLRP6 MUTATED     3   0   0   1
  NLRP6 WILD-TYPE 376  51   4  29
D27V12, multiclass
    clus
vv   NLRP6 MUTATED NLRP6 WILD-TYPE
  R0             3             376
  R1             0              51
  R2             0               4
  RX             1              29
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D27V13, continuous
D27V14, binary
                 cls
clus                0   1
  NLRP6 MUTATED     3   1
  NLRP6 WILD-TYPE 218 261
[1] "tbl2"
                 cls
clus              [,1] [,2]
  NLRP6 MUTATED      3    1
  NLRP6 WILD-TYPE  218  261
            clus
vv           NLRP6 MUTATED NLRP6 WILD-TYPE
  MULTIFOCAL             3             218
  UNIFOCAL               1             261
[1] 2 2
[1] FALSE
D27V15, continuous
                 vv
clus              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  NLRP6 MUTATED                                  0     0
  NLRP6 WILD-TYPE                                1    51
                 vv
clus              BLACK OR AFRICAN AMERICAN WHITE
  NLRP6 MUTATED                           2     1
  NLRP6 WILD-TYPE                        24   321
D27V16, multiclass
                                  clus
vv                                 NLRP6 MUTATED NLRP6 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE             0               1
  ASIAN                                        0              51
  BLACK OR AFRICAN AMERICAN                    2              24
  WHITE                                        1             321
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D27V17, binary
                 cls
clus                0   1
  NLRP6 MUTATED     0   3
  NLRP6 WILD-TYPE  38 348
[1] "tbl2"
                 cls
clus              [,1] [,2]
  NLRP6 MUTATED      0    3
  NLRP6 WILD-TYPE   38  348
                        clus
vv                       NLRP6 MUTATED NLRP6 WILD-TYPE
  HISPANIC OR LATINO                 0              38
  NOT HISPANIC OR LATINO             3             348
[1] 2 2
[1] FALSE

Clustering(28) Variable = IGSF3 MUTATION ANALYSIS
D28V1, survival
                 sevent
clus2               0   1
  IGSF3 MUTATED     4   0
  IGSF3 WILD-TYPE 473  14
  IGSF3 MUTATED IGSF3 WILD-TYPE 
              4             487 
  IGSF3 MUTATED IGSF3 WILD-TYPE 
              0              14 
$`IGSF3 MUTATED`
TCGA-E8-A417 TCGA-EM-A2CK TCGA-EM-A3OA TCGA-FE-A3PA 
       30.84        17.88        27.02       106.36 

$`IGSF3 WILD-TYPE`
TCGA-BJ-A290 TCGA-BJ-A45K TCGA-CE-A13K TCGA-DE-A0XZ TCGA-DJ-A13L TCGA-DJ-A2PR 
       30.21        23.18        12.66        35.84         9.96        27.45 
TCGA-DJ-A3UU TCGA-DJ-A3UW TCGA-DJ-A3V4 TCGA-DJ-A3VI TCGA-DJ-A3VK TCGA-E3-A3E5 
       23.44        59.57        42.54         3.12        24.76        39.95 
TCGA-EL-A3CR TCGA-EL-A3CS TCGA-EL-A3CY TCGA-EL-A3D0 TCGA-EL-A3D5 TCGA-EL-A3GQ 
        7.66        45.53         4.18       139.86        57.11        50.24 
TCGA-EL-A3H2 TCGA-EL-A3H8 TCGA-EL-A3MY TCGA-EL-A3N3 TCGA-EM-A3AQ TCGA-ET-A3BO 
       33.50       150.48        17.52       178.29        29.72        50.40 
TCGA-ET-A3BV TCGA-FK-A3SD TCGA-FY-A76V TCGA-J8-A3NZ TCGA-J8-A4HW TCGA-L6-A4ET 
       75.42         1.05         1.68        17.23         2.60        21.83 
TCGA-MK-A84Z TCGA-4C-A93U TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0Z3 
       23.93         4.24        24.79        13.78        49.78        16.34 
TCGA-BJ-A0Z9 TCGA-BJ-A0ZA TCGA-BJ-A0ZB TCGA-BJ-A0ZC TCGA-BJ-A0ZE TCGA-BJ-A0ZG 
       41.33        18.87         4.01        11.57        16.73        25.48 
TCGA-BJ-A0ZH TCGA-BJ-A0ZJ TCGA-BJ-A18Y TCGA-BJ-A18Z TCGA-BJ-A191 TCGA-BJ-A192 
       15.12        42.08        51.39        41.52         4.83        44.35 
TCGA-BJ-A28R TCGA-BJ-A28S TCGA-BJ-A28T TCGA-BJ-A28V TCGA-BJ-A28X TCGA-BJ-A28Z 
       42.15        21.04        35.54        32.45        30.97        11.08 
TCGA-BJ-A2N7 TCGA-BJ-A2N8 TCGA-BJ-A2N9 TCGA-BJ-A2NA TCGA-BJ-A2P4 TCGA-BJ-A3EZ 
       18.38        16.57        20.48        18.97        12.82        16.01 
TCGA-BJ-A3F0 TCGA-BJ-A3PR TCGA-BJ-A3PT TCGA-BJ-A3PU TCGA-BJ-A45D TCGA-BJ-A45E 
       13.94        36.39        23.31        18.64        10.88        21.01 
TCGA-BJ-A45F TCGA-BJ-A45G TCGA-BJ-A45H TCGA-BJ-A45I TCGA-BJ-A45J TCGA-BJ-A4O8 
        3.45        23.84        28.44        15.45        21.63        19.43 
TCGA-BJ-A4O9 TCGA-CE-A27D TCGA-CE-A3MD TCGA-CE-A3ME TCGA-CE-A481 TCGA-CE-A482 
       23.47        12.30        12.79        12.46        11.38        10.68 
TCGA-CE-A483 TCGA-CE-A484 TCGA-CE-A485 TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DE-A2OL 
       15.02        12.43        12.66        21.63        50.17        37.64 
TCGA-DE-A3KN TCGA-DE-A4M8 TCGA-DE-A4M9 TCGA-DE-A4MA TCGA-DE-A4MB TCGA-DE-A4MC 
       27.32        18.54        18.84        30.12        11.57        30.02 
TCGA-DE-A4MD TCGA-DE-A69J TCGA-DE-A69K TCGA-DE-A7U5 TCGA-DJ-A13M TCGA-DJ-A13O 
       25.12        14.70        14.27         2.76        48.79        38.17 
TCGA-DJ-A13P TCGA-DJ-A13R TCGA-DJ-A13S TCGA-DJ-A13T TCGA-DJ-A13U TCGA-DJ-A13V 
      169.32        18.58         8.71        56.19        52.27        43.17 
TCGA-DJ-A13W TCGA-DJ-A13X TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QG 
       52.37         8.32        48.07       135.91        30.61        44.98 
TCGA-DJ-A1QH TCGA-DJ-A1QI TCGA-DJ-A1QL TCGA-DJ-A1QM TCGA-DJ-A1QN TCGA-DJ-A1QO 
       42.51        14.96        17.59         6.02        42.58        47.41 
TCGA-DJ-A1QQ TCGA-DJ-A2PN TCGA-DJ-A2PO TCGA-DJ-A2PP TCGA-DJ-A2PQ TCGA-DJ-A2PS 
       17.56        10.09         7.99        30.58        35.41        26.20 
TCGA-DJ-A2PT TCGA-DJ-A2PU TCGA-DJ-A2PV TCGA-DJ-A2PW TCGA-DJ-A2PX TCGA-DJ-A2PY 
       38.83        33.96        31.99        34.85        28.96         8.78 
TCGA-DJ-A2PZ TCGA-DJ-A2Q0 TCGA-DJ-A2Q1 TCGA-DJ-A2Q2 TCGA-DJ-A2Q3 TCGA-DJ-A2Q4 
        8.42        34.36        37.74        43.96        40.24        33.93 
TCGA-DJ-A2Q5 TCGA-DJ-A2Q6 TCGA-DJ-A2Q7 TCGA-DJ-A2Q8 TCGA-DJ-A2Q9 TCGA-DJ-A2QA 
       37.48        36.46        35.11        39.09        35.90        33.53 
TCGA-DJ-A2QB TCGA-DJ-A2QC TCGA-DJ-A3UK TCGA-DJ-A3UM TCGA-DJ-A3UN TCGA-DJ-A3UO 
       35.18        39.95        36.92        31.04        32.42        31.46 
TCGA-DJ-A3UP TCGA-DJ-A3UQ TCGA-DJ-A3UR TCGA-DJ-A3US TCGA-DJ-A3UT TCGA-DJ-A3UX 
       16.41        19.56        36.33        32.81        36.33        11.34 
TCGA-DJ-A3UY TCGA-DJ-A3UZ TCGA-DJ-A3V0 TCGA-DJ-A3V2 TCGA-DJ-A3V3 TCGA-DJ-A3V5 
       35.87        40.96        36.99        20.22        30.61        19.20 
TCGA-DJ-A3V7 TCGA-DJ-A3V8 TCGA-DJ-A3V9 TCGA-DJ-A3VA TCGA-DJ-A3VB TCGA-DJ-A3VD 
       23.21        21.27        20.48        24.82        22.92        40.70 
TCGA-DJ-A3VE TCGA-DJ-A3VF TCGA-DJ-A3VG TCGA-DJ-A3VJ TCGA-DJ-A3VL TCGA-DJ-A3VM 
       18.97         9.60        35.67        36.43        23.44        27.62 
TCGA-DJ-A4UL TCGA-DJ-A4UP TCGA-DJ-A4UQ TCGA-DJ-A4UR TCGA-DJ-A4UT TCGA-DJ-A4UW 
       30.87        30.12        33.04        34.78        27.06        26.93 
TCGA-DJ-A4V0 TCGA-DJ-A4V2 TCGA-DJ-A4V4 TCGA-DJ-A4V5 TCGA-DO-A1JZ TCGA-DO-A1K0 
       35.54         3.12        15.81        35.38        54.90        21.53 
TCGA-DO-A2HM TCGA-E3-A3DY TCGA-E3-A3DZ TCGA-E3-A3E0 TCGA-E3-A3E1 TCGA-E3-A3E2 
        2.33        92.55        47.21        66.38        80.52        63.19 
TCGA-E3-A3E3 TCGA-E8-A242 TCGA-E8-A2EA TCGA-E8-A2JQ TCGA-E8-A3X7 TCGA-E8-A413 
       52.44        31.23        35.67        11.70        31.27        29.98 
TCGA-E8-A414 TCGA-E8-A415 TCGA-E8-A416 TCGA-E8-A419 TCGA-E8-A432 TCGA-E8-A433 
       31.50        31.04        31.30        25.45        30.61        31.27 
TCGA-E8-A434 TCGA-E8-A436 TCGA-E8-A437 TCGA-E8-A438 TCGA-E8-A44K TCGA-E8-A44M 
       31.33        14.96        39.88        33.50        31.00        30.15 
TCGA-EL-A3CL TCGA-EL-A3CM TCGA-EL-A3CN TCGA-EL-A3CO TCGA-EL-A3CP TCGA-EL-A3CT 
       31.66        26.73       155.54        97.74       158.83        60.95 
TCGA-EL-A3CU TCGA-EL-A3CV TCGA-EL-A3CW TCGA-EL-A3CX TCGA-EL-A3CZ TCGA-EL-A3D1 
      157.15        37.94        57.01       106.62        79.50        98.53 
TCGA-EL-A3D4 TCGA-EL-A3D6 TCGA-EL-A3GO TCGA-EL-A3GP TCGA-EL-A3GR TCGA-EL-A3GS 
       69.57       108.36        64.87        49.51       115.10        65.39 
TCGA-EL-A3GU TCGA-EL-A3GV TCGA-EL-A3GW TCGA-EL-A3GX TCGA-EL-A3GY TCGA-EL-A3GZ 
      136.01        50.37        50.20       147.75       101.13       139.99 
TCGA-EL-A3H1 TCGA-EL-A3H3 TCGA-EL-A3H4 TCGA-EL-A3H5 TCGA-EL-A3H7 TCGA-EL-A3MW 
       49.32        43.36        49.71        83.57       139.00       108.66 
TCGA-EL-A3MX TCGA-EL-A3MZ TCGA-EL-A3N2 TCGA-EL-A3T0 TCGA-EL-A3T1 TCGA-EL-A3T2 
       57.63        52.50        29.65       142.52       129.57        32.48 
TCGA-EL-A3T3 TCGA-EL-A3T6 TCGA-EL-A3T7 TCGA-EL-A3T8 TCGA-EL-A3T9 TCGA-EL-A3TA 
      132.07        98.24        41.29       107.47         5.72        66.90 
TCGA-EL-A3TB TCGA-EL-A3ZG TCGA-EL-A3ZH TCGA-EL-A3ZK TCGA-EL-A3ZL TCGA-EL-A3ZM 
       82.82        89.56        91.17        51.78        62.30        36.03 
TCGA-EL-A3ZN TCGA-EL-A3ZO TCGA-EL-A3ZP TCGA-EL-A3ZQ TCGA-EL-A3ZR TCGA-EL-A3ZS 
       53.06        72.69        65.49        61.22        60.16         7.07 
TCGA-EL-A3ZT TCGA-EL-A4JV TCGA-EL-A4JW TCGA-EL-A4JX TCGA-EL-A4JZ TCGA-EL-A4K0 
       59.44        57.47        34.72        45.96        61.02        31.04 
TCGA-EL-A4K1 TCGA-EL-A4K2 TCGA-EL-A4K4 TCGA-EL-A4K6 TCGA-EL-A4K7 TCGA-EL-A4K9 
       34.39        30.51        53.36        44.15        41.13        47.84 
TCGA-EL-A4KD TCGA-EL-A4KG TCGA-EL-A4KH TCGA-EL-A4KI TCGA-EM-A1CS TCGA-EM-A1CT 
       43.59        24.30        27.06        23.90        26.86        18.18 
TCGA-EM-A1CU TCGA-EM-A1CV TCGA-EM-A1CW TCGA-EM-A1YA TCGA-EM-A1YB TCGA-EM-A1YC 
       20.91        48.49        18.05        19.79        19.46        78.61 
TCGA-EM-A1YD TCGA-EM-A1YE TCGA-EM-A22I TCGA-EM-A22J TCGA-EM-A22K TCGA-EM-A22L 
       57.01        54.08        14.73        14.50        15.75        10.45 
TCGA-EM-A22M TCGA-EM-A22N TCGA-EM-A22O TCGA-EM-A22P TCGA-EM-A22Q TCGA-EM-A2CJ 
       14.53        10.65        44.19        41.29        14.24        47.57 
TCGA-EM-A2CL TCGA-EM-A2CN TCGA-EM-A2CO TCGA-EM-A2CP TCGA-EM-A2CQ TCGA-EM-A2CR 
       13.18        23.51         6.05         2.99        12.30        13.64 
TCGA-EM-A2CS TCGA-EM-A2CT TCGA-EM-A2CU TCGA-EM-A2OV TCGA-EM-A2OW TCGA-EM-A2OX 
       27.65        48.46        13.15        22.16        40.34        19.73 
TCGA-EM-A2OY TCGA-EM-A2OZ TCGA-EM-A2P0 TCGA-EM-A2P1 TCGA-EM-A2P2 TCGA-EM-A2P3 
       32.32        33.96        17.59        17.46        17.29        14.60 
TCGA-EM-A3AI TCGA-EM-A3AJ TCGA-EM-A3AK TCGA-EM-A3AL TCGA-EM-A3AN TCGA-EM-A3AO 
       22.52        30.94        15.68        14.14        33.07        44.52 
TCGA-EM-A3AP TCGA-EM-A3AR TCGA-EM-A3FJ TCGA-EM-A3FK TCGA-EM-A3FL TCGA-EM-A3FM 
        8.35        37.25        27.95        23.77        47.38        21.01 
TCGA-EM-A3FN TCGA-EM-A3FO TCGA-EM-A3FP TCGA-EM-A3FQ TCGA-EM-A3FR TCGA-EM-A3O3 
       12.07        17.49        17.39        16.18        15.02        14.50 
TCGA-EM-A3O6 TCGA-EM-A3O7 TCGA-EM-A3O8 TCGA-EM-A3O9 TCGA-EM-A3OB TCGA-EM-A3ST 
       15.06         7.33        12.53         9.24        38.66        38.86 
TCGA-EM-A3SU TCGA-EM-A3SX TCGA-EM-A3SY TCGA-EM-A3SZ TCGA-EM-A4FF TCGA-EM-A4FH 
       29.95        29.85        13.51        12.79        84.59        29.33 
TCGA-EM-A4FK TCGA-EM-A4FM TCGA-EM-A4FN TCGA-EM-A4FO TCGA-EM-A4FQ TCGA-EM-A4FR 
       21.34         5.33        26.37        26.37        22.45        21.53 
TCGA-EM-A4FU TCGA-EM-A4FV TCGA-EM-A4G1 TCGA-ET-A25G TCGA-ET-A25I TCGA-ET-A25J 
       60.49        24.46        13.68        81.93        81.70        77.56 
TCGA-ET-A25K TCGA-ET-A25O TCGA-ET-A25R TCGA-ET-A2MX TCGA-ET-A2MY TCGA-ET-A2MZ 
       70.42        65.29        63.45        88.41        58.75        37.25 
TCGA-ET-A2N0 TCGA-ET-A2N1 TCGA-ET-A2N3 TCGA-ET-A2N4 TCGA-ET-A2N5 TCGA-ET-A39I 
       52.60        54.35        83.34         2.66        80.88        33.24 
TCGA-ET-A39J TCGA-ET-A39K TCGA-ET-A39L TCGA-ET-A39M TCGA-ET-A39N TCGA-ET-A39O 
      106.09       107.41       108.46        84.89       123.32       100.57 
TCGA-ET-A39P TCGA-ET-A39R TCGA-ET-A39S TCGA-ET-A39T TCGA-ET-A3BN TCGA-ET-A3BP 
       95.34        94.13        55.10        98.20        28.24        79.10 
TCGA-ET-A3BQ TCGA-ET-A3BS TCGA-ET-A3BT TCGA-ET-A3BU TCGA-ET-A3BW TCGA-ET-A3BX 
       76.64         5.79        87.62        77.82        46.65        52.47 
TCGA-ET-A3DO TCGA-ET-A3DP TCGA-ET-A3DQ TCGA-ET-A3DR TCGA-ET-A3DS TCGA-ET-A3DT 
      116.78        94.59        84.85        80.58        66.84        43.73 
TCGA-ET-A3DU TCGA-ET-A3DV TCGA-ET-A3DW TCGA-ET-A40P TCGA-ET-A40Q TCGA-ET-A40R 
       62.83       166.62        24.72        43.99        46.26        44.38 
TCGA-ET-A40S TCGA-ET-A40T TCGA-ET-A4KN TCGA-ET-A4KQ TCGA-FE-A22Z TCGA-FE-A230 
       40.21        37.48        33.17        31.40        73.74        71.44 
TCGA-FE-A231 TCGA-FE-A232 TCGA-FE-A233 TCGA-FE-A234 TCGA-FE-A235 TCGA-FE-A236 
       31.59        79.69        24.69        68.22       117.40        66.77 
TCGA-FE-A237 TCGA-FE-A23A TCGA-FE-A3PB TCGA-FE-A3PC TCGA-FE-A3PD TCGA-FK-A3S3 
      112.80        81.83        85.15        85.68        78.77        71.08 
TCGA-FK-A3SB TCGA-FK-A3SE TCGA-FK-A3SG TCGA-FK-A3SH TCGA-FK-A4UB TCGA-FY-A2QD 
        4.11        22.03         0.92        48.10       116.09         1.25 
TCGA-FY-A3BL TCGA-FY-A3I4 TCGA-FY-A3I5 TCGA-FY-A3NM TCGA-FY-A3NP TCGA-FY-A3ON 
       20.42        17.82         7.82        29.10        16.14        19.56 
TCGA-FY-A3R6 TCGA-FY-A3R7 TCGA-FY-A3R8 TCGA-FY-A3R9 TCGA-FY-A3RA TCGA-FY-A3TY 
       13.91        16.27        15.68        16.57        18.08        23.31 
TCGA-FY-A3W9 TCGA-FY-A3WA TCGA-FY-A3YR TCGA-FY-A40K TCGA-FY-A40L TCGA-FY-A40M 
       21.63        17.06        17.36        15.16        23.87        22.49 
TCGA-FY-A40N TCGA-FY-A4B0 TCGA-FY-A4B3 TCGA-FY-A4B4 TCGA-GE-A2C6 TCGA-H2-A26U 
       19.04        13.81        14.04        21.60        12.53        17.00 
TCGA-H2-A2K9 TCGA-H2-A3RH TCGA-H2-A3RI TCGA-H2-A421 TCGA-H2-A422 TCGA-IM-A3EB 
       21.67        12.46        11.01        20.05        18.61        48.92 
TCGA-IM-A3ED TCGA-IM-A3U2 TCGA-IM-A3U3 TCGA-IM-A41Y TCGA-IM-A41Z TCGA-IM-A420 
       47.41        18.51        16.90        21.83        31.10         8.22 
TCGA-IM-A4EB TCGA-J8-A3O0 TCGA-J8-A3O1 TCGA-J8-A3O2 TCGA-J8-A3YD TCGA-J8-A3YE 
       25.64        43.17        27.19        11.24        31.82        27.85 
TCGA-J8-A3YF TCGA-J8-A3YG TCGA-J8-A3YH TCGA-J8-A42S TCGA-J8-A4HY TCGA-KS-A41F 
       24.69        22.29         5.75         2.47         0.20       143.57 
TCGA-KS-A41I TCGA-KS-A41J TCGA-KS-A41L TCGA-KS-A4I1 TCGA-KS-A4I3 TCGA-KS-A4I5 
       15.98        15.68       113.85        26.70        43.69        18.64 
TCGA-KS-A4I7 TCGA-KS-A4I9 TCGA-KS-A4IB TCGA-KS-A4IC TCGA-KS-A4ID TCGA-L6-A4EP 
       32.45        87.39        84.72        35.28        33.24        33.40 
TCGA-L6-A4EQ TCGA-L6-A4EU TCGA-MK-A4N6 TCGA-MK-A4N7 TCGA-MK-A4N9 TCGA-QD-A8IV 
       40.37         9.50        36.10        32.45        30.21        12.89 
TCGA-E8-A418 
        3.02 

  IGSF3 MUTATED IGSF3 WILD-TYPE 
          17.88            0.20 
  IGSF3 MUTATED IGSF3 WILD-TYPE 
         106.36          178.29 
  IGSF3 MUTATED IGSF3 WILD-TYPE 
          28.93           31.23 
[1] "17.9 - 106.4 (28.9)" "0.2 - 178.3 (31.2)" 
[1] "hr="     "3300000"
D28V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV STAGE IVA STAGE IVC
  IGSF3 MUTATED         2        2         0        0         0         0
  IGSF3 WILD-TYPE     276       48       108        2        46         6
D28V3, multiclass
           clus
vv          IGSF3 MUTATED IGSF3 WILD-TYPE
  STAGE I               2             276
  STAGE II              2              48
  STAGE III             0             108
  STAGE IV              0               2
  STAGE IVA             0              46
  STAGE IVC             0               6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus               T1  T2  T3  T4
  IGSF3 MUTATED     0   3   0   1
  IGSF3 WILD-TYPE 141 159 164  22
D28V4, multiclass
    clus
vv   IGSF3 MUTATED IGSF3 WILD-TYPE
  T1             0             141
  T2             3             159
  T3             0             164
  T4             1              22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D28V5, binary
                 cls
clus                0   1
  IGSF3 MUTATED     2   2
  IGSF3 WILD-TYPE 218 220
[1] "tbl2"
                 cls
clus              [,1] [,2]
  IGSF3 MUTATED      2    2
  IGSF3 WILD-TYPE  218  220
   clus
vv  IGSF3 MUTATED IGSF3 WILD-TYPE
  0             2             218
  1             2             220
[1] 2 2
[1] FALSE
D28V6, binary
                 cls
clus                0   1
  IGSF3 MUTATED     1   1
  IGSF3 WILD-TYPE 275   8
[1] "tbl2"
                 cls
clus              [,1] [,2]
  IGSF3 MUTATED      1    1
  IGSF3 WILD-TYPE  275    8
   clus
vv  IGSF3 MUTATED IGSF3 WILD-TYPE
  0             1             275
  1             1               8
[1] 2 2
[1] FALSE
D28V7, binary
                 cls
clus                0   1
  IGSF3 MUTATED     2   2
  IGSF3 WILD-TYPE 360 128
[1] "tbl2"
                 cls
clus              [,1] [,2]
  IGSF3 MUTATED      2    2
  IGSF3 WILD-TYPE  360  128
        clus
vv       IGSF3 MUTATED IGSF3 WILD-TYPE
  FEMALE             2             360
  MALE               2             128
[1] 2 2
[1] FALSE
D28V8, binary
                 cls
clus                0   1
  IGSF3 MUTATED     1   3
  IGSF3 WILD-TYPE 178 295
[1] "tbl2"
                 cls
clus              [,1] [,2]
  IGSF3 MUTATED      1    3
  IGSF3 WILD-TYPE  178  295
     clus
vv    IGSF3 MUTATED IGSF3 WILD-TYPE
  NO              1             178
  YES             3             295
[1] 2 2
[1] FALSE
                 vv
clus              OTHER, SPECIFY THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  IGSF3 MUTATED                0                                             1
  IGSF3 WILD-TYPE              7                                           347
                 vv
clus              THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  IGSF3 MUTATED                                                                        3
  IGSF3 WILD-TYPE                                                                     99
                 vv
clus              THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  IGSF3 MUTATED                                                                     0
  IGSF3 WILD-TYPE                                                                  35
D28V9, multiclass
                                                                        clus
vv                                                                       IGSF3 MUTATED
  OTHER, SPECIFY                                                                     0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                      1
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)             3
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                0
                                                                        clus
vv                                                                       IGSF3 WILD-TYPE
  OTHER, SPECIFY                                                                       7
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                      347
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)              99
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                 35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D28V10, binary
                 cls
clus                0   1
  IGSF3 MUTATED     3   0
  IGSF3 WILD-TYPE 412  17
[1] "tbl2"
                 cls
clus              [,1] [,2]
  IGSF3 MUTATED      3    0
  IGSF3 WILD-TYPE  412   17
     clus
vv    IGSF3 MUTATED IGSF3 WILD-TYPE
  NO              3             412
  YES             0              17
[1] 2 2
[1] FALSE
                 vv
clus              MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE VERY ADVANCED (T4B)
  IGSF3 MUTATED              1                       0    3                   0
  IGSF3 WILD-TYPE          129                      18  325                   1
D28V11, multiclass
                         clus
vv                        IGSF3 MUTATED IGSF3 WILD-TYPE
  MINIMAL (T3)                        1             129
  MODERATE/ADVANCED (T4A)             0              18
  NONE                                3             325
  VERY ADVANCED (T4B)                 0               1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus               R0  R1  R2  RX
  IGSF3 MUTATED     3   0   1   0
  IGSF3 WILD-TYPE 376  51   3  30
D28V12, multiclass
    clus
vv   IGSF3 MUTATED IGSF3 WILD-TYPE
  R0             3             376
  R1             0              51
  R2             1               3
  RX             0              30
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D28V13, continuous
D28V14, binary
                 cls
clus                0   1
  IGSF3 MUTATED     1   3
  IGSF3 WILD-TYPE 220 259
[1] "tbl2"
                 cls
clus              [,1] [,2]
  IGSF3 MUTATED      1    3
  IGSF3 WILD-TYPE  220  259
            clus
vv           IGSF3 MUTATED IGSF3 WILD-TYPE
  MULTIFOCAL             1             220
  UNIFOCAL               3             259
[1] 2 2
[1] FALSE
D28V15, continuous
                 vv
clus              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  IGSF3 MUTATED                                  0     1
  IGSF3 WILD-TYPE                                1    50
                 vv
clus              BLACK OR AFRICAN AMERICAN WHITE
  IGSF3 MUTATED                           0     1
  IGSF3 WILD-TYPE                        26   321
D28V16, multiclass
[1] "Remove cluster labels:" "IGSF3 MUTATED"         
clus
  IGSF3 MUTATED IGSF3 WILD-TYPE 
              2             398 
     TCGA-BJ-A290      TCGA-BJ-A45K      TCGA-CE-A13K      TCGA-DE-A0XZ 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-DJ-A13L      TCGA-DJ-A2PR      TCGA-DJ-A3UU      TCGA-DJ-A3UW 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-DJ-A3V4      TCGA-DJ-A3VI      TCGA-DJ-A3VK      TCGA-E3-A3E5 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-EL-A3CR      TCGA-EL-A3CS      TCGA-EL-A3CY      TCGA-EL-A3D0 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-EL-A3D5      TCGA-EL-A3GQ      TCGA-EL-A3H2      TCGA-EL-A3H8 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-EL-A3MY      TCGA-EL-A3N3      TCGA-ET-A3BO      TCGA-ET-A3BV 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-FK-A3SD      TCGA-FY-A76V      TCGA-J8-A3NZ      TCGA-J8-A4HW 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-L6-A4ET      TCGA-MK-A84Z      TCGA-4C-A93U      TCGA-BJ-A0YZ 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-BJ-A0Z2      TCGA-BJ-A0Z3      TCGA-BJ-A0Z9      TCGA-BJ-A0ZA 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-BJ-A0ZB      TCGA-BJ-A0ZC      TCGA-BJ-A0ZE      TCGA-BJ-A0ZG 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-BJ-A0ZH      TCGA-BJ-A0ZJ      TCGA-BJ-A18Y      TCGA-BJ-A18Z 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-BJ-A191      TCGA-BJ-A192      TCGA-BJ-A28R      TCGA-BJ-A28S 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-BJ-A28T      TCGA-BJ-A28V      TCGA-BJ-A28X      TCGA-BJ-A28Z 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-BJ-A2N7      TCGA-BJ-A2N8      TCGA-BJ-A2N9      TCGA-BJ-A2NA 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-BJ-A2P4      TCGA-BJ-A3EZ      TCGA-BJ-A3F0      TCGA-BJ-A3PR 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-BJ-A3PT      TCGA-BJ-A3PU      TCGA-BJ-A45D      TCGA-BJ-A45E 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-BJ-A45F      TCGA-BJ-A45G      TCGA-BJ-A45H      TCGA-BJ-A45I 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-BJ-A45J      TCGA-BJ-A4O8      TCGA-BJ-A4O9      TCGA-CE-A27D 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-CE-A3MD      TCGA-CE-A3ME      TCGA-CE-A481      TCGA-CE-A482 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-CE-A483      TCGA-CE-A484      TCGA-CE-A485      TCGA-DE-A0Y2 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-DE-A0Y3      TCGA-DE-A2OL      TCGA-DE-A3KN      TCGA-DE-A4M8 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-DE-A4M9      TCGA-DE-A4MA      TCGA-DE-A4MB      TCGA-DE-A4MC 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-DE-A4MD      TCGA-DE-A69J      TCGA-DE-A69K      TCGA-DE-A7U5 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-DJ-A13M      TCGA-DJ-A13O      TCGA-DJ-A13P      TCGA-DJ-A13R 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-DJ-A13S      TCGA-DJ-A13T      TCGA-DJ-A13U      TCGA-DJ-A13W 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-DJ-A1QD      TCGA-DJ-A1QE      TCGA-DJ-A1QF      TCGA-DJ-A1QG 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-DJ-A1QH      TCGA-DJ-A1QI      TCGA-DJ-A1QM      TCGA-DJ-A1QO 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-DJ-A1QQ      TCGA-DJ-A2PN      TCGA-DJ-A2PO      TCGA-DJ-A2PQ 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-DJ-A2PS      TCGA-DJ-A2PT      TCGA-DJ-A2PU      TCGA-DJ-A2PV 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-DJ-A2PW      TCGA-DJ-A2PX      TCGA-DJ-A2PY      TCGA-DJ-A2PZ 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-DJ-A2Q0      TCGA-DJ-A2Q1      TCGA-DJ-A2Q2      TCGA-DJ-A2Q3 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-DJ-A2Q4      TCGA-DJ-A2Q5      TCGA-DJ-A2Q6      TCGA-DJ-A2Q7 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-DJ-A2Q9      TCGA-DJ-A2QA      TCGA-DJ-A2QB      TCGA-DJ-A3UK 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-DJ-A3UM      TCGA-DJ-A3UN      TCGA-DJ-A3UO      TCGA-DJ-A3UQ 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-DJ-A3UR      TCGA-DJ-A3US      TCGA-DJ-A3UT      TCGA-DJ-A3UX 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-DJ-A3UY      TCGA-DJ-A3UZ      TCGA-DJ-A3V2      TCGA-DJ-A3V3 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-DJ-A3V5      TCGA-DJ-A3V7      TCGA-DJ-A3V8      TCGA-DJ-A3V9 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-DJ-A3VD      TCGA-DJ-A3VE      TCGA-DJ-A3VF      TCGA-DJ-A3VG 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-DJ-A3VJ      TCGA-DJ-A3VL      TCGA-DJ-A3VM      TCGA-DJ-A4UL 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-DJ-A4UP      TCGA-DJ-A4UQ      TCGA-DJ-A4UR      TCGA-DJ-A4UT 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-DJ-A4UW      TCGA-DJ-A4V0      TCGA-DJ-A4V4      TCGA-DJ-A4V5 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-DO-A1JZ      TCGA-DO-A1K0      TCGA-DO-A2HM      TCGA-E3-A3DY 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-E3-A3DZ      TCGA-E3-A3E0      TCGA-E3-A3E1      TCGA-E3-A3E2 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-E3-A3E3      TCGA-E8-A242      TCGA-E8-A2EA      TCGA-E8-A2JQ 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-E8-A3X7      TCGA-E8-A413      TCGA-E8-A414      TCGA-E8-A415 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-E8-A416      TCGA-E8-A419      TCGA-E8-A432      TCGA-E8-A433 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-E8-A434      TCGA-E8-A436      TCGA-E8-A437      TCGA-E8-A438 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-E8-A44K      TCGA-E8-A44M      TCGA-EL-A3CL      TCGA-EL-A3CM 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-EL-A3CN      TCGA-EL-A3CO      TCGA-EL-A3CP      TCGA-EL-A3CT 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-EL-A3CU      TCGA-EL-A3CV      TCGA-EL-A3CW      TCGA-EL-A3CX 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-EL-A3CZ      TCGA-EL-A3D1      TCGA-EL-A3D4      TCGA-EL-A3D6 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-EL-A3GO      TCGA-EL-A3GP      TCGA-EL-A3GR      TCGA-EL-A3GS 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-EL-A3GU      TCGA-EL-A3GV      TCGA-EL-A3GW      TCGA-EL-A3GX 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-EL-A3GY      TCGA-EL-A3GZ      TCGA-EL-A3H1      TCGA-EL-A3H3 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-EL-A3H4      TCGA-EL-A3H5      TCGA-EL-A3H7      TCGA-EL-A3MW 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-EL-A3MX      TCGA-EL-A3MZ      TCGA-EL-A3N2      TCGA-EL-A3T0 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-EL-A3T1      TCGA-EL-A3T2      TCGA-EL-A3T3      TCGA-EL-A3T6 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-EL-A3T7      TCGA-EL-A3T8      TCGA-EL-A3T9      TCGA-EL-A3TA 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-EL-A3TB      TCGA-EL-A3ZG      TCGA-EL-A3ZH      TCGA-EL-A3ZK 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-EL-A3ZL      TCGA-EL-A3ZN      TCGA-EL-A3ZO      TCGA-EL-A3ZP 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-EL-A3ZQ      TCGA-EL-A3ZR      TCGA-EL-A3ZS      TCGA-EL-A3ZT 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-EL-A4JV      TCGA-EL-A4JW      TCGA-EL-A4JX      TCGA-EL-A4JZ 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-EL-A4K0      TCGA-EL-A4K1      TCGA-EL-A4K2      TCGA-EL-A4K4 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-EL-A4K6      TCGA-EL-A4K7      TCGA-EL-A4K9      TCGA-EL-A4KD 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-EL-A4KG      TCGA-EL-A4KH      TCGA-EL-A4KI      TCGA-EM-A22M 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-EM-A22O      TCGA-EM-A2OV      TCGA-EM-A3AI      TCGA-ET-A25G 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-ET-A25I      TCGA-ET-A25J      TCGA-ET-A25K      TCGA-ET-A25O 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-ET-A25R      TCGA-ET-A2MX      TCGA-ET-A2MY      TCGA-ET-A2MZ 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-ET-A2N0      TCGA-ET-A2N1      TCGA-ET-A2N3      TCGA-ET-A2N4 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-ET-A2N5      TCGA-ET-A39I      TCGA-ET-A39J      TCGA-ET-A39K 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-ET-A39M      TCGA-ET-A39N      TCGA-ET-A39O      TCGA-ET-A39P 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-ET-A39R      TCGA-ET-A39S      TCGA-ET-A39T      TCGA-ET-A3BN 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-ET-A3BP      TCGA-ET-A3BQ      TCGA-ET-A3BS      TCGA-ET-A3BT 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-ET-A3BU      TCGA-ET-A3BW      TCGA-ET-A3BX      TCGA-ET-A3DO 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-ET-A3DP      TCGA-ET-A3DQ      TCGA-ET-A3DR      TCGA-ET-A3DS 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-ET-A3DT      TCGA-ET-A3DU      TCGA-ET-A3DV      TCGA-ET-A3DW 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-ET-A40P      TCGA-ET-A40Q      TCGA-ET-A40R      TCGA-ET-A40S 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-ET-A40T      TCGA-ET-A4KN      TCGA-ET-A4KQ      TCGA-FE-A22Z 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-FE-A230      TCGA-FE-A231      TCGA-FE-A232      TCGA-FE-A233 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-FE-A234      TCGA-FE-A235      TCGA-FE-A236      TCGA-FE-A237 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-FE-A23A      TCGA-FE-A3PB      TCGA-FE-A3PC      TCGA-FE-A3PD 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-FK-A3S3      TCGA-FK-A3SB      TCGA-FK-A3SE      TCGA-FK-A3SG 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-FK-A3SH      TCGA-FK-A4UB      TCGA-FY-A2QD      TCGA-FY-A3BL 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-FY-A3I4      TCGA-FY-A3I5      TCGA-FY-A3NM      TCGA-FY-A3NP 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-FY-A3ON      TCGA-FY-A3R6      TCGA-FY-A3R7      TCGA-FY-A3R8 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-FY-A3R9      TCGA-FY-A3RA      TCGA-FY-A3TY      TCGA-FY-A3W9 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-FY-A3WA      TCGA-FY-A3YR      TCGA-FY-A40K      TCGA-FY-A40L 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-FY-A40M      TCGA-FY-A40N      TCGA-FY-A4B0      TCGA-FY-A4B3 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-FY-A4B4      TCGA-GE-A2C6      TCGA-H2-A26U      TCGA-H2-A2K9 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-H2-A3RH      TCGA-H2-A3RI      TCGA-H2-A421      TCGA-H2-A422 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-IM-A3EB      TCGA-IM-A3ED      TCGA-IM-A3U2      TCGA-IM-A3U3 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-IM-A41Y      TCGA-IM-A41Z      TCGA-IM-A420      TCGA-IM-A4EB 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-J8-A3O0      TCGA-J8-A3O1      TCGA-J8-A3O2      TCGA-J8-A3YD 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-J8-A3YE      TCGA-J8-A3YF      TCGA-J8-A3YG      TCGA-J8-A3YH 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-J8-A42S      TCGA-J8-A4HY      TCGA-KS-A41F      TCGA-KS-A41I 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-KS-A41J      TCGA-KS-A41L      TCGA-KS-A4I1      TCGA-KS-A4I3 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-KS-A4I5      TCGA-KS-A4I7      TCGA-KS-A4I9      TCGA-KS-A4IB 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-KS-A4IC      TCGA-KS-A4ID      TCGA-L6-A4EP      TCGA-L6-A4EQ 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-L6-A4EU      TCGA-MK-A4N6      TCGA-MK-A4N7      TCGA-MK-A4N9 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
     TCGA-QD-A8IV      TCGA-E8-A418 
"IGSF3 WILD-TYPE" "IGSF3 WILD-TYPE" 
D28V17, binary
                 cls
clus                0   1
  IGSF3 MUTATED     0   2
  IGSF3 WILD-TYPE  38 349
[1] "tbl2"
                 cls
clus              [,1] [,2]
  IGSF3 MUTATED      0    2
  IGSF3 WILD-TYPE   38  349
                        clus
vv                       IGSF3 MUTATED IGSF3 WILD-TYPE
  HISPANIC OR LATINO                 0              38
  NOT HISPANIC OR LATINO             2             349
[1] 2 2
[1] FALSE

Clustering(29) Variable = PRMT8 MUTATION ANALYSIS
D29V1, survival
                 sevent
clus2               0   1
  PRMT8 MUTATED     3   0
  PRMT8 WILD-TYPE 474  14
  PRMT8 MUTATED PRMT8 WILD-TYPE 
              3             488 
  PRMT8 MUTATED PRMT8 WILD-TYPE 
              0              14 
$`PRMT8 MUTATED`
TCGA-DJ-A3V9 TCGA-DJ-A3VG TCGA-EL-A3ZS 
       20.48        35.67         7.07 

$`PRMT8 WILD-TYPE`
TCGA-BJ-A290 TCGA-BJ-A45K TCGA-CE-A13K TCGA-DE-A0XZ TCGA-DJ-A13L TCGA-DJ-A2PR 
       30.21        23.18        12.66        35.84         9.96        27.45 
TCGA-DJ-A3UU TCGA-DJ-A3UW TCGA-DJ-A3V4 TCGA-DJ-A3VI TCGA-DJ-A3VK TCGA-E3-A3E5 
       23.44        59.57        42.54         3.12        24.76        39.95 
TCGA-EL-A3CR TCGA-EL-A3CS TCGA-EL-A3CY TCGA-EL-A3D0 TCGA-EL-A3D5 TCGA-EL-A3GQ 
        7.66        45.53         4.18       139.86        57.11        50.24 
TCGA-EL-A3H2 TCGA-EL-A3H8 TCGA-EL-A3MY TCGA-EL-A3N3 TCGA-EM-A3AQ TCGA-ET-A3BO 
       33.50       150.48        17.52       178.29        29.72        50.40 
TCGA-ET-A3BV TCGA-FK-A3SD TCGA-FY-A76V TCGA-J8-A3NZ TCGA-J8-A4HW TCGA-L6-A4ET 
       75.42         1.05         1.68        17.23         2.60        21.83 
TCGA-MK-A84Z TCGA-4C-A93U TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0Z3 
       23.93         4.24        24.79        13.78        49.78        16.34 
TCGA-BJ-A0Z9 TCGA-BJ-A0ZA TCGA-BJ-A0ZB TCGA-BJ-A0ZC TCGA-BJ-A0ZE TCGA-BJ-A0ZG 
       41.33        18.87         4.01        11.57        16.73        25.48 
TCGA-BJ-A0ZH TCGA-BJ-A0ZJ TCGA-BJ-A18Y TCGA-BJ-A18Z TCGA-BJ-A191 TCGA-BJ-A192 
       15.12        42.08        51.39        41.52         4.83        44.35 
TCGA-BJ-A28R TCGA-BJ-A28S TCGA-BJ-A28T TCGA-BJ-A28V TCGA-BJ-A28X TCGA-BJ-A28Z 
       42.15        21.04        35.54        32.45        30.97        11.08 
TCGA-BJ-A2N7 TCGA-BJ-A2N8 TCGA-BJ-A2N9 TCGA-BJ-A2NA TCGA-BJ-A2P4 TCGA-BJ-A3EZ 
       18.38        16.57        20.48        18.97        12.82        16.01 
TCGA-BJ-A3F0 TCGA-BJ-A3PR TCGA-BJ-A3PT TCGA-BJ-A3PU TCGA-BJ-A45D TCGA-BJ-A45E 
       13.94        36.39        23.31        18.64        10.88        21.01 
TCGA-BJ-A45F TCGA-BJ-A45G TCGA-BJ-A45H TCGA-BJ-A45I TCGA-BJ-A45J TCGA-BJ-A4O8 
        3.45        23.84        28.44        15.45        21.63        19.43 
TCGA-BJ-A4O9 TCGA-CE-A27D TCGA-CE-A3MD TCGA-CE-A3ME TCGA-CE-A481 TCGA-CE-A482 
       23.47        12.30        12.79        12.46        11.38        10.68 
TCGA-CE-A483 TCGA-CE-A484 TCGA-CE-A485 TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DE-A2OL 
       15.02        12.43        12.66        21.63        50.17        37.64 
TCGA-DE-A3KN TCGA-DE-A4M8 TCGA-DE-A4M9 TCGA-DE-A4MA TCGA-DE-A4MB TCGA-DE-A4MC 
       27.32        18.54        18.84        30.12        11.57        30.02 
TCGA-DE-A4MD TCGA-DE-A69J TCGA-DE-A69K TCGA-DE-A7U5 TCGA-DJ-A13M TCGA-DJ-A13O 
       25.12        14.70        14.27         2.76        48.79        38.17 
TCGA-DJ-A13P TCGA-DJ-A13R TCGA-DJ-A13S TCGA-DJ-A13T TCGA-DJ-A13U TCGA-DJ-A13V 
      169.32        18.58         8.71        56.19        52.27        43.17 
TCGA-DJ-A13W TCGA-DJ-A13X TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QG 
       52.37         8.32        48.07       135.91        30.61        44.98 
TCGA-DJ-A1QH TCGA-DJ-A1QI TCGA-DJ-A1QL TCGA-DJ-A1QM TCGA-DJ-A1QN TCGA-DJ-A1QO 
       42.51        14.96        17.59         6.02        42.58        47.41 
TCGA-DJ-A1QQ TCGA-DJ-A2PN TCGA-DJ-A2PO TCGA-DJ-A2PP TCGA-DJ-A2PQ TCGA-DJ-A2PS 
       17.56        10.09         7.99        30.58        35.41        26.20 
TCGA-DJ-A2PT TCGA-DJ-A2PU TCGA-DJ-A2PV TCGA-DJ-A2PW TCGA-DJ-A2PX TCGA-DJ-A2PY 
       38.83        33.96        31.99        34.85        28.96         8.78 
TCGA-DJ-A2PZ TCGA-DJ-A2Q0 TCGA-DJ-A2Q1 TCGA-DJ-A2Q2 TCGA-DJ-A2Q3 TCGA-DJ-A2Q4 
        8.42        34.36        37.74        43.96        40.24        33.93 
TCGA-DJ-A2Q5 TCGA-DJ-A2Q6 TCGA-DJ-A2Q7 TCGA-DJ-A2Q8 TCGA-DJ-A2Q9 TCGA-DJ-A2QA 
       37.48        36.46        35.11        39.09        35.90        33.53 
TCGA-DJ-A2QB TCGA-DJ-A2QC TCGA-DJ-A3UK TCGA-DJ-A3UM TCGA-DJ-A3UN TCGA-DJ-A3UO 
       35.18        39.95        36.92        31.04        32.42        31.46 
TCGA-DJ-A3UP TCGA-DJ-A3UQ TCGA-DJ-A3UR TCGA-DJ-A3US TCGA-DJ-A3UT TCGA-DJ-A3UX 
       16.41        19.56        36.33        32.81        36.33        11.34 
TCGA-DJ-A3UY TCGA-DJ-A3UZ TCGA-DJ-A3V0 TCGA-DJ-A3V2 TCGA-DJ-A3V3 TCGA-DJ-A3V5 
       35.87        40.96        36.99        20.22        30.61        19.20 
TCGA-DJ-A3V7 TCGA-DJ-A3V8 TCGA-DJ-A3VA TCGA-DJ-A3VB TCGA-DJ-A3VD TCGA-DJ-A3VE 
       23.21        21.27        24.82        22.92        40.70        18.97 
TCGA-DJ-A3VF TCGA-DJ-A3VJ TCGA-DJ-A3VL TCGA-DJ-A3VM TCGA-DJ-A4UL TCGA-DJ-A4UP 
        9.60        36.43        23.44        27.62        30.87        30.12 
TCGA-DJ-A4UQ TCGA-DJ-A4UR TCGA-DJ-A4UT TCGA-DJ-A4UW TCGA-DJ-A4V0 TCGA-DJ-A4V2 
       33.04        34.78        27.06        26.93        35.54         3.12 
TCGA-DJ-A4V4 TCGA-DJ-A4V5 TCGA-DO-A1JZ TCGA-DO-A1K0 TCGA-DO-A2HM TCGA-E3-A3DY 
       15.81        35.38        54.90        21.53         2.33        92.55 
TCGA-E3-A3DZ TCGA-E3-A3E0 TCGA-E3-A3E1 TCGA-E3-A3E2 TCGA-E3-A3E3 TCGA-E8-A242 
       47.21        66.38        80.52        63.19        52.44        31.23 
TCGA-E8-A2EA TCGA-E8-A2JQ TCGA-E8-A3X7 TCGA-E8-A413 TCGA-E8-A414 TCGA-E8-A415 
       35.67        11.70        31.27        29.98        31.50        31.04 
TCGA-E8-A416 TCGA-E8-A417 TCGA-E8-A419 TCGA-E8-A432 TCGA-E8-A433 TCGA-E8-A434 
       31.30        30.84        25.45        30.61        31.27        31.33 
TCGA-E8-A436 TCGA-E8-A437 TCGA-E8-A438 TCGA-E8-A44K TCGA-E8-A44M TCGA-EL-A3CL 
       14.96        39.88        33.50        31.00        30.15        31.66 
TCGA-EL-A3CM TCGA-EL-A3CN TCGA-EL-A3CO TCGA-EL-A3CP TCGA-EL-A3CT TCGA-EL-A3CU 
       26.73       155.54        97.74       158.83        60.95       157.15 
TCGA-EL-A3CV TCGA-EL-A3CW TCGA-EL-A3CX TCGA-EL-A3CZ TCGA-EL-A3D1 TCGA-EL-A3D4 
       37.94        57.01       106.62        79.50        98.53        69.57 
TCGA-EL-A3D6 TCGA-EL-A3GO TCGA-EL-A3GP TCGA-EL-A3GR TCGA-EL-A3GS TCGA-EL-A3GU 
      108.36        64.87        49.51       115.10        65.39       136.01 
TCGA-EL-A3GV TCGA-EL-A3GW TCGA-EL-A3GX TCGA-EL-A3GY TCGA-EL-A3GZ TCGA-EL-A3H1 
       50.37        50.20       147.75       101.13       139.99        49.32 
TCGA-EL-A3H3 TCGA-EL-A3H4 TCGA-EL-A3H5 TCGA-EL-A3H7 TCGA-EL-A3MW TCGA-EL-A3MX 
       43.36        49.71        83.57       139.00       108.66        57.63 
TCGA-EL-A3MZ TCGA-EL-A3N2 TCGA-EL-A3T0 TCGA-EL-A3T1 TCGA-EL-A3T2 TCGA-EL-A3T3 
       52.50        29.65       142.52       129.57        32.48       132.07 
TCGA-EL-A3T6 TCGA-EL-A3T7 TCGA-EL-A3T8 TCGA-EL-A3T9 TCGA-EL-A3TA TCGA-EL-A3TB 
       98.24        41.29       107.47         5.72        66.90        82.82 
TCGA-EL-A3ZG TCGA-EL-A3ZH TCGA-EL-A3ZK TCGA-EL-A3ZL TCGA-EL-A3ZM TCGA-EL-A3ZN 
       89.56        91.17        51.78        62.30        36.03        53.06 
TCGA-EL-A3ZO TCGA-EL-A3ZP TCGA-EL-A3ZQ TCGA-EL-A3ZR TCGA-EL-A3ZT TCGA-EL-A4JV 
       72.69        65.49        61.22        60.16        59.44        57.47 
TCGA-EL-A4JW TCGA-EL-A4JX TCGA-EL-A4JZ TCGA-EL-A4K0 TCGA-EL-A4K1 TCGA-EL-A4K2 
       34.72        45.96        61.02        31.04        34.39        30.51 
TCGA-EL-A4K4 TCGA-EL-A4K6 TCGA-EL-A4K7 TCGA-EL-A4K9 TCGA-EL-A4KD TCGA-EL-A4KG 
       53.36        44.15        41.13        47.84        43.59        24.30 
TCGA-EL-A4KH TCGA-EL-A4KI TCGA-EM-A1CS TCGA-EM-A1CT TCGA-EM-A1CU TCGA-EM-A1CV 
       27.06        23.90        26.86        18.18        20.91        48.49 
TCGA-EM-A1CW TCGA-EM-A1YA TCGA-EM-A1YB TCGA-EM-A1YC TCGA-EM-A1YD TCGA-EM-A1YE 
       18.05        19.79        19.46        78.61        57.01        54.08 
TCGA-EM-A22I TCGA-EM-A22J TCGA-EM-A22K TCGA-EM-A22L TCGA-EM-A22M TCGA-EM-A22N 
       14.73        14.50        15.75        10.45        14.53        10.65 
TCGA-EM-A22O TCGA-EM-A22P TCGA-EM-A22Q TCGA-EM-A2CJ TCGA-EM-A2CK TCGA-EM-A2CL 
       44.19        41.29        14.24        47.57        17.88        13.18 
TCGA-EM-A2CN TCGA-EM-A2CO TCGA-EM-A2CP TCGA-EM-A2CQ TCGA-EM-A2CR TCGA-EM-A2CS 
       23.51         6.05         2.99        12.30        13.64        27.65 
TCGA-EM-A2CT TCGA-EM-A2CU TCGA-EM-A2OV TCGA-EM-A2OW TCGA-EM-A2OX TCGA-EM-A2OY 
       48.46        13.15        22.16        40.34        19.73        32.32 
TCGA-EM-A2OZ TCGA-EM-A2P0 TCGA-EM-A2P1 TCGA-EM-A2P2 TCGA-EM-A2P3 TCGA-EM-A3AI 
       33.96        17.59        17.46        17.29        14.60        22.52 
TCGA-EM-A3AJ TCGA-EM-A3AK TCGA-EM-A3AL TCGA-EM-A3AN TCGA-EM-A3AO TCGA-EM-A3AP 
       30.94        15.68        14.14        33.07        44.52         8.35 
TCGA-EM-A3AR TCGA-EM-A3FJ TCGA-EM-A3FK TCGA-EM-A3FL TCGA-EM-A3FM TCGA-EM-A3FN 
       37.25        27.95        23.77        47.38        21.01        12.07 
TCGA-EM-A3FO TCGA-EM-A3FP TCGA-EM-A3FQ TCGA-EM-A3FR TCGA-EM-A3O3 TCGA-EM-A3O6 
       17.49        17.39        16.18        15.02        14.50        15.06 
TCGA-EM-A3O7 TCGA-EM-A3O8 TCGA-EM-A3O9 TCGA-EM-A3OA TCGA-EM-A3OB TCGA-EM-A3ST 
        7.33        12.53         9.24        27.02        38.66        38.86 
TCGA-EM-A3SU TCGA-EM-A3SX TCGA-EM-A3SY TCGA-EM-A3SZ TCGA-EM-A4FF TCGA-EM-A4FH 
       29.95        29.85        13.51        12.79        84.59        29.33 
TCGA-EM-A4FK TCGA-EM-A4FM TCGA-EM-A4FN TCGA-EM-A4FO TCGA-EM-A4FQ TCGA-EM-A4FR 
       21.34         5.33        26.37        26.37        22.45        21.53 
TCGA-EM-A4FU TCGA-EM-A4FV TCGA-EM-A4G1 TCGA-ET-A25G TCGA-ET-A25I TCGA-ET-A25J 
       60.49        24.46        13.68        81.93        81.70        77.56 
TCGA-ET-A25K TCGA-ET-A25O TCGA-ET-A25R TCGA-ET-A2MX TCGA-ET-A2MY TCGA-ET-A2MZ 
       70.42        65.29        63.45        88.41        58.75        37.25 
TCGA-ET-A2N0 TCGA-ET-A2N1 TCGA-ET-A2N3 TCGA-ET-A2N4 TCGA-ET-A2N5 TCGA-ET-A39I 
       52.60        54.35        83.34         2.66        80.88        33.24 
TCGA-ET-A39J TCGA-ET-A39K TCGA-ET-A39L TCGA-ET-A39M TCGA-ET-A39N TCGA-ET-A39O 
      106.09       107.41       108.46        84.89       123.32       100.57 
TCGA-ET-A39P TCGA-ET-A39R TCGA-ET-A39S TCGA-ET-A39T TCGA-ET-A3BN TCGA-ET-A3BP 
       95.34        94.13        55.10        98.20        28.24        79.10 
TCGA-ET-A3BQ TCGA-ET-A3BS TCGA-ET-A3BT TCGA-ET-A3BU TCGA-ET-A3BW TCGA-ET-A3BX 
       76.64         5.79        87.62        77.82        46.65        52.47 
TCGA-ET-A3DO TCGA-ET-A3DP TCGA-ET-A3DQ TCGA-ET-A3DR TCGA-ET-A3DS TCGA-ET-A3DT 
      116.78        94.59        84.85        80.58        66.84        43.73 
TCGA-ET-A3DU TCGA-ET-A3DV TCGA-ET-A3DW TCGA-ET-A40P TCGA-ET-A40Q TCGA-ET-A40R 
       62.83       166.62        24.72        43.99        46.26        44.38 
TCGA-ET-A40S TCGA-ET-A40T TCGA-ET-A4KN TCGA-ET-A4KQ TCGA-FE-A22Z TCGA-FE-A230 
       40.21        37.48        33.17        31.40        73.74        71.44 
TCGA-FE-A231 TCGA-FE-A232 TCGA-FE-A233 TCGA-FE-A234 TCGA-FE-A235 TCGA-FE-A236 
       31.59        79.69        24.69        68.22       117.40        66.77 
TCGA-FE-A237 TCGA-FE-A23A TCGA-FE-A3PA TCGA-FE-A3PB TCGA-FE-A3PC TCGA-FE-A3PD 
      112.80        81.83       106.36        85.15        85.68        78.77 
TCGA-FK-A3S3 TCGA-FK-A3SB TCGA-FK-A3SE TCGA-FK-A3SG TCGA-FK-A3SH TCGA-FK-A4UB 
       71.08         4.11        22.03         0.92        48.10       116.09 
TCGA-FY-A2QD TCGA-FY-A3BL TCGA-FY-A3I4 TCGA-FY-A3I5 TCGA-FY-A3NM TCGA-FY-A3NP 
        1.25        20.42        17.82         7.82        29.10        16.14 
TCGA-FY-A3ON TCGA-FY-A3R6 TCGA-FY-A3R7 TCGA-FY-A3R8 TCGA-FY-A3R9 TCGA-FY-A3RA 
       19.56        13.91        16.27        15.68        16.57        18.08 
TCGA-FY-A3TY TCGA-FY-A3W9 TCGA-FY-A3WA TCGA-FY-A3YR TCGA-FY-A40K TCGA-FY-A40L 
       23.31        21.63        17.06        17.36        15.16        23.87 
TCGA-FY-A40M TCGA-FY-A40N TCGA-FY-A4B0 TCGA-FY-A4B3 TCGA-FY-A4B4 TCGA-GE-A2C6 
       22.49        19.04        13.81        14.04        21.60        12.53 
TCGA-H2-A26U TCGA-H2-A2K9 TCGA-H2-A3RH TCGA-H2-A3RI TCGA-H2-A421 TCGA-H2-A422 
       17.00        21.67        12.46        11.01        20.05        18.61 
TCGA-IM-A3EB TCGA-IM-A3ED TCGA-IM-A3U2 TCGA-IM-A3U3 TCGA-IM-A41Y TCGA-IM-A41Z 
       48.92        47.41        18.51        16.90        21.83        31.10 
TCGA-IM-A420 TCGA-IM-A4EB TCGA-J8-A3O0 TCGA-J8-A3O1 TCGA-J8-A3O2 TCGA-J8-A3YD 
        8.22        25.64        43.17        27.19        11.24        31.82 
TCGA-J8-A3YE TCGA-J8-A3YF TCGA-J8-A3YG TCGA-J8-A3YH TCGA-J8-A42S TCGA-J8-A4HY 
       27.85        24.69        22.29         5.75         2.47         0.20 
TCGA-KS-A41F TCGA-KS-A41I TCGA-KS-A41J TCGA-KS-A41L TCGA-KS-A4I1 TCGA-KS-A4I3 
      143.57        15.98        15.68       113.85        26.70        43.69 
TCGA-KS-A4I5 TCGA-KS-A4I7 TCGA-KS-A4I9 TCGA-KS-A4IB TCGA-KS-A4IC TCGA-KS-A4ID 
       18.64        32.45        87.39        84.72        35.28        33.24 
TCGA-L6-A4EP TCGA-L6-A4EQ TCGA-L6-A4EU TCGA-MK-A4N6 TCGA-MK-A4N7 TCGA-MK-A4N9 
       33.40        40.37         9.50        36.10        32.45        30.21 
TCGA-QD-A8IV TCGA-E8-A418 
       12.89         3.02 

  PRMT8 MUTATED PRMT8 WILD-TYPE 
           7.07            0.20 
  PRMT8 MUTATED PRMT8 WILD-TYPE 
          35.67          178.29 
  PRMT8 MUTATED PRMT8 WILD-TYPE 
         20.480          31.165 
[1] "7.1 - 35.7 (20.5)"  "0.2 - 178.3 (31.2)"
[1] "hr="     "1200000"
D29V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV STAGE IVA STAGE IVC
  PRMT8 MUTATED         2        0         0        0         1         0
  PRMT8 WILD-TYPE     276       50       108        2        45         6
D29V3, multiclass
           clus
vv          PRMT8 MUTATED PRMT8 WILD-TYPE
  STAGE I               2             276
  STAGE II              0              50
  STAGE III             0             108
  STAGE IV              0               2
  STAGE IVA             1              45
  STAGE IVC             0               6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus               T1  T2  T3  T4
  PRMT8 MUTATED     2   1   0   0
  PRMT8 WILD-TYPE 139 161 164  23
D29V4, multiclass
    clus
vv   PRMT8 MUTATED PRMT8 WILD-TYPE
  T1             2             139
  T2             1             161
  T3             0             164
  T4             0              23
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D29V5, binary
                 cls
clus                0   1
  PRMT8 MUTATED     1   2
  PRMT8 WILD-TYPE 219 220
[1] "tbl2"
                 cls
clus              [,1] [,2]
  PRMT8 MUTATED      1    2
  PRMT8 WILD-TYPE  219  220
   clus
vv  PRMT8 MUTATED PRMT8 WILD-TYPE
  0             1             219
  1             2             220
[1] 2 2
[1] FALSE
D29V6, binary
                 cls
clus                0   1
  PRMT8 MUTATED     3   0
  PRMT8 WILD-TYPE 273   9
[1] "tbl2"
                 cls
clus              [,1] [,2]
  PRMT8 MUTATED      3    0
  PRMT8 WILD-TYPE  273    9
   clus
vv  PRMT8 MUTATED PRMT8 WILD-TYPE
  0             3             273
  1             0               9
[1] 2 2
[1] FALSE
D29V7, binary
                 cls
clus                0   1
  PRMT8 MUTATED     2   1
  PRMT8 WILD-TYPE 360 129
[1] "tbl2"
                 cls
clus              [,1] [,2]
  PRMT8 MUTATED      2    1
  PRMT8 WILD-TYPE  360  129
        clus
vv       PRMT8 MUTATED PRMT8 WILD-TYPE
  FEMALE             2             360
  MALE               1             129
[1] 2 2
[1] FALSE
D29V8, binary
                 cls
clus                0   1
  PRMT8 MUTATED     1   2
  PRMT8 WILD-TYPE 178 296
[1] "tbl2"
                 cls
clus              [,1] [,2]
  PRMT8 MUTATED      1    2
  PRMT8 WILD-TYPE  178  296
     clus
vv    PRMT8 MUTATED PRMT8 WILD-TYPE
  NO              1             178
  YES             2             296
[1] 2 2
[1] FALSE
                 vv
clus              OTHER, SPECIFY THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  PRMT8 MUTATED                0                                             2
  PRMT8 WILD-TYPE              7                                           346
                 vv
clus              THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  PRMT8 MUTATED                                                                        1
  PRMT8 WILD-TYPE                                                                    101
                 vv
clus              THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  PRMT8 MUTATED                                                                     0
  PRMT8 WILD-TYPE                                                                  35
D29V9, multiclass
                                                                        clus
vv                                                                       PRMT8 MUTATED
  OTHER, SPECIFY                                                                     0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                      2
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)             1
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                0
                                                                        clus
vv                                                                       PRMT8 WILD-TYPE
  OTHER, SPECIFY                                                                       7
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                      346
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)             101
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                 35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D29V10, binary
                 cls
clus                0   1
  PRMT8 MUTATED     3   0
  PRMT8 WILD-TYPE 412  17
[1] "tbl2"
                 cls
clus              [,1] [,2]
  PRMT8 MUTATED      3    0
  PRMT8 WILD-TYPE  412   17
     clus
vv    PRMT8 MUTATED PRMT8 WILD-TYPE
  NO              3             412
  YES             0              17
[1] 2 2
[1] FALSE
                 vv
clus              MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE VERY ADVANCED (T4B)
  PRMT8 MUTATED              0                       0    3                   0
  PRMT8 WILD-TYPE          130                      18  325                   1
D29V11, multiclass
                         clus
vv                        PRMT8 MUTATED PRMT8 WILD-TYPE
  MINIMAL (T3)                        0             130
  MODERATE/ADVANCED (T4A)             0              18
  NONE                                3             325
  VERY ADVANCED (T4B)                 0               1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus               R0  R1  R2  RX
  PRMT8 MUTATED     3   0   0   0
  PRMT8 WILD-TYPE 376  51   4  30
D29V12, multiclass
    clus
vv   PRMT8 MUTATED PRMT8 WILD-TYPE
  R0             3             376
  R1             0              51
  R2             0               4
  RX             0              30
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D29V13, continuous
D29V14, binary
                 cls
clus                0   1
  PRMT8 MUTATED     1   2
  PRMT8 WILD-TYPE 220 260
[1] "tbl2"
                 cls
clus              [,1] [,2]
  PRMT8 MUTATED      1    2
  PRMT8 WILD-TYPE  220  260
            clus
vv           PRMT8 MUTATED PRMT8 WILD-TYPE
  MULTIFOCAL             1             220
  UNIFOCAL               2             260
[1] 2 2
[1] FALSE
D29V15, continuous
[1] "Remove cluster labels:" "PRMT8 MUTATED"         
clus
  PRMT8 MUTATED PRMT8 WILD-TYPE 
              2             391 
     TCGA-BJ-A290      TCGA-BJ-A45K      TCGA-CE-A13K      TCGA-DE-A0XZ 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-DJ-A13L      TCGA-DJ-A2PR      TCGA-DJ-A3UU      TCGA-DJ-A3UW 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-DJ-A3V4      TCGA-DJ-A3VK      TCGA-EL-A3CR      TCGA-EL-A3CS 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-EL-A3CY      TCGA-EL-A3D0      TCGA-EL-A3D5      TCGA-EL-A3GQ 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-EL-A3H2      TCGA-EL-A3H8      TCGA-EL-A3MY      TCGA-EL-A3N3 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-EM-A3AQ      TCGA-ET-A3BO      TCGA-ET-A3BV      TCGA-FY-A76V 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-L6-A4ET      TCGA-MK-A84Z      TCGA-4C-A93U      TCGA-BJ-A0Z2 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-BJ-A0Z3      TCGA-BJ-A0Z9      TCGA-BJ-A0ZA      TCGA-BJ-A0ZB 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-BJ-A0ZC      TCGA-BJ-A0ZE      TCGA-BJ-A0ZG      TCGA-BJ-A0ZH 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-BJ-A0ZJ      TCGA-BJ-A18Y      TCGA-BJ-A18Z      TCGA-BJ-A191 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-BJ-A192      TCGA-BJ-A28R      TCGA-BJ-A28S      TCGA-BJ-A28T 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-BJ-A28V      TCGA-BJ-A28Z      TCGA-BJ-A2N8      TCGA-BJ-A2N9 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-BJ-A2P4      TCGA-BJ-A3PU      TCGA-BJ-A45D      TCGA-BJ-A45E 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-BJ-A45F      TCGA-BJ-A45G      TCGA-BJ-A45H      TCGA-BJ-A45I 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-BJ-A45J      TCGA-BJ-A4O8      TCGA-BJ-A4O9      TCGA-CE-A27D 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-CE-A3MD      TCGA-CE-A3ME      TCGA-CE-A481      TCGA-CE-A482 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-CE-A483      TCGA-CE-A484      TCGA-CE-A485      TCGA-DE-A0Y2 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-DE-A0Y3      TCGA-DE-A2OL      TCGA-DE-A3KN      TCGA-DE-A4M8 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-DE-A4M9      TCGA-DE-A4MA      TCGA-DE-A4MB      TCGA-DE-A4MC 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-DE-A4MD      TCGA-DE-A69J      TCGA-DE-A69K      TCGA-DE-A7U5 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-DJ-A13M      TCGA-DJ-A13O      TCGA-DJ-A13R      TCGA-DJ-A13S 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-DJ-A13U      TCGA-DJ-A13V      TCGA-DJ-A13W      TCGA-DJ-A13X 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-DJ-A1QD      TCGA-DJ-A1QE      TCGA-DJ-A1QF      TCGA-DJ-A1QG 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-DJ-A1QH      TCGA-DJ-A1QI      TCGA-DJ-A1QL      TCGA-DJ-A1QM 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-DJ-A1QN      TCGA-DJ-A1QO      TCGA-DJ-A1QQ      TCGA-DJ-A2PN 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-DJ-A2PO      TCGA-DJ-A2PP      TCGA-DJ-A2PQ      TCGA-DJ-A2PS 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-DJ-A2PT      TCGA-DJ-A2PU      TCGA-DJ-A2PV      TCGA-DJ-A2PW 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-DJ-A2PY      TCGA-DJ-A2PZ      TCGA-DJ-A2Q0      TCGA-DJ-A2Q1 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-DJ-A2Q2      TCGA-DJ-A2Q3      TCGA-DJ-A2Q4      TCGA-DJ-A2Q5 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-DJ-A2Q6      TCGA-DJ-A2Q7      TCGA-DJ-A2Q8      TCGA-DJ-A2Q9 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-DJ-A2QA      TCGA-DJ-A2QC      TCGA-DJ-A3UK      TCGA-DJ-A3UM 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-DJ-A3UN      TCGA-DJ-A3UO      TCGA-DJ-A3UP      TCGA-DJ-A3UQ 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-DJ-A3UR      TCGA-DJ-A3US      TCGA-DJ-A3UT      TCGA-DJ-A3UX 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-DJ-A3UY      TCGA-DJ-A3V0      TCGA-DJ-A3V2      TCGA-DJ-A3V3 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-DJ-A3V5      TCGA-DJ-A3V7      TCGA-DJ-A3V8      TCGA-DJ-A3VA 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-DJ-A3VB      TCGA-DJ-A3VD      TCGA-DJ-A3VE      TCGA-DJ-A3VF 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-DJ-A3VJ      TCGA-DJ-A3VL      TCGA-DJ-A3VM      TCGA-DJ-A4UL 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-DJ-A4UP      TCGA-DJ-A4UQ      TCGA-DJ-A4UT      TCGA-DJ-A4V0 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-DJ-A4V2      TCGA-DJ-A4V4      TCGA-DJ-A4V5      TCGA-DO-A1JZ 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-DO-A1K0      TCGA-DO-A2HM      TCGA-E3-A3DY      TCGA-E3-A3DZ 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-E3-A3E0      TCGA-E3-A3E1      TCGA-E3-A3E2      TCGA-E3-A3E3 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-E8-A419      TCGA-EL-A3CN      TCGA-EL-A3CO      TCGA-EL-A3CT 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-EL-A3CU      TCGA-EL-A3CV      TCGA-EL-A3CW      TCGA-EL-A3CX 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-EL-A3CZ      TCGA-EL-A3D1      TCGA-EL-A3D4      TCGA-EL-A3D6 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-EL-A3GO      TCGA-EL-A3GP      TCGA-EL-A3GR      TCGA-EL-A3GS 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-EL-A3GU      TCGA-EL-A3GV      TCGA-EL-A3GW      TCGA-EL-A3GX 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-EL-A3GY      TCGA-EL-A3GZ      TCGA-EL-A3H3      TCGA-EL-A3H4 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-EL-A3H5      TCGA-EL-A3H7      TCGA-EL-A3MW      TCGA-EL-A3MX 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-EL-A3MZ      TCGA-EL-A3N2      TCGA-EL-A3T1      TCGA-EL-A3T2 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-EL-A3T3      TCGA-EL-A3T6      TCGA-EL-A3T7      TCGA-EL-A3T8 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-EL-A3T9      TCGA-EL-A3TA      TCGA-EL-A3TB      TCGA-EL-A3ZG 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-EL-A3ZH      TCGA-EL-A3ZK      TCGA-EL-A3ZL      TCGA-EL-A3ZM 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-EL-A3ZN      TCGA-EL-A3ZO      TCGA-EL-A3ZP      TCGA-EL-A3ZQ 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-EL-A3ZR      TCGA-EL-A3ZT      TCGA-EL-A4JV      TCGA-EL-A4JW 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-EL-A4JX      TCGA-EL-A4JZ      TCGA-EL-A4K0      TCGA-EL-A4K1 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-EL-A4K2      TCGA-EL-A4K4      TCGA-EL-A4K6      TCGA-EL-A4K7 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-EL-A4K9      TCGA-EL-A4KD      TCGA-EL-A4KG      TCGA-EL-A4KH 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-EL-A4KI      TCGA-EM-A1CS      TCGA-EM-A1CT      TCGA-EM-A1CU 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-EM-A1CV      TCGA-EM-A1CW      TCGA-EM-A1YA      TCGA-EM-A1YB 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-EM-A1YC      TCGA-EM-A1YD      TCGA-EM-A1YE      TCGA-EM-A22I 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-EM-A22J      TCGA-EM-A22K      TCGA-EM-A22L      TCGA-EM-A22N 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-EM-A22O      TCGA-EM-A22P      TCGA-EM-A22Q      TCGA-EM-A2CJ 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-EM-A2CK      TCGA-EM-A2CL      TCGA-EM-A2CN      TCGA-EM-A2CO 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-EM-A2CP      TCGA-EM-A2CQ      TCGA-EM-A2CR      TCGA-EM-A2CS 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-EM-A2CT      TCGA-EM-A2CU      TCGA-EM-A2OW      TCGA-EM-A2OX 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-EM-A2OY      TCGA-EM-A2P0      TCGA-EM-A2P1      TCGA-EM-A2P2 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-EM-A2P3      TCGA-EM-A3AI      TCGA-EM-A3AJ      TCGA-EM-A3AK 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-EM-A3AL      TCGA-EM-A3AN      TCGA-EM-A3AO      TCGA-EM-A3AP 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-EM-A3AR      TCGA-EM-A3FJ      TCGA-EM-A3FM      TCGA-EM-A3FN 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-EM-A3FO      TCGA-EM-A3FP      TCGA-EM-A3FR      TCGA-EM-A3O3 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-EM-A3O6      TCGA-EM-A3O7      TCGA-EM-A3O8      TCGA-EM-A3O9 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-EM-A3OA      TCGA-EM-A3OB      TCGA-EM-A3ST      TCGA-EM-A3SU 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-EM-A3SX      TCGA-EM-A3SY      TCGA-EM-A3SZ      TCGA-EM-A4FF 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-EM-A4FH      TCGA-EM-A4FK      TCGA-EM-A4FM      TCGA-EM-A4FN 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-EM-A4FQ      TCGA-EM-A4FR      TCGA-EM-A4FU      TCGA-EM-A4FV 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-EM-A4G1      TCGA-ET-A25G      TCGA-ET-A25I      TCGA-ET-A25J 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-ET-A25K      TCGA-ET-A25O      TCGA-ET-A25R      TCGA-ET-A2MY 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-ET-A2MZ      TCGA-ET-A2N0      TCGA-ET-A2N5      TCGA-ET-A39J 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-ET-A39M      TCGA-ET-A39N      TCGA-ET-A39O      TCGA-ET-A39P 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-ET-A39T      TCGA-ET-A3BN      TCGA-ET-A3BP      TCGA-ET-A3BQ 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-ET-A3BS      TCGA-ET-A3BT      TCGA-ET-A3BU      TCGA-ET-A3BW 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-ET-A3BX      TCGA-ET-A3DO      TCGA-ET-A3DS      TCGA-ET-A3DT 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-ET-A40P      TCGA-ET-A40Q      TCGA-ET-A40R      TCGA-ET-A40S 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-ET-A4KN      TCGA-ET-A4KQ      TCGA-FE-A22Z      TCGA-FE-A230 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-FE-A232      TCGA-FE-A233      TCGA-FE-A234      TCGA-FE-A235 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-FE-A236      TCGA-FE-A237      TCGA-FE-A23A      TCGA-FE-A3PA 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-FE-A3PB      TCGA-FE-A3PC      TCGA-FE-A3PD      TCGA-FY-A2QD 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-FY-A3I4      TCGA-FY-A3I5      TCGA-FY-A3ON      TCGA-FY-A3R8 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-FY-A3TY      TCGA-FY-A3W9      TCGA-FY-A3YR      TCGA-FY-A40K 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-FY-A40L      TCGA-FY-A40M      TCGA-FY-A40N      TCGA-FY-A4B3 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-GE-A2C6      TCGA-H2-A421      TCGA-IM-A3EB      TCGA-IM-A3ED 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-IM-A3U2      TCGA-IM-A3U3      TCGA-IM-A41Y      TCGA-IM-A41Z 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-IM-A420      TCGA-IM-A4EB      TCGA-J8-A3O0      TCGA-J8-A3YD 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-J8-A3YG      TCGA-KS-A41F      TCGA-KS-A41I      TCGA-KS-A41J 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-KS-A41L      TCGA-KS-A4I3      TCGA-KS-A4I5      TCGA-KS-A4I7 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-KS-A4I9      TCGA-KS-A4IB      TCGA-KS-A4IC      TCGA-KS-A4ID 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-L6-A4EP      TCGA-L6-A4EQ      TCGA-L6-A4EU      TCGA-MK-A4N6 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
     TCGA-MK-A4N7      TCGA-MK-A4N9      TCGA-QD-A8IV 
"PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" "PRMT8 WILD-TYPE" 
                 vv
clus              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  PRMT8 MUTATED                                  0     0
  PRMT8 WILD-TYPE                                1    51
                 vv
clus              BLACK OR AFRICAN AMERICAN WHITE
  PRMT8 MUTATED                           0     3
  PRMT8 WILD-TYPE                        26   319
D29V16, multiclass
                                  clus
vv                                 PRMT8 MUTATED PRMT8 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE             0               1
  ASIAN                                        0              51
  BLACK OR AFRICAN AMERICAN                    0              26
  WHITE                                        3             319
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D29V17, binary
                 cls
clus                0   1
  PRMT8 MUTATED     0   3
  PRMT8 WILD-TYPE  38 348
[1] "tbl2"
                 cls
clus              [,1] [,2]
  PRMT8 MUTATED      0    3
  PRMT8 WILD-TYPE   38  348
                        clus
vv                       PRMT8 MUTATED PRMT8 WILD-TYPE
  HISPANIC OR LATINO                 0              38
  NOT HISPANIC OR LATINO             3             348
[1] 2 2
[1] FALSE

Clustering(30) Variable = ARMCX3 MUTATION ANALYSIS
D30V1, survival
                  sevent
clus2                0   1
  ARMCX3 MUTATED     3   0
  ARMCX3 WILD-TYPE 474  14
  ARMCX3 MUTATED ARMCX3 WILD-TYPE 
               3              488 
  ARMCX3 MUTATED ARMCX3 WILD-TYPE 
               0               14 
$`ARMCX3 MUTATED`
TCGA-DJ-A3US TCGA-EM-A1CS TCGA-EM-A3OB 
       32.81        26.86        38.66 

$`ARMCX3 WILD-TYPE`
TCGA-BJ-A290 TCGA-BJ-A45K TCGA-CE-A13K TCGA-DE-A0XZ TCGA-DJ-A13L TCGA-DJ-A2PR 
       30.21        23.18        12.66        35.84         9.96        27.45 
TCGA-DJ-A3UU TCGA-DJ-A3UW TCGA-DJ-A3V4 TCGA-DJ-A3VI TCGA-DJ-A3VK TCGA-E3-A3E5 
       23.44        59.57        42.54         3.12        24.76        39.95 
TCGA-EL-A3CR TCGA-EL-A3CS TCGA-EL-A3CY TCGA-EL-A3D0 TCGA-EL-A3D5 TCGA-EL-A3GQ 
        7.66        45.53         4.18       139.86        57.11        50.24 
TCGA-EL-A3H2 TCGA-EL-A3H8 TCGA-EL-A3MY TCGA-EL-A3N3 TCGA-EM-A3AQ TCGA-ET-A3BO 
       33.50       150.48        17.52       178.29        29.72        50.40 
TCGA-ET-A3BV TCGA-FK-A3SD TCGA-FY-A76V TCGA-J8-A3NZ TCGA-J8-A4HW TCGA-L6-A4ET 
       75.42         1.05         1.68        17.23         2.60        21.83 
TCGA-MK-A84Z TCGA-4C-A93U TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0Z3 
       23.93         4.24        24.79        13.78        49.78        16.34 
TCGA-BJ-A0Z9 TCGA-BJ-A0ZA TCGA-BJ-A0ZB TCGA-BJ-A0ZC TCGA-BJ-A0ZE TCGA-BJ-A0ZG 
       41.33        18.87         4.01        11.57        16.73        25.48 
TCGA-BJ-A0ZH TCGA-BJ-A0ZJ TCGA-BJ-A18Y TCGA-BJ-A18Z TCGA-BJ-A191 TCGA-BJ-A192 
       15.12        42.08        51.39        41.52         4.83        44.35 
TCGA-BJ-A28R TCGA-BJ-A28S TCGA-BJ-A28T TCGA-BJ-A28V TCGA-BJ-A28X TCGA-BJ-A28Z 
       42.15        21.04        35.54        32.45        30.97        11.08 
TCGA-BJ-A2N7 TCGA-BJ-A2N8 TCGA-BJ-A2N9 TCGA-BJ-A2NA TCGA-BJ-A2P4 TCGA-BJ-A3EZ 
       18.38        16.57        20.48        18.97        12.82        16.01 
TCGA-BJ-A3F0 TCGA-BJ-A3PR TCGA-BJ-A3PT TCGA-BJ-A3PU TCGA-BJ-A45D TCGA-BJ-A45E 
       13.94        36.39        23.31        18.64        10.88        21.01 
TCGA-BJ-A45F TCGA-BJ-A45G TCGA-BJ-A45H TCGA-BJ-A45I TCGA-BJ-A45J TCGA-BJ-A4O8 
        3.45        23.84        28.44        15.45        21.63        19.43 
TCGA-BJ-A4O9 TCGA-CE-A27D TCGA-CE-A3MD TCGA-CE-A3ME TCGA-CE-A481 TCGA-CE-A482 
       23.47        12.30        12.79        12.46        11.38        10.68 
TCGA-CE-A483 TCGA-CE-A484 TCGA-CE-A485 TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DE-A2OL 
       15.02        12.43        12.66        21.63        50.17        37.64 
TCGA-DE-A3KN TCGA-DE-A4M8 TCGA-DE-A4M9 TCGA-DE-A4MA TCGA-DE-A4MB TCGA-DE-A4MC 
       27.32        18.54        18.84        30.12        11.57        30.02 
TCGA-DE-A4MD TCGA-DE-A69J TCGA-DE-A69K TCGA-DE-A7U5 TCGA-DJ-A13M TCGA-DJ-A13O 
       25.12        14.70        14.27         2.76        48.79        38.17 
TCGA-DJ-A13P TCGA-DJ-A13R TCGA-DJ-A13S TCGA-DJ-A13T TCGA-DJ-A13U TCGA-DJ-A13V 
      169.32        18.58         8.71        56.19        52.27        43.17 
TCGA-DJ-A13W TCGA-DJ-A13X TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QG 
       52.37         8.32        48.07       135.91        30.61        44.98 
TCGA-DJ-A1QH TCGA-DJ-A1QI TCGA-DJ-A1QL TCGA-DJ-A1QM TCGA-DJ-A1QN TCGA-DJ-A1QO 
       42.51        14.96        17.59         6.02        42.58        47.41 
TCGA-DJ-A1QQ TCGA-DJ-A2PN TCGA-DJ-A2PO TCGA-DJ-A2PP TCGA-DJ-A2PQ TCGA-DJ-A2PS 
       17.56        10.09         7.99        30.58        35.41        26.20 
TCGA-DJ-A2PT TCGA-DJ-A2PU TCGA-DJ-A2PV TCGA-DJ-A2PW TCGA-DJ-A2PX TCGA-DJ-A2PY 
       38.83        33.96        31.99        34.85        28.96         8.78 
TCGA-DJ-A2PZ TCGA-DJ-A2Q0 TCGA-DJ-A2Q1 TCGA-DJ-A2Q2 TCGA-DJ-A2Q3 TCGA-DJ-A2Q4 
        8.42        34.36        37.74        43.96        40.24        33.93 
TCGA-DJ-A2Q5 TCGA-DJ-A2Q6 TCGA-DJ-A2Q7 TCGA-DJ-A2Q8 TCGA-DJ-A2Q9 TCGA-DJ-A2QA 
       37.48        36.46        35.11        39.09        35.90        33.53 
TCGA-DJ-A2QB TCGA-DJ-A2QC TCGA-DJ-A3UK TCGA-DJ-A3UM TCGA-DJ-A3UN TCGA-DJ-A3UO 
       35.18        39.95        36.92        31.04        32.42        31.46 
TCGA-DJ-A3UP TCGA-DJ-A3UQ TCGA-DJ-A3UR TCGA-DJ-A3UT TCGA-DJ-A3UX TCGA-DJ-A3UY 
       16.41        19.56        36.33        36.33        11.34        35.87 
TCGA-DJ-A3UZ TCGA-DJ-A3V0 TCGA-DJ-A3V2 TCGA-DJ-A3V3 TCGA-DJ-A3V5 TCGA-DJ-A3V7 
       40.96        36.99        20.22        30.61        19.20        23.21 
TCGA-DJ-A3V8 TCGA-DJ-A3V9 TCGA-DJ-A3VA TCGA-DJ-A3VB TCGA-DJ-A3VD TCGA-DJ-A3VE 
       21.27        20.48        24.82        22.92        40.70        18.97 
TCGA-DJ-A3VF TCGA-DJ-A3VG TCGA-DJ-A3VJ TCGA-DJ-A3VL TCGA-DJ-A3VM TCGA-DJ-A4UL 
        9.60        35.67        36.43        23.44        27.62        30.87 
TCGA-DJ-A4UP TCGA-DJ-A4UQ TCGA-DJ-A4UR TCGA-DJ-A4UT TCGA-DJ-A4UW TCGA-DJ-A4V0 
       30.12        33.04        34.78        27.06        26.93        35.54 
TCGA-DJ-A4V2 TCGA-DJ-A4V4 TCGA-DJ-A4V5 TCGA-DO-A1JZ TCGA-DO-A1K0 TCGA-DO-A2HM 
        3.12        15.81        35.38        54.90        21.53         2.33 
TCGA-E3-A3DY TCGA-E3-A3DZ TCGA-E3-A3E0 TCGA-E3-A3E1 TCGA-E3-A3E2 TCGA-E3-A3E3 
       92.55        47.21        66.38        80.52        63.19        52.44 
TCGA-E8-A242 TCGA-E8-A2EA TCGA-E8-A2JQ TCGA-E8-A3X7 TCGA-E8-A413 TCGA-E8-A414 
       31.23        35.67        11.70        31.27        29.98        31.50 
TCGA-E8-A415 TCGA-E8-A416 TCGA-E8-A417 TCGA-E8-A419 TCGA-E8-A432 TCGA-E8-A433 
       31.04        31.30        30.84        25.45        30.61        31.27 
TCGA-E8-A434 TCGA-E8-A436 TCGA-E8-A437 TCGA-E8-A438 TCGA-E8-A44K TCGA-E8-A44M 
       31.33        14.96        39.88        33.50        31.00        30.15 
TCGA-EL-A3CL TCGA-EL-A3CM TCGA-EL-A3CN TCGA-EL-A3CO TCGA-EL-A3CP TCGA-EL-A3CT 
       31.66        26.73       155.54        97.74       158.83        60.95 
TCGA-EL-A3CU TCGA-EL-A3CV TCGA-EL-A3CW TCGA-EL-A3CX TCGA-EL-A3CZ TCGA-EL-A3D1 
      157.15        37.94        57.01       106.62        79.50        98.53 
TCGA-EL-A3D4 TCGA-EL-A3D6 TCGA-EL-A3GO TCGA-EL-A3GP TCGA-EL-A3GR TCGA-EL-A3GS 
       69.57       108.36        64.87        49.51       115.10        65.39 
TCGA-EL-A3GU TCGA-EL-A3GV TCGA-EL-A3GW TCGA-EL-A3GX TCGA-EL-A3GY TCGA-EL-A3GZ 
      136.01        50.37        50.20       147.75       101.13       139.99 
TCGA-EL-A3H1 TCGA-EL-A3H3 TCGA-EL-A3H4 TCGA-EL-A3H5 TCGA-EL-A3H7 TCGA-EL-A3MW 
       49.32        43.36        49.71        83.57       139.00       108.66 
TCGA-EL-A3MX TCGA-EL-A3MZ TCGA-EL-A3N2 TCGA-EL-A3T0 TCGA-EL-A3T1 TCGA-EL-A3T2 
       57.63        52.50        29.65       142.52       129.57        32.48 
TCGA-EL-A3T3 TCGA-EL-A3T6 TCGA-EL-A3T7 TCGA-EL-A3T8 TCGA-EL-A3T9 TCGA-EL-A3TA 
      132.07        98.24        41.29       107.47         5.72        66.90 
TCGA-EL-A3TB TCGA-EL-A3ZG TCGA-EL-A3ZH TCGA-EL-A3ZK TCGA-EL-A3ZL TCGA-EL-A3ZM 
       82.82        89.56        91.17        51.78        62.30        36.03 
TCGA-EL-A3ZN TCGA-EL-A3ZO TCGA-EL-A3ZP TCGA-EL-A3ZQ TCGA-EL-A3ZR TCGA-EL-A3ZS 
       53.06        72.69        65.49        61.22        60.16         7.07 
TCGA-EL-A3ZT TCGA-EL-A4JV TCGA-EL-A4JW TCGA-EL-A4JX TCGA-EL-A4JZ TCGA-EL-A4K0 
       59.44        57.47        34.72        45.96        61.02        31.04 
TCGA-EL-A4K1 TCGA-EL-A4K2 TCGA-EL-A4K4 TCGA-EL-A4K6 TCGA-EL-A4K7 TCGA-EL-A4K9 
       34.39        30.51        53.36        44.15        41.13        47.84 
TCGA-EL-A4KD TCGA-EL-A4KG TCGA-EL-A4KH TCGA-EL-A4KI TCGA-EM-A1CT TCGA-EM-A1CU 
       43.59        24.30        27.06        23.90        18.18        20.91 
TCGA-EM-A1CV TCGA-EM-A1CW TCGA-EM-A1YA TCGA-EM-A1YB TCGA-EM-A1YC TCGA-EM-A1YD 
       48.49        18.05        19.79        19.46        78.61        57.01 
TCGA-EM-A1YE TCGA-EM-A22I TCGA-EM-A22J TCGA-EM-A22K TCGA-EM-A22L TCGA-EM-A22M 
       54.08        14.73        14.50        15.75        10.45        14.53 
TCGA-EM-A22N TCGA-EM-A22O TCGA-EM-A22P TCGA-EM-A22Q TCGA-EM-A2CJ TCGA-EM-A2CK 
       10.65        44.19        41.29        14.24        47.57        17.88 
TCGA-EM-A2CL TCGA-EM-A2CN TCGA-EM-A2CO TCGA-EM-A2CP TCGA-EM-A2CQ TCGA-EM-A2CR 
       13.18        23.51         6.05         2.99        12.30        13.64 
TCGA-EM-A2CS TCGA-EM-A2CT TCGA-EM-A2CU TCGA-EM-A2OV TCGA-EM-A2OW TCGA-EM-A2OX 
       27.65        48.46        13.15        22.16        40.34        19.73 
TCGA-EM-A2OY TCGA-EM-A2OZ TCGA-EM-A2P0 TCGA-EM-A2P1 TCGA-EM-A2P2 TCGA-EM-A2P3 
       32.32        33.96        17.59        17.46        17.29        14.60 
TCGA-EM-A3AI TCGA-EM-A3AJ TCGA-EM-A3AK TCGA-EM-A3AL TCGA-EM-A3AN TCGA-EM-A3AO 
       22.52        30.94        15.68        14.14        33.07        44.52 
TCGA-EM-A3AP TCGA-EM-A3AR TCGA-EM-A3FJ TCGA-EM-A3FK TCGA-EM-A3FL TCGA-EM-A3FM 
        8.35        37.25        27.95        23.77        47.38        21.01 
TCGA-EM-A3FN TCGA-EM-A3FO TCGA-EM-A3FP TCGA-EM-A3FQ TCGA-EM-A3FR TCGA-EM-A3O3 
       12.07        17.49        17.39        16.18        15.02        14.50 
TCGA-EM-A3O6 TCGA-EM-A3O7 TCGA-EM-A3O8 TCGA-EM-A3O9 TCGA-EM-A3OA TCGA-EM-A3ST 
       15.06         7.33        12.53         9.24        27.02        38.86 
TCGA-EM-A3SU TCGA-EM-A3SX TCGA-EM-A3SY TCGA-EM-A3SZ TCGA-EM-A4FF TCGA-EM-A4FH 
       29.95        29.85        13.51        12.79        84.59        29.33 
TCGA-EM-A4FK TCGA-EM-A4FM TCGA-EM-A4FN TCGA-EM-A4FO TCGA-EM-A4FQ TCGA-EM-A4FR 
       21.34         5.33        26.37        26.37        22.45        21.53 
TCGA-EM-A4FU TCGA-EM-A4FV TCGA-EM-A4G1 TCGA-ET-A25G TCGA-ET-A25I TCGA-ET-A25J 
       60.49        24.46        13.68        81.93        81.70        77.56 
TCGA-ET-A25K TCGA-ET-A25O TCGA-ET-A25R TCGA-ET-A2MX TCGA-ET-A2MY TCGA-ET-A2MZ 
       70.42        65.29        63.45        88.41        58.75        37.25 
TCGA-ET-A2N0 TCGA-ET-A2N1 TCGA-ET-A2N3 TCGA-ET-A2N4 TCGA-ET-A2N5 TCGA-ET-A39I 
       52.60        54.35        83.34         2.66        80.88        33.24 
TCGA-ET-A39J TCGA-ET-A39K TCGA-ET-A39L TCGA-ET-A39M TCGA-ET-A39N TCGA-ET-A39O 
      106.09       107.41       108.46        84.89       123.32       100.57 
TCGA-ET-A39P TCGA-ET-A39R TCGA-ET-A39S TCGA-ET-A39T TCGA-ET-A3BN TCGA-ET-A3BP 
       95.34        94.13        55.10        98.20        28.24        79.10 
TCGA-ET-A3BQ TCGA-ET-A3BS TCGA-ET-A3BT TCGA-ET-A3BU TCGA-ET-A3BW TCGA-ET-A3BX 
       76.64         5.79        87.62        77.82        46.65        52.47 
TCGA-ET-A3DO TCGA-ET-A3DP TCGA-ET-A3DQ TCGA-ET-A3DR TCGA-ET-A3DS TCGA-ET-A3DT 
      116.78        94.59        84.85        80.58        66.84        43.73 
TCGA-ET-A3DU TCGA-ET-A3DV TCGA-ET-A3DW TCGA-ET-A40P TCGA-ET-A40Q TCGA-ET-A40R 
       62.83       166.62        24.72        43.99        46.26        44.38 
TCGA-ET-A40S TCGA-ET-A40T TCGA-ET-A4KN TCGA-ET-A4KQ TCGA-FE-A22Z TCGA-FE-A230 
       40.21        37.48        33.17        31.40        73.74        71.44 
TCGA-FE-A231 TCGA-FE-A232 TCGA-FE-A233 TCGA-FE-A234 TCGA-FE-A235 TCGA-FE-A236 
       31.59        79.69        24.69        68.22       117.40        66.77 
TCGA-FE-A237 TCGA-FE-A23A TCGA-FE-A3PA TCGA-FE-A3PB TCGA-FE-A3PC TCGA-FE-A3PD 
      112.80        81.83       106.36        85.15        85.68        78.77 
TCGA-FK-A3S3 TCGA-FK-A3SB TCGA-FK-A3SE TCGA-FK-A3SG TCGA-FK-A3SH TCGA-FK-A4UB 
       71.08         4.11        22.03         0.92        48.10       116.09 
TCGA-FY-A2QD TCGA-FY-A3BL TCGA-FY-A3I4 TCGA-FY-A3I5 TCGA-FY-A3NM TCGA-FY-A3NP 
        1.25        20.42        17.82         7.82        29.10        16.14 
TCGA-FY-A3ON TCGA-FY-A3R6 TCGA-FY-A3R7 TCGA-FY-A3R8 TCGA-FY-A3R9 TCGA-FY-A3RA 
       19.56        13.91        16.27        15.68        16.57        18.08 
TCGA-FY-A3TY TCGA-FY-A3W9 TCGA-FY-A3WA TCGA-FY-A3YR TCGA-FY-A40K TCGA-FY-A40L 
       23.31        21.63        17.06        17.36        15.16        23.87 
TCGA-FY-A40M TCGA-FY-A40N TCGA-FY-A4B0 TCGA-FY-A4B3 TCGA-FY-A4B4 TCGA-GE-A2C6 
       22.49        19.04        13.81        14.04        21.60        12.53 
TCGA-H2-A26U TCGA-H2-A2K9 TCGA-H2-A3RH TCGA-H2-A3RI TCGA-H2-A421 TCGA-H2-A422 
       17.00        21.67        12.46        11.01        20.05        18.61 
TCGA-IM-A3EB TCGA-IM-A3ED TCGA-IM-A3U2 TCGA-IM-A3U3 TCGA-IM-A41Y TCGA-IM-A41Z 
       48.92        47.41        18.51        16.90        21.83        31.10 
TCGA-IM-A420 TCGA-IM-A4EB TCGA-J8-A3O0 TCGA-J8-A3O1 TCGA-J8-A3O2 TCGA-J8-A3YD 
        8.22        25.64        43.17        27.19        11.24        31.82 
TCGA-J8-A3YE TCGA-J8-A3YF TCGA-J8-A3YG TCGA-J8-A3YH TCGA-J8-A42S TCGA-J8-A4HY 
       27.85        24.69        22.29         5.75         2.47         0.20 
TCGA-KS-A41F TCGA-KS-A41I TCGA-KS-A41J TCGA-KS-A41L TCGA-KS-A4I1 TCGA-KS-A4I3 
      143.57        15.98        15.68       113.85        26.70        43.69 
TCGA-KS-A4I5 TCGA-KS-A4I7 TCGA-KS-A4I9 TCGA-KS-A4IB TCGA-KS-A4IC TCGA-KS-A4ID 
       18.64        32.45        87.39        84.72        35.28        33.24 
TCGA-L6-A4EP TCGA-L6-A4EQ TCGA-L6-A4EU TCGA-MK-A4N6 TCGA-MK-A4N7 TCGA-MK-A4N9 
       33.40        40.37         9.50        36.10        32.45        30.21 
TCGA-QD-A8IV TCGA-E8-A418 
       12.89         3.02 

  ARMCX3 MUTATED ARMCX3 WILD-TYPE 
           26.86             0.20 
  ARMCX3 MUTATED ARMCX3 WILD-TYPE 
           38.66           178.29 
  ARMCX3 MUTATED ARMCX3 WILD-TYPE 
           32.81            31.07 
[1] "26.9 - 38.7 (32.8)" "0.2 - 178.3 (31.1)"
[1] "hr="     "1200000"
D30V2, continuous
                  vv
clus               STAGE I STAGE II STAGE III STAGE IV STAGE IVA STAGE IVC
  ARMCX3 MUTATED         3        0         0        0         0         0
  ARMCX3 WILD-TYPE     275       50       108        2        46         6
D30V3, multiclass
           clus
vv          ARMCX3 MUTATED ARMCX3 WILD-TYPE
  STAGE I                3              275
  STAGE II               0               50
  STAGE III              0              108
  STAGE IV               0                2
  STAGE IVA              0               46
  STAGE IVC              0                6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus                T1  T2  T3  T4
  ARMCX3 MUTATED     2   1   0   0
  ARMCX3 WILD-TYPE 139 161 164  23
D30V4, multiclass
    clus
vv   ARMCX3 MUTATED ARMCX3 WILD-TYPE
  T1              2              139
  T2              1              161
  T3              0              164
  T4              0               23
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D30V5, binary
                  cls
clus                 0   1
  ARMCX3 MUTATED     3   0
  ARMCX3 WILD-TYPE 217 222
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ARMCX3 MUTATED      3    0
  ARMCX3 WILD-TYPE  217  222
   clus
vv  ARMCX3 MUTATED ARMCX3 WILD-TYPE
  0              3              217
  1              0              222
[1] 2 2
[1] FALSE
D30V6, binary
                  cls
clus                 0   1
  ARMCX3 MUTATED     1   0
  ARMCX3 WILD-TYPE 275   9
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ARMCX3 MUTATED      1    0
  ARMCX3 WILD-TYPE  275    9
   clus
vv  ARMCX3 MUTATED ARMCX3 WILD-TYPE
  0              1              275
  1              0                9
[1] 2 2
[1] FALSE
D30V7, binary
                  cls
clus                 0   1
  ARMCX3 MUTATED     3   0
  ARMCX3 WILD-TYPE 359 130
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ARMCX3 MUTATED      3    0
  ARMCX3 WILD-TYPE  359  130
        clus
vv       ARMCX3 MUTATED ARMCX3 WILD-TYPE
  FEMALE              3              359
  MALE                0              130
[1] 2 2
[1] FALSE
D30V8, binary
                  cls
clus                 0   1
  ARMCX3 MUTATED     3   0
  ARMCX3 WILD-TYPE 176 298
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ARMCX3 MUTATED      3    0
  ARMCX3 WILD-TYPE  176  298
     clus
vv    ARMCX3 MUTATED ARMCX3 WILD-TYPE
  NO               3              176
  YES              0              298
[1] 2 2
[1] FALSE
                  vv
clus               OTHER, SPECIFY THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  ARMCX3 MUTATED                0                                             2
  ARMCX3 WILD-TYPE              7                                           346
                  vv
clus               THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  ARMCX3 MUTATED                                                                        1
  ARMCX3 WILD-TYPE                                                                    101
                  vv
clus               THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  ARMCX3 MUTATED                                                                     0
  ARMCX3 WILD-TYPE                                                                  35
D30V9, multiclass
                                                                        clus
vv                                                                       ARMCX3 MUTATED
  OTHER, SPECIFY                                                                      0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                       2
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)              1
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                 0
                                                                        clus
vv                                                                       ARMCX3 WILD-TYPE
  OTHER, SPECIFY                                                                        7
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                       346
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)              101
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                  35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D30V10, binary
                  cls
clus                 0   1
  ARMCX3 MUTATED     2   0
  ARMCX3 WILD-TYPE 413  17
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ARMCX3 MUTATED      2    0
  ARMCX3 WILD-TYPE  413   17
     clus
vv    ARMCX3 MUTATED ARMCX3 WILD-TYPE
  NO               2              413
  YES              0               17
[1] 2 2
[1] FALSE
                  vv
clus               MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  ARMCX3 MUTATED              0                       0    3
  ARMCX3 WILD-TYPE          130                      18  325
                  vv
clus               VERY ADVANCED (T4B)
  ARMCX3 MUTATED                     0
  ARMCX3 WILD-TYPE                   1
D30V11, multiclass
                         clus
vv                        ARMCX3 MUTATED ARMCX3 WILD-TYPE
  MINIMAL (T3)                         0              130
  MODERATE/ADVANCED (T4A)              0               18
  NONE                                 3              325
  VERY ADVANCED (T4B)                  0                1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus                R0  R1  R2  RX
  ARMCX3 MUTATED     3   0   0   0
  ARMCX3 WILD-TYPE 376  51   4  30
D30V12, multiclass
    clus
vv   ARMCX3 MUTATED ARMCX3 WILD-TYPE
  R0              3              376
  R1              0               51
  R2              0                4
  RX              0               30
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D30V13, continuous
[1] "Remove cluster labels:" "ARMCX3 MUTATED"        
clus
  ARMCX3 MUTATED ARMCX3 WILD-TYPE 
               2              376 
      TCGA-BJ-A290       TCGA-BJ-A45K       TCGA-CE-A13K       TCGA-DE-A0XZ 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A2PR       TCGA-DJ-A3UU       TCGA-DJ-A3UW       TCGA-DJ-A3V4 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A3VI       TCGA-DJ-A3VK       TCGA-E3-A3E5       TCGA-EL-A3CR 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EL-A3CS       TCGA-EL-A3CY       TCGA-EL-A3D0       TCGA-EL-A3D5 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EL-A3GQ       TCGA-EL-A3H8       TCGA-EM-A3AQ       TCGA-ET-A3BO 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-ET-A3BV       TCGA-J8-A3NZ       TCGA-J8-A4HW       TCGA-4C-A93U 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-BJ-A0Z0       TCGA-BJ-A0Z3       TCGA-BJ-A0Z9       TCGA-BJ-A0ZA 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-BJ-A0ZB       TCGA-BJ-A0ZH       TCGA-BJ-A0ZJ       TCGA-BJ-A18Y 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-BJ-A18Z       TCGA-BJ-A191       TCGA-BJ-A28R       TCGA-BJ-A28T 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-BJ-A28X       TCGA-BJ-A28Z       TCGA-BJ-A2N8       TCGA-BJ-A2N9 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-BJ-A2NA       TCGA-BJ-A3EZ       TCGA-BJ-A3PR       TCGA-BJ-A3PU 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-BJ-A45D       TCGA-BJ-A45E       TCGA-BJ-A45G       TCGA-BJ-A45I 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-BJ-A45J       TCGA-BJ-A4O8       TCGA-BJ-A4O9       TCGA-CE-A3MD 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-CE-A483       TCGA-CE-A484       TCGA-CE-A485       TCGA-DE-A0Y2 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DE-A0Y3       TCGA-DE-A3KN       TCGA-DE-A4M8       TCGA-DE-A4MA 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DE-A4MB       TCGA-DE-A4MC       TCGA-DE-A4MD       TCGA-DE-A69K 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DE-A7U5       TCGA-DJ-A13M       TCGA-DJ-A13O       TCGA-DJ-A13R 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A13T       TCGA-DJ-A13V       TCGA-DJ-A13W       TCGA-DJ-A13X 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A1QG       TCGA-DJ-A1QH       TCGA-DJ-A1QM       TCGA-DJ-A2PO 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A2PP       TCGA-DJ-A2PQ       TCGA-DJ-A2PS       TCGA-DJ-A2PT 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A2PU       TCGA-DJ-A2PV       TCGA-DJ-A2PW       TCGA-DJ-A2PX 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A2PY       TCGA-DJ-A2PZ       TCGA-DJ-A2Q0       TCGA-DJ-A2Q1 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A2Q2       TCGA-DJ-A2Q3       TCGA-DJ-A2Q4       TCGA-DJ-A2Q5 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A2Q6       TCGA-DJ-A2Q7       TCGA-DJ-A2Q8       TCGA-DJ-A2Q9 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A2QA       TCGA-DJ-A2QB       TCGA-DJ-A3UK       TCGA-DJ-A3UM 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A3UN       TCGA-DJ-A3UO       TCGA-DJ-A3UP       TCGA-DJ-A3UQ 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A3UR       TCGA-DJ-A3UX       TCGA-DJ-A3UZ       TCGA-DJ-A3V0 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A3V2       TCGA-DJ-A3V3       TCGA-DJ-A3V5       TCGA-DJ-A3V7 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A3V8       TCGA-DJ-A3V9       TCGA-DJ-A3VA       TCGA-DJ-A3VB 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A3VD       TCGA-DJ-A3VF       TCGA-DJ-A3VG       TCGA-DJ-A3VJ 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A3VL       TCGA-DJ-A4UL       TCGA-DJ-A4UP       TCGA-DJ-A4UQ 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A4UR       TCGA-DJ-A4UW       TCGA-DJ-A4V2       TCGA-DJ-A4V5 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DO-A1K0       TCGA-DO-A2HM       TCGA-E3-A3DY       TCGA-E3-A3DZ 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-E3-A3E0       TCGA-E3-A3E1       TCGA-E3-A3E2       TCGA-E3-A3E3 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-E8-A242       TCGA-E8-A2EA       TCGA-E8-A2JQ       TCGA-E8-A414 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-E8-A415       TCGA-E8-A417       TCGA-E8-A419       TCGA-E8-A433 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-E8-A436       TCGA-E8-A438       TCGA-E8-A44K       TCGA-EL-A3CM 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EL-A3CN       TCGA-EL-A3CO       TCGA-EL-A3CT       TCGA-EL-A3CU 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EL-A3CV       TCGA-EL-A3CW       TCGA-EL-A3CX       TCGA-EL-A3CZ 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EL-A3D1       TCGA-EL-A3D4       TCGA-EL-A3D6       TCGA-EL-A3GO 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EL-A3GP       TCGA-EL-A3GS       TCGA-EL-A3GU       TCGA-EL-A3GV 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EL-A3GX       TCGA-EL-A3H3       TCGA-EL-A3H4       TCGA-EL-A3H5 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EL-A3H7       TCGA-EL-A3MW       TCGA-EL-A3MX       TCGA-EL-A3MZ 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EL-A3N2       TCGA-EL-A3T0       TCGA-EL-A3T1       TCGA-EL-A3T2 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EL-A3TB       TCGA-EL-A3ZH       TCGA-EL-A3ZK       TCGA-EL-A3ZL 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EL-A3ZM       TCGA-EL-A3ZN       TCGA-EL-A3ZO       TCGA-EL-A3ZP 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EL-A3ZS       TCGA-EL-A4JV       TCGA-EL-A4JW       TCGA-EL-A4JX 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EL-A4JZ       TCGA-EL-A4K0       TCGA-EL-A4K1       TCGA-EL-A4K2 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EL-A4K4       TCGA-EL-A4K6       TCGA-EL-A4K7       TCGA-EL-A4KD 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EL-A4KG       TCGA-EL-A4KI       TCGA-EM-A1CT       TCGA-EM-A1CU 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EM-A1CV       TCGA-EM-A1CW       TCGA-EM-A1YC       TCGA-EM-A1YD 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EM-A1YE       TCGA-EM-A22I       TCGA-EM-A22J       TCGA-EM-A22K 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EM-A22L       TCGA-EM-A22M       TCGA-EM-A22N       TCGA-EM-A22O 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EM-A22P       TCGA-EM-A22Q       TCGA-EM-A2CK       TCGA-EM-A2CN 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EM-A2CP       TCGA-EM-A2CQ       TCGA-EM-A2CR       TCGA-EM-A2CS 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EM-A2CT       TCGA-EM-A2CU       TCGA-EM-A2OV       TCGA-EM-A2OX 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EM-A2OY       TCGA-EM-A2OZ       TCGA-EM-A2P0       TCGA-EM-A2P1 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EM-A2P2       TCGA-EM-A3AJ       TCGA-EM-A3AK       TCGA-EM-A3AL 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EM-A3AN       TCGA-EM-A3AO       TCGA-EM-A3AR       TCGA-EM-A3FJ 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EM-A3FK       TCGA-EM-A3FM       TCGA-EM-A3FN       TCGA-EM-A3FO 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EM-A3FP       TCGA-EM-A3FQ       TCGA-EM-A3FR       TCGA-EM-A3O3 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EM-A3O8       TCGA-EM-A3O9       TCGA-EM-A3OA       TCGA-EM-A3ST 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EM-A3SU       TCGA-EM-A3SX       TCGA-EM-A3SZ       TCGA-EM-A4FF 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EM-A4FM       TCGA-EM-A4FN       TCGA-EM-A4FO       TCGA-EM-A4FQ 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EM-A4FR       TCGA-EM-A4FV       TCGA-EM-A4G1       TCGA-ET-A25G 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-ET-A25I       TCGA-ET-A25J       TCGA-ET-A25K       TCGA-ET-A25O 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-ET-A2MX       TCGA-ET-A2MZ       TCGA-ET-A2N0       TCGA-ET-A2N1 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-ET-A2N4       TCGA-ET-A39K       TCGA-ET-A39L       TCGA-ET-A39O 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-ET-A39P       TCGA-ET-A39R       TCGA-ET-A39S       TCGA-ET-A39T 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-ET-A3BP       TCGA-ET-A3BQ       TCGA-ET-A3BS       TCGA-ET-A3BT 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-ET-A3BU       TCGA-ET-A3BX       TCGA-ET-A3DQ       TCGA-ET-A3DR 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-ET-A3DS       TCGA-ET-A3DT       TCGA-ET-A3DU       TCGA-ET-A3DV 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-ET-A3DW       TCGA-ET-A40P       TCGA-ET-A40Q       TCGA-ET-A40R 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-ET-A40S       TCGA-ET-A40T       TCGA-ET-A4KN       TCGA-FE-A22Z 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-FE-A230       TCGA-FE-A231       TCGA-FE-A232       TCGA-FE-A233 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-FE-A234       TCGA-FE-A235       TCGA-FE-A236       TCGA-FE-A237 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-FE-A23A       TCGA-FE-A3PB       TCGA-FE-A3PC       TCGA-FE-A3PD 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-FK-A3S3       TCGA-FK-A3SB       TCGA-FK-A3SE       TCGA-FK-A3SG 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-FK-A3SH       TCGA-FK-A4UB       TCGA-FY-A2QD       TCGA-FY-A3I4 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-FY-A3I5       TCGA-FY-A3NM       TCGA-FY-A3NN       TCGA-FY-A3ON 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-FY-A3R6       TCGA-FY-A3R7       TCGA-FY-A3R9       TCGA-FY-A3TY 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-FY-A3W9       TCGA-FY-A3YR       TCGA-FY-A40K       TCGA-FY-A40L 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-FY-A40M       TCGA-FY-A40N       TCGA-FY-A4B3       TCGA-FY-A4B4 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-GE-A2C6       TCGA-H2-A26U       TCGA-H2-A2K9       TCGA-H2-A3RH 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-H2-A3RI       TCGA-H2-A421       TCGA-H2-A422       TCGA-IM-A3EB 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-IM-A3ED       TCGA-IM-A3U2       TCGA-IM-A3U3       TCGA-IM-A41Y 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-IM-A41Z       TCGA-IM-A420       TCGA-IM-A4EB       TCGA-J8-A3O0 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-J8-A3O1       TCGA-J8-A3O2       TCGA-J8-A3YD       TCGA-J8-A3YE 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-J8-A3YF       TCGA-J8-A3YG       TCGA-J8-A3YH       TCGA-J8-A42S 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-J8-A4HY       TCGA-KS-A41F       TCGA-KS-A41I       TCGA-KS-A41J 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-KS-A41L       TCGA-KS-A4I1       TCGA-KS-A4I3       TCGA-KS-A4I5 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-KS-A4I7       TCGA-KS-A4I9       TCGA-KS-A4IB       TCGA-KS-A4IC 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-KS-A4ID       TCGA-L6-A4EP       TCGA-L6-A4EQ       TCGA-L6-A4EU 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-MK-A4N6       TCGA-MK-A4N7       TCGA-MK-A4N9       TCGA-QD-A8IV 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
D30V14, binary
                  cls
clus                 0   1
  ARMCX3 MUTATED     1   2
  ARMCX3 WILD-TYPE 220 260
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ARMCX3 MUTATED      1    2
  ARMCX3 WILD-TYPE  220  260
            clus
vv           ARMCX3 MUTATED ARMCX3 WILD-TYPE
  MULTIFOCAL              1              220
  UNIFOCAL                2              260
[1] 2 2
[1] FALSE
D30V15, continuous
                  vv
clus               AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  ARMCX3 MUTATED                                  0     0
  ARMCX3 WILD-TYPE                                1    51
                  vv
clus               BLACK OR AFRICAN AMERICAN WHITE
  ARMCX3 MUTATED                           0     1
  ARMCX3 WILD-TYPE                        26   321
D30V16, multiclass
[1] "Remove cluster labels:" "ARMCX3 MUTATED"        
clus
  ARMCX3 MUTATED ARMCX3 WILD-TYPE 
               1              399 
      TCGA-BJ-A290       TCGA-BJ-A45K       TCGA-CE-A13K       TCGA-DE-A0XZ 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A13L       TCGA-DJ-A2PR       TCGA-DJ-A3UU       TCGA-DJ-A3UW 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A3V4       TCGA-DJ-A3VI       TCGA-DJ-A3VK       TCGA-E3-A3E5 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EL-A3CR       TCGA-EL-A3CS       TCGA-EL-A3CY       TCGA-EL-A3D0 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EL-A3D5       TCGA-EL-A3GQ       TCGA-EL-A3H2       TCGA-EL-A3H8 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EL-A3MY       TCGA-EL-A3N3       TCGA-ET-A3BO       TCGA-ET-A3BV 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-FK-A3SD       TCGA-FY-A76V       TCGA-J8-A3NZ       TCGA-J8-A4HW 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-L6-A4ET       TCGA-MK-A84Z       TCGA-4C-A93U       TCGA-BJ-A0YZ 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-BJ-A0Z2       TCGA-BJ-A0Z3       TCGA-BJ-A0Z9       TCGA-BJ-A0ZA 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-BJ-A0ZB       TCGA-BJ-A0ZC       TCGA-BJ-A0ZE       TCGA-BJ-A0ZG 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-BJ-A0ZH       TCGA-BJ-A0ZJ       TCGA-BJ-A18Y       TCGA-BJ-A18Z 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-BJ-A191       TCGA-BJ-A192       TCGA-BJ-A28R       TCGA-BJ-A28S 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-BJ-A28T       TCGA-BJ-A28V       TCGA-BJ-A28X       TCGA-BJ-A28Z 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-BJ-A2N7       TCGA-BJ-A2N8       TCGA-BJ-A2N9       TCGA-BJ-A2NA 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-BJ-A2P4       TCGA-BJ-A3EZ       TCGA-BJ-A3F0       TCGA-BJ-A3PR 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-BJ-A3PT       TCGA-BJ-A3PU       TCGA-BJ-A45D       TCGA-BJ-A45E 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-BJ-A45F       TCGA-BJ-A45G       TCGA-BJ-A45H       TCGA-BJ-A45I 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-BJ-A45J       TCGA-BJ-A4O8       TCGA-BJ-A4O9       TCGA-CE-A27D 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-CE-A3MD       TCGA-CE-A3ME       TCGA-CE-A481       TCGA-CE-A482 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-CE-A483       TCGA-CE-A484       TCGA-CE-A485       TCGA-DE-A0Y2 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DE-A0Y3       TCGA-DE-A2OL       TCGA-DE-A3KN       TCGA-DE-A4M8 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DE-A4M9       TCGA-DE-A4MA       TCGA-DE-A4MB       TCGA-DE-A4MC 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DE-A4MD       TCGA-DE-A69J       TCGA-DE-A69K       TCGA-DE-A7U5 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A13M       TCGA-DJ-A13O       TCGA-DJ-A13P       TCGA-DJ-A13R 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A13S       TCGA-DJ-A13T       TCGA-DJ-A13U       TCGA-DJ-A13W 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A1QD       TCGA-DJ-A1QE       TCGA-DJ-A1QF       TCGA-DJ-A1QG 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A1QH       TCGA-DJ-A1QI       TCGA-DJ-A1QM       TCGA-DJ-A1QO 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A1QQ       TCGA-DJ-A2PN       TCGA-DJ-A2PO       TCGA-DJ-A2PQ 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A2PS       TCGA-DJ-A2PT       TCGA-DJ-A2PU       TCGA-DJ-A2PV 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A2PW       TCGA-DJ-A2PX       TCGA-DJ-A2PY       TCGA-DJ-A2PZ 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A2Q0       TCGA-DJ-A2Q1       TCGA-DJ-A2Q2       TCGA-DJ-A2Q3 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A2Q4       TCGA-DJ-A2Q5       TCGA-DJ-A2Q6       TCGA-DJ-A2Q7 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A2Q9       TCGA-DJ-A2QA       TCGA-DJ-A2QB       TCGA-DJ-A3UK 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A3UM       TCGA-DJ-A3UN       TCGA-DJ-A3UO       TCGA-DJ-A3UQ 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A3UR       TCGA-DJ-A3UT       TCGA-DJ-A3UX       TCGA-DJ-A3UY 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A3UZ       TCGA-DJ-A3V2       TCGA-DJ-A3V3       TCGA-DJ-A3V5 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A3V7       TCGA-DJ-A3V8       TCGA-DJ-A3V9       TCGA-DJ-A3VD 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A3VE       TCGA-DJ-A3VF       TCGA-DJ-A3VG       TCGA-DJ-A3VJ 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A3VL       TCGA-DJ-A3VM       TCGA-DJ-A4UL       TCGA-DJ-A4UP 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A4UQ       TCGA-DJ-A4UR       TCGA-DJ-A4UT       TCGA-DJ-A4UW 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DJ-A4V0       TCGA-DJ-A4V4       TCGA-DJ-A4V5       TCGA-DO-A1JZ 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-DO-A1K0       TCGA-DO-A2HM       TCGA-E3-A3DY       TCGA-E3-A3DZ 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-E3-A3E0       TCGA-E3-A3E1       TCGA-E3-A3E2       TCGA-E3-A3E3 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-E8-A242       TCGA-E8-A2EA       TCGA-E8-A2JQ       TCGA-E8-A3X7 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-E8-A413       TCGA-E8-A414       TCGA-E8-A415       TCGA-E8-A416 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-E8-A417       TCGA-E8-A419       TCGA-E8-A432       TCGA-E8-A433 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-E8-A434       TCGA-E8-A436       TCGA-E8-A437       TCGA-E8-A438 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-E8-A44K       TCGA-E8-A44M       TCGA-EL-A3CL       TCGA-EL-A3CM 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EL-A3CN       TCGA-EL-A3CO       TCGA-EL-A3CP       TCGA-EL-A3CT 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EL-A3CU       TCGA-EL-A3CV       TCGA-EL-A3CW       TCGA-EL-A3CX 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EL-A3CZ       TCGA-EL-A3D1       TCGA-EL-A3D4       TCGA-EL-A3D6 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EL-A3GO       TCGA-EL-A3GP       TCGA-EL-A3GR       TCGA-EL-A3GS 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EL-A3GU       TCGA-EL-A3GV       TCGA-EL-A3GW       TCGA-EL-A3GX 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EL-A3GY       TCGA-EL-A3GZ       TCGA-EL-A3H1       TCGA-EL-A3H3 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EL-A3H4       TCGA-EL-A3H5       TCGA-EL-A3H7       TCGA-EL-A3MW 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EL-A3MX       TCGA-EL-A3MZ       TCGA-EL-A3N2       TCGA-EL-A3T0 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EL-A3T1       TCGA-EL-A3T2       TCGA-EL-A3T3       TCGA-EL-A3T6 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EL-A3T7       TCGA-EL-A3T8       TCGA-EL-A3T9       TCGA-EL-A3TA 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EL-A3TB       TCGA-EL-A3ZG       TCGA-EL-A3ZH       TCGA-EL-A3ZK 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EL-A3ZL       TCGA-EL-A3ZN       TCGA-EL-A3ZO       TCGA-EL-A3ZP 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EL-A3ZQ       TCGA-EL-A3ZR       TCGA-EL-A3ZS       TCGA-EL-A3ZT 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EL-A4JV       TCGA-EL-A4JW       TCGA-EL-A4JX       TCGA-EL-A4JZ 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EL-A4K0       TCGA-EL-A4K1       TCGA-EL-A4K2       TCGA-EL-A4K4 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EL-A4K6       TCGA-EL-A4K7       TCGA-EL-A4K9       TCGA-EL-A4KD 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EL-A4KG       TCGA-EL-A4KH       TCGA-EL-A4KI       TCGA-EM-A22M 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-EM-A22O       TCGA-EM-A2OV       TCGA-EM-A3AI       TCGA-ET-A25G 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-ET-A25I       TCGA-ET-A25J       TCGA-ET-A25K       TCGA-ET-A25O 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-ET-A25R       TCGA-ET-A2MX       TCGA-ET-A2MY       TCGA-ET-A2MZ 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-ET-A2N0       TCGA-ET-A2N1       TCGA-ET-A2N3       TCGA-ET-A2N4 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-ET-A2N5       TCGA-ET-A39I       TCGA-ET-A39J       TCGA-ET-A39K 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-ET-A39M       TCGA-ET-A39N       TCGA-ET-A39O       TCGA-ET-A39P 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-ET-A39R       TCGA-ET-A39S       TCGA-ET-A39T       TCGA-ET-A3BN 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-ET-A3BP       TCGA-ET-A3BQ       TCGA-ET-A3BS       TCGA-ET-A3BT 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-ET-A3BU       TCGA-ET-A3BW       TCGA-ET-A3BX       TCGA-ET-A3DO 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-ET-A3DP       TCGA-ET-A3DQ       TCGA-ET-A3DR       TCGA-ET-A3DS 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-ET-A3DT       TCGA-ET-A3DU       TCGA-ET-A3DV       TCGA-ET-A3DW 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-ET-A40P       TCGA-ET-A40Q       TCGA-ET-A40R       TCGA-ET-A40S 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-ET-A40T       TCGA-ET-A4KN       TCGA-ET-A4KQ       TCGA-FE-A22Z 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-FE-A230       TCGA-FE-A231       TCGA-FE-A232       TCGA-FE-A233 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-FE-A234       TCGA-FE-A235       TCGA-FE-A236       TCGA-FE-A237 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-FE-A23A       TCGA-FE-A3PA       TCGA-FE-A3PB       TCGA-FE-A3PC 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-FE-A3PD       TCGA-FK-A3S3       TCGA-FK-A3SB       TCGA-FK-A3SE 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-FK-A3SG       TCGA-FK-A3SH       TCGA-FK-A4UB       TCGA-FY-A2QD 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-FY-A3BL       TCGA-FY-A3I4       TCGA-FY-A3I5       TCGA-FY-A3NM 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-FY-A3NP       TCGA-FY-A3ON       TCGA-FY-A3R6       TCGA-FY-A3R7 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-FY-A3R8       TCGA-FY-A3R9       TCGA-FY-A3RA       TCGA-FY-A3TY 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-FY-A3W9       TCGA-FY-A3WA       TCGA-FY-A3YR       TCGA-FY-A40K 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-FY-A40L       TCGA-FY-A40M       TCGA-FY-A40N       TCGA-FY-A4B0 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-FY-A4B3       TCGA-FY-A4B4       TCGA-GE-A2C6       TCGA-H2-A26U 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-H2-A2K9       TCGA-H2-A3RH       TCGA-H2-A3RI       TCGA-H2-A421 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-H2-A422       TCGA-IM-A3EB       TCGA-IM-A3ED       TCGA-IM-A3U2 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-IM-A3U3       TCGA-IM-A41Y       TCGA-IM-A41Z       TCGA-IM-A420 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-IM-A4EB       TCGA-J8-A3O0       TCGA-J8-A3O1       TCGA-J8-A3O2 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-J8-A3YD       TCGA-J8-A3YE       TCGA-J8-A3YF       TCGA-J8-A3YG 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-J8-A3YH       TCGA-J8-A42S       TCGA-J8-A4HY       TCGA-KS-A41F 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-KS-A41I       TCGA-KS-A41J       TCGA-KS-A41L       TCGA-KS-A4I1 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-KS-A4I3       TCGA-KS-A4I5       TCGA-KS-A4I7       TCGA-KS-A4I9 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-KS-A4IB       TCGA-KS-A4IC       TCGA-KS-A4ID       TCGA-L6-A4EP 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-L6-A4EQ       TCGA-L6-A4EU       TCGA-MK-A4N6       TCGA-MK-A4N7 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
      TCGA-MK-A4N9       TCGA-QD-A8IV       TCGA-E8-A418 
"ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" "ARMCX3 WILD-TYPE" 
D30V17, binary
                  cls
clus                 0   1
  ARMCX3 MUTATED     0   1
  ARMCX3 WILD-TYPE  38 350
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ARMCX3 MUTATED      0    1
  ARMCX3 WILD-TYPE   38  350
                        clus
vv                       ARMCX3 MUTATED ARMCX3 WILD-TYPE
  HISPANIC OR LATINO                  0               38
  NOT HISPANIC OR LATINO              1              350
[1] 2 2
[1] FALSE

Clustering(31) Variable = RYR1 MUTATION ANALYSIS
D31V1, survival
                sevent
clus2              0   1
  RYR1 MUTATED     7   0
  RYR1 WILD-TYPE 470  14
  RYR1 MUTATED RYR1 WILD-TYPE 
             7            484 
  RYR1 MUTATED RYR1 WILD-TYPE 
             0             14 
$`RYR1 MUTATED`
TCGA-BJ-A45K TCGA-DJ-A13L TCGA-FY-A76V TCGA-EL-A3GV TCGA-EL-A3ZO TCGA-ET-A3DQ 
       23.18         9.96         1.68        50.37        72.69        84.85 
TCGA-E8-A418 
        3.02 

$`RYR1 WILD-TYPE`
TCGA-BJ-A290 TCGA-CE-A13K TCGA-DE-A0XZ TCGA-DJ-A2PR TCGA-DJ-A3UU TCGA-DJ-A3UW 
       30.21        12.66        35.84        27.45        23.44        59.57 
TCGA-DJ-A3V4 TCGA-DJ-A3VI TCGA-DJ-A3VK TCGA-E3-A3E5 TCGA-EL-A3CR TCGA-EL-A3CS 
       42.54         3.12        24.76        39.95         7.66        45.53 
TCGA-EL-A3CY TCGA-EL-A3D0 TCGA-EL-A3D5 TCGA-EL-A3GQ TCGA-EL-A3H2 TCGA-EL-A3H8 
        4.18       139.86        57.11        50.24        33.50       150.48 
TCGA-EL-A3MY TCGA-EL-A3N3 TCGA-EM-A3AQ TCGA-ET-A3BO TCGA-ET-A3BV TCGA-FK-A3SD 
       17.52       178.29        29.72        50.40        75.42         1.05 
TCGA-J8-A3NZ TCGA-J8-A4HW TCGA-L6-A4ET TCGA-MK-A84Z TCGA-4C-A93U TCGA-BJ-A0YZ 
       17.23         2.60        21.83        23.93         4.24        24.79 
TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0Z3 TCGA-BJ-A0Z9 TCGA-BJ-A0ZA TCGA-BJ-A0ZB 
       13.78        49.78        16.34        41.33        18.87         4.01 
TCGA-BJ-A0ZC TCGA-BJ-A0ZE TCGA-BJ-A0ZG TCGA-BJ-A0ZH TCGA-BJ-A0ZJ TCGA-BJ-A18Y 
       11.57        16.73        25.48        15.12        42.08        51.39 
TCGA-BJ-A18Z TCGA-BJ-A191 TCGA-BJ-A192 TCGA-BJ-A28R TCGA-BJ-A28S TCGA-BJ-A28T 
       41.52         4.83        44.35        42.15        21.04        35.54 
TCGA-BJ-A28V TCGA-BJ-A28X TCGA-BJ-A28Z TCGA-BJ-A2N7 TCGA-BJ-A2N8 TCGA-BJ-A2N9 
       32.45        30.97        11.08        18.38        16.57        20.48 
TCGA-BJ-A2NA TCGA-BJ-A2P4 TCGA-BJ-A3EZ TCGA-BJ-A3F0 TCGA-BJ-A3PR TCGA-BJ-A3PT 
       18.97        12.82        16.01        13.94        36.39        23.31 
TCGA-BJ-A3PU TCGA-BJ-A45D TCGA-BJ-A45E TCGA-BJ-A45F TCGA-BJ-A45G TCGA-BJ-A45H 
       18.64        10.88        21.01         3.45        23.84        28.44 
TCGA-BJ-A45I TCGA-BJ-A45J TCGA-BJ-A4O8 TCGA-BJ-A4O9 TCGA-CE-A27D TCGA-CE-A3MD 
       15.45        21.63        19.43        23.47        12.30        12.79 
TCGA-CE-A3ME TCGA-CE-A481 TCGA-CE-A482 TCGA-CE-A483 TCGA-CE-A484 TCGA-CE-A485 
       12.46        11.38        10.68        15.02        12.43        12.66 
TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DE-A2OL TCGA-DE-A3KN TCGA-DE-A4M8 TCGA-DE-A4M9 
       21.63        50.17        37.64        27.32        18.54        18.84 
TCGA-DE-A4MA TCGA-DE-A4MB TCGA-DE-A4MC TCGA-DE-A4MD TCGA-DE-A69J TCGA-DE-A69K 
       30.12        11.57        30.02        25.12        14.70        14.27 
TCGA-DE-A7U5 TCGA-DJ-A13M TCGA-DJ-A13O TCGA-DJ-A13P TCGA-DJ-A13R TCGA-DJ-A13S 
        2.76        48.79        38.17       169.32        18.58         8.71 
TCGA-DJ-A13T TCGA-DJ-A13U TCGA-DJ-A13V TCGA-DJ-A13W TCGA-DJ-A13X TCGA-DJ-A1QD 
       56.19        52.27        43.17        52.37         8.32        48.07 
TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QG TCGA-DJ-A1QH TCGA-DJ-A1QI TCGA-DJ-A1QL 
      135.91        30.61        44.98        42.51        14.96        17.59 
TCGA-DJ-A1QM TCGA-DJ-A1QN TCGA-DJ-A1QO TCGA-DJ-A1QQ TCGA-DJ-A2PN TCGA-DJ-A2PO 
        6.02        42.58        47.41        17.56        10.09         7.99 
TCGA-DJ-A2PP TCGA-DJ-A2PQ TCGA-DJ-A2PS TCGA-DJ-A2PT TCGA-DJ-A2PU TCGA-DJ-A2PV 
       30.58        35.41        26.20        38.83        33.96        31.99 
TCGA-DJ-A2PW TCGA-DJ-A2PX TCGA-DJ-A2PY TCGA-DJ-A2PZ TCGA-DJ-A2Q0 TCGA-DJ-A2Q1 
       34.85        28.96         8.78         8.42        34.36        37.74 
TCGA-DJ-A2Q2 TCGA-DJ-A2Q3 TCGA-DJ-A2Q4 TCGA-DJ-A2Q5 TCGA-DJ-A2Q6 TCGA-DJ-A2Q7 
       43.96        40.24        33.93        37.48        36.46        35.11 
TCGA-DJ-A2Q8 TCGA-DJ-A2Q9 TCGA-DJ-A2QA TCGA-DJ-A2QB TCGA-DJ-A2QC TCGA-DJ-A3UK 
       39.09        35.90        33.53        35.18        39.95        36.92 
TCGA-DJ-A3UM TCGA-DJ-A3UN TCGA-DJ-A3UO TCGA-DJ-A3UP TCGA-DJ-A3UQ TCGA-DJ-A3UR 
       31.04        32.42        31.46        16.41        19.56        36.33 
TCGA-DJ-A3US TCGA-DJ-A3UT TCGA-DJ-A3UX TCGA-DJ-A3UY TCGA-DJ-A3UZ TCGA-DJ-A3V0 
       32.81        36.33        11.34        35.87        40.96        36.99 
TCGA-DJ-A3V2 TCGA-DJ-A3V3 TCGA-DJ-A3V5 TCGA-DJ-A3V7 TCGA-DJ-A3V8 TCGA-DJ-A3V9 
       20.22        30.61        19.20        23.21        21.27        20.48 
TCGA-DJ-A3VA TCGA-DJ-A3VB TCGA-DJ-A3VD TCGA-DJ-A3VE TCGA-DJ-A3VF TCGA-DJ-A3VG 
       24.82        22.92        40.70        18.97         9.60        35.67 
TCGA-DJ-A3VJ TCGA-DJ-A3VL TCGA-DJ-A3VM TCGA-DJ-A4UL TCGA-DJ-A4UP TCGA-DJ-A4UQ 
       36.43        23.44        27.62        30.87        30.12        33.04 
TCGA-DJ-A4UR TCGA-DJ-A4UT TCGA-DJ-A4UW TCGA-DJ-A4V0 TCGA-DJ-A4V2 TCGA-DJ-A4V4 
       34.78        27.06        26.93        35.54         3.12        15.81 
TCGA-DJ-A4V5 TCGA-DO-A1JZ TCGA-DO-A1K0 TCGA-DO-A2HM TCGA-E3-A3DY TCGA-E3-A3DZ 
       35.38        54.90        21.53         2.33        92.55        47.21 
TCGA-E3-A3E0 TCGA-E3-A3E1 TCGA-E3-A3E2 TCGA-E3-A3E3 TCGA-E8-A242 TCGA-E8-A2EA 
       66.38        80.52        63.19        52.44        31.23        35.67 
TCGA-E8-A2JQ TCGA-E8-A3X7 TCGA-E8-A413 TCGA-E8-A414 TCGA-E8-A415 TCGA-E8-A416 
       11.70        31.27        29.98        31.50        31.04        31.30 
TCGA-E8-A417 TCGA-E8-A419 TCGA-E8-A432 TCGA-E8-A433 TCGA-E8-A434 TCGA-E8-A436 
       30.84        25.45        30.61        31.27        31.33        14.96 
TCGA-E8-A437 TCGA-E8-A438 TCGA-E8-A44K TCGA-E8-A44M TCGA-EL-A3CL TCGA-EL-A3CM 
       39.88        33.50        31.00        30.15        31.66        26.73 
TCGA-EL-A3CN TCGA-EL-A3CO TCGA-EL-A3CP TCGA-EL-A3CT TCGA-EL-A3CU TCGA-EL-A3CV 
      155.54        97.74       158.83        60.95       157.15        37.94 
TCGA-EL-A3CW TCGA-EL-A3CX TCGA-EL-A3CZ TCGA-EL-A3D1 TCGA-EL-A3D4 TCGA-EL-A3D6 
       57.01       106.62        79.50        98.53        69.57       108.36 
TCGA-EL-A3GO TCGA-EL-A3GP TCGA-EL-A3GR TCGA-EL-A3GS TCGA-EL-A3GU TCGA-EL-A3GW 
       64.87        49.51       115.10        65.39       136.01        50.20 
TCGA-EL-A3GX TCGA-EL-A3GY TCGA-EL-A3GZ TCGA-EL-A3H1 TCGA-EL-A3H3 TCGA-EL-A3H4 
      147.75       101.13       139.99        49.32        43.36        49.71 
TCGA-EL-A3H5 TCGA-EL-A3H7 TCGA-EL-A3MW TCGA-EL-A3MX TCGA-EL-A3MZ TCGA-EL-A3N2 
       83.57       139.00       108.66        57.63        52.50        29.65 
TCGA-EL-A3T0 TCGA-EL-A3T1 TCGA-EL-A3T2 TCGA-EL-A3T3 TCGA-EL-A3T6 TCGA-EL-A3T7 
      142.52       129.57        32.48       132.07        98.24        41.29 
TCGA-EL-A3T8 TCGA-EL-A3T9 TCGA-EL-A3TA TCGA-EL-A3TB TCGA-EL-A3ZG TCGA-EL-A3ZH 
      107.47         5.72        66.90        82.82        89.56        91.17 
TCGA-EL-A3ZK TCGA-EL-A3ZL TCGA-EL-A3ZM TCGA-EL-A3ZN TCGA-EL-A3ZP TCGA-EL-A3ZQ 
       51.78        62.30        36.03        53.06        65.49        61.22 
TCGA-EL-A3ZR TCGA-EL-A3ZS TCGA-EL-A3ZT TCGA-EL-A4JV TCGA-EL-A4JW TCGA-EL-A4JX 
       60.16         7.07        59.44        57.47        34.72        45.96 
TCGA-EL-A4JZ TCGA-EL-A4K0 TCGA-EL-A4K1 TCGA-EL-A4K2 TCGA-EL-A4K4 TCGA-EL-A4K6 
       61.02        31.04        34.39        30.51        53.36        44.15 
TCGA-EL-A4K7 TCGA-EL-A4K9 TCGA-EL-A4KD TCGA-EL-A4KG TCGA-EL-A4KH TCGA-EL-A4KI 
       41.13        47.84        43.59        24.30        27.06        23.90 
TCGA-EM-A1CS TCGA-EM-A1CT TCGA-EM-A1CU TCGA-EM-A1CV TCGA-EM-A1CW TCGA-EM-A1YA 
       26.86        18.18        20.91        48.49        18.05        19.79 
TCGA-EM-A1YB TCGA-EM-A1YC TCGA-EM-A1YD TCGA-EM-A1YE TCGA-EM-A22I TCGA-EM-A22J 
       19.46        78.61        57.01        54.08        14.73        14.50 
TCGA-EM-A22K TCGA-EM-A22L TCGA-EM-A22M TCGA-EM-A22N TCGA-EM-A22O TCGA-EM-A22P 
       15.75        10.45        14.53        10.65        44.19        41.29 
TCGA-EM-A22Q TCGA-EM-A2CJ TCGA-EM-A2CK TCGA-EM-A2CL TCGA-EM-A2CN TCGA-EM-A2CO 
       14.24        47.57        17.88        13.18        23.51         6.05 
TCGA-EM-A2CP TCGA-EM-A2CQ TCGA-EM-A2CR TCGA-EM-A2CS TCGA-EM-A2CT TCGA-EM-A2CU 
        2.99        12.30        13.64        27.65        48.46        13.15 
TCGA-EM-A2OV TCGA-EM-A2OW TCGA-EM-A2OX TCGA-EM-A2OY TCGA-EM-A2OZ TCGA-EM-A2P0 
       22.16        40.34        19.73        32.32        33.96        17.59 
TCGA-EM-A2P1 TCGA-EM-A2P2 TCGA-EM-A2P3 TCGA-EM-A3AI TCGA-EM-A3AJ TCGA-EM-A3AK 
       17.46        17.29        14.60        22.52        30.94        15.68 
TCGA-EM-A3AL TCGA-EM-A3AN TCGA-EM-A3AO TCGA-EM-A3AP TCGA-EM-A3AR TCGA-EM-A3FJ 
       14.14        33.07        44.52         8.35        37.25        27.95 
TCGA-EM-A3FK TCGA-EM-A3FL TCGA-EM-A3FM TCGA-EM-A3FN TCGA-EM-A3FO TCGA-EM-A3FP 
       23.77        47.38        21.01        12.07        17.49        17.39 
TCGA-EM-A3FQ TCGA-EM-A3FR TCGA-EM-A3O3 TCGA-EM-A3O6 TCGA-EM-A3O7 TCGA-EM-A3O8 
       16.18        15.02        14.50        15.06         7.33        12.53 
TCGA-EM-A3O9 TCGA-EM-A3OA TCGA-EM-A3OB TCGA-EM-A3ST TCGA-EM-A3SU TCGA-EM-A3SX 
        9.24        27.02        38.66        38.86        29.95        29.85 
TCGA-EM-A3SY TCGA-EM-A3SZ TCGA-EM-A4FF TCGA-EM-A4FH TCGA-EM-A4FK TCGA-EM-A4FM 
       13.51        12.79        84.59        29.33        21.34         5.33 
TCGA-EM-A4FN TCGA-EM-A4FO TCGA-EM-A4FQ TCGA-EM-A4FR TCGA-EM-A4FU TCGA-EM-A4FV 
       26.37        26.37        22.45        21.53        60.49        24.46 
TCGA-EM-A4G1 TCGA-ET-A25G TCGA-ET-A25I TCGA-ET-A25J TCGA-ET-A25K TCGA-ET-A25O 
       13.68        81.93        81.70        77.56        70.42        65.29 
TCGA-ET-A25R TCGA-ET-A2MX TCGA-ET-A2MY TCGA-ET-A2MZ TCGA-ET-A2N0 TCGA-ET-A2N1 
       63.45        88.41        58.75        37.25        52.60        54.35 
TCGA-ET-A2N3 TCGA-ET-A2N4 TCGA-ET-A2N5 TCGA-ET-A39I TCGA-ET-A39J TCGA-ET-A39K 
       83.34         2.66        80.88        33.24       106.09       107.41 
TCGA-ET-A39L TCGA-ET-A39M TCGA-ET-A39N TCGA-ET-A39O TCGA-ET-A39P TCGA-ET-A39R 
      108.46        84.89       123.32       100.57        95.34        94.13 
TCGA-ET-A39S TCGA-ET-A39T TCGA-ET-A3BN TCGA-ET-A3BP TCGA-ET-A3BQ TCGA-ET-A3BS 
       55.10        98.20        28.24        79.10        76.64         5.79 
TCGA-ET-A3BT TCGA-ET-A3BU TCGA-ET-A3BW TCGA-ET-A3BX TCGA-ET-A3DO TCGA-ET-A3DP 
       87.62        77.82        46.65        52.47       116.78        94.59 
TCGA-ET-A3DR TCGA-ET-A3DS TCGA-ET-A3DT TCGA-ET-A3DU TCGA-ET-A3DV TCGA-ET-A3DW 
       80.58        66.84        43.73        62.83       166.62        24.72 
TCGA-ET-A40P TCGA-ET-A40Q TCGA-ET-A40R TCGA-ET-A40S TCGA-ET-A40T TCGA-ET-A4KN 
       43.99        46.26        44.38        40.21        37.48        33.17 
TCGA-ET-A4KQ TCGA-FE-A22Z TCGA-FE-A230 TCGA-FE-A231 TCGA-FE-A232 TCGA-FE-A233 
       31.40        73.74        71.44        31.59        79.69        24.69 
TCGA-FE-A234 TCGA-FE-A235 TCGA-FE-A236 TCGA-FE-A237 TCGA-FE-A23A TCGA-FE-A3PA 
       68.22       117.40        66.77       112.80        81.83       106.36 
TCGA-FE-A3PB TCGA-FE-A3PC TCGA-FE-A3PD TCGA-FK-A3S3 TCGA-FK-A3SB TCGA-FK-A3SE 
       85.15        85.68        78.77        71.08         4.11        22.03 
TCGA-FK-A3SG TCGA-FK-A3SH TCGA-FK-A4UB TCGA-FY-A2QD TCGA-FY-A3BL TCGA-FY-A3I4 
        0.92        48.10       116.09         1.25        20.42        17.82 
TCGA-FY-A3I5 TCGA-FY-A3NM TCGA-FY-A3NP TCGA-FY-A3ON TCGA-FY-A3R6 TCGA-FY-A3R7 
        7.82        29.10        16.14        19.56        13.91        16.27 
TCGA-FY-A3R8 TCGA-FY-A3R9 TCGA-FY-A3RA TCGA-FY-A3TY TCGA-FY-A3W9 TCGA-FY-A3WA 
       15.68        16.57        18.08        23.31        21.63        17.06 
TCGA-FY-A3YR TCGA-FY-A40K TCGA-FY-A40L TCGA-FY-A40M TCGA-FY-A40N TCGA-FY-A4B0 
       17.36        15.16        23.87        22.49        19.04        13.81 
TCGA-FY-A4B3 TCGA-FY-A4B4 TCGA-GE-A2C6 TCGA-H2-A26U TCGA-H2-A2K9 TCGA-H2-A3RH 
       14.04        21.60        12.53        17.00        21.67        12.46 
TCGA-H2-A3RI TCGA-H2-A421 TCGA-H2-A422 TCGA-IM-A3EB TCGA-IM-A3ED TCGA-IM-A3U2 
       11.01        20.05        18.61        48.92        47.41        18.51 
TCGA-IM-A3U3 TCGA-IM-A41Y TCGA-IM-A41Z TCGA-IM-A420 TCGA-IM-A4EB TCGA-J8-A3O0 
       16.90        21.83        31.10         8.22        25.64        43.17 
TCGA-J8-A3O1 TCGA-J8-A3O2 TCGA-J8-A3YD TCGA-J8-A3YE TCGA-J8-A3YF TCGA-J8-A3YG 
       27.19        11.24        31.82        27.85        24.69        22.29 
TCGA-J8-A3YH TCGA-J8-A42S TCGA-J8-A4HY TCGA-KS-A41F TCGA-KS-A41I TCGA-KS-A41J 
        5.75         2.47         0.20       143.57        15.98        15.68 
TCGA-KS-A41L TCGA-KS-A4I1 TCGA-KS-A4I3 TCGA-KS-A4I5 TCGA-KS-A4I7 TCGA-KS-A4I9 
      113.85        26.70        43.69        18.64        32.45        87.39 
TCGA-KS-A4IB TCGA-KS-A4IC TCGA-KS-A4ID TCGA-L6-A4EP TCGA-L6-A4EQ TCGA-L6-A4EU 
       84.72        35.28        33.24        33.40        40.37         9.50 
TCGA-MK-A4N6 TCGA-MK-A4N7 TCGA-MK-A4N9 TCGA-QD-A8IV 
       36.10        32.45        30.21        12.89 

  RYR1 MUTATED RYR1 WILD-TYPE 
          1.68           0.20 
  RYR1 MUTATED RYR1 WILD-TYPE 
         84.85         178.29 
  RYR1 MUTATED RYR1 WILD-TYPE 
        23.180         31.165 
[1] "1.7 - 84.8 (23.2)"  "0.2 - 178.3 (31.2)"
[1] "hr="     "9100000"
D31V2, continuous
                vv
clus             STAGE I STAGE II STAGE III STAGE IV STAGE IVA STAGE IVC
  RYR1 MUTATED         3        1         2        0         1         0
  RYR1 WILD-TYPE     275       49       106        2        45         6
D31V3, multiclass
           clus
vv          RYR1 MUTATED RYR1 WILD-TYPE
  STAGE I              3            275
  STAGE II             1             49
  STAGE III            2            106
  STAGE IV             0              2
  STAGE IVA            1             45
  STAGE IVC            0              6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus              T1  T2  T3  T4
  RYR1 MUTATED     2   2   2   1
  RYR1 WILD-TYPE 139 160 162  22
D31V4, multiclass
    clus
vv   RYR1 MUTATED RYR1 WILD-TYPE
  T1            2            139
  T2            2            160
  T3            2            162
  T4            1             22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D31V5, binary
                cls
clus               0   1
  RYR1 MUTATED     5   1
  RYR1 WILD-TYPE 215 221
[1] "tbl2"
                cls
clus             [,1] [,2]
  RYR1 MUTATED      5    1
  RYR1 WILD-TYPE  215  221
   clus
vv  RYR1 MUTATED RYR1 WILD-TYPE
  0            5            215
  1            1            221
[1] 2 2
[1] FALSE
D31V6, binary
                cls
clus               0   1
  RYR1 MUTATED     5   0
  RYR1 WILD-TYPE 271   9
[1] "tbl2"
                cls
clus             [,1] [,2]
  RYR1 MUTATED      5    0
  RYR1 WILD-TYPE  271    9
   clus
vv  RYR1 MUTATED RYR1 WILD-TYPE
  0            5            271
  1            0              9
[1] 2 2
[1] FALSE
D31V7, binary
                cls
clus               0   1
  RYR1 MUTATED     4   3
  RYR1 WILD-TYPE 358 127
[1] "tbl2"
                cls
clus             [,1] [,2]
  RYR1 MUTATED      4    3
  RYR1 WILD-TYPE  358  127
        clus
vv       RYR1 MUTATED RYR1 WILD-TYPE
  FEMALE            4            358
  MALE              3            127
[1] 2 2
[1] FALSE
D31V8, binary
                cls
clus               0   1
  RYR1 MUTATED     4   2
  RYR1 WILD-TYPE 175 296
[1] "tbl2"
                cls
clus             [,1] [,2]
  RYR1 MUTATED      4    2
  RYR1 WILD-TYPE  175  296
     clus
vv    RYR1 MUTATED RYR1 WILD-TYPE
  NO             4            175
  YES            2            296
[1] 2 2
[1] FALSE
                vv
clus             OTHER, SPECIFY THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  RYR1 MUTATED                0                                             5
  RYR1 WILD-TYPE              7                                           343
                vv
clus             THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  RYR1 MUTATED                                                                        1
  RYR1 WILD-TYPE                                                                    101
                vv
clus             THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  RYR1 MUTATED                                                                     1
  RYR1 WILD-TYPE                                                                  34
D31V9, multiclass
                                                                        clus
vv                                                                       RYR1 MUTATED
  OTHER, SPECIFY                                                                    0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                     5
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)            1
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)               1
                                                                        clus
vv                                                                       RYR1 WILD-TYPE
  OTHER, SPECIFY                                                                      7
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                     343
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)            101
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                34
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D31V10, binary
                cls
clus               0   1
  RYR1 MUTATED     6   0
  RYR1 WILD-TYPE 409  17
[1] "tbl2"
                cls
clus             [,1] [,2]
  RYR1 MUTATED      6    0
  RYR1 WILD-TYPE  409   17
     clus
vv    RYR1 MUTATED RYR1 WILD-TYPE
  NO             6            409
  YES            0             17
[1] 2 2
[1] FALSE
                vv
clus             MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE VERY ADVANCED (T4B)
  RYR1 MUTATED              2                       1    4                   0
  RYR1 WILD-TYPE          128                      17  324                   1
D31V11, multiclass
                         clus
vv                        RYR1 MUTATED RYR1 WILD-TYPE
  MINIMAL (T3)                       2            128
  MODERATE/ADVANCED (T4A)            1             17
  NONE                               4            324
  VERY ADVANCED (T4B)                0              1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus              R0  R1  R2  RX
  RYR1 MUTATED     5   0   0   1
  RYR1 WILD-TYPE 374  51   4  29
D31V12, multiclass
    clus
vv   RYR1 MUTATED RYR1 WILD-TYPE
  R0            5            374
  R1            0             51
  R2            0              4
  RX            1             29
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D31V13, continuous
D31V14, binary
                cls
clus               0   1
  RYR1 MUTATED     3   3
  RYR1 WILD-TYPE 218 259
[1] "tbl2"
                cls
clus             [,1] [,2]
  RYR1 MUTATED      3    3
  RYR1 WILD-TYPE  218  259
            clus
vv           RYR1 MUTATED RYR1 WILD-TYPE
  MULTIFOCAL            3            218
  UNIFOCAL              3            259
[1] 2 2
[1] FALSE
D31V15, continuous
                vv
clus             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  RYR1 MUTATED                                  0     0
  RYR1 WILD-TYPE                                1    51
                vv
clus             BLACK OR AFRICAN AMERICAN WHITE
  RYR1 MUTATED                           1     6
  RYR1 WILD-TYPE                        25   316
D31V16, multiclass
                                  clus
vv                                 RYR1 MUTATED RYR1 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE            0              1
  ASIAN                                       0             51
  BLACK OR AFRICAN AMERICAN                   1             25
  WHITE                                       6            316
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D31V17, binary
                cls
clus               0   1
  RYR1 MUTATED     0   7
  RYR1 WILD-TYPE  38 344
[1] "tbl2"
                cls
clus             [,1] [,2]
  RYR1 MUTATED      0    7
  RYR1 WILD-TYPE   38  344
                        clus
vv                       RYR1 MUTATED RYR1 WILD-TYPE
  HISPANIC OR LATINO                0             38
  NOT HISPANIC OR LATINO            7            344
[1] 2 2
[1] FALSE

Clustering(32) Variable = TNRC18 MUTATION ANALYSIS
D32V1, survival
                  sevent
clus2                0   1
  TNRC18 MUTATED     4   0
  TNRC18 WILD-TYPE 473  14
  TNRC18 MUTATED TNRC18 WILD-TYPE 
               4              487 
  TNRC18 MUTATED TNRC18 WILD-TYPE 
               0               14 
$`TNRC18 MUTATED`
TCGA-DJ-A3V7 TCGA-DJ-A4UQ TCGA-EM-A1YE TCGA-FY-A3R6 
       23.21        33.04        54.08        13.91 

$`TNRC18 WILD-TYPE`
TCGA-BJ-A290 TCGA-BJ-A45K TCGA-CE-A13K TCGA-DE-A0XZ TCGA-DJ-A13L TCGA-DJ-A2PR 
       30.21        23.18        12.66        35.84         9.96        27.45 
TCGA-DJ-A3UU TCGA-DJ-A3UW TCGA-DJ-A3V4 TCGA-DJ-A3VI TCGA-DJ-A3VK TCGA-E3-A3E5 
       23.44        59.57        42.54         3.12        24.76        39.95 
TCGA-EL-A3CR TCGA-EL-A3CS TCGA-EL-A3CY TCGA-EL-A3D0 TCGA-EL-A3D5 TCGA-EL-A3GQ 
        7.66        45.53         4.18       139.86        57.11        50.24 
TCGA-EL-A3H2 TCGA-EL-A3H8 TCGA-EL-A3MY TCGA-EL-A3N3 TCGA-EM-A3AQ TCGA-ET-A3BO 
       33.50       150.48        17.52       178.29        29.72        50.40 
TCGA-ET-A3BV TCGA-FK-A3SD TCGA-FY-A76V TCGA-J8-A3NZ TCGA-J8-A4HW TCGA-L6-A4ET 
       75.42         1.05         1.68        17.23         2.60        21.83 
TCGA-MK-A84Z TCGA-4C-A93U TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0Z3 
       23.93         4.24        24.79        13.78        49.78        16.34 
TCGA-BJ-A0Z9 TCGA-BJ-A0ZA TCGA-BJ-A0ZB TCGA-BJ-A0ZC TCGA-BJ-A0ZE TCGA-BJ-A0ZG 
       41.33        18.87         4.01        11.57        16.73        25.48 
TCGA-BJ-A0ZH TCGA-BJ-A0ZJ TCGA-BJ-A18Y TCGA-BJ-A18Z TCGA-BJ-A191 TCGA-BJ-A192 
       15.12        42.08        51.39        41.52         4.83        44.35 
TCGA-BJ-A28R TCGA-BJ-A28S TCGA-BJ-A28T TCGA-BJ-A28V TCGA-BJ-A28X TCGA-BJ-A28Z 
       42.15        21.04        35.54        32.45        30.97        11.08 
TCGA-BJ-A2N7 TCGA-BJ-A2N8 TCGA-BJ-A2N9 TCGA-BJ-A2NA TCGA-BJ-A2P4 TCGA-BJ-A3EZ 
       18.38        16.57        20.48        18.97        12.82        16.01 
TCGA-BJ-A3F0 TCGA-BJ-A3PR TCGA-BJ-A3PT TCGA-BJ-A3PU TCGA-BJ-A45D TCGA-BJ-A45E 
       13.94        36.39        23.31        18.64        10.88        21.01 
TCGA-BJ-A45F TCGA-BJ-A45G TCGA-BJ-A45H TCGA-BJ-A45I TCGA-BJ-A45J TCGA-BJ-A4O8 
        3.45        23.84        28.44        15.45        21.63        19.43 
TCGA-BJ-A4O9 TCGA-CE-A27D TCGA-CE-A3MD TCGA-CE-A3ME TCGA-CE-A481 TCGA-CE-A482 
       23.47        12.30        12.79        12.46        11.38        10.68 
TCGA-CE-A483 TCGA-CE-A484 TCGA-CE-A485 TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DE-A2OL 
       15.02        12.43        12.66        21.63        50.17        37.64 
TCGA-DE-A3KN TCGA-DE-A4M8 TCGA-DE-A4M9 TCGA-DE-A4MA TCGA-DE-A4MB TCGA-DE-A4MC 
       27.32        18.54        18.84        30.12        11.57        30.02 
TCGA-DE-A4MD TCGA-DE-A69J TCGA-DE-A69K TCGA-DE-A7U5 TCGA-DJ-A13M TCGA-DJ-A13O 
       25.12        14.70        14.27         2.76        48.79        38.17 
TCGA-DJ-A13P TCGA-DJ-A13R TCGA-DJ-A13S TCGA-DJ-A13T TCGA-DJ-A13U TCGA-DJ-A13V 
      169.32        18.58         8.71        56.19        52.27        43.17 
TCGA-DJ-A13W TCGA-DJ-A13X TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QG 
       52.37         8.32        48.07       135.91        30.61        44.98 
TCGA-DJ-A1QH TCGA-DJ-A1QI TCGA-DJ-A1QL TCGA-DJ-A1QM TCGA-DJ-A1QN TCGA-DJ-A1QO 
       42.51        14.96        17.59         6.02        42.58        47.41 
TCGA-DJ-A1QQ TCGA-DJ-A2PN TCGA-DJ-A2PO TCGA-DJ-A2PP TCGA-DJ-A2PQ TCGA-DJ-A2PS 
       17.56        10.09         7.99        30.58        35.41        26.20 
TCGA-DJ-A2PT TCGA-DJ-A2PU TCGA-DJ-A2PV TCGA-DJ-A2PW TCGA-DJ-A2PX TCGA-DJ-A2PY 
       38.83        33.96        31.99        34.85        28.96         8.78 
TCGA-DJ-A2PZ TCGA-DJ-A2Q0 TCGA-DJ-A2Q1 TCGA-DJ-A2Q2 TCGA-DJ-A2Q3 TCGA-DJ-A2Q4 
        8.42        34.36        37.74        43.96        40.24        33.93 
TCGA-DJ-A2Q5 TCGA-DJ-A2Q6 TCGA-DJ-A2Q7 TCGA-DJ-A2Q8 TCGA-DJ-A2Q9 TCGA-DJ-A2QA 
       37.48        36.46        35.11        39.09        35.90        33.53 
TCGA-DJ-A2QB TCGA-DJ-A2QC TCGA-DJ-A3UK TCGA-DJ-A3UM TCGA-DJ-A3UN TCGA-DJ-A3UO 
       35.18        39.95        36.92        31.04        32.42        31.46 
TCGA-DJ-A3UP TCGA-DJ-A3UQ TCGA-DJ-A3UR TCGA-DJ-A3US TCGA-DJ-A3UT TCGA-DJ-A3UX 
       16.41        19.56        36.33        32.81        36.33        11.34 
TCGA-DJ-A3UY TCGA-DJ-A3UZ TCGA-DJ-A3V0 TCGA-DJ-A3V2 TCGA-DJ-A3V3 TCGA-DJ-A3V5 
       35.87        40.96        36.99        20.22        30.61        19.20 
TCGA-DJ-A3V8 TCGA-DJ-A3V9 TCGA-DJ-A3VA TCGA-DJ-A3VB TCGA-DJ-A3VD TCGA-DJ-A3VE 
       21.27        20.48        24.82        22.92        40.70        18.97 
TCGA-DJ-A3VF TCGA-DJ-A3VG TCGA-DJ-A3VJ TCGA-DJ-A3VL TCGA-DJ-A3VM TCGA-DJ-A4UL 
        9.60        35.67        36.43        23.44        27.62        30.87 
TCGA-DJ-A4UP TCGA-DJ-A4UR TCGA-DJ-A4UT TCGA-DJ-A4UW TCGA-DJ-A4V0 TCGA-DJ-A4V2 
       30.12        34.78        27.06        26.93        35.54         3.12 
TCGA-DJ-A4V4 TCGA-DJ-A4V5 TCGA-DO-A1JZ TCGA-DO-A1K0 TCGA-DO-A2HM TCGA-E3-A3DY 
       15.81        35.38        54.90        21.53         2.33        92.55 
TCGA-E3-A3DZ TCGA-E3-A3E0 TCGA-E3-A3E1 TCGA-E3-A3E2 TCGA-E3-A3E3 TCGA-E8-A242 
       47.21        66.38        80.52        63.19        52.44        31.23 
TCGA-E8-A2EA TCGA-E8-A2JQ TCGA-E8-A3X7 TCGA-E8-A413 TCGA-E8-A414 TCGA-E8-A415 
       35.67        11.70        31.27        29.98        31.50        31.04 
TCGA-E8-A416 TCGA-E8-A417 TCGA-E8-A419 TCGA-E8-A432 TCGA-E8-A433 TCGA-E8-A434 
       31.30        30.84        25.45        30.61        31.27        31.33 
TCGA-E8-A436 TCGA-E8-A437 TCGA-E8-A438 TCGA-E8-A44K TCGA-E8-A44M TCGA-EL-A3CL 
       14.96        39.88        33.50        31.00        30.15        31.66 
TCGA-EL-A3CM TCGA-EL-A3CN TCGA-EL-A3CO TCGA-EL-A3CP TCGA-EL-A3CT TCGA-EL-A3CU 
       26.73       155.54        97.74       158.83        60.95       157.15 
TCGA-EL-A3CV TCGA-EL-A3CW TCGA-EL-A3CX TCGA-EL-A3CZ TCGA-EL-A3D1 TCGA-EL-A3D4 
       37.94        57.01       106.62        79.50        98.53        69.57 
TCGA-EL-A3D6 TCGA-EL-A3GO TCGA-EL-A3GP TCGA-EL-A3GR TCGA-EL-A3GS TCGA-EL-A3GU 
      108.36        64.87        49.51       115.10        65.39       136.01 
TCGA-EL-A3GV TCGA-EL-A3GW TCGA-EL-A3GX TCGA-EL-A3GY TCGA-EL-A3GZ TCGA-EL-A3H1 
       50.37        50.20       147.75       101.13       139.99        49.32 
TCGA-EL-A3H3 TCGA-EL-A3H4 TCGA-EL-A3H5 TCGA-EL-A3H7 TCGA-EL-A3MW TCGA-EL-A3MX 
       43.36        49.71        83.57       139.00       108.66        57.63 
TCGA-EL-A3MZ TCGA-EL-A3N2 TCGA-EL-A3T0 TCGA-EL-A3T1 TCGA-EL-A3T2 TCGA-EL-A3T3 
       52.50        29.65       142.52       129.57        32.48       132.07 
TCGA-EL-A3T6 TCGA-EL-A3T7 TCGA-EL-A3T8 TCGA-EL-A3T9 TCGA-EL-A3TA TCGA-EL-A3TB 
       98.24        41.29       107.47         5.72        66.90        82.82 
TCGA-EL-A3ZG TCGA-EL-A3ZH TCGA-EL-A3ZK TCGA-EL-A3ZL TCGA-EL-A3ZM TCGA-EL-A3ZN 
       89.56        91.17        51.78        62.30        36.03        53.06 
TCGA-EL-A3ZO TCGA-EL-A3ZP TCGA-EL-A3ZQ TCGA-EL-A3ZR TCGA-EL-A3ZS TCGA-EL-A3ZT 
       72.69        65.49        61.22        60.16         7.07        59.44 
TCGA-EL-A4JV TCGA-EL-A4JW TCGA-EL-A4JX TCGA-EL-A4JZ TCGA-EL-A4K0 TCGA-EL-A4K1 
       57.47        34.72        45.96        61.02        31.04        34.39 
TCGA-EL-A4K2 TCGA-EL-A4K4 TCGA-EL-A4K6 TCGA-EL-A4K7 TCGA-EL-A4K9 TCGA-EL-A4KD 
       30.51        53.36        44.15        41.13        47.84        43.59 
TCGA-EL-A4KG TCGA-EL-A4KH TCGA-EL-A4KI TCGA-EM-A1CS TCGA-EM-A1CT TCGA-EM-A1CU 
       24.30        27.06        23.90        26.86        18.18        20.91 
TCGA-EM-A1CV TCGA-EM-A1CW TCGA-EM-A1YA TCGA-EM-A1YB TCGA-EM-A1YC TCGA-EM-A1YD 
       48.49        18.05        19.79        19.46        78.61        57.01 
TCGA-EM-A22I TCGA-EM-A22J TCGA-EM-A22K TCGA-EM-A22L TCGA-EM-A22M TCGA-EM-A22N 
       14.73        14.50        15.75        10.45        14.53        10.65 
TCGA-EM-A22O TCGA-EM-A22P TCGA-EM-A22Q TCGA-EM-A2CJ TCGA-EM-A2CK TCGA-EM-A2CL 
       44.19        41.29        14.24        47.57        17.88        13.18 
TCGA-EM-A2CN TCGA-EM-A2CO TCGA-EM-A2CP TCGA-EM-A2CQ TCGA-EM-A2CR TCGA-EM-A2CS 
       23.51         6.05         2.99        12.30        13.64        27.65 
TCGA-EM-A2CT TCGA-EM-A2CU TCGA-EM-A2OV TCGA-EM-A2OW TCGA-EM-A2OX TCGA-EM-A2OY 
       48.46        13.15        22.16        40.34        19.73        32.32 
TCGA-EM-A2OZ TCGA-EM-A2P0 TCGA-EM-A2P1 TCGA-EM-A2P2 TCGA-EM-A2P3 TCGA-EM-A3AI 
       33.96        17.59        17.46        17.29        14.60        22.52 
TCGA-EM-A3AJ TCGA-EM-A3AK TCGA-EM-A3AL TCGA-EM-A3AN TCGA-EM-A3AO TCGA-EM-A3AP 
       30.94        15.68        14.14        33.07        44.52         8.35 
TCGA-EM-A3AR TCGA-EM-A3FJ TCGA-EM-A3FK TCGA-EM-A3FL TCGA-EM-A3FM TCGA-EM-A3FN 
       37.25        27.95        23.77        47.38        21.01        12.07 
TCGA-EM-A3FO TCGA-EM-A3FP TCGA-EM-A3FQ TCGA-EM-A3FR TCGA-EM-A3O3 TCGA-EM-A3O6 
       17.49        17.39        16.18        15.02        14.50        15.06 
TCGA-EM-A3O7 TCGA-EM-A3O8 TCGA-EM-A3O9 TCGA-EM-A3OA TCGA-EM-A3OB TCGA-EM-A3ST 
        7.33        12.53         9.24        27.02        38.66        38.86 
TCGA-EM-A3SU TCGA-EM-A3SX TCGA-EM-A3SY TCGA-EM-A3SZ TCGA-EM-A4FF TCGA-EM-A4FH 
       29.95        29.85        13.51        12.79        84.59        29.33 
TCGA-EM-A4FK TCGA-EM-A4FM TCGA-EM-A4FN TCGA-EM-A4FO TCGA-EM-A4FQ TCGA-EM-A4FR 
       21.34         5.33        26.37        26.37        22.45        21.53 
TCGA-EM-A4FU TCGA-EM-A4FV TCGA-EM-A4G1 TCGA-ET-A25G TCGA-ET-A25I TCGA-ET-A25J 
       60.49        24.46        13.68        81.93        81.70        77.56 
TCGA-ET-A25K TCGA-ET-A25O TCGA-ET-A25R TCGA-ET-A2MX TCGA-ET-A2MY TCGA-ET-A2MZ 
       70.42        65.29        63.45        88.41        58.75        37.25 
TCGA-ET-A2N0 TCGA-ET-A2N1 TCGA-ET-A2N3 TCGA-ET-A2N4 TCGA-ET-A2N5 TCGA-ET-A39I 
       52.60        54.35        83.34         2.66        80.88        33.24 
TCGA-ET-A39J TCGA-ET-A39K TCGA-ET-A39L TCGA-ET-A39M TCGA-ET-A39N TCGA-ET-A39O 
      106.09       107.41       108.46        84.89       123.32       100.57 
TCGA-ET-A39P TCGA-ET-A39R TCGA-ET-A39S TCGA-ET-A39T TCGA-ET-A3BN TCGA-ET-A3BP 
       95.34        94.13        55.10        98.20        28.24        79.10 
TCGA-ET-A3BQ TCGA-ET-A3BS TCGA-ET-A3BT TCGA-ET-A3BU TCGA-ET-A3BW TCGA-ET-A3BX 
       76.64         5.79        87.62        77.82        46.65        52.47 
TCGA-ET-A3DO TCGA-ET-A3DP TCGA-ET-A3DQ TCGA-ET-A3DR TCGA-ET-A3DS TCGA-ET-A3DT 
      116.78        94.59        84.85        80.58        66.84        43.73 
TCGA-ET-A3DU TCGA-ET-A3DV TCGA-ET-A3DW TCGA-ET-A40P TCGA-ET-A40Q TCGA-ET-A40R 
       62.83       166.62        24.72        43.99        46.26        44.38 
TCGA-ET-A40S TCGA-ET-A40T TCGA-ET-A4KN TCGA-ET-A4KQ TCGA-FE-A22Z TCGA-FE-A230 
       40.21        37.48        33.17        31.40        73.74        71.44 
TCGA-FE-A231 TCGA-FE-A232 TCGA-FE-A233 TCGA-FE-A234 TCGA-FE-A235 TCGA-FE-A236 
       31.59        79.69        24.69        68.22       117.40        66.77 
TCGA-FE-A237 TCGA-FE-A23A TCGA-FE-A3PA TCGA-FE-A3PB TCGA-FE-A3PC TCGA-FE-A3PD 
      112.80        81.83       106.36        85.15        85.68        78.77 
TCGA-FK-A3S3 TCGA-FK-A3SB TCGA-FK-A3SE TCGA-FK-A3SG TCGA-FK-A3SH TCGA-FK-A4UB 
       71.08         4.11        22.03         0.92        48.10       116.09 
TCGA-FY-A2QD TCGA-FY-A3BL TCGA-FY-A3I4 TCGA-FY-A3I5 TCGA-FY-A3NM TCGA-FY-A3NP 
        1.25        20.42        17.82         7.82        29.10        16.14 
TCGA-FY-A3ON TCGA-FY-A3R7 TCGA-FY-A3R8 TCGA-FY-A3R9 TCGA-FY-A3RA TCGA-FY-A3TY 
       19.56        16.27        15.68        16.57        18.08        23.31 
TCGA-FY-A3W9 TCGA-FY-A3WA TCGA-FY-A3YR TCGA-FY-A40K TCGA-FY-A40L TCGA-FY-A40M 
       21.63        17.06        17.36        15.16        23.87        22.49 
TCGA-FY-A40N TCGA-FY-A4B0 TCGA-FY-A4B3 TCGA-FY-A4B4 TCGA-GE-A2C6 TCGA-H2-A26U 
       19.04        13.81        14.04        21.60        12.53        17.00 
TCGA-H2-A2K9 TCGA-H2-A3RH TCGA-H2-A3RI TCGA-H2-A421 TCGA-H2-A422 TCGA-IM-A3EB 
       21.67        12.46        11.01        20.05        18.61        48.92 
TCGA-IM-A3ED TCGA-IM-A3U2 TCGA-IM-A3U3 TCGA-IM-A41Y TCGA-IM-A41Z TCGA-IM-A420 
       47.41        18.51        16.90        21.83        31.10         8.22 
TCGA-IM-A4EB TCGA-J8-A3O0 TCGA-J8-A3O1 TCGA-J8-A3O2 TCGA-J8-A3YD TCGA-J8-A3YE 
       25.64        43.17        27.19        11.24        31.82        27.85 
TCGA-J8-A3YF TCGA-J8-A3YG TCGA-J8-A3YH TCGA-J8-A42S TCGA-J8-A4HY TCGA-KS-A41F 
       24.69        22.29         5.75         2.47         0.20       143.57 
TCGA-KS-A41I TCGA-KS-A41J TCGA-KS-A41L TCGA-KS-A4I1 TCGA-KS-A4I3 TCGA-KS-A4I5 
       15.98        15.68       113.85        26.70        43.69        18.64 
TCGA-KS-A4I7 TCGA-KS-A4I9 TCGA-KS-A4IB TCGA-KS-A4IC TCGA-KS-A4ID TCGA-L6-A4EP 
       32.45        87.39        84.72        35.28        33.24        33.40 
TCGA-L6-A4EQ TCGA-L6-A4EU TCGA-MK-A4N6 TCGA-MK-A4N7 TCGA-MK-A4N9 TCGA-QD-A8IV 
       40.37         9.50        36.10        32.45        30.21        12.89 
TCGA-E8-A418 
        3.02 

  TNRC18 MUTATED TNRC18 WILD-TYPE 
           13.91             0.20 
  TNRC18 MUTATED TNRC18 WILD-TYPE 
           54.08           178.29 
  TNRC18 MUTATED TNRC18 WILD-TYPE 
          28.125           31.100 
[1] "13.9 - 54.1 (28.1)" "0.2 - 178.3 (31.1)"
[1] "hr="     "3300000"
D32V2, continuous
                  vv
clus               STAGE I STAGE II STAGE III STAGE IV STAGE IVA STAGE IVC
  TNRC18 MUTATED         0        1         1        0         2         0
  TNRC18 WILD-TYPE     278       49       107        2        44         6
D32V3, multiclass
           clus
vv          TNRC18 MUTATED TNRC18 WILD-TYPE
  STAGE I                0              278
  STAGE II               1               49
  STAGE III              1              107
  STAGE IV               0                2
  STAGE IVA              2               44
  STAGE IVC              0                6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus                T1  T2  T3  T4
  TNRC18 MUTATED     0   2   2   0
  TNRC18 WILD-TYPE 141 160 162  23
D32V4, multiclass
    clus
vv   TNRC18 MUTATED TNRC18 WILD-TYPE
  T1              0              141
  T2              2              160
  T3              2              162
  T4              0               23
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D32V5, binary
                  cls
clus                 0   1
  TNRC18 MUTATED     2   2
  TNRC18 WILD-TYPE 218 220
[1] "tbl2"
                  cls
clus               [,1] [,2]
  TNRC18 MUTATED      2    2
  TNRC18 WILD-TYPE  218  220
   clus
vv  TNRC18 MUTATED TNRC18 WILD-TYPE
  0              2              218
  1              2              220
[1] 2 2
[1] FALSE
D32V6, binary
                  cls
clus                 0   1
  TNRC18 MUTATED     2   0
  TNRC18 WILD-TYPE 274   9
[1] "tbl2"
                  cls
clus               [,1] [,2]
  TNRC18 MUTATED      2    0
  TNRC18 WILD-TYPE  274    9
   clus
vv  TNRC18 MUTATED TNRC18 WILD-TYPE
  0              2              274
  1              0                9
[1] 2 2
[1] FALSE
D32V7, binary
                  cls
clus                 0   1
  TNRC18 MUTATED     3   1
  TNRC18 WILD-TYPE 359 129
[1] "tbl2"
                  cls
clus               [,1] [,2]
  TNRC18 MUTATED      3    1
  TNRC18 WILD-TYPE  359  129
        clus
vv       TNRC18 MUTATED TNRC18 WILD-TYPE
  FEMALE              3              359
  MALE                1              129
[1] 2 2
[1] FALSE
D32V8, binary
                  cls
clus                 0   1
  TNRC18 MUTATED     0   4
  TNRC18 WILD-TYPE 179 294
[1] "tbl2"
                  cls
clus               [,1] [,2]
  TNRC18 MUTATED      0    4
  TNRC18 WILD-TYPE  179  294
     clus
vv    TNRC18 MUTATED TNRC18 WILD-TYPE
  NO               0              179
  YES              4              294
[1] 2 2
[1] FALSE
                  vv
clus               OTHER, SPECIFY THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  TNRC18 MUTATED                1                                             1
  TNRC18 WILD-TYPE              6                                           347
                  vv
clus               THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  TNRC18 MUTATED                                                                        1
  TNRC18 WILD-TYPE                                                                    101
                  vv
clus               THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  TNRC18 MUTATED                                                                     1
  TNRC18 WILD-TYPE                                                                  34
D32V9, multiclass
                                                                        clus
vv                                                                       TNRC18 MUTATED
  OTHER, SPECIFY                                                                      1
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                       1
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)              1
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                 1
                                                                        clus
vv                                                                       TNRC18 WILD-TYPE
  OTHER, SPECIFY                                                                        6
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                       347
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)              101
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                  34
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D32V10, binary
                  cls
clus                 0   1
  TNRC18 MUTATED     3   0
  TNRC18 WILD-TYPE 412  17
[1] "tbl2"
                  cls
clus               [,1] [,2]
  TNRC18 MUTATED      3    0
  TNRC18 WILD-TYPE  412   17
     clus
vv    TNRC18 MUTATED TNRC18 WILD-TYPE
  NO               3              412
  YES              0               17
[1] 2 2
[1] FALSE
                  vv
clus               MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  TNRC18 MUTATED              2                       0    2
  TNRC18 WILD-TYPE          128                      18  326
                  vv
clus               VERY ADVANCED (T4B)
  TNRC18 MUTATED                     0
  TNRC18 WILD-TYPE                   1
D32V11, multiclass
                         clus
vv                        TNRC18 MUTATED TNRC18 WILD-TYPE
  MINIMAL (T3)                         2              128
  MODERATE/ADVANCED (T4A)              0               18
  NONE                                 2              326
  VERY ADVANCED (T4B)                  0                1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus                R0  R1  R2  RX
  TNRC18 MUTATED     4   0   0   0
  TNRC18 WILD-TYPE 375  51   4  30
D32V12, multiclass
    clus
vv   TNRC18 MUTATED TNRC18 WILD-TYPE
  R0              4              375
  R1              0               51
  R2              0                4
  RX              0               30
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D32V13, continuous
D32V14, binary
                  cls
clus                 0   1
  TNRC18 MUTATED     3   1
  TNRC18 WILD-TYPE 218 261
[1] "tbl2"
                  cls
clus               [,1] [,2]
  TNRC18 MUTATED      3    1
  TNRC18 WILD-TYPE  218  261
            clus
vv           TNRC18 MUTATED TNRC18 WILD-TYPE
  MULTIFOCAL              3              218
  UNIFOCAL                1              261
[1] 2 2
[1] FALSE
D32V15, continuous
                  vv
clus               AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  TNRC18 MUTATED                                  0     1
  TNRC18 WILD-TYPE                                1    50
                  vv
clus               BLACK OR AFRICAN AMERICAN WHITE
  TNRC18 MUTATED                           0     2
  TNRC18 WILD-TYPE                        26   320
D32V16, multiclass
                                  clus
vv                                 TNRC18 MUTATED TNRC18 WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE              0                1
  ASIAN                                         1               50
  BLACK OR AFRICAN AMERICAN                     0               26
  WHITE                                         2              320
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D32V17, binary
                  cls
clus                 0   1
  TNRC18 MUTATED     0   3
  TNRC18 WILD-TYPE  38 348
[1] "tbl2"
                  cls
clus               [,1] [,2]
  TNRC18 MUTATED      0    3
  TNRC18 WILD-TYPE   38  348
                        clus
vv                       TNRC18 MUTATED TNRC18 WILD-TYPE
  HISPANIC OR LATINO                  0               38
  NOT HISPANIC OR LATINO              3              348
[1] 2 2
[1] FALSE

Clustering(33) Variable = TMEM90B MUTATION ANALYSIS
D33V1, survival
                   sevent
clus2                 0   1
  TMEM90B MUTATED     3   0
  TMEM90B WILD-TYPE 474  14
  TMEM90B MUTATED TMEM90B WILD-TYPE 
                3               488 
  TMEM90B MUTATED TMEM90B WILD-TYPE 
                0                14 
$`TMEM90B MUTATED`
TCGA-DJ-A3UK TCGA-DJ-A3UQ TCGA-FY-A3NM 
       36.92        19.56        29.10 

$`TMEM90B WILD-TYPE`
TCGA-BJ-A290 TCGA-BJ-A45K TCGA-CE-A13K TCGA-DE-A0XZ TCGA-DJ-A13L TCGA-DJ-A2PR 
       30.21        23.18        12.66        35.84         9.96        27.45 
TCGA-DJ-A3UU TCGA-DJ-A3UW TCGA-DJ-A3V4 TCGA-DJ-A3VI TCGA-DJ-A3VK TCGA-E3-A3E5 
       23.44        59.57        42.54         3.12        24.76        39.95 
TCGA-EL-A3CR TCGA-EL-A3CS TCGA-EL-A3CY TCGA-EL-A3D0 TCGA-EL-A3D5 TCGA-EL-A3GQ 
        7.66        45.53         4.18       139.86        57.11        50.24 
TCGA-EL-A3H2 TCGA-EL-A3H8 TCGA-EL-A3MY TCGA-EL-A3N3 TCGA-EM-A3AQ TCGA-ET-A3BO 
       33.50       150.48        17.52       178.29        29.72        50.40 
TCGA-ET-A3BV TCGA-FK-A3SD TCGA-FY-A76V TCGA-J8-A3NZ TCGA-J8-A4HW TCGA-L6-A4ET 
       75.42         1.05         1.68        17.23         2.60        21.83 
TCGA-MK-A84Z TCGA-4C-A93U TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0Z3 
       23.93         4.24        24.79        13.78        49.78        16.34 
TCGA-BJ-A0Z9 TCGA-BJ-A0ZA TCGA-BJ-A0ZB TCGA-BJ-A0ZC TCGA-BJ-A0ZE TCGA-BJ-A0ZG 
       41.33        18.87         4.01        11.57        16.73        25.48 
TCGA-BJ-A0ZH TCGA-BJ-A0ZJ TCGA-BJ-A18Y TCGA-BJ-A18Z TCGA-BJ-A191 TCGA-BJ-A192 
       15.12        42.08        51.39        41.52         4.83        44.35 
TCGA-BJ-A28R TCGA-BJ-A28S TCGA-BJ-A28T TCGA-BJ-A28V TCGA-BJ-A28X TCGA-BJ-A28Z 
       42.15        21.04        35.54        32.45        30.97        11.08 
TCGA-BJ-A2N7 TCGA-BJ-A2N8 TCGA-BJ-A2N9 TCGA-BJ-A2NA TCGA-BJ-A2P4 TCGA-BJ-A3EZ 
       18.38        16.57        20.48        18.97        12.82        16.01 
TCGA-BJ-A3F0 TCGA-BJ-A3PR TCGA-BJ-A3PT TCGA-BJ-A3PU TCGA-BJ-A45D TCGA-BJ-A45E 
       13.94        36.39        23.31        18.64        10.88        21.01 
TCGA-BJ-A45F TCGA-BJ-A45G TCGA-BJ-A45H TCGA-BJ-A45I TCGA-BJ-A45J TCGA-BJ-A4O8 
        3.45        23.84        28.44        15.45        21.63        19.43 
TCGA-BJ-A4O9 TCGA-CE-A27D TCGA-CE-A3MD TCGA-CE-A3ME TCGA-CE-A481 TCGA-CE-A482 
       23.47        12.30        12.79        12.46        11.38        10.68 
TCGA-CE-A483 TCGA-CE-A484 TCGA-CE-A485 TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DE-A2OL 
       15.02        12.43        12.66        21.63        50.17        37.64 
TCGA-DE-A3KN TCGA-DE-A4M8 TCGA-DE-A4M9 TCGA-DE-A4MA TCGA-DE-A4MB TCGA-DE-A4MC 
       27.32        18.54        18.84        30.12        11.57        30.02 
TCGA-DE-A4MD TCGA-DE-A69J TCGA-DE-A69K TCGA-DE-A7U5 TCGA-DJ-A13M TCGA-DJ-A13O 
       25.12        14.70        14.27         2.76        48.79        38.17 
TCGA-DJ-A13P TCGA-DJ-A13R TCGA-DJ-A13S TCGA-DJ-A13T TCGA-DJ-A13U TCGA-DJ-A13V 
      169.32        18.58         8.71        56.19        52.27        43.17 
TCGA-DJ-A13W TCGA-DJ-A13X TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QG 
       52.37         8.32        48.07       135.91        30.61        44.98 
TCGA-DJ-A1QH TCGA-DJ-A1QI TCGA-DJ-A1QL TCGA-DJ-A1QM TCGA-DJ-A1QN TCGA-DJ-A1QO 
       42.51        14.96        17.59         6.02        42.58        47.41 
TCGA-DJ-A1QQ TCGA-DJ-A2PN TCGA-DJ-A2PO TCGA-DJ-A2PP TCGA-DJ-A2PQ TCGA-DJ-A2PS 
       17.56        10.09         7.99        30.58        35.41        26.20 
TCGA-DJ-A2PT TCGA-DJ-A2PU TCGA-DJ-A2PV TCGA-DJ-A2PW TCGA-DJ-A2PX TCGA-DJ-A2PY 
       38.83        33.96        31.99        34.85        28.96         8.78 
TCGA-DJ-A2PZ TCGA-DJ-A2Q0 TCGA-DJ-A2Q1 TCGA-DJ-A2Q2 TCGA-DJ-A2Q3 TCGA-DJ-A2Q4 
        8.42        34.36        37.74        43.96        40.24        33.93 
TCGA-DJ-A2Q5 TCGA-DJ-A2Q6 TCGA-DJ-A2Q7 TCGA-DJ-A2Q8 TCGA-DJ-A2Q9 TCGA-DJ-A2QA 
       37.48        36.46        35.11        39.09        35.90        33.53 
TCGA-DJ-A2QB TCGA-DJ-A2QC TCGA-DJ-A3UM TCGA-DJ-A3UN TCGA-DJ-A3UO TCGA-DJ-A3UP 
       35.18        39.95        31.04        32.42        31.46        16.41 
TCGA-DJ-A3UR TCGA-DJ-A3US TCGA-DJ-A3UT TCGA-DJ-A3UX TCGA-DJ-A3UY TCGA-DJ-A3UZ 
       36.33        32.81        36.33        11.34        35.87        40.96 
TCGA-DJ-A3V0 TCGA-DJ-A3V2 TCGA-DJ-A3V3 TCGA-DJ-A3V5 TCGA-DJ-A3V7 TCGA-DJ-A3V8 
       36.99        20.22        30.61        19.20        23.21        21.27 
TCGA-DJ-A3V9 TCGA-DJ-A3VA TCGA-DJ-A3VB TCGA-DJ-A3VD TCGA-DJ-A3VE TCGA-DJ-A3VF 
       20.48        24.82        22.92        40.70        18.97         9.60 
TCGA-DJ-A3VG TCGA-DJ-A3VJ TCGA-DJ-A3VL TCGA-DJ-A3VM TCGA-DJ-A4UL TCGA-DJ-A4UP 
       35.67        36.43        23.44        27.62        30.87        30.12 
TCGA-DJ-A4UQ TCGA-DJ-A4UR TCGA-DJ-A4UT TCGA-DJ-A4UW TCGA-DJ-A4V0 TCGA-DJ-A4V2 
       33.04        34.78        27.06        26.93        35.54         3.12 
TCGA-DJ-A4V4 TCGA-DJ-A4V5 TCGA-DO-A1JZ TCGA-DO-A1K0 TCGA-DO-A2HM TCGA-E3-A3DY 
       15.81        35.38        54.90        21.53         2.33        92.55 
TCGA-E3-A3DZ TCGA-E3-A3E0 TCGA-E3-A3E1 TCGA-E3-A3E2 TCGA-E3-A3E3 TCGA-E8-A242 
       47.21        66.38        80.52        63.19        52.44        31.23 
TCGA-E8-A2EA TCGA-E8-A2JQ TCGA-E8-A3X7 TCGA-E8-A413 TCGA-E8-A414 TCGA-E8-A415 
       35.67        11.70        31.27        29.98        31.50        31.04 
TCGA-E8-A416 TCGA-E8-A417 TCGA-E8-A419 TCGA-E8-A432 TCGA-E8-A433 TCGA-E8-A434 
       31.30        30.84        25.45        30.61        31.27        31.33 
TCGA-E8-A436 TCGA-E8-A437 TCGA-E8-A438 TCGA-E8-A44K TCGA-E8-A44M TCGA-EL-A3CL 
       14.96        39.88        33.50        31.00        30.15        31.66 
TCGA-EL-A3CM TCGA-EL-A3CN TCGA-EL-A3CO TCGA-EL-A3CP TCGA-EL-A3CT TCGA-EL-A3CU 
       26.73       155.54        97.74       158.83        60.95       157.15 
TCGA-EL-A3CV TCGA-EL-A3CW TCGA-EL-A3CX TCGA-EL-A3CZ TCGA-EL-A3D1 TCGA-EL-A3D4 
       37.94        57.01       106.62        79.50        98.53        69.57 
TCGA-EL-A3D6 TCGA-EL-A3GO TCGA-EL-A3GP TCGA-EL-A3GR TCGA-EL-A3GS TCGA-EL-A3GU 
      108.36        64.87        49.51       115.10        65.39       136.01 
TCGA-EL-A3GV TCGA-EL-A3GW TCGA-EL-A3GX TCGA-EL-A3GY TCGA-EL-A3GZ TCGA-EL-A3H1 
       50.37        50.20       147.75       101.13       139.99        49.32 
TCGA-EL-A3H3 TCGA-EL-A3H4 TCGA-EL-A3H5 TCGA-EL-A3H7 TCGA-EL-A3MW TCGA-EL-A3MX 
       43.36        49.71        83.57       139.00       108.66        57.63 
TCGA-EL-A3MZ TCGA-EL-A3N2 TCGA-EL-A3T0 TCGA-EL-A3T1 TCGA-EL-A3T2 TCGA-EL-A3T3 
       52.50        29.65       142.52       129.57        32.48       132.07 
TCGA-EL-A3T6 TCGA-EL-A3T7 TCGA-EL-A3T8 TCGA-EL-A3T9 TCGA-EL-A3TA TCGA-EL-A3TB 
       98.24        41.29       107.47         5.72        66.90        82.82 
TCGA-EL-A3ZG TCGA-EL-A3ZH TCGA-EL-A3ZK TCGA-EL-A3ZL TCGA-EL-A3ZM TCGA-EL-A3ZN 
       89.56        91.17        51.78        62.30        36.03        53.06 
TCGA-EL-A3ZO TCGA-EL-A3ZP TCGA-EL-A3ZQ TCGA-EL-A3ZR TCGA-EL-A3ZS TCGA-EL-A3ZT 
       72.69        65.49        61.22        60.16         7.07        59.44 
TCGA-EL-A4JV TCGA-EL-A4JW TCGA-EL-A4JX TCGA-EL-A4JZ TCGA-EL-A4K0 TCGA-EL-A4K1 
       57.47        34.72        45.96        61.02        31.04        34.39 
TCGA-EL-A4K2 TCGA-EL-A4K4 TCGA-EL-A4K6 TCGA-EL-A4K7 TCGA-EL-A4K9 TCGA-EL-A4KD 
       30.51        53.36        44.15        41.13        47.84        43.59 
TCGA-EL-A4KG TCGA-EL-A4KH TCGA-EL-A4KI TCGA-EM-A1CS TCGA-EM-A1CT TCGA-EM-A1CU 
       24.30        27.06        23.90        26.86        18.18        20.91 
TCGA-EM-A1CV TCGA-EM-A1CW TCGA-EM-A1YA TCGA-EM-A1YB TCGA-EM-A1YC TCGA-EM-A1YD 
       48.49        18.05        19.79        19.46        78.61        57.01 
TCGA-EM-A1YE TCGA-EM-A22I TCGA-EM-A22J TCGA-EM-A22K TCGA-EM-A22L TCGA-EM-A22M 
       54.08        14.73        14.50        15.75        10.45        14.53 
TCGA-EM-A22N TCGA-EM-A22O TCGA-EM-A22P TCGA-EM-A22Q TCGA-EM-A2CJ TCGA-EM-A2CK 
       10.65        44.19        41.29        14.24        47.57        17.88 
TCGA-EM-A2CL TCGA-EM-A2CN TCGA-EM-A2CO TCGA-EM-A2CP TCGA-EM-A2CQ TCGA-EM-A2CR 
       13.18        23.51         6.05         2.99        12.30        13.64 
TCGA-EM-A2CS TCGA-EM-A2CT TCGA-EM-A2CU TCGA-EM-A2OV TCGA-EM-A2OW TCGA-EM-A2OX 
       27.65        48.46        13.15        22.16        40.34        19.73 
TCGA-EM-A2OY TCGA-EM-A2OZ TCGA-EM-A2P0 TCGA-EM-A2P1 TCGA-EM-A2P2 TCGA-EM-A2P3 
       32.32        33.96        17.59        17.46        17.29        14.60 
TCGA-EM-A3AI TCGA-EM-A3AJ TCGA-EM-A3AK TCGA-EM-A3AL TCGA-EM-A3AN TCGA-EM-A3AO 
       22.52        30.94        15.68        14.14        33.07        44.52 
TCGA-EM-A3AP TCGA-EM-A3AR TCGA-EM-A3FJ TCGA-EM-A3FK TCGA-EM-A3FL TCGA-EM-A3FM 
        8.35        37.25        27.95        23.77        47.38        21.01 
TCGA-EM-A3FN TCGA-EM-A3FO TCGA-EM-A3FP TCGA-EM-A3FQ TCGA-EM-A3FR TCGA-EM-A3O3 
       12.07        17.49        17.39        16.18        15.02        14.50 
TCGA-EM-A3O6 TCGA-EM-A3O7 TCGA-EM-A3O8 TCGA-EM-A3O9 TCGA-EM-A3OA TCGA-EM-A3OB 
       15.06         7.33        12.53         9.24        27.02        38.66 
TCGA-EM-A3ST TCGA-EM-A3SU TCGA-EM-A3SX TCGA-EM-A3SY TCGA-EM-A3SZ TCGA-EM-A4FF 
       38.86        29.95        29.85        13.51        12.79        84.59 
TCGA-EM-A4FH TCGA-EM-A4FK TCGA-EM-A4FM TCGA-EM-A4FN TCGA-EM-A4FO TCGA-EM-A4FQ 
       29.33        21.34         5.33        26.37        26.37        22.45 
TCGA-EM-A4FR TCGA-EM-A4FU TCGA-EM-A4FV TCGA-EM-A4G1 TCGA-ET-A25G TCGA-ET-A25I 
       21.53        60.49        24.46        13.68        81.93        81.70 
TCGA-ET-A25J TCGA-ET-A25K TCGA-ET-A25O TCGA-ET-A25R TCGA-ET-A2MX TCGA-ET-A2MY 
       77.56        70.42        65.29        63.45        88.41        58.75 
TCGA-ET-A2MZ TCGA-ET-A2N0 TCGA-ET-A2N1 TCGA-ET-A2N3 TCGA-ET-A2N4 TCGA-ET-A2N5 
       37.25        52.60        54.35        83.34         2.66        80.88 
TCGA-ET-A39I TCGA-ET-A39J TCGA-ET-A39K TCGA-ET-A39L TCGA-ET-A39M TCGA-ET-A39N 
       33.24       106.09       107.41       108.46        84.89       123.32 
TCGA-ET-A39O TCGA-ET-A39P TCGA-ET-A39R TCGA-ET-A39S TCGA-ET-A39T TCGA-ET-A3BN 
      100.57        95.34        94.13        55.10        98.20        28.24 
TCGA-ET-A3BP TCGA-ET-A3BQ TCGA-ET-A3BS TCGA-ET-A3BT TCGA-ET-A3BU TCGA-ET-A3BW 
       79.10        76.64         5.79        87.62        77.82        46.65 
TCGA-ET-A3BX TCGA-ET-A3DO TCGA-ET-A3DP TCGA-ET-A3DQ TCGA-ET-A3DR TCGA-ET-A3DS 
       52.47       116.78        94.59        84.85        80.58        66.84 
TCGA-ET-A3DT TCGA-ET-A3DU TCGA-ET-A3DV TCGA-ET-A3DW TCGA-ET-A40P TCGA-ET-A40Q 
       43.73        62.83       166.62        24.72        43.99        46.26 
TCGA-ET-A40R TCGA-ET-A40S TCGA-ET-A40T TCGA-ET-A4KN TCGA-ET-A4KQ TCGA-FE-A22Z 
       44.38        40.21        37.48        33.17        31.40        73.74 
TCGA-FE-A230 TCGA-FE-A231 TCGA-FE-A232 TCGA-FE-A233 TCGA-FE-A234 TCGA-FE-A235 
       71.44        31.59        79.69        24.69        68.22       117.40 
TCGA-FE-A236 TCGA-FE-A237 TCGA-FE-A23A TCGA-FE-A3PA TCGA-FE-A3PB TCGA-FE-A3PC 
       66.77       112.80        81.83       106.36        85.15        85.68 
TCGA-FE-A3PD TCGA-FK-A3S3 TCGA-FK-A3SB TCGA-FK-A3SE TCGA-FK-A3SG TCGA-FK-A3SH 
       78.77        71.08         4.11        22.03         0.92        48.10 
TCGA-FK-A4UB TCGA-FY-A2QD TCGA-FY-A3BL TCGA-FY-A3I4 TCGA-FY-A3I5 TCGA-FY-A3NP 
      116.09         1.25        20.42        17.82         7.82        16.14 
TCGA-FY-A3ON TCGA-FY-A3R6 TCGA-FY-A3R7 TCGA-FY-A3R8 TCGA-FY-A3R9 TCGA-FY-A3RA 
       19.56        13.91        16.27        15.68        16.57        18.08 
TCGA-FY-A3TY TCGA-FY-A3W9 TCGA-FY-A3WA TCGA-FY-A3YR TCGA-FY-A40K TCGA-FY-A40L 
       23.31        21.63        17.06        17.36        15.16        23.87 
TCGA-FY-A40M TCGA-FY-A40N TCGA-FY-A4B0 TCGA-FY-A4B3 TCGA-FY-A4B4 TCGA-GE-A2C6 
       22.49        19.04        13.81        14.04        21.60        12.53 
TCGA-H2-A26U TCGA-H2-A2K9 TCGA-H2-A3RH TCGA-H2-A3RI TCGA-H2-A421 TCGA-H2-A422 
       17.00        21.67        12.46        11.01        20.05        18.61 
TCGA-IM-A3EB TCGA-IM-A3ED TCGA-IM-A3U2 TCGA-IM-A3U3 TCGA-IM-A41Y TCGA-IM-A41Z 
       48.92        47.41        18.51        16.90        21.83        31.10 
TCGA-IM-A420 TCGA-IM-A4EB TCGA-J8-A3O0 TCGA-J8-A3O1 TCGA-J8-A3O2 TCGA-J8-A3YD 
        8.22        25.64        43.17        27.19        11.24        31.82 
TCGA-J8-A3YE TCGA-J8-A3YF TCGA-J8-A3YG TCGA-J8-A3YH TCGA-J8-A42S TCGA-J8-A4HY 
       27.85        24.69        22.29         5.75         2.47         0.20 
TCGA-KS-A41F TCGA-KS-A41I TCGA-KS-A41J TCGA-KS-A41L TCGA-KS-A4I1 TCGA-KS-A4I3 
      143.57        15.98        15.68       113.85        26.70        43.69 
TCGA-KS-A4I5 TCGA-KS-A4I7 TCGA-KS-A4I9 TCGA-KS-A4IB TCGA-KS-A4IC TCGA-KS-A4ID 
       18.64        32.45        87.39        84.72        35.28        33.24 
TCGA-L6-A4EP TCGA-L6-A4EQ TCGA-L6-A4EU TCGA-MK-A4N6 TCGA-MK-A4N7 TCGA-MK-A4N9 
       33.40        40.37         9.50        36.10        32.45        30.21 
TCGA-QD-A8IV TCGA-E8-A418 
       12.89         3.02 

  TMEM90B MUTATED TMEM90B WILD-TYPE 
            19.56              0.20 
  TMEM90B MUTATED TMEM90B WILD-TYPE 
            36.92            178.29 
  TMEM90B MUTATED TMEM90B WILD-TYPE 
           29.100            31.165 
[1] "19.6 - 36.9 (29.1)" "0.2 - 178.3 (31.2)"
[1] "hr="     "1200000"
D33V2, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV STAGE IVA STAGE IVC
  TMEM90B MUTATED         1        0         2        0         0         0
  TMEM90B WILD-TYPE     277       50       106        2        46         6
D33V3, multiclass
           clus
vv          TMEM90B MUTATED TMEM90B WILD-TYPE
  STAGE I                 1               277
  STAGE II                0                50
  STAGE III               2               106
  STAGE IV                0                 2
  STAGE IVA               0                46
  STAGE IVC               0                 6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                 T1  T2  T3  T4
  TMEM90B MUTATED     1   0   2   0
  TMEM90B WILD-TYPE 140 162 162  23
D33V4, multiclass
    clus
vv   TMEM90B MUTATED TMEM90B WILD-TYPE
  T1               1               140
  T2               0               162
  T3               2               162
  T4               0                23
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D33V5, binary
                   cls
clus                  0   1
  TMEM90B MUTATED     2   1
  TMEM90B WILD-TYPE 218 221
[1] "tbl2"
                   cls
clus                [,1] [,2]
  TMEM90B MUTATED      2    1
  TMEM90B WILD-TYPE  218  221
   clus
vv  TMEM90B MUTATED TMEM90B WILD-TYPE
  0               2               218
  1               1               221
[1] 2 2
[1] FALSE
D33V6, binary
                   cls
clus                  0   1
  TMEM90B MUTATED     2   0
  TMEM90B WILD-TYPE 274   9
[1] "tbl2"
                   cls
clus                [,1] [,2]
  TMEM90B MUTATED      2    0
  TMEM90B WILD-TYPE  274    9
   clus
vv  TMEM90B MUTATED TMEM90B WILD-TYPE
  0               2               274
  1               0                 9
[1] 2 2
[1] FALSE
D33V7, binary
                   cls
clus                  0   1
  TMEM90B MUTATED     3   0
  TMEM90B WILD-TYPE 359 130
[1] "tbl2"
                   cls
clus                [,1] [,2]
  TMEM90B MUTATED      3    0
  TMEM90B WILD-TYPE  359  130
        clus
vv       TMEM90B MUTATED TMEM90B WILD-TYPE
  FEMALE               3               359
  MALE                 0               130
[1] 2 2
[1] FALSE
D33V8, binary
                   cls
clus                  0   1
  TMEM90B MUTATED     1   1
  TMEM90B WILD-TYPE 178 297
[1] "tbl2"
                   cls
clus                [,1] [,2]
  TMEM90B MUTATED      1    1
  TMEM90B WILD-TYPE  178  297
     clus
vv    TMEM90B MUTATED TMEM90B WILD-TYPE
  NO                1               178
  YES               1               297
[1] 2 2
[1] FALSE
                   vv
clus                OTHER, SPECIFY
  TMEM90B MUTATED                0
  TMEM90B WILD-TYPE              7
                   vv
clus                THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  TMEM90B MUTATED                                               2
  TMEM90B WILD-TYPE                                           346
                   vv
clus                THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  TMEM90B MUTATED                                                                        0
  TMEM90B WILD-TYPE                                                                    102
                   vv
clus                THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  TMEM90B MUTATED                                                                     1
  TMEM90B WILD-TYPE                                                                  34
D33V9, multiclass
                                                                        clus
vv                                                                       TMEM90B MUTATED
  OTHER, SPECIFY                                                                       0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                        2
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)               0
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                  1
                                                                        clus
vv                                                                       TMEM90B WILD-TYPE
  OTHER, SPECIFY                                                                         7
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                        346
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)               102
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                   34
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D33V10, binary
                   cls
clus                  0   1
  TMEM90B MUTATED     3   0
  TMEM90B WILD-TYPE 412  17
[1] "tbl2"
                   cls
clus                [,1] [,2]
  TMEM90B MUTATED      3    0
  TMEM90B WILD-TYPE  412   17
     clus
vv    TMEM90B MUTATED TMEM90B WILD-TYPE
  NO                3               412
  YES               0                17
[1] 2 2
[1] FALSE
                   vv
clus                MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  TMEM90B MUTATED              2                       0    1
  TMEM90B WILD-TYPE          128                      18  327
                   vv
clus                VERY ADVANCED (T4B)
  TMEM90B MUTATED                     0
  TMEM90B WILD-TYPE                   1
D33V11, multiclass
                         clus
vv                        TMEM90B MUTATED TMEM90B WILD-TYPE
  MINIMAL (T3)                          2               128
  MODERATE/ADVANCED (T4A)               0                18
  NONE                                  1               327
  VERY ADVANCED (T4B)                   0                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                 R0  R1  R2  RX
  TMEM90B MUTATED     3   0   0   0
  TMEM90B WILD-TYPE 376  51   4  30
D33V12, multiclass
    clus
vv   TMEM90B MUTATED TMEM90B WILD-TYPE
  R0               3               376
  R1               0                51
  R2               0                 4
  RX               0                30
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D33V13, continuous
D33V14, binary
                   cls
clus                  0   1
  TMEM90B MUTATED     3   0
  TMEM90B WILD-TYPE 218 262
[1] "tbl2"
                   cls
clus                [,1] [,2]
  TMEM90B MUTATED      3    0
  TMEM90B WILD-TYPE  218  262
            clus
vv           TMEM90B MUTATED TMEM90B WILD-TYPE
  MULTIFOCAL               3               218
  UNIFOCAL                 0               262
[1] 2 2
[1] FALSE
D33V15, continuous
[1] "Remove cluster labels:" "TMEM90B MUTATED"       
clus
  TMEM90B MUTATED TMEM90B WILD-TYPE 
                2               391 
       TCGA-BJ-A290        TCGA-BJ-A45K        TCGA-CE-A13K        TCGA-DE-A0XZ 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-DJ-A13L        TCGA-DJ-A2PR        TCGA-DJ-A3UU        TCGA-DJ-A3UW 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-DJ-A3V4        TCGA-DJ-A3VK        TCGA-EL-A3CR        TCGA-EL-A3CS 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EL-A3CY        TCGA-EL-A3D0        TCGA-EL-A3D5        TCGA-EL-A3GQ 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EL-A3H2        TCGA-EL-A3H8        TCGA-EL-A3MY        TCGA-EL-A3N3 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EM-A3AQ        TCGA-ET-A3BO        TCGA-ET-A3BV        TCGA-FY-A76V 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-L6-A4ET        TCGA-MK-A84Z        TCGA-4C-A93U        TCGA-BJ-A0Z2 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-BJ-A0Z3        TCGA-BJ-A0Z9        TCGA-BJ-A0ZA        TCGA-BJ-A0ZB 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-BJ-A0ZC        TCGA-BJ-A0ZE        TCGA-BJ-A0ZG        TCGA-BJ-A0ZH 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-BJ-A0ZJ        TCGA-BJ-A18Y        TCGA-BJ-A18Z        TCGA-BJ-A191 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-BJ-A192        TCGA-BJ-A28R        TCGA-BJ-A28S        TCGA-BJ-A28T 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-BJ-A28V        TCGA-BJ-A28Z        TCGA-BJ-A2N8        TCGA-BJ-A2N9 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-BJ-A2P4        TCGA-BJ-A3PU        TCGA-BJ-A45D        TCGA-BJ-A45E 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-BJ-A45F        TCGA-BJ-A45G        TCGA-BJ-A45H        TCGA-BJ-A45I 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-BJ-A45J        TCGA-BJ-A4O8        TCGA-BJ-A4O9        TCGA-CE-A27D 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-CE-A3MD        TCGA-CE-A3ME        TCGA-CE-A481        TCGA-CE-A482 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-CE-A483        TCGA-CE-A484        TCGA-CE-A485        TCGA-DE-A0Y2 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-DE-A0Y3        TCGA-DE-A2OL        TCGA-DE-A3KN        TCGA-DE-A4M8 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-DE-A4M9        TCGA-DE-A4MA        TCGA-DE-A4MB        TCGA-DE-A4MC 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-DE-A4MD        TCGA-DE-A69J        TCGA-DE-A69K        TCGA-DE-A7U5 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-DJ-A13M        TCGA-DJ-A13O        TCGA-DJ-A13R        TCGA-DJ-A13S 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-DJ-A13U        TCGA-DJ-A13V        TCGA-DJ-A13W        TCGA-DJ-A13X 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-DJ-A1QD        TCGA-DJ-A1QE        TCGA-DJ-A1QF        TCGA-DJ-A1QG 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-DJ-A1QH        TCGA-DJ-A1QI        TCGA-DJ-A1QL        TCGA-DJ-A1QM 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-DJ-A1QN        TCGA-DJ-A1QO        TCGA-DJ-A1QQ        TCGA-DJ-A2PN 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-DJ-A2PO        TCGA-DJ-A2PP        TCGA-DJ-A2PQ        TCGA-DJ-A2PS 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-DJ-A2PT        TCGA-DJ-A2PU        TCGA-DJ-A2PV        TCGA-DJ-A2PW 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-DJ-A2PY        TCGA-DJ-A2PZ        TCGA-DJ-A2Q0        TCGA-DJ-A2Q1 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-DJ-A2Q2        TCGA-DJ-A2Q3        TCGA-DJ-A2Q4        TCGA-DJ-A2Q5 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-DJ-A2Q6        TCGA-DJ-A2Q7        TCGA-DJ-A2Q8        TCGA-DJ-A2Q9 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-DJ-A2QA        TCGA-DJ-A2QC        TCGA-DJ-A3UM        TCGA-DJ-A3UN 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-DJ-A3UO        TCGA-DJ-A3UP        TCGA-DJ-A3UR        TCGA-DJ-A3US 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-DJ-A3UT        TCGA-DJ-A3UX        TCGA-DJ-A3UY        TCGA-DJ-A3V0 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-DJ-A3V2        TCGA-DJ-A3V3        TCGA-DJ-A3V5        TCGA-DJ-A3V7 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-DJ-A3V8        TCGA-DJ-A3VA        TCGA-DJ-A3VB        TCGA-DJ-A3VD 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-DJ-A3VE        TCGA-DJ-A3VF        TCGA-DJ-A3VG        TCGA-DJ-A3VJ 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-DJ-A3VL        TCGA-DJ-A3VM        TCGA-DJ-A4UL        TCGA-DJ-A4UP 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-DJ-A4UQ        TCGA-DJ-A4UT        TCGA-DJ-A4V0        TCGA-DJ-A4V2 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-DJ-A4V4        TCGA-DJ-A4V5        TCGA-DO-A1JZ        TCGA-DO-A1K0 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-DO-A2HM        TCGA-E3-A3DY        TCGA-E3-A3DZ        TCGA-E3-A3E0 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-E3-A3E1        TCGA-E3-A3E2        TCGA-E3-A3E3        TCGA-E8-A419 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EL-A3CN        TCGA-EL-A3CO        TCGA-EL-A3CT        TCGA-EL-A3CU 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EL-A3CV        TCGA-EL-A3CW        TCGA-EL-A3CX        TCGA-EL-A3CZ 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EL-A3D1        TCGA-EL-A3D4        TCGA-EL-A3D6        TCGA-EL-A3GO 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EL-A3GP        TCGA-EL-A3GR        TCGA-EL-A3GS        TCGA-EL-A3GU 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EL-A3GV        TCGA-EL-A3GW        TCGA-EL-A3GX        TCGA-EL-A3GY 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EL-A3GZ        TCGA-EL-A3H3        TCGA-EL-A3H4        TCGA-EL-A3H5 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EL-A3H7        TCGA-EL-A3MW        TCGA-EL-A3MX        TCGA-EL-A3MZ 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EL-A3N2        TCGA-EL-A3T1        TCGA-EL-A3T2        TCGA-EL-A3T3 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EL-A3T6        TCGA-EL-A3T7        TCGA-EL-A3T8        TCGA-EL-A3T9 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EL-A3TA        TCGA-EL-A3TB        TCGA-EL-A3ZG        TCGA-EL-A3ZH 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EL-A3ZK        TCGA-EL-A3ZL        TCGA-EL-A3ZM        TCGA-EL-A3ZN 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EL-A3ZO        TCGA-EL-A3ZP        TCGA-EL-A3ZQ        TCGA-EL-A3ZR 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EL-A3ZS        TCGA-EL-A3ZT        TCGA-EL-A4JV        TCGA-EL-A4JW 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EL-A4JX        TCGA-EL-A4JZ        TCGA-EL-A4K0        TCGA-EL-A4K1 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EL-A4K2        TCGA-EL-A4K4        TCGA-EL-A4K6        TCGA-EL-A4K7 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EL-A4K9        TCGA-EL-A4KD        TCGA-EL-A4KG        TCGA-EL-A4KH 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EL-A4KI        TCGA-EM-A1CS        TCGA-EM-A1CT        TCGA-EM-A1CU 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EM-A1CV        TCGA-EM-A1CW        TCGA-EM-A1YA        TCGA-EM-A1YB 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EM-A1YC        TCGA-EM-A1YD        TCGA-EM-A1YE        TCGA-EM-A22I 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EM-A22J        TCGA-EM-A22K        TCGA-EM-A22L        TCGA-EM-A22N 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EM-A22O        TCGA-EM-A22P        TCGA-EM-A22Q        TCGA-EM-A2CJ 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EM-A2CK        TCGA-EM-A2CL        TCGA-EM-A2CN        TCGA-EM-A2CO 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EM-A2CP        TCGA-EM-A2CQ        TCGA-EM-A2CR        TCGA-EM-A2CS 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EM-A2CT        TCGA-EM-A2CU        TCGA-EM-A2OW        TCGA-EM-A2OX 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EM-A2OY        TCGA-EM-A2P0        TCGA-EM-A2P1        TCGA-EM-A2P2 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EM-A2P3        TCGA-EM-A3AI        TCGA-EM-A3AJ        TCGA-EM-A3AK 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EM-A3AL        TCGA-EM-A3AN        TCGA-EM-A3AO        TCGA-EM-A3AP 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EM-A3AR        TCGA-EM-A3FJ        TCGA-EM-A3FM        TCGA-EM-A3FN 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EM-A3FO        TCGA-EM-A3FP        TCGA-EM-A3FR        TCGA-EM-A3O3 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EM-A3O6        TCGA-EM-A3O7        TCGA-EM-A3O8        TCGA-EM-A3O9 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EM-A3OA        TCGA-EM-A3OB        TCGA-EM-A3ST        TCGA-EM-A3SU 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EM-A3SX        TCGA-EM-A3SY        TCGA-EM-A3SZ        TCGA-EM-A4FF 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EM-A4FH        TCGA-EM-A4FK        TCGA-EM-A4FM        TCGA-EM-A4FN 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EM-A4FQ        TCGA-EM-A4FR        TCGA-EM-A4FU        TCGA-EM-A4FV 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-EM-A4G1        TCGA-ET-A25G        TCGA-ET-A25I        TCGA-ET-A25J 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-ET-A25K        TCGA-ET-A25O        TCGA-ET-A25R        TCGA-ET-A2MY 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-ET-A2MZ        TCGA-ET-A2N0        TCGA-ET-A2N5        TCGA-ET-A39J 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-ET-A39M        TCGA-ET-A39N        TCGA-ET-A39O        TCGA-ET-A39P 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-ET-A39T        TCGA-ET-A3BN        TCGA-ET-A3BP        TCGA-ET-A3BQ 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-ET-A3BS        TCGA-ET-A3BT        TCGA-ET-A3BU        TCGA-ET-A3BW 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-ET-A3BX        TCGA-ET-A3DO        TCGA-ET-A3DS        TCGA-ET-A3DT 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-ET-A40P        TCGA-ET-A40Q        TCGA-ET-A40R        TCGA-ET-A40S 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-ET-A4KN        TCGA-ET-A4KQ        TCGA-FE-A22Z        TCGA-FE-A230 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-FE-A232        TCGA-FE-A233        TCGA-FE-A234        TCGA-FE-A235 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-FE-A236        TCGA-FE-A237        TCGA-FE-A23A        TCGA-FE-A3PA 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-FE-A3PB        TCGA-FE-A3PC        TCGA-FE-A3PD        TCGA-FY-A2QD 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-FY-A3I4        TCGA-FY-A3I5        TCGA-FY-A3ON        TCGA-FY-A3R8 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-FY-A3TY        TCGA-FY-A3W9        TCGA-FY-A3YR        TCGA-FY-A40K 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-FY-A40L        TCGA-FY-A40M        TCGA-FY-A40N        TCGA-FY-A4B3 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-GE-A2C6        TCGA-H2-A421        TCGA-IM-A3EB        TCGA-IM-A3ED 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-IM-A3U2        TCGA-IM-A3U3        TCGA-IM-A41Y        TCGA-IM-A41Z 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-IM-A420        TCGA-IM-A4EB        TCGA-J8-A3O0        TCGA-J8-A3YD 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-J8-A3YG        TCGA-KS-A41F        TCGA-KS-A41I        TCGA-KS-A41J 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-KS-A41L        TCGA-KS-A4I3        TCGA-KS-A4I5        TCGA-KS-A4I7 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-KS-A4I9        TCGA-KS-A4IB        TCGA-KS-A4IC        TCGA-KS-A4ID 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-L6-A4EP        TCGA-L6-A4EQ        TCGA-L6-A4EU        TCGA-MK-A4N6 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
       TCGA-MK-A4N7        TCGA-MK-A4N9        TCGA-QD-A8IV 
"TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" "TMEM90B WILD-TYPE" 
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  TMEM90B MUTATED                                  0     1
  TMEM90B WILD-TYPE                                1    50
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  TMEM90B MUTATED                           0     2
  TMEM90B WILD-TYPE                        26   320
D33V16, multiclass
                                  clus
vv                                 TMEM90B MUTATED TMEM90B WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          1                50
  BLACK OR AFRICAN AMERICAN                      0                26
  WHITE                                          2               320
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D33V17, binary
                   cls
clus                  0   1
  TMEM90B MUTATED     0   3
  TMEM90B WILD-TYPE  38 348
[1] "tbl2"
                   cls
clus                [,1] [,2]
  TMEM90B MUTATED      0    3
  TMEM90B WILD-TYPE   38  348
                        clus
vv                       TMEM90B MUTATED TMEM90B WILD-TYPE
  HISPANIC OR LATINO                   0                38
  NOT HISPANIC OR LATINO               3               348
[1] 2 2
[1] FALSE

Clustering(34) Variable = ZC3H11A MUTATION ANALYSIS
D34V1, survival
                   sevent
clus2                 0   1
  ZC3H11A MUTATED     3   0
  ZC3H11A WILD-TYPE 474  14
  ZC3H11A MUTATED ZC3H11A WILD-TYPE 
                3               488 
  ZC3H11A MUTATED ZC3H11A WILD-TYPE 
                0                14 
$`ZC3H11A MUTATED`
TCGA-DJ-A1QQ TCGA-FK-A3SE TCGA-FY-A3RA 
       17.56        22.03        18.08 

$`ZC3H11A WILD-TYPE`
TCGA-BJ-A290 TCGA-BJ-A45K TCGA-CE-A13K TCGA-DE-A0XZ TCGA-DJ-A13L TCGA-DJ-A2PR 
       30.21        23.18        12.66        35.84         9.96        27.45 
TCGA-DJ-A3UU TCGA-DJ-A3UW TCGA-DJ-A3V4 TCGA-DJ-A3VI TCGA-DJ-A3VK TCGA-E3-A3E5 
       23.44        59.57        42.54         3.12        24.76        39.95 
TCGA-EL-A3CR TCGA-EL-A3CS TCGA-EL-A3CY TCGA-EL-A3D0 TCGA-EL-A3D5 TCGA-EL-A3GQ 
        7.66        45.53         4.18       139.86        57.11        50.24 
TCGA-EL-A3H2 TCGA-EL-A3H8 TCGA-EL-A3MY TCGA-EL-A3N3 TCGA-EM-A3AQ TCGA-ET-A3BO 
       33.50       150.48        17.52       178.29        29.72        50.40 
TCGA-ET-A3BV TCGA-FK-A3SD TCGA-FY-A76V TCGA-J8-A3NZ TCGA-J8-A4HW TCGA-L6-A4ET 
       75.42         1.05         1.68        17.23         2.60        21.83 
TCGA-MK-A84Z TCGA-4C-A93U TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0Z3 
       23.93         4.24        24.79        13.78        49.78        16.34 
TCGA-BJ-A0Z9 TCGA-BJ-A0ZA TCGA-BJ-A0ZB TCGA-BJ-A0ZC TCGA-BJ-A0ZE TCGA-BJ-A0ZG 
       41.33        18.87         4.01        11.57        16.73        25.48 
TCGA-BJ-A0ZH TCGA-BJ-A0ZJ TCGA-BJ-A18Y TCGA-BJ-A18Z TCGA-BJ-A191 TCGA-BJ-A192 
       15.12        42.08        51.39        41.52         4.83        44.35 
TCGA-BJ-A28R TCGA-BJ-A28S TCGA-BJ-A28T TCGA-BJ-A28V TCGA-BJ-A28X TCGA-BJ-A28Z 
       42.15        21.04        35.54        32.45        30.97        11.08 
TCGA-BJ-A2N7 TCGA-BJ-A2N8 TCGA-BJ-A2N9 TCGA-BJ-A2NA TCGA-BJ-A2P4 TCGA-BJ-A3EZ 
       18.38        16.57        20.48        18.97        12.82        16.01 
TCGA-BJ-A3F0 TCGA-BJ-A3PR TCGA-BJ-A3PT TCGA-BJ-A3PU TCGA-BJ-A45D TCGA-BJ-A45E 
       13.94        36.39        23.31        18.64        10.88        21.01 
TCGA-BJ-A45F TCGA-BJ-A45G TCGA-BJ-A45H TCGA-BJ-A45I TCGA-BJ-A45J TCGA-BJ-A4O8 
        3.45        23.84        28.44        15.45        21.63        19.43 
TCGA-BJ-A4O9 TCGA-CE-A27D TCGA-CE-A3MD TCGA-CE-A3ME TCGA-CE-A481 TCGA-CE-A482 
       23.47        12.30        12.79        12.46        11.38        10.68 
TCGA-CE-A483 TCGA-CE-A484 TCGA-CE-A485 TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DE-A2OL 
       15.02        12.43        12.66        21.63        50.17        37.64 
TCGA-DE-A3KN TCGA-DE-A4M8 TCGA-DE-A4M9 TCGA-DE-A4MA TCGA-DE-A4MB TCGA-DE-A4MC 
       27.32        18.54        18.84        30.12        11.57        30.02 
TCGA-DE-A4MD TCGA-DE-A69J TCGA-DE-A69K TCGA-DE-A7U5 TCGA-DJ-A13M TCGA-DJ-A13O 
       25.12        14.70        14.27         2.76        48.79        38.17 
TCGA-DJ-A13P TCGA-DJ-A13R TCGA-DJ-A13S TCGA-DJ-A13T TCGA-DJ-A13U TCGA-DJ-A13V 
      169.32        18.58         8.71        56.19        52.27        43.17 
TCGA-DJ-A13W TCGA-DJ-A13X TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QG 
       52.37         8.32        48.07       135.91        30.61        44.98 
TCGA-DJ-A1QH TCGA-DJ-A1QI TCGA-DJ-A1QL TCGA-DJ-A1QM TCGA-DJ-A1QN TCGA-DJ-A1QO 
       42.51        14.96        17.59         6.02        42.58        47.41 
TCGA-DJ-A2PN TCGA-DJ-A2PO TCGA-DJ-A2PP TCGA-DJ-A2PQ TCGA-DJ-A2PS TCGA-DJ-A2PT 
       10.09         7.99        30.58        35.41        26.20        38.83 
TCGA-DJ-A2PU TCGA-DJ-A2PV TCGA-DJ-A2PW TCGA-DJ-A2PX TCGA-DJ-A2PY TCGA-DJ-A2PZ 
       33.96        31.99        34.85        28.96         8.78         8.42 
TCGA-DJ-A2Q0 TCGA-DJ-A2Q1 TCGA-DJ-A2Q2 TCGA-DJ-A2Q3 TCGA-DJ-A2Q4 TCGA-DJ-A2Q5 
       34.36        37.74        43.96        40.24        33.93        37.48 
TCGA-DJ-A2Q6 TCGA-DJ-A2Q7 TCGA-DJ-A2Q8 TCGA-DJ-A2Q9 TCGA-DJ-A2QA TCGA-DJ-A2QB 
       36.46        35.11        39.09        35.90        33.53        35.18 
TCGA-DJ-A2QC TCGA-DJ-A3UK TCGA-DJ-A3UM TCGA-DJ-A3UN TCGA-DJ-A3UO TCGA-DJ-A3UP 
       39.95        36.92        31.04        32.42        31.46        16.41 
TCGA-DJ-A3UQ TCGA-DJ-A3UR TCGA-DJ-A3US TCGA-DJ-A3UT TCGA-DJ-A3UX TCGA-DJ-A3UY 
       19.56        36.33        32.81        36.33        11.34        35.87 
TCGA-DJ-A3UZ TCGA-DJ-A3V0 TCGA-DJ-A3V2 TCGA-DJ-A3V3 TCGA-DJ-A3V5 TCGA-DJ-A3V7 
       40.96        36.99        20.22        30.61        19.20        23.21 
TCGA-DJ-A3V8 TCGA-DJ-A3V9 TCGA-DJ-A3VA TCGA-DJ-A3VB TCGA-DJ-A3VD TCGA-DJ-A3VE 
       21.27        20.48        24.82        22.92        40.70        18.97 
TCGA-DJ-A3VF TCGA-DJ-A3VG TCGA-DJ-A3VJ TCGA-DJ-A3VL TCGA-DJ-A3VM TCGA-DJ-A4UL 
        9.60        35.67        36.43        23.44        27.62        30.87 
TCGA-DJ-A4UP TCGA-DJ-A4UQ TCGA-DJ-A4UR TCGA-DJ-A4UT TCGA-DJ-A4UW TCGA-DJ-A4V0 
       30.12        33.04        34.78        27.06        26.93        35.54 
TCGA-DJ-A4V2 TCGA-DJ-A4V4 TCGA-DJ-A4V5 TCGA-DO-A1JZ TCGA-DO-A1K0 TCGA-DO-A2HM 
        3.12        15.81        35.38        54.90        21.53         2.33 
TCGA-E3-A3DY TCGA-E3-A3DZ TCGA-E3-A3E0 TCGA-E3-A3E1 TCGA-E3-A3E2 TCGA-E3-A3E3 
       92.55        47.21        66.38        80.52        63.19        52.44 
TCGA-E8-A242 TCGA-E8-A2EA TCGA-E8-A2JQ TCGA-E8-A3X7 TCGA-E8-A413 TCGA-E8-A414 
       31.23        35.67        11.70        31.27        29.98        31.50 
TCGA-E8-A415 TCGA-E8-A416 TCGA-E8-A417 TCGA-E8-A419 TCGA-E8-A432 TCGA-E8-A433 
       31.04        31.30        30.84        25.45        30.61        31.27 
TCGA-E8-A434 TCGA-E8-A436 TCGA-E8-A437 TCGA-E8-A438 TCGA-E8-A44K TCGA-E8-A44M 
       31.33        14.96        39.88        33.50        31.00        30.15 
TCGA-EL-A3CL TCGA-EL-A3CM TCGA-EL-A3CN TCGA-EL-A3CO TCGA-EL-A3CP TCGA-EL-A3CT 
       31.66        26.73       155.54        97.74       158.83        60.95 
TCGA-EL-A3CU TCGA-EL-A3CV TCGA-EL-A3CW TCGA-EL-A3CX TCGA-EL-A3CZ TCGA-EL-A3D1 
      157.15        37.94        57.01       106.62        79.50        98.53 
TCGA-EL-A3D4 TCGA-EL-A3D6 TCGA-EL-A3GO TCGA-EL-A3GP TCGA-EL-A3GR TCGA-EL-A3GS 
       69.57       108.36        64.87        49.51       115.10        65.39 
TCGA-EL-A3GU TCGA-EL-A3GV TCGA-EL-A3GW TCGA-EL-A3GX TCGA-EL-A3GY TCGA-EL-A3GZ 
      136.01        50.37        50.20       147.75       101.13       139.99 
TCGA-EL-A3H1 TCGA-EL-A3H3 TCGA-EL-A3H4 TCGA-EL-A3H5 TCGA-EL-A3H7 TCGA-EL-A3MW 
       49.32        43.36        49.71        83.57       139.00       108.66 
TCGA-EL-A3MX TCGA-EL-A3MZ TCGA-EL-A3N2 TCGA-EL-A3T0 TCGA-EL-A3T1 TCGA-EL-A3T2 
       57.63        52.50        29.65       142.52       129.57        32.48 
TCGA-EL-A3T3 TCGA-EL-A3T6 TCGA-EL-A3T7 TCGA-EL-A3T8 TCGA-EL-A3T9 TCGA-EL-A3TA 
      132.07        98.24        41.29       107.47         5.72        66.90 
TCGA-EL-A3TB TCGA-EL-A3ZG TCGA-EL-A3ZH TCGA-EL-A3ZK TCGA-EL-A3ZL TCGA-EL-A3ZM 
       82.82        89.56        91.17        51.78        62.30        36.03 
TCGA-EL-A3ZN TCGA-EL-A3ZO TCGA-EL-A3ZP TCGA-EL-A3ZQ TCGA-EL-A3ZR TCGA-EL-A3ZS 
       53.06        72.69        65.49        61.22        60.16         7.07 
TCGA-EL-A3ZT TCGA-EL-A4JV TCGA-EL-A4JW TCGA-EL-A4JX TCGA-EL-A4JZ TCGA-EL-A4K0 
       59.44        57.47        34.72        45.96        61.02        31.04 
TCGA-EL-A4K1 TCGA-EL-A4K2 TCGA-EL-A4K4 TCGA-EL-A4K6 TCGA-EL-A4K7 TCGA-EL-A4K9 
       34.39        30.51        53.36        44.15        41.13        47.84 
TCGA-EL-A4KD TCGA-EL-A4KG TCGA-EL-A4KH TCGA-EL-A4KI TCGA-EM-A1CS TCGA-EM-A1CT 
       43.59        24.30        27.06        23.90        26.86        18.18 
TCGA-EM-A1CU TCGA-EM-A1CV TCGA-EM-A1CW TCGA-EM-A1YA TCGA-EM-A1YB TCGA-EM-A1YC 
       20.91        48.49        18.05        19.79        19.46        78.61 
TCGA-EM-A1YD TCGA-EM-A1YE TCGA-EM-A22I TCGA-EM-A22J TCGA-EM-A22K TCGA-EM-A22L 
       57.01        54.08        14.73        14.50        15.75        10.45 
TCGA-EM-A22M TCGA-EM-A22N TCGA-EM-A22O TCGA-EM-A22P TCGA-EM-A22Q TCGA-EM-A2CJ 
       14.53        10.65        44.19        41.29        14.24        47.57 
TCGA-EM-A2CK TCGA-EM-A2CL TCGA-EM-A2CN TCGA-EM-A2CO TCGA-EM-A2CP TCGA-EM-A2CQ 
       17.88        13.18        23.51         6.05         2.99        12.30 
TCGA-EM-A2CR TCGA-EM-A2CS TCGA-EM-A2CT TCGA-EM-A2CU TCGA-EM-A2OV TCGA-EM-A2OW 
       13.64        27.65        48.46        13.15        22.16        40.34 
TCGA-EM-A2OX TCGA-EM-A2OY TCGA-EM-A2OZ TCGA-EM-A2P0 TCGA-EM-A2P1 TCGA-EM-A2P2 
       19.73        32.32        33.96        17.59        17.46        17.29 
TCGA-EM-A2P3 TCGA-EM-A3AI TCGA-EM-A3AJ TCGA-EM-A3AK TCGA-EM-A3AL TCGA-EM-A3AN 
       14.60        22.52        30.94        15.68        14.14        33.07 
TCGA-EM-A3AO TCGA-EM-A3AP TCGA-EM-A3AR TCGA-EM-A3FJ TCGA-EM-A3FK TCGA-EM-A3FL 
       44.52         8.35        37.25        27.95        23.77        47.38 
TCGA-EM-A3FM TCGA-EM-A3FN TCGA-EM-A3FO TCGA-EM-A3FP TCGA-EM-A3FQ TCGA-EM-A3FR 
       21.01        12.07        17.49        17.39        16.18        15.02 
TCGA-EM-A3O3 TCGA-EM-A3O6 TCGA-EM-A3O7 TCGA-EM-A3O8 TCGA-EM-A3O9 TCGA-EM-A3OA 
       14.50        15.06         7.33        12.53         9.24        27.02 
TCGA-EM-A3OB TCGA-EM-A3ST TCGA-EM-A3SU TCGA-EM-A3SX TCGA-EM-A3SY TCGA-EM-A3SZ 
       38.66        38.86        29.95        29.85        13.51        12.79 
TCGA-EM-A4FF TCGA-EM-A4FH TCGA-EM-A4FK TCGA-EM-A4FM TCGA-EM-A4FN TCGA-EM-A4FO 
       84.59        29.33        21.34         5.33        26.37        26.37 
TCGA-EM-A4FQ TCGA-EM-A4FR TCGA-EM-A4FU TCGA-EM-A4FV TCGA-EM-A4G1 TCGA-ET-A25G 
       22.45        21.53        60.49        24.46        13.68        81.93 
TCGA-ET-A25I TCGA-ET-A25J TCGA-ET-A25K TCGA-ET-A25O TCGA-ET-A25R TCGA-ET-A2MX 
       81.70        77.56        70.42        65.29        63.45        88.41 
TCGA-ET-A2MY TCGA-ET-A2MZ TCGA-ET-A2N0 TCGA-ET-A2N1 TCGA-ET-A2N3 TCGA-ET-A2N4 
       58.75        37.25        52.60        54.35        83.34         2.66 
TCGA-ET-A2N5 TCGA-ET-A39I TCGA-ET-A39J TCGA-ET-A39K TCGA-ET-A39L TCGA-ET-A39M 
       80.88        33.24       106.09       107.41       108.46        84.89 
TCGA-ET-A39N TCGA-ET-A39O TCGA-ET-A39P TCGA-ET-A39R TCGA-ET-A39S TCGA-ET-A39T 
      123.32       100.57        95.34        94.13        55.10        98.20 
TCGA-ET-A3BN TCGA-ET-A3BP TCGA-ET-A3BQ TCGA-ET-A3BS TCGA-ET-A3BT TCGA-ET-A3BU 
       28.24        79.10        76.64         5.79        87.62        77.82 
TCGA-ET-A3BW TCGA-ET-A3BX TCGA-ET-A3DO TCGA-ET-A3DP TCGA-ET-A3DQ TCGA-ET-A3DR 
       46.65        52.47       116.78        94.59        84.85        80.58 
TCGA-ET-A3DS TCGA-ET-A3DT TCGA-ET-A3DU TCGA-ET-A3DV TCGA-ET-A3DW TCGA-ET-A40P 
       66.84        43.73        62.83       166.62        24.72        43.99 
TCGA-ET-A40Q TCGA-ET-A40R TCGA-ET-A40S TCGA-ET-A40T TCGA-ET-A4KN TCGA-ET-A4KQ 
       46.26        44.38        40.21        37.48        33.17        31.40 
TCGA-FE-A22Z TCGA-FE-A230 TCGA-FE-A231 TCGA-FE-A232 TCGA-FE-A233 TCGA-FE-A234 
       73.74        71.44        31.59        79.69        24.69        68.22 
TCGA-FE-A235 TCGA-FE-A236 TCGA-FE-A237 TCGA-FE-A23A TCGA-FE-A3PA TCGA-FE-A3PB 
      117.40        66.77       112.80        81.83       106.36        85.15 
TCGA-FE-A3PC TCGA-FE-A3PD TCGA-FK-A3S3 TCGA-FK-A3SB TCGA-FK-A3SG TCGA-FK-A3SH 
       85.68        78.77        71.08         4.11         0.92        48.10 
TCGA-FK-A4UB TCGA-FY-A2QD TCGA-FY-A3BL TCGA-FY-A3I4 TCGA-FY-A3I5 TCGA-FY-A3NM 
      116.09         1.25        20.42        17.82         7.82        29.10 
TCGA-FY-A3NP TCGA-FY-A3ON TCGA-FY-A3R6 TCGA-FY-A3R7 TCGA-FY-A3R8 TCGA-FY-A3R9 
       16.14        19.56        13.91        16.27        15.68        16.57 
TCGA-FY-A3TY TCGA-FY-A3W9 TCGA-FY-A3WA TCGA-FY-A3YR TCGA-FY-A40K TCGA-FY-A40L 
       23.31        21.63        17.06        17.36        15.16        23.87 
TCGA-FY-A40M TCGA-FY-A40N TCGA-FY-A4B0 TCGA-FY-A4B3 TCGA-FY-A4B4 TCGA-GE-A2C6 
       22.49        19.04        13.81        14.04        21.60        12.53 
TCGA-H2-A26U TCGA-H2-A2K9 TCGA-H2-A3RH TCGA-H2-A3RI TCGA-H2-A421 TCGA-H2-A422 
       17.00        21.67        12.46        11.01        20.05        18.61 
TCGA-IM-A3EB TCGA-IM-A3ED TCGA-IM-A3U2 TCGA-IM-A3U3 TCGA-IM-A41Y TCGA-IM-A41Z 
       48.92        47.41        18.51        16.90        21.83        31.10 
TCGA-IM-A420 TCGA-IM-A4EB TCGA-J8-A3O0 TCGA-J8-A3O1 TCGA-J8-A3O2 TCGA-J8-A3YD 
        8.22        25.64        43.17        27.19        11.24        31.82 
TCGA-J8-A3YE TCGA-J8-A3YF TCGA-J8-A3YG TCGA-J8-A3YH TCGA-J8-A42S TCGA-J8-A4HY 
       27.85        24.69        22.29         5.75         2.47         0.20 
TCGA-KS-A41F TCGA-KS-A41I TCGA-KS-A41J TCGA-KS-A41L TCGA-KS-A4I1 TCGA-KS-A4I3 
      143.57        15.98        15.68       113.85        26.70        43.69 
TCGA-KS-A4I5 TCGA-KS-A4I7 TCGA-KS-A4I9 TCGA-KS-A4IB TCGA-KS-A4IC TCGA-KS-A4ID 
       18.64        32.45        87.39        84.72        35.28        33.24 
TCGA-L6-A4EP TCGA-L6-A4EQ TCGA-L6-A4EU TCGA-MK-A4N6 TCGA-MK-A4N7 TCGA-MK-A4N9 
       33.40        40.37         9.50        36.10        32.45        30.21 
TCGA-QD-A8IV TCGA-E8-A418 
       12.89         3.02 

  ZC3H11A MUTATED ZC3H11A WILD-TYPE 
            17.56              0.20 
  ZC3H11A MUTATED ZC3H11A WILD-TYPE 
            22.03            178.29 
  ZC3H11A MUTATED ZC3H11A WILD-TYPE 
            18.08             31.25 
[1] "17.6 - 22.0 (18.1)" "0.2 - 178.3 (31.2)"
[1] "hr="     "1200000"
D34V2, continuous
                   vv
clus                STAGE I STAGE II STAGE III STAGE IV STAGE IVA STAGE IVC
  ZC3H11A MUTATED         3        0         0        0         0         0
  ZC3H11A WILD-TYPE     275       50       108        2        46         6
D34V3, multiclass
           clus
vv          ZC3H11A MUTATED ZC3H11A WILD-TYPE
  STAGE I                 3               275
  STAGE II                0                50
  STAGE III               0               108
  STAGE IV                0                 2
  STAGE IVA               0                46
  STAGE IVC               0                 6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                 T1  T2  T3  T4
  ZC3H11A MUTATED     0   2   1   0
  ZC3H11A WILD-TYPE 141 160 163  23
D34V4, multiclass
    clus
vv   ZC3H11A MUTATED ZC3H11A WILD-TYPE
  T1               0               141
  T2               2               160
  T3               1               163
  T4               0                23
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D34V5, binary
                   cls
clus                  0   1
  ZC3H11A MUTATED     1   1
  ZC3H11A WILD-TYPE 219 221
[1] "tbl2"
                   cls
clus                [,1] [,2]
  ZC3H11A MUTATED      1    1
  ZC3H11A WILD-TYPE  219  221
   clus
vv  ZC3H11A MUTATED ZC3H11A WILD-TYPE
  0               1               219
  1               1               221
[1] 2 2
[1] FALSE
D34V6, binary
                   cls
clus                  0   1
  ZC3H11A MUTATED     1   0
  ZC3H11A WILD-TYPE 275   9
[1] "tbl2"
                   cls
clus                [,1] [,2]
  ZC3H11A MUTATED      1    0
  ZC3H11A WILD-TYPE  275    9
   clus
vv  ZC3H11A MUTATED ZC3H11A WILD-TYPE
  0               1               275
  1               0                 9
[1] 2 2
[1] FALSE
D34V7, binary
                   cls
clus                  0   1
  ZC3H11A MUTATED     2   1
  ZC3H11A WILD-TYPE 360 129
[1] "tbl2"
                   cls
clus                [,1] [,2]
  ZC3H11A MUTATED      2    1
  ZC3H11A WILD-TYPE  360  129
        clus
vv       ZC3H11A MUTATED ZC3H11A WILD-TYPE
  FEMALE               2               360
  MALE                 1               129
[1] 2 2
[1] FALSE
D34V8, binary
                   cls
clus                  0   1
  ZC3H11A MUTATED     1   2
  ZC3H11A WILD-TYPE 178 296
[1] "tbl2"
                   cls
clus                [,1] [,2]
  ZC3H11A MUTATED      1    2
  ZC3H11A WILD-TYPE  178  296
     clus
vv    ZC3H11A MUTATED ZC3H11A WILD-TYPE
  NO                1               178
  YES               2               296
[1] 2 2
[1] FALSE
                   vv
clus                OTHER, SPECIFY
  ZC3H11A MUTATED                0
  ZC3H11A WILD-TYPE              7
                   vv
clus                THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  ZC3H11A MUTATED                                               3
  ZC3H11A WILD-TYPE                                           345
                   vv
clus                THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  ZC3H11A MUTATED                                                                        0
  ZC3H11A WILD-TYPE                                                                    102
                   vv
clus                THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  ZC3H11A MUTATED                                                                     0
  ZC3H11A WILD-TYPE                                                                  35
D34V9, multiclass
                                                                        clus
vv                                                                       ZC3H11A MUTATED
  OTHER, SPECIFY                                                                       0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                        3
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)               0
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                  0
                                                                        clus
vv                                                                       ZC3H11A WILD-TYPE
  OTHER, SPECIFY                                                                         7
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                        345
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)               102
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                   35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D34V10, binary
                   cls
clus                  0   1
  ZC3H11A MUTATED     2   0
  ZC3H11A WILD-TYPE 413  17
[1] "tbl2"
                   cls
clus                [,1] [,2]
  ZC3H11A MUTATED      2    0
  ZC3H11A WILD-TYPE  413   17
     clus
vv    ZC3H11A MUTATED ZC3H11A WILD-TYPE
  NO                2               413
  YES               0                17
[1] 2 2
[1] FALSE
                   vv
clus                MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  ZC3H11A MUTATED              1                       0    2
  ZC3H11A WILD-TYPE          129                      18  326
                   vv
clus                VERY ADVANCED (T4B)
  ZC3H11A MUTATED                     0
  ZC3H11A WILD-TYPE                   1
D34V11, multiclass
                         clus
vv                        ZC3H11A MUTATED ZC3H11A WILD-TYPE
  MINIMAL (T3)                          1               129
  MODERATE/ADVANCED (T4A)               0                18
  NONE                                  2               326
  VERY ADVANCED (T4B)                   0                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                 R0  R1  R2  RX
  ZC3H11A MUTATED     3   0   0   0
  ZC3H11A WILD-TYPE 376  51   4  30
D34V12, multiclass
    clus
vv   ZC3H11A MUTATED ZC3H11A WILD-TYPE
  R0               3               376
  R1               0                51
  R2               0                 4
  RX               0                30
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D34V13, continuous
[1] "Remove cluster labels:" "ZC3H11A MUTATED"       
clus
  ZC3H11A MUTATED ZC3H11A WILD-TYPE 
                1               377 
       TCGA-BJ-A290        TCGA-BJ-A45K        TCGA-CE-A13K        TCGA-DE-A0XZ 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DJ-A2PR        TCGA-DJ-A3UU        TCGA-DJ-A3UW        TCGA-DJ-A3V4 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DJ-A3VI        TCGA-DJ-A3VK        TCGA-E3-A3E5        TCGA-EL-A3CR 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EL-A3CS        TCGA-EL-A3CY        TCGA-EL-A3D0        TCGA-EL-A3D5 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EL-A3GQ        TCGA-EL-A3H8        TCGA-EM-A3AQ        TCGA-ET-A3BO 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-ET-A3BV        TCGA-J8-A3NZ        TCGA-J8-A4HW        TCGA-4C-A93U 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-BJ-A0Z0        TCGA-BJ-A0Z3        TCGA-BJ-A0Z9        TCGA-BJ-A0ZA 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-BJ-A0ZB        TCGA-BJ-A0ZH        TCGA-BJ-A0ZJ        TCGA-BJ-A18Y 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-BJ-A18Z        TCGA-BJ-A191        TCGA-BJ-A28R        TCGA-BJ-A28T 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-BJ-A28X        TCGA-BJ-A28Z        TCGA-BJ-A2N8        TCGA-BJ-A2N9 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-BJ-A2NA        TCGA-BJ-A3EZ        TCGA-BJ-A3PR        TCGA-BJ-A3PU 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-BJ-A45D        TCGA-BJ-A45E        TCGA-BJ-A45G        TCGA-BJ-A45I 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-BJ-A45J        TCGA-BJ-A4O8        TCGA-BJ-A4O9        TCGA-CE-A3MD 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-CE-A483        TCGA-CE-A484        TCGA-CE-A485        TCGA-DE-A0Y2 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DE-A0Y3        TCGA-DE-A3KN        TCGA-DE-A4M8        TCGA-DE-A4MA 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DE-A4MB        TCGA-DE-A4MC        TCGA-DE-A4MD        TCGA-DE-A69K 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DE-A7U5        TCGA-DJ-A13M        TCGA-DJ-A13O        TCGA-DJ-A13R 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DJ-A13T        TCGA-DJ-A13V        TCGA-DJ-A13W        TCGA-DJ-A13X 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DJ-A1QG        TCGA-DJ-A1QH        TCGA-DJ-A1QM        TCGA-DJ-A2PO 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DJ-A2PP        TCGA-DJ-A2PQ        TCGA-DJ-A2PS        TCGA-DJ-A2PT 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DJ-A2PU        TCGA-DJ-A2PV        TCGA-DJ-A2PW        TCGA-DJ-A2PX 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DJ-A2PY        TCGA-DJ-A2PZ        TCGA-DJ-A2Q0        TCGA-DJ-A2Q1 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DJ-A2Q2        TCGA-DJ-A2Q3        TCGA-DJ-A2Q4        TCGA-DJ-A2Q5 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DJ-A2Q6        TCGA-DJ-A2Q7        TCGA-DJ-A2Q8        TCGA-DJ-A2Q9 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DJ-A2QA        TCGA-DJ-A2QB        TCGA-DJ-A3UK        TCGA-DJ-A3UM 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DJ-A3UN        TCGA-DJ-A3UO        TCGA-DJ-A3UP        TCGA-DJ-A3UQ 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DJ-A3UR        TCGA-DJ-A3UX        TCGA-DJ-A3UZ        TCGA-DJ-A3V0 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DJ-A3V2        TCGA-DJ-A3V3        TCGA-DJ-A3V5        TCGA-DJ-A3V7 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DJ-A3V8        TCGA-DJ-A3V9        TCGA-DJ-A3VA        TCGA-DJ-A3VB 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DJ-A3VD        TCGA-DJ-A3VF        TCGA-DJ-A3VG        TCGA-DJ-A3VJ 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DJ-A3VL        TCGA-DJ-A4UL        TCGA-DJ-A4UP        TCGA-DJ-A4UQ 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DJ-A4UR        TCGA-DJ-A4UW        TCGA-DJ-A4V2        TCGA-DJ-A4V5 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DO-A1K0        TCGA-DO-A2HM        TCGA-E3-A3DY        TCGA-E3-A3DZ 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-E3-A3E0        TCGA-E3-A3E1        TCGA-E3-A3E2        TCGA-E3-A3E3 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-E8-A242        TCGA-E8-A2EA        TCGA-E8-A2JQ        TCGA-E8-A414 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-E8-A415        TCGA-E8-A417        TCGA-E8-A419        TCGA-E8-A433 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-E8-A436        TCGA-E8-A438        TCGA-E8-A44K        TCGA-EL-A3CM 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EL-A3CN        TCGA-EL-A3CO        TCGA-EL-A3CT        TCGA-EL-A3CU 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EL-A3CV        TCGA-EL-A3CW        TCGA-EL-A3CX        TCGA-EL-A3CZ 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EL-A3D1        TCGA-EL-A3D4        TCGA-EL-A3D6        TCGA-EL-A3GO 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EL-A3GP        TCGA-EL-A3GS        TCGA-EL-A3GU        TCGA-EL-A3GV 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EL-A3GX        TCGA-EL-A3H3        TCGA-EL-A3H4        TCGA-EL-A3H5 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EL-A3H7        TCGA-EL-A3MW        TCGA-EL-A3MX        TCGA-EL-A3MZ 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EL-A3N2        TCGA-EL-A3T0        TCGA-EL-A3T1        TCGA-EL-A3T2 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EL-A3TB        TCGA-EL-A3ZH        TCGA-EL-A3ZK        TCGA-EL-A3ZL 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EL-A3ZM        TCGA-EL-A3ZN        TCGA-EL-A3ZO        TCGA-EL-A3ZP 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EL-A3ZS        TCGA-EL-A4JV        TCGA-EL-A4JW        TCGA-EL-A4JX 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EL-A4JZ        TCGA-EL-A4K0        TCGA-EL-A4K1        TCGA-EL-A4K2 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EL-A4K4        TCGA-EL-A4K6        TCGA-EL-A4K7        TCGA-EL-A4KD 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EL-A4KG        TCGA-EL-A4KI        TCGA-EM-A1CS        TCGA-EM-A1CT 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EM-A1CU        TCGA-EM-A1CV        TCGA-EM-A1CW        TCGA-EM-A1YC 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EM-A1YD        TCGA-EM-A1YE        TCGA-EM-A22I        TCGA-EM-A22J 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EM-A22K        TCGA-EM-A22L        TCGA-EM-A22M        TCGA-EM-A22N 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EM-A22O        TCGA-EM-A22P        TCGA-EM-A22Q        TCGA-EM-A2CK 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EM-A2CN        TCGA-EM-A2CP        TCGA-EM-A2CQ        TCGA-EM-A2CR 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EM-A2CS        TCGA-EM-A2CT        TCGA-EM-A2CU        TCGA-EM-A2OV 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EM-A2OX        TCGA-EM-A2OY        TCGA-EM-A2OZ        TCGA-EM-A2P0 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EM-A2P1        TCGA-EM-A2P2        TCGA-EM-A3AJ        TCGA-EM-A3AK 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EM-A3AL        TCGA-EM-A3AN        TCGA-EM-A3AO        TCGA-EM-A3AR 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EM-A3FJ        TCGA-EM-A3FK        TCGA-EM-A3FM        TCGA-EM-A3FN 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EM-A3FO        TCGA-EM-A3FP        TCGA-EM-A3FQ        TCGA-EM-A3FR 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EM-A3O3        TCGA-EM-A3O8        TCGA-EM-A3O9        TCGA-EM-A3OA 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EM-A3OB        TCGA-EM-A3ST        TCGA-EM-A3SU        TCGA-EM-A3SX 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EM-A3SZ        TCGA-EM-A4FF        TCGA-EM-A4FM        TCGA-EM-A4FN 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EM-A4FO        TCGA-EM-A4FQ        TCGA-EM-A4FR        TCGA-EM-A4FV 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EM-A4G1        TCGA-ET-A25G        TCGA-ET-A25I        TCGA-ET-A25J 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-ET-A25K        TCGA-ET-A25O        TCGA-ET-A2MX        TCGA-ET-A2MZ 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-ET-A2N0        TCGA-ET-A2N1        TCGA-ET-A2N4        TCGA-ET-A39K 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-ET-A39L        TCGA-ET-A39O        TCGA-ET-A39P        TCGA-ET-A39R 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-ET-A39S        TCGA-ET-A39T        TCGA-ET-A3BP        TCGA-ET-A3BQ 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-ET-A3BS        TCGA-ET-A3BT        TCGA-ET-A3BU        TCGA-ET-A3BX 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-ET-A3DQ        TCGA-ET-A3DR        TCGA-ET-A3DS        TCGA-ET-A3DT 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-ET-A3DU        TCGA-ET-A3DV        TCGA-ET-A3DW        TCGA-ET-A40P 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-ET-A40Q        TCGA-ET-A40R        TCGA-ET-A40S        TCGA-ET-A40T 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-ET-A4KN        TCGA-FE-A22Z        TCGA-FE-A230        TCGA-FE-A231 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-FE-A232        TCGA-FE-A233        TCGA-FE-A234        TCGA-FE-A235 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-FE-A236        TCGA-FE-A237        TCGA-FE-A23A        TCGA-FE-A3PB 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-FE-A3PC        TCGA-FE-A3PD        TCGA-FK-A3S3        TCGA-FK-A3SB 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-FK-A3SG        TCGA-FK-A3SH        TCGA-FK-A4UB        TCGA-FY-A2QD 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-FY-A3I4        TCGA-FY-A3I5        TCGA-FY-A3NM        TCGA-FY-A3NN 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-FY-A3ON        TCGA-FY-A3R6        TCGA-FY-A3R7        TCGA-FY-A3R9 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-FY-A3TY        TCGA-FY-A3W9        TCGA-FY-A3YR        TCGA-FY-A40K 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-FY-A40L        TCGA-FY-A40M        TCGA-FY-A40N        TCGA-FY-A4B3 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-FY-A4B4        TCGA-GE-A2C6        TCGA-H2-A26U        TCGA-H2-A2K9 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-H2-A3RH        TCGA-H2-A3RI        TCGA-H2-A421        TCGA-H2-A422 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-IM-A3EB        TCGA-IM-A3ED        TCGA-IM-A3U2        TCGA-IM-A3U3 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-IM-A41Y        TCGA-IM-A41Z        TCGA-IM-A420        TCGA-IM-A4EB 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-J8-A3O0        TCGA-J8-A3O1        TCGA-J8-A3O2        TCGA-J8-A3YD 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-J8-A3YE        TCGA-J8-A3YF        TCGA-J8-A3YG        TCGA-J8-A3YH 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-J8-A42S        TCGA-J8-A4HY        TCGA-KS-A41F        TCGA-KS-A41I 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-KS-A41J        TCGA-KS-A41L        TCGA-KS-A4I1        TCGA-KS-A4I3 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-KS-A4I5        TCGA-KS-A4I7        TCGA-KS-A4I9        TCGA-KS-A4IB 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-KS-A4IC        TCGA-KS-A4ID        TCGA-L6-A4EP        TCGA-L6-A4EQ 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-L6-A4EU        TCGA-MK-A4N6        TCGA-MK-A4N7        TCGA-MK-A4N9 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-QD-A8IV 
"ZC3H11A WILD-TYPE" 
D34V14, binary
                   cls
clus                  0   1
  ZC3H11A MUTATED     2   1
  ZC3H11A WILD-TYPE 219 261
[1] "tbl2"
                   cls
clus                [,1] [,2]
  ZC3H11A MUTATED      2    1
  ZC3H11A WILD-TYPE  219  261
            clus
vv           ZC3H11A MUTATED ZC3H11A WILD-TYPE
  MULTIFOCAL               2               219
  UNIFOCAL                 1               261
[1] 2 2
[1] FALSE
D34V15, continuous
[1] "Remove cluster labels:" "ZC3H11A MUTATED"       
clus
  ZC3H11A MUTATED ZC3H11A WILD-TYPE 
                1               392 
       TCGA-BJ-A290        TCGA-BJ-A45K        TCGA-CE-A13K        TCGA-DE-A0XZ 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DJ-A13L        TCGA-DJ-A2PR        TCGA-DJ-A3UU        TCGA-DJ-A3UW 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DJ-A3V4        TCGA-DJ-A3VK        TCGA-EL-A3CR        TCGA-EL-A3CS 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EL-A3CY        TCGA-EL-A3D0        TCGA-EL-A3D5        TCGA-EL-A3GQ 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EL-A3H2        TCGA-EL-A3H8        TCGA-EL-A3MY        TCGA-EL-A3N3 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EM-A3AQ        TCGA-ET-A3BO        TCGA-ET-A3BV        TCGA-FY-A76V 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-L6-A4ET        TCGA-MK-A84Z        TCGA-4C-A93U        TCGA-BJ-A0Z2 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-BJ-A0Z3        TCGA-BJ-A0Z9        TCGA-BJ-A0ZA        TCGA-BJ-A0ZB 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-BJ-A0ZC        TCGA-BJ-A0ZE        TCGA-BJ-A0ZG        TCGA-BJ-A0ZH 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-BJ-A0ZJ        TCGA-BJ-A18Y        TCGA-BJ-A18Z        TCGA-BJ-A191 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-BJ-A192        TCGA-BJ-A28R        TCGA-BJ-A28S        TCGA-BJ-A28T 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-BJ-A28V        TCGA-BJ-A28Z        TCGA-BJ-A2N8        TCGA-BJ-A2N9 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-BJ-A2P4        TCGA-BJ-A3PU        TCGA-BJ-A45D        TCGA-BJ-A45E 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-BJ-A45F        TCGA-BJ-A45G        TCGA-BJ-A45H        TCGA-BJ-A45I 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-BJ-A45J        TCGA-BJ-A4O8        TCGA-BJ-A4O9        TCGA-CE-A27D 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-CE-A3MD        TCGA-CE-A3ME        TCGA-CE-A481        TCGA-CE-A482 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-CE-A483        TCGA-CE-A484        TCGA-CE-A485        TCGA-DE-A0Y2 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DE-A0Y3        TCGA-DE-A2OL        TCGA-DE-A3KN        TCGA-DE-A4M8 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DE-A4M9        TCGA-DE-A4MA        TCGA-DE-A4MB        TCGA-DE-A4MC 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DE-A4MD        TCGA-DE-A69J        TCGA-DE-A69K        TCGA-DE-A7U5 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DJ-A13M        TCGA-DJ-A13O        TCGA-DJ-A13R        TCGA-DJ-A13S 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DJ-A13U        TCGA-DJ-A13V        TCGA-DJ-A13W        TCGA-DJ-A13X 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DJ-A1QD        TCGA-DJ-A1QE        TCGA-DJ-A1QF        TCGA-DJ-A1QG 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DJ-A1QH        TCGA-DJ-A1QI        TCGA-DJ-A1QL        TCGA-DJ-A1QM 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DJ-A1QN        TCGA-DJ-A1QO        TCGA-DJ-A2PN        TCGA-DJ-A2PO 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DJ-A2PP        TCGA-DJ-A2PQ        TCGA-DJ-A2PS        TCGA-DJ-A2PT 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DJ-A2PU        TCGA-DJ-A2PV        TCGA-DJ-A2PW        TCGA-DJ-A2PY 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DJ-A2PZ        TCGA-DJ-A2Q0        TCGA-DJ-A2Q1        TCGA-DJ-A2Q2 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DJ-A2Q3        TCGA-DJ-A2Q4        TCGA-DJ-A2Q5        TCGA-DJ-A2Q6 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DJ-A2Q7        TCGA-DJ-A2Q8        TCGA-DJ-A2Q9        TCGA-DJ-A2QA 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DJ-A2QC        TCGA-DJ-A3UK        TCGA-DJ-A3UM        TCGA-DJ-A3UN 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DJ-A3UO        TCGA-DJ-A3UP        TCGA-DJ-A3UQ        TCGA-DJ-A3UR 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DJ-A3US        TCGA-DJ-A3UT        TCGA-DJ-A3UX        TCGA-DJ-A3UY 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DJ-A3V0        TCGA-DJ-A3V2        TCGA-DJ-A3V3        TCGA-DJ-A3V5 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DJ-A3V7        TCGA-DJ-A3V8        TCGA-DJ-A3VA        TCGA-DJ-A3VB 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DJ-A3VD        TCGA-DJ-A3VE        TCGA-DJ-A3VF        TCGA-DJ-A3VG 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DJ-A3VJ        TCGA-DJ-A3VL        TCGA-DJ-A3VM        TCGA-DJ-A4UL 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DJ-A4UP        TCGA-DJ-A4UQ        TCGA-DJ-A4UT        TCGA-DJ-A4V0 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DJ-A4V2        TCGA-DJ-A4V4        TCGA-DJ-A4V5        TCGA-DO-A1JZ 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-DO-A1K0        TCGA-DO-A2HM        TCGA-E3-A3DY        TCGA-E3-A3DZ 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-E3-A3E0        TCGA-E3-A3E1        TCGA-E3-A3E2        TCGA-E3-A3E3 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-E8-A419        TCGA-EL-A3CN        TCGA-EL-A3CO        TCGA-EL-A3CT 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EL-A3CU        TCGA-EL-A3CV        TCGA-EL-A3CW        TCGA-EL-A3CX 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EL-A3CZ        TCGA-EL-A3D1        TCGA-EL-A3D4        TCGA-EL-A3D6 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EL-A3GO        TCGA-EL-A3GP        TCGA-EL-A3GR        TCGA-EL-A3GS 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EL-A3GU        TCGA-EL-A3GV        TCGA-EL-A3GW        TCGA-EL-A3GX 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EL-A3GY        TCGA-EL-A3GZ        TCGA-EL-A3H3        TCGA-EL-A3H4 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EL-A3H5        TCGA-EL-A3H7        TCGA-EL-A3MW        TCGA-EL-A3MX 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EL-A3MZ        TCGA-EL-A3N2        TCGA-EL-A3T1        TCGA-EL-A3T2 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EL-A3T3        TCGA-EL-A3T6        TCGA-EL-A3T7        TCGA-EL-A3T8 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EL-A3T9        TCGA-EL-A3TA        TCGA-EL-A3TB        TCGA-EL-A3ZG 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EL-A3ZH        TCGA-EL-A3ZK        TCGA-EL-A3ZL        TCGA-EL-A3ZM 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EL-A3ZN        TCGA-EL-A3ZO        TCGA-EL-A3ZP        TCGA-EL-A3ZQ 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EL-A3ZR        TCGA-EL-A3ZS        TCGA-EL-A3ZT        TCGA-EL-A4JV 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EL-A4JW        TCGA-EL-A4JX        TCGA-EL-A4JZ        TCGA-EL-A4K0 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EL-A4K1        TCGA-EL-A4K2        TCGA-EL-A4K4        TCGA-EL-A4K6 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EL-A4K7        TCGA-EL-A4K9        TCGA-EL-A4KD        TCGA-EL-A4KG 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EL-A4KH        TCGA-EL-A4KI        TCGA-EM-A1CS        TCGA-EM-A1CT 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EM-A1CU        TCGA-EM-A1CV        TCGA-EM-A1CW        TCGA-EM-A1YA 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EM-A1YB        TCGA-EM-A1YC        TCGA-EM-A1YD        TCGA-EM-A1YE 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EM-A22I        TCGA-EM-A22J        TCGA-EM-A22K        TCGA-EM-A22L 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EM-A22N        TCGA-EM-A22O        TCGA-EM-A22P        TCGA-EM-A22Q 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EM-A2CJ        TCGA-EM-A2CK        TCGA-EM-A2CL        TCGA-EM-A2CN 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EM-A2CO        TCGA-EM-A2CP        TCGA-EM-A2CQ        TCGA-EM-A2CR 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EM-A2CS        TCGA-EM-A2CT        TCGA-EM-A2CU        TCGA-EM-A2OW 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EM-A2OX        TCGA-EM-A2OY        TCGA-EM-A2P0        TCGA-EM-A2P1 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EM-A2P2        TCGA-EM-A2P3        TCGA-EM-A3AI        TCGA-EM-A3AJ 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EM-A3AK        TCGA-EM-A3AL        TCGA-EM-A3AN        TCGA-EM-A3AO 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EM-A3AP        TCGA-EM-A3AR        TCGA-EM-A3FJ        TCGA-EM-A3FM 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EM-A3FN        TCGA-EM-A3FO        TCGA-EM-A3FP        TCGA-EM-A3FR 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EM-A3O3        TCGA-EM-A3O6        TCGA-EM-A3O7        TCGA-EM-A3O8 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EM-A3O9        TCGA-EM-A3OA        TCGA-EM-A3OB        TCGA-EM-A3ST 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EM-A3SU        TCGA-EM-A3SX        TCGA-EM-A3SY        TCGA-EM-A3SZ 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EM-A4FF        TCGA-EM-A4FH        TCGA-EM-A4FK        TCGA-EM-A4FM 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EM-A4FN        TCGA-EM-A4FQ        TCGA-EM-A4FR        TCGA-EM-A4FU 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-EM-A4FV        TCGA-EM-A4G1        TCGA-ET-A25G        TCGA-ET-A25I 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-ET-A25J        TCGA-ET-A25K        TCGA-ET-A25O        TCGA-ET-A25R 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-ET-A2MY        TCGA-ET-A2MZ        TCGA-ET-A2N0        TCGA-ET-A2N5 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-ET-A39J        TCGA-ET-A39M        TCGA-ET-A39N        TCGA-ET-A39O 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-ET-A39P        TCGA-ET-A39T        TCGA-ET-A3BN        TCGA-ET-A3BP 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-ET-A3BQ        TCGA-ET-A3BS        TCGA-ET-A3BT        TCGA-ET-A3BU 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-ET-A3BW        TCGA-ET-A3BX        TCGA-ET-A3DO        TCGA-ET-A3DS 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-ET-A3DT        TCGA-ET-A40P        TCGA-ET-A40Q        TCGA-ET-A40R 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-ET-A40S        TCGA-ET-A4KN        TCGA-ET-A4KQ        TCGA-FE-A22Z 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-FE-A230        TCGA-FE-A232        TCGA-FE-A233        TCGA-FE-A234 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-FE-A235        TCGA-FE-A236        TCGA-FE-A237        TCGA-FE-A23A 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-FE-A3PA        TCGA-FE-A3PB        TCGA-FE-A3PC        TCGA-FE-A3PD 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-FY-A2QD        TCGA-FY-A3I4        TCGA-FY-A3I5        TCGA-FY-A3ON 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-FY-A3R8        TCGA-FY-A3TY        TCGA-FY-A3W9        TCGA-FY-A3YR 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-FY-A40K        TCGA-FY-A40L        TCGA-FY-A40M        TCGA-FY-A40N 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-FY-A4B3        TCGA-GE-A2C6        TCGA-H2-A421        TCGA-IM-A3EB 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-IM-A3ED        TCGA-IM-A3U2        TCGA-IM-A3U3        TCGA-IM-A41Y 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-IM-A41Z        TCGA-IM-A420        TCGA-IM-A4EB        TCGA-J8-A3O0 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-J8-A3YD        TCGA-J8-A3YG        TCGA-KS-A41F        TCGA-KS-A41I 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-KS-A41J        TCGA-KS-A41L        TCGA-KS-A4I3        TCGA-KS-A4I5 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-KS-A4I7        TCGA-KS-A4I9        TCGA-KS-A4IB        TCGA-KS-A4IC 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-KS-A4ID        TCGA-L6-A4EP        TCGA-L6-A4EQ        TCGA-L6-A4EU 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
       TCGA-MK-A4N6        TCGA-MK-A4N7        TCGA-MK-A4N9        TCGA-QD-A8IV 
"ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" "ZC3H11A WILD-TYPE" 
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  ZC3H11A MUTATED                                  0     2
  ZC3H11A WILD-TYPE                                1    49
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  ZC3H11A MUTATED                           0     1
  ZC3H11A WILD-TYPE                        26   321
D34V16, multiclass
                                  clus
vv                                 ZC3H11A MUTATED ZC3H11A WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          2                49
  BLACK OR AFRICAN AMERICAN                      0                26
  WHITE                                          1               321
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D34V17, binary
                   cls
clus                  0   1
  ZC3H11A MUTATED     0   3
  ZC3H11A WILD-TYPE  38 348
[1] "tbl2"
                   cls
clus                [,1] [,2]
  ZC3H11A MUTATED      0    3
  ZC3H11A WILD-TYPE   38  348
                        clus
vv                       ZC3H11A MUTATED ZC3H11A WILD-TYPE
  HISPANIC OR LATINO                   0                38
  NOT HISPANIC OR LATINO               3               348
[1] 2 2
[1] FALSE

Clustering(35) Variable = RANBP9 MUTATION ANALYSIS
D35V1, survival
                  sevent
clus2                0   1
  RANBP9 MUTATED     2   1
  RANBP9 WILD-TYPE 475  13
  RANBP9 MUTATED RANBP9 WILD-TYPE 
               3              488 
  RANBP9 MUTATED RANBP9 WILD-TYPE 
               1               13 
$`RANBP9 MUTATED`
TCGA-EL-A3MY TCGA-EM-A3FO TCGA-FK-A3SH 
       17.52        17.49        48.10 

$`RANBP9 WILD-TYPE`
TCGA-BJ-A290 TCGA-BJ-A45K TCGA-CE-A13K TCGA-DE-A0XZ TCGA-DJ-A13L TCGA-DJ-A2PR 
       30.21        23.18        12.66        35.84         9.96        27.45 
TCGA-DJ-A3UU TCGA-DJ-A3UW TCGA-DJ-A3V4 TCGA-DJ-A3VI TCGA-DJ-A3VK TCGA-E3-A3E5 
       23.44        59.57        42.54         3.12        24.76        39.95 
TCGA-EL-A3CR TCGA-EL-A3CS TCGA-EL-A3CY TCGA-EL-A3D0 TCGA-EL-A3D5 TCGA-EL-A3GQ 
        7.66        45.53         4.18       139.86        57.11        50.24 
TCGA-EL-A3H2 TCGA-EL-A3H8 TCGA-EL-A3N3 TCGA-EM-A3AQ TCGA-ET-A3BO TCGA-ET-A3BV 
       33.50       150.48       178.29        29.72        50.40        75.42 
TCGA-FK-A3SD TCGA-FY-A76V TCGA-J8-A3NZ TCGA-J8-A4HW TCGA-L6-A4ET TCGA-MK-A84Z 
        1.05         1.68        17.23         2.60        21.83        23.93 
TCGA-4C-A93U TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0Z3 TCGA-BJ-A0Z9 
        4.24        24.79        13.78        49.78        16.34        41.33 
TCGA-BJ-A0ZA TCGA-BJ-A0ZB TCGA-BJ-A0ZC TCGA-BJ-A0ZE TCGA-BJ-A0ZG TCGA-BJ-A0ZH 
       18.87         4.01        11.57        16.73        25.48        15.12 
TCGA-BJ-A0ZJ TCGA-BJ-A18Y TCGA-BJ-A18Z TCGA-BJ-A191 TCGA-BJ-A192 TCGA-BJ-A28R 
       42.08        51.39        41.52         4.83        44.35        42.15 
TCGA-BJ-A28S TCGA-BJ-A28T TCGA-BJ-A28V TCGA-BJ-A28X TCGA-BJ-A28Z TCGA-BJ-A2N7 
       21.04        35.54        32.45        30.97        11.08        18.38 
TCGA-BJ-A2N8 TCGA-BJ-A2N9 TCGA-BJ-A2NA TCGA-BJ-A2P4 TCGA-BJ-A3EZ TCGA-BJ-A3F0 
       16.57        20.48        18.97        12.82        16.01        13.94 
TCGA-BJ-A3PR TCGA-BJ-A3PT TCGA-BJ-A3PU TCGA-BJ-A45D TCGA-BJ-A45E TCGA-BJ-A45F 
       36.39        23.31        18.64        10.88        21.01         3.45 
TCGA-BJ-A45G TCGA-BJ-A45H TCGA-BJ-A45I TCGA-BJ-A45J TCGA-BJ-A4O8 TCGA-BJ-A4O9 
       23.84        28.44        15.45        21.63        19.43        23.47 
TCGA-CE-A27D TCGA-CE-A3MD TCGA-CE-A3ME TCGA-CE-A481 TCGA-CE-A482 TCGA-CE-A483 
       12.30        12.79        12.46        11.38        10.68        15.02 
TCGA-CE-A484 TCGA-CE-A485 TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DE-A2OL TCGA-DE-A3KN 
       12.43        12.66        21.63        50.17        37.64        27.32 
TCGA-DE-A4M8 TCGA-DE-A4M9 TCGA-DE-A4MA TCGA-DE-A4MB TCGA-DE-A4MC TCGA-DE-A4MD 
       18.54        18.84        30.12        11.57        30.02        25.12 
TCGA-DE-A69J TCGA-DE-A69K TCGA-DE-A7U5 TCGA-DJ-A13M TCGA-DJ-A13O TCGA-DJ-A13P 
       14.70        14.27         2.76        48.79        38.17       169.32 
TCGA-DJ-A13R TCGA-DJ-A13S TCGA-DJ-A13T TCGA-DJ-A13U TCGA-DJ-A13V TCGA-DJ-A13W 
       18.58         8.71        56.19        52.27        43.17        52.37 
TCGA-DJ-A13X TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QG TCGA-DJ-A1QH 
        8.32        48.07       135.91        30.61        44.98        42.51 
TCGA-DJ-A1QI TCGA-DJ-A1QL TCGA-DJ-A1QM TCGA-DJ-A1QN TCGA-DJ-A1QO TCGA-DJ-A1QQ 
       14.96        17.59         6.02        42.58        47.41        17.56 
TCGA-DJ-A2PN TCGA-DJ-A2PO TCGA-DJ-A2PP TCGA-DJ-A2PQ TCGA-DJ-A2PS TCGA-DJ-A2PT 
       10.09         7.99        30.58        35.41        26.20        38.83 
TCGA-DJ-A2PU TCGA-DJ-A2PV TCGA-DJ-A2PW TCGA-DJ-A2PX TCGA-DJ-A2PY TCGA-DJ-A2PZ 
       33.96        31.99        34.85        28.96         8.78         8.42 
TCGA-DJ-A2Q0 TCGA-DJ-A2Q1 TCGA-DJ-A2Q2 TCGA-DJ-A2Q3 TCGA-DJ-A2Q4 TCGA-DJ-A2Q5 
       34.36        37.74        43.96        40.24        33.93        37.48 
TCGA-DJ-A2Q6 TCGA-DJ-A2Q7 TCGA-DJ-A2Q8 TCGA-DJ-A2Q9 TCGA-DJ-A2QA TCGA-DJ-A2QB 
       36.46        35.11        39.09        35.90        33.53        35.18 
TCGA-DJ-A2QC TCGA-DJ-A3UK TCGA-DJ-A3UM TCGA-DJ-A3UN TCGA-DJ-A3UO TCGA-DJ-A3UP 
       39.95        36.92        31.04        32.42        31.46        16.41 
TCGA-DJ-A3UQ TCGA-DJ-A3UR TCGA-DJ-A3US TCGA-DJ-A3UT TCGA-DJ-A3UX TCGA-DJ-A3UY 
       19.56        36.33        32.81        36.33        11.34        35.87 
TCGA-DJ-A3UZ TCGA-DJ-A3V0 TCGA-DJ-A3V2 TCGA-DJ-A3V3 TCGA-DJ-A3V5 TCGA-DJ-A3V7 
       40.96        36.99        20.22        30.61        19.20        23.21 
TCGA-DJ-A3V8 TCGA-DJ-A3V9 TCGA-DJ-A3VA TCGA-DJ-A3VB TCGA-DJ-A3VD TCGA-DJ-A3VE 
       21.27        20.48        24.82        22.92        40.70        18.97 
TCGA-DJ-A3VF TCGA-DJ-A3VG TCGA-DJ-A3VJ TCGA-DJ-A3VL TCGA-DJ-A3VM TCGA-DJ-A4UL 
        9.60        35.67        36.43        23.44        27.62        30.87 
TCGA-DJ-A4UP TCGA-DJ-A4UQ TCGA-DJ-A4UR TCGA-DJ-A4UT TCGA-DJ-A4UW TCGA-DJ-A4V0 
       30.12        33.04        34.78        27.06        26.93        35.54 
TCGA-DJ-A4V2 TCGA-DJ-A4V4 TCGA-DJ-A4V5 TCGA-DO-A1JZ TCGA-DO-A1K0 TCGA-DO-A2HM 
        3.12        15.81        35.38        54.90        21.53         2.33 
TCGA-E3-A3DY TCGA-E3-A3DZ TCGA-E3-A3E0 TCGA-E3-A3E1 TCGA-E3-A3E2 TCGA-E3-A3E3 
       92.55        47.21        66.38        80.52        63.19        52.44 
TCGA-E8-A242 TCGA-E8-A2EA TCGA-E8-A2JQ TCGA-E8-A3X7 TCGA-E8-A413 TCGA-E8-A414 
       31.23        35.67        11.70        31.27        29.98        31.50 
TCGA-E8-A415 TCGA-E8-A416 TCGA-E8-A417 TCGA-E8-A419 TCGA-E8-A432 TCGA-E8-A433 
       31.04        31.30        30.84        25.45        30.61        31.27 
TCGA-E8-A434 TCGA-E8-A436 TCGA-E8-A437 TCGA-E8-A438 TCGA-E8-A44K TCGA-E8-A44M 
       31.33        14.96        39.88        33.50        31.00        30.15 
TCGA-EL-A3CL TCGA-EL-A3CM TCGA-EL-A3CN TCGA-EL-A3CO TCGA-EL-A3CP TCGA-EL-A3CT 
       31.66        26.73       155.54        97.74       158.83        60.95 
TCGA-EL-A3CU TCGA-EL-A3CV TCGA-EL-A3CW TCGA-EL-A3CX TCGA-EL-A3CZ TCGA-EL-A3D1 
      157.15        37.94        57.01       106.62        79.50        98.53 
TCGA-EL-A3D4 TCGA-EL-A3D6 TCGA-EL-A3GO TCGA-EL-A3GP TCGA-EL-A3GR TCGA-EL-A3GS 
       69.57       108.36        64.87        49.51       115.10        65.39 
TCGA-EL-A3GU TCGA-EL-A3GV TCGA-EL-A3GW TCGA-EL-A3GX TCGA-EL-A3GY TCGA-EL-A3GZ 
      136.01        50.37        50.20       147.75       101.13       139.99 
TCGA-EL-A3H1 TCGA-EL-A3H3 TCGA-EL-A3H4 TCGA-EL-A3H5 TCGA-EL-A3H7 TCGA-EL-A3MW 
       49.32        43.36        49.71        83.57       139.00       108.66 
TCGA-EL-A3MX TCGA-EL-A3MZ TCGA-EL-A3N2 TCGA-EL-A3T0 TCGA-EL-A3T1 TCGA-EL-A3T2 
       57.63        52.50        29.65       142.52       129.57        32.48 
TCGA-EL-A3T3 TCGA-EL-A3T6 TCGA-EL-A3T7 TCGA-EL-A3T8 TCGA-EL-A3T9 TCGA-EL-A3TA 
      132.07        98.24        41.29       107.47         5.72        66.90 
TCGA-EL-A3TB TCGA-EL-A3ZG TCGA-EL-A3ZH TCGA-EL-A3ZK TCGA-EL-A3ZL TCGA-EL-A3ZM 
       82.82        89.56        91.17        51.78        62.30        36.03 
TCGA-EL-A3ZN TCGA-EL-A3ZO TCGA-EL-A3ZP TCGA-EL-A3ZQ TCGA-EL-A3ZR TCGA-EL-A3ZS 
       53.06        72.69        65.49        61.22        60.16         7.07 
TCGA-EL-A3ZT TCGA-EL-A4JV TCGA-EL-A4JW TCGA-EL-A4JX TCGA-EL-A4JZ TCGA-EL-A4K0 
       59.44        57.47        34.72        45.96        61.02        31.04 
TCGA-EL-A4K1 TCGA-EL-A4K2 TCGA-EL-A4K4 TCGA-EL-A4K6 TCGA-EL-A4K7 TCGA-EL-A4K9 
       34.39        30.51        53.36        44.15        41.13        47.84 
TCGA-EL-A4KD TCGA-EL-A4KG TCGA-EL-A4KH TCGA-EL-A4KI TCGA-EM-A1CS TCGA-EM-A1CT 
       43.59        24.30        27.06        23.90        26.86        18.18 
TCGA-EM-A1CU TCGA-EM-A1CV TCGA-EM-A1CW TCGA-EM-A1YA TCGA-EM-A1YB TCGA-EM-A1YC 
       20.91        48.49        18.05        19.79        19.46        78.61 
TCGA-EM-A1YD TCGA-EM-A1YE TCGA-EM-A22I TCGA-EM-A22J TCGA-EM-A22K TCGA-EM-A22L 
       57.01        54.08        14.73        14.50        15.75        10.45 
TCGA-EM-A22M TCGA-EM-A22N TCGA-EM-A22O TCGA-EM-A22P TCGA-EM-A22Q TCGA-EM-A2CJ 
       14.53        10.65        44.19        41.29        14.24        47.57 
TCGA-EM-A2CK TCGA-EM-A2CL TCGA-EM-A2CN TCGA-EM-A2CO TCGA-EM-A2CP TCGA-EM-A2CQ 
       17.88        13.18        23.51         6.05         2.99        12.30 
TCGA-EM-A2CR TCGA-EM-A2CS TCGA-EM-A2CT TCGA-EM-A2CU TCGA-EM-A2OV TCGA-EM-A2OW 
       13.64        27.65        48.46        13.15        22.16        40.34 
TCGA-EM-A2OX TCGA-EM-A2OY TCGA-EM-A2OZ TCGA-EM-A2P0 TCGA-EM-A2P1 TCGA-EM-A2P2 
       19.73        32.32        33.96        17.59        17.46        17.29 
TCGA-EM-A2P3 TCGA-EM-A3AI TCGA-EM-A3AJ TCGA-EM-A3AK TCGA-EM-A3AL TCGA-EM-A3AN 
       14.60        22.52        30.94        15.68        14.14        33.07 
TCGA-EM-A3AO TCGA-EM-A3AP TCGA-EM-A3AR TCGA-EM-A3FJ TCGA-EM-A3FK TCGA-EM-A3FL 
       44.52         8.35        37.25        27.95        23.77        47.38 
TCGA-EM-A3FM TCGA-EM-A3FN TCGA-EM-A3FP TCGA-EM-A3FQ TCGA-EM-A3FR TCGA-EM-A3O3 
       21.01        12.07        17.39        16.18        15.02        14.50 
TCGA-EM-A3O6 TCGA-EM-A3O7 TCGA-EM-A3O8 TCGA-EM-A3O9 TCGA-EM-A3OA TCGA-EM-A3OB 
       15.06         7.33        12.53         9.24        27.02        38.66 
TCGA-EM-A3ST TCGA-EM-A3SU TCGA-EM-A3SX TCGA-EM-A3SY TCGA-EM-A3SZ TCGA-EM-A4FF 
       38.86        29.95        29.85        13.51        12.79        84.59 
TCGA-EM-A4FH TCGA-EM-A4FK TCGA-EM-A4FM TCGA-EM-A4FN TCGA-EM-A4FO TCGA-EM-A4FQ 
       29.33        21.34         5.33        26.37        26.37        22.45 
TCGA-EM-A4FR TCGA-EM-A4FU TCGA-EM-A4FV TCGA-EM-A4G1 TCGA-ET-A25G TCGA-ET-A25I 
       21.53        60.49        24.46        13.68        81.93        81.70 
TCGA-ET-A25J TCGA-ET-A25K TCGA-ET-A25O TCGA-ET-A25R TCGA-ET-A2MX TCGA-ET-A2MY 
       77.56        70.42        65.29        63.45        88.41        58.75 
TCGA-ET-A2MZ TCGA-ET-A2N0 TCGA-ET-A2N1 TCGA-ET-A2N3 TCGA-ET-A2N4 TCGA-ET-A2N5 
       37.25        52.60        54.35        83.34         2.66        80.88 
TCGA-ET-A39I TCGA-ET-A39J TCGA-ET-A39K TCGA-ET-A39L TCGA-ET-A39M TCGA-ET-A39N 
       33.24       106.09       107.41       108.46        84.89       123.32 
TCGA-ET-A39O TCGA-ET-A39P TCGA-ET-A39R TCGA-ET-A39S TCGA-ET-A39T TCGA-ET-A3BN 
      100.57        95.34        94.13        55.10        98.20        28.24 
TCGA-ET-A3BP TCGA-ET-A3BQ TCGA-ET-A3BS TCGA-ET-A3BT TCGA-ET-A3BU TCGA-ET-A3BW 
       79.10        76.64         5.79        87.62        77.82        46.65 
TCGA-ET-A3BX TCGA-ET-A3DO TCGA-ET-A3DP TCGA-ET-A3DQ TCGA-ET-A3DR TCGA-ET-A3DS 
       52.47       116.78        94.59        84.85        80.58        66.84 
TCGA-ET-A3DT TCGA-ET-A3DU TCGA-ET-A3DV TCGA-ET-A3DW TCGA-ET-A40P TCGA-ET-A40Q 
       43.73        62.83       166.62        24.72        43.99        46.26 
TCGA-ET-A40R TCGA-ET-A40S TCGA-ET-A40T TCGA-ET-A4KN TCGA-ET-A4KQ TCGA-FE-A22Z 
       44.38        40.21        37.48        33.17        31.40        73.74 
TCGA-FE-A230 TCGA-FE-A231 TCGA-FE-A232 TCGA-FE-A233 TCGA-FE-A234 TCGA-FE-A235 
       71.44        31.59        79.69        24.69        68.22       117.40 
TCGA-FE-A236 TCGA-FE-A237 TCGA-FE-A23A TCGA-FE-A3PA TCGA-FE-A3PB TCGA-FE-A3PC 
       66.77       112.80        81.83       106.36        85.15        85.68 
TCGA-FE-A3PD TCGA-FK-A3S3 TCGA-FK-A3SB TCGA-FK-A3SE TCGA-FK-A3SG TCGA-FK-A4UB 
       78.77        71.08         4.11        22.03         0.92       116.09 
TCGA-FY-A2QD TCGA-FY-A3BL TCGA-FY-A3I4 TCGA-FY-A3I5 TCGA-FY-A3NM TCGA-FY-A3NP 
        1.25        20.42        17.82         7.82        29.10        16.14 
TCGA-FY-A3ON TCGA-FY-A3R6 TCGA-FY-A3R7 TCGA-FY-A3R8 TCGA-FY-A3R9 TCGA-FY-A3RA 
       19.56        13.91        16.27        15.68        16.57        18.08 
TCGA-FY-A3TY TCGA-FY-A3W9 TCGA-FY-A3WA TCGA-FY-A3YR TCGA-FY-A40K TCGA-FY-A40L 
       23.31        21.63        17.06        17.36        15.16        23.87 
TCGA-FY-A40M TCGA-FY-A40N TCGA-FY-A4B0 TCGA-FY-A4B3 TCGA-FY-A4B4 TCGA-GE-A2C6 
       22.49        19.04        13.81        14.04        21.60        12.53 
TCGA-H2-A26U TCGA-H2-A2K9 TCGA-H2-A3RH TCGA-H2-A3RI TCGA-H2-A421 TCGA-H2-A422 
       17.00        21.67        12.46        11.01        20.05        18.61 
TCGA-IM-A3EB TCGA-IM-A3ED TCGA-IM-A3U2 TCGA-IM-A3U3 TCGA-IM-A41Y TCGA-IM-A41Z 
       48.92        47.41        18.51        16.90        21.83        31.10 
TCGA-IM-A420 TCGA-IM-A4EB TCGA-J8-A3O0 TCGA-J8-A3O1 TCGA-J8-A3O2 TCGA-J8-A3YD 
        8.22        25.64        43.17        27.19        11.24        31.82 
TCGA-J8-A3YE TCGA-J8-A3YF TCGA-J8-A3YG TCGA-J8-A3YH TCGA-J8-A42S TCGA-J8-A4HY 
       27.85        24.69        22.29         5.75         2.47         0.20 
TCGA-KS-A41F TCGA-KS-A41I TCGA-KS-A41J TCGA-KS-A41L TCGA-KS-A4I1 TCGA-KS-A4I3 
      143.57        15.98        15.68       113.85        26.70        43.69 
TCGA-KS-A4I5 TCGA-KS-A4I7 TCGA-KS-A4I9 TCGA-KS-A4IB TCGA-KS-A4IC TCGA-KS-A4ID 
       18.64        32.45        87.39        84.72        35.28        33.24 
TCGA-L6-A4EP TCGA-L6-A4EQ TCGA-L6-A4EU TCGA-MK-A4N6 TCGA-MK-A4N7 TCGA-MK-A4N9 
       33.40        40.37         9.50        36.10        32.45        30.21 
TCGA-QD-A8IV TCGA-E8-A418 
       12.89         3.02 

  RANBP9 MUTATED RANBP9 WILD-TYPE 
           17.49             0.20 
  RANBP9 MUTATED RANBP9 WILD-TYPE 
           48.10           178.29 
  RANBP9 MUTATED RANBP9 WILD-TYPE 
          17.520           31.165 
[1] "17.5 - 48.1 (17.5)" "0.2 - 178.3 (31.2)"
[1] "hr=" "27" 
D35V2, continuous
                  vv
clus               STAGE I STAGE II STAGE III STAGE IV STAGE IVA STAGE IVC
  RANBP9 MUTATED         1        0         1        0         0         1
  RANBP9 WILD-TYPE     277       50       107        2        46         5
D35V3, multiclass
           clus
vv          RANBP9 MUTATED RANBP9 WILD-TYPE
  STAGE I                1              277
  STAGE II               0               50
  STAGE III              1              107
  STAGE IV               0                2
  STAGE IVA              0               46
  STAGE IVC              1                5
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus                T1  T2  T3  T4
  RANBP9 MUTATED     0   1   1   1
  RANBP9 WILD-TYPE 141 161 163  22
D35V4, multiclass
    clus
vv   RANBP9 MUTATED RANBP9 WILD-TYPE
  T1              0              141
  T2              1              161
  T3              1              163
  T4              1               22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D35V5, binary
                  cls
clus                 0   1
  RANBP9 MUTATED     1   1
  RANBP9 WILD-TYPE 219 221
[1] "tbl2"
                  cls
clus               [,1] [,2]
  RANBP9 MUTATED      1    1
  RANBP9 WILD-TYPE  219  221
   clus
vv  RANBP9 MUTATED RANBP9 WILD-TYPE
  0              1              219
  1              1              221
[1] 2 2
[1] FALSE
D35V6, binary
                  cls
clus                 0   1
  RANBP9 MUTATED     0   1
  RANBP9 WILD-TYPE 276   8
[1] "tbl2"
                  cls
clus               [,1] [,2]
  RANBP9 MUTATED      0    1
  RANBP9 WILD-TYPE  276    8
   clus
vv  RANBP9 MUTATED RANBP9 WILD-TYPE
  0              0              276
  1              1                8
[1] 2 2
[1] FALSE
D35V7, binary
                  cls
clus                 0   1
  RANBP9 MUTATED     1   2
  RANBP9 WILD-TYPE 361 128
[1] "tbl2"
                  cls
clus               [,1] [,2]
  RANBP9 MUTATED      1    2
  RANBP9 WILD-TYPE  361  128
        clus
vv       RANBP9 MUTATED RANBP9 WILD-TYPE
  FEMALE              1              361
  MALE                2              128
[1] 2 2
[1] FALSE
D35V8, binary
                  cls
clus                 0   1
  RANBP9 MUTATED     0   3
  RANBP9 WILD-TYPE 179 295
[1] "tbl2"
                  cls
clus               [,1] [,2]
  RANBP9 MUTATED      0    3
  RANBP9 WILD-TYPE  179  295
     clus
vv    RANBP9 MUTATED RANBP9 WILD-TYPE
  NO               0              179
  YES              3              295
[1] 2 2
[1] FALSE
                  vv
clus               OTHER, SPECIFY THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  RANBP9 MUTATED                0                                             3
  RANBP9 WILD-TYPE              7                                           345
                  vv
clus               THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  RANBP9 MUTATED                                                                        0
  RANBP9 WILD-TYPE                                                                    102
                  vv
clus               THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  RANBP9 MUTATED                                                                     0
  RANBP9 WILD-TYPE                                                                  35
D35V9, multiclass
                                                                        clus
vv                                                                       RANBP9 MUTATED
  OTHER, SPECIFY                                                                      0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                       3
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)              0
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                 0
                                                                        clus
vv                                                                       RANBP9 WILD-TYPE
  OTHER, SPECIFY                                                                        7
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                       345
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)              102
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                  35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D35V10, binary
                  cls
clus                 0   1
  RANBP9 MUTATED     3   0
  RANBP9 WILD-TYPE 412  17
[1] "tbl2"
                  cls
clus               [,1] [,2]
  RANBP9 MUTATED      3    0
  RANBP9 WILD-TYPE  412   17
     clus
vv    RANBP9 MUTATED RANBP9 WILD-TYPE
  NO               3              412
  YES              0               17
[1] 2 2
[1] FALSE
                  vv
clus               MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  RANBP9 MUTATED              0                       1    2
  RANBP9 WILD-TYPE          130                      17  326
                  vv
clus               VERY ADVANCED (T4B)
  RANBP9 MUTATED                     0
  RANBP9 WILD-TYPE                   1
D35V11, multiclass
                         clus
vv                        RANBP9 MUTATED RANBP9 WILD-TYPE
  MINIMAL (T3)                         0              130
  MODERATE/ADVANCED (T4A)              1               17
  NONE                                 2              326
  VERY ADVANCED (T4B)                  0                1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus                R0  R1  R2  RX
  RANBP9 MUTATED     2   0   0   1
  RANBP9 WILD-TYPE 377  51   4  29
D35V12, multiclass
    clus
vv   RANBP9 MUTATED RANBP9 WILD-TYPE
  R0              2              377
  R1              0               51
  R2              0                4
  RX              1               29
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D35V13, continuous
[1] "Remove cluster labels:" "RANBP9 MUTATED"        
clus
  RANBP9 MUTATED RANBP9 WILD-TYPE 
               2              376 
      TCGA-BJ-A290       TCGA-BJ-A45K       TCGA-CE-A13K       TCGA-DE-A0XZ 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A2PR       TCGA-DJ-A3UU       TCGA-DJ-A3UW       TCGA-DJ-A3V4 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A3VI       TCGA-DJ-A3VK       TCGA-E3-A3E5       TCGA-EL-A3CR 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A3CS       TCGA-EL-A3CY       TCGA-EL-A3D0       TCGA-EL-A3D5 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A3GQ       TCGA-EL-A3H8       TCGA-EM-A3AQ       TCGA-ET-A3BO 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-ET-A3BV       TCGA-J8-A3NZ       TCGA-J8-A4HW       TCGA-4C-A93U 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-BJ-A0Z0       TCGA-BJ-A0Z3       TCGA-BJ-A0Z9       TCGA-BJ-A0ZA 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-BJ-A0ZB       TCGA-BJ-A0ZH       TCGA-BJ-A0ZJ       TCGA-BJ-A18Y 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-BJ-A18Z       TCGA-BJ-A191       TCGA-BJ-A28R       TCGA-BJ-A28T 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-BJ-A28X       TCGA-BJ-A28Z       TCGA-BJ-A2N8       TCGA-BJ-A2N9 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-BJ-A2NA       TCGA-BJ-A3EZ       TCGA-BJ-A3PR       TCGA-BJ-A3PU 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-BJ-A45D       TCGA-BJ-A45E       TCGA-BJ-A45G       TCGA-BJ-A45I 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-BJ-A45J       TCGA-BJ-A4O8       TCGA-BJ-A4O9       TCGA-CE-A3MD 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-CE-A483       TCGA-CE-A484       TCGA-CE-A485       TCGA-DE-A0Y2 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DE-A0Y3       TCGA-DE-A3KN       TCGA-DE-A4M8       TCGA-DE-A4MA 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DE-A4MB       TCGA-DE-A4MC       TCGA-DE-A4MD       TCGA-DE-A69K 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DE-A7U5       TCGA-DJ-A13M       TCGA-DJ-A13O       TCGA-DJ-A13R 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A13T       TCGA-DJ-A13V       TCGA-DJ-A13W       TCGA-DJ-A13X 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A1QG       TCGA-DJ-A1QH       TCGA-DJ-A1QM       TCGA-DJ-A2PO 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A2PP       TCGA-DJ-A2PQ       TCGA-DJ-A2PS       TCGA-DJ-A2PT 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A2PU       TCGA-DJ-A2PV       TCGA-DJ-A2PW       TCGA-DJ-A2PX 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A2PY       TCGA-DJ-A2PZ       TCGA-DJ-A2Q0       TCGA-DJ-A2Q1 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A2Q2       TCGA-DJ-A2Q3       TCGA-DJ-A2Q4       TCGA-DJ-A2Q5 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A2Q6       TCGA-DJ-A2Q7       TCGA-DJ-A2Q8       TCGA-DJ-A2Q9 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A2QA       TCGA-DJ-A2QB       TCGA-DJ-A3UK       TCGA-DJ-A3UM 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A3UN       TCGA-DJ-A3UO       TCGA-DJ-A3UP       TCGA-DJ-A3UQ 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A3UR       TCGA-DJ-A3UX       TCGA-DJ-A3UZ       TCGA-DJ-A3V0 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A3V2       TCGA-DJ-A3V3       TCGA-DJ-A3V5       TCGA-DJ-A3V7 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A3V8       TCGA-DJ-A3V9       TCGA-DJ-A3VA       TCGA-DJ-A3VB 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A3VD       TCGA-DJ-A3VF       TCGA-DJ-A3VG       TCGA-DJ-A3VJ 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A3VL       TCGA-DJ-A4UL       TCGA-DJ-A4UP       TCGA-DJ-A4UQ 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A4UR       TCGA-DJ-A4UW       TCGA-DJ-A4V2       TCGA-DJ-A4V5 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DO-A1K0       TCGA-DO-A2HM       TCGA-E3-A3DY       TCGA-E3-A3DZ 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-E3-A3E0       TCGA-E3-A3E1       TCGA-E3-A3E2       TCGA-E3-A3E3 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-E8-A242       TCGA-E8-A2EA       TCGA-E8-A2JQ       TCGA-E8-A414 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-E8-A415       TCGA-E8-A417       TCGA-E8-A419       TCGA-E8-A433 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-E8-A436       TCGA-E8-A438       TCGA-E8-A44K       TCGA-EL-A3CM 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A3CN       TCGA-EL-A3CO       TCGA-EL-A3CT       TCGA-EL-A3CU 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A3CV       TCGA-EL-A3CW       TCGA-EL-A3CX       TCGA-EL-A3CZ 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A3D1       TCGA-EL-A3D4       TCGA-EL-A3D6       TCGA-EL-A3GO 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A3GP       TCGA-EL-A3GS       TCGA-EL-A3GU       TCGA-EL-A3GV 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A3GX       TCGA-EL-A3H3       TCGA-EL-A3H4       TCGA-EL-A3H5 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A3H7       TCGA-EL-A3MW       TCGA-EL-A3MX       TCGA-EL-A3MZ 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A3N2       TCGA-EL-A3T0       TCGA-EL-A3T1       TCGA-EL-A3T2 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A3TB       TCGA-EL-A3ZH       TCGA-EL-A3ZK       TCGA-EL-A3ZL 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A3ZM       TCGA-EL-A3ZN       TCGA-EL-A3ZO       TCGA-EL-A3ZP 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A3ZS       TCGA-EL-A4JV       TCGA-EL-A4JW       TCGA-EL-A4JX 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A4JZ       TCGA-EL-A4K0       TCGA-EL-A4K1       TCGA-EL-A4K2 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A4K4       TCGA-EL-A4K6       TCGA-EL-A4K7       TCGA-EL-A4KD 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A4KG       TCGA-EL-A4KI       TCGA-EM-A1CS       TCGA-EM-A1CT 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EM-A1CU       TCGA-EM-A1CV       TCGA-EM-A1CW       TCGA-EM-A1YC 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EM-A1YD       TCGA-EM-A1YE       TCGA-EM-A22I       TCGA-EM-A22J 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EM-A22K       TCGA-EM-A22L       TCGA-EM-A22M       TCGA-EM-A22N 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EM-A22O       TCGA-EM-A22P       TCGA-EM-A22Q       TCGA-EM-A2CK 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EM-A2CN       TCGA-EM-A2CP       TCGA-EM-A2CQ       TCGA-EM-A2CR 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EM-A2CS       TCGA-EM-A2CT       TCGA-EM-A2CU       TCGA-EM-A2OV 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EM-A2OX       TCGA-EM-A2OY       TCGA-EM-A2OZ       TCGA-EM-A2P0 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EM-A2P1       TCGA-EM-A2P2       TCGA-EM-A3AJ       TCGA-EM-A3AK 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EM-A3AL       TCGA-EM-A3AN       TCGA-EM-A3AO       TCGA-EM-A3AR 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EM-A3FJ       TCGA-EM-A3FK       TCGA-EM-A3FM       TCGA-EM-A3FN 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EM-A3FP       TCGA-EM-A3FQ       TCGA-EM-A3FR       TCGA-EM-A3O3 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EM-A3O8       TCGA-EM-A3O9       TCGA-EM-A3OA       TCGA-EM-A3OB 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EM-A3ST       TCGA-EM-A3SU       TCGA-EM-A3SX       TCGA-EM-A3SZ 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EM-A4FF       TCGA-EM-A4FM       TCGA-EM-A4FN       TCGA-EM-A4FO 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EM-A4FQ       TCGA-EM-A4FR       TCGA-EM-A4FV       TCGA-EM-A4G1 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-ET-A25G       TCGA-ET-A25I       TCGA-ET-A25J       TCGA-ET-A25K 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-ET-A25O       TCGA-ET-A2MX       TCGA-ET-A2MZ       TCGA-ET-A2N0 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-ET-A2N1       TCGA-ET-A2N4       TCGA-ET-A39K       TCGA-ET-A39L 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-ET-A39O       TCGA-ET-A39P       TCGA-ET-A39R       TCGA-ET-A39S 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-ET-A39T       TCGA-ET-A3BP       TCGA-ET-A3BQ       TCGA-ET-A3BS 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-ET-A3BT       TCGA-ET-A3BU       TCGA-ET-A3BX       TCGA-ET-A3DQ 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-ET-A3DR       TCGA-ET-A3DS       TCGA-ET-A3DT       TCGA-ET-A3DU 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-ET-A3DV       TCGA-ET-A3DW       TCGA-ET-A40P       TCGA-ET-A40Q 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-ET-A40R       TCGA-ET-A40S       TCGA-ET-A40T       TCGA-ET-A4KN 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-FE-A22Z       TCGA-FE-A230       TCGA-FE-A231       TCGA-FE-A232 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-FE-A233       TCGA-FE-A234       TCGA-FE-A235       TCGA-FE-A236 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-FE-A237       TCGA-FE-A23A       TCGA-FE-A3PB       TCGA-FE-A3PC 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-FE-A3PD       TCGA-FK-A3S3       TCGA-FK-A3SB       TCGA-FK-A3SE 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-FK-A3SG       TCGA-FK-A4UB       TCGA-FY-A2QD       TCGA-FY-A3I4 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-FY-A3I5       TCGA-FY-A3NM       TCGA-FY-A3NN       TCGA-FY-A3ON 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-FY-A3R6       TCGA-FY-A3R7       TCGA-FY-A3R9       TCGA-FY-A3TY 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-FY-A3W9       TCGA-FY-A3YR       TCGA-FY-A40K       TCGA-FY-A40L 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-FY-A40M       TCGA-FY-A40N       TCGA-FY-A4B3       TCGA-FY-A4B4 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-GE-A2C6       TCGA-H2-A26U       TCGA-H2-A2K9       TCGA-H2-A3RH 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-H2-A3RI       TCGA-H2-A421       TCGA-H2-A422       TCGA-IM-A3EB 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-IM-A3ED       TCGA-IM-A3U2       TCGA-IM-A3U3       TCGA-IM-A41Y 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-IM-A41Z       TCGA-IM-A420       TCGA-IM-A4EB       TCGA-J8-A3O0 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-J8-A3O1       TCGA-J8-A3O2       TCGA-J8-A3YD       TCGA-J8-A3YE 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-J8-A3YF       TCGA-J8-A3YG       TCGA-J8-A3YH       TCGA-J8-A42S 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-J8-A4HY       TCGA-KS-A41F       TCGA-KS-A41I       TCGA-KS-A41J 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-KS-A41L       TCGA-KS-A4I1       TCGA-KS-A4I3       TCGA-KS-A4I5 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-KS-A4I7       TCGA-KS-A4I9       TCGA-KS-A4IB       TCGA-KS-A4IC 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-KS-A4ID       TCGA-L6-A4EP       TCGA-L6-A4EQ       TCGA-L6-A4EU 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-MK-A4N6       TCGA-MK-A4N7       TCGA-MK-A4N9       TCGA-QD-A8IV 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
D35V14, binary
                  cls
clus                 0   1
  RANBP9 MUTATED     2   1
  RANBP9 WILD-TYPE 219 261
[1] "tbl2"
                  cls
clus               [,1] [,2]
  RANBP9 MUTATED      2    1
  RANBP9 WILD-TYPE  219  261
            clus
vv           RANBP9 MUTATED RANBP9 WILD-TYPE
  MULTIFOCAL              2              219
  UNIFOCAL                1              261
[1] 2 2
[1] FALSE
D35V15, continuous
[1] "Remove cluster labels:" "RANBP9 MUTATED"        
clus
  RANBP9 MUTATED RANBP9 WILD-TYPE 
               2              391 
      TCGA-BJ-A290       TCGA-BJ-A45K       TCGA-CE-A13K       TCGA-DE-A0XZ 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A13L       TCGA-DJ-A2PR       TCGA-DJ-A3UU       TCGA-DJ-A3UW 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A3V4       TCGA-DJ-A3VK       TCGA-EL-A3CR       TCGA-EL-A3CS 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A3CY       TCGA-EL-A3D0       TCGA-EL-A3D5       TCGA-EL-A3GQ 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A3H2       TCGA-EL-A3H8       TCGA-EL-A3N3       TCGA-EM-A3AQ 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-ET-A3BO       TCGA-ET-A3BV       TCGA-FY-A76V       TCGA-L6-A4ET 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-MK-A84Z       TCGA-4C-A93U       TCGA-BJ-A0Z2       TCGA-BJ-A0Z3 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-BJ-A0Z9       TCGA-BJ-A0ZA       TCGA-BJ-A0ZB       TCGA-BJ-A0ZC 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-BJ-A0ZE       TCGA-BJ-A0ZG       TCGA-BJ-A0ZH       TCGA-BJ-A0ZJ 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-BJ-A18Y       TCGA-BJ-A18Z       TCGA-BJ-A191       TCGA-BJ-A192 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-BJ-A28R       TCGA-BJ-A28S       TCGA-BJ-A28T       TCGA-BJ-A28V 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-BJ-A28Z       TCGA-BJ-A2N8       TCGA-BJ-A2N9       TCGA-BJ-A2P4 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-BJ-A3PU       TCGA-BJ-A45D       TCGA-BJ-A45E       TCGA-BJ-A45F 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-BJ-A45G       TCGA-BJ-A45H       TCGA-BJ-A45I       TCGA-BJ-A45J 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-BJ-A4O8       TCGA-BJ-A4O9       TCGA-CE-A27D       TCGA-CE-A3MD 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-CE-A3ME       TCGA-CE-A481       TCGA-CE-A482       TCGA-CE-A483 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-CE-A484       TCGA-CE-A485       TCGA-DE-A0Y2       TCGA-DE-A0Y3 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DE-A2OL       TCGA-DE-A3KN       TCGA-DE-A4M8       TCGA-DE-A4M9 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DE-A4MA       TCGA-DE-A4MB       TCGA-DE-A4MC       TCGA-DE-A4MD 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DE-A69J       TCGA-DE-A69K       TCGA-DE-A7U5       TCGA-DJ-A13M 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A13O       TCGA-DJ-A13R       TCGA-DJ-A13S       TCGA-DJ-A13U 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A13V       TCGA-DJ-A13W       TCGA-DJ-A13X       TCGA-DJ-A1QD 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A1QE       TCGA-DJ-A1QF       TCGA-DJ-A1QG       TCGA-DJ-A1QH 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A1QI       TCGA-DJ-A1QL       TCGA-DJ-A1QM       TCGA-DJ-A1QN 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A1QO       TCGA-DJ-A1QQ       TCGA-DJ-A2PN       TCGA-DJ-A2PO 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A2PP       TCGA-DJ-A2PQ       TCGA-DJ-A2PS       TCGA-DJ-A2PT 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A2PU       TCGA-DJ-A2PV       TCGA-DJ-A2PW       TCGA-DJ-A2PY 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A2PZ       TCGA-DJ-A2Q0       TCGA-DJ-A2Q1       TCGA-DJ-A2Q2 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A2Q3       TCGA-DJ-A2Q4       TCGA-DJ-A2Q5       TCGA-DJ-A2Q6 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A2Q7       TCGA-DJ-A2Q8       TCGA-DJ-A2Q9       TCGA-DJ-A2QA 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A2QC       TCGA-DJ-A3UK       TCGA-DJ-A3UM       TCGA-DJ-A3UN 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A3UO       TCGA-DJ-A3UP       TCGA-DJ-A3UQ       TCGA-DJ-A3UR 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A3US       TCGA-DJ-A3UT       TCGA-DJ-A3UX       TCGA-DJ-A3UY 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A3V0       TCGA-DJ-A3V2       TCGA-DJ-A3V3       TCGA-DJ-A3V5 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A3V7       TCGA-DJ-A3V8       TCGA-DJ-A3VA       TCGA-DJ-A3VB 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A3VD       TCGA-DJ-A3VE       TCGA-DJ-A3VF       TCGA-DJ-A3VG 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A3VJ       TCGA-DJ-A3VL       TCGA-DJ-A3VM       TCGA-DJ-A4UL 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A4UP       TCGA-DJ-A4UQ       TCGA-DJ-A4UT       TCGA-DJ-A4V0 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A4V2       TCGA-DJ-A4V4       TCGA-DJ-A4V5       TCGA-DO-A1JZ 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DO-A1K0       TCGA-DO-A2HM       TCGA-E3-A3DY       TCGA-E3-A3DZ 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-E3-A3E0       TCGA-E3-A3E1       TCGA-E3-A3E2       TCGA-E3-A3E3 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-E8-A419       TCGA-EL-A3CN       TCGA-EL-A3CO       TCGA-EL-A3CT 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A3CU       TCGA-EL-A3CV       TCGA-EL-A3CW       TCGA-EL-A3CX 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A3CZ       TCGA-EL-A3D1       TCGA-EL-A3D4       TCGA-EL-A3D6 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A3GO       TCGA-EL-A3GP       TCGA-EL-A3GR       TCGA-EL-A3GS 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A3GU       TCGA-EL-A3GV       TCGA-EL-A3GW       TCGA-EL-A3GX 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A3GY       TCGA-EL-A3GZ       TCGA-EL-A3H3       TCGA-EL-A3H4 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A3H5       TCGA-EL-A3H7       TCGA-EL-A3MW       TCGA-EL-A3MX 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A3MZ       TCGA-EL-A3N2       TCGA-EL-A3T1       TCGA-EL-A3T2 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A3T3       TCGA-EL-A3T6       TCGA-EL-A3T7       TCGA-EL-A3T8 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A3T9       TCGA-EL-A3TA       TCGA-EL-A3TB       TCGA-EL-A3ZG 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A3ZH       TCGA-EL-A3ZK       TCGA-EL-A3ZL       TCGA-EL-A3ZM 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A3ZN       TCGA-EL-A3ZO       TCGA-EL-A3ZP       TCGA-EL-A3ZQ 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A3ZR       TCGA-EL-A3ZS       TCGA-EL-A3ZT       TCGA-EL-A4JV 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A4JW       TCGA-EL-A4JX       TCGA-EL-A4JZ       TCGA-EL-A4K0 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A4K1       TCGA-EL-A4K2       TCGA-EL-A4K4       TCGA-EL-A4K6 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A4K7       TCGA-EL-A4K9       TCGA-EL-A4KD       TCGA-EL-A4KG 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A4KH       TCGA-EL-A4KI       TCGA-EM-A1CS       TCGA-EM-A1CT 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EM-A1CU       TCGA-EM-A1CV       TCGA-EM-A1CW       TCGA-EM-A1YA 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EM-A1YB       TCGA-EM-A1YC       TCGA-EM-A1YD       TCGA-EM-A1YE 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EM-A22I       TCGA-EM-A22J       TCGA-EM-A22K       TCGA-EM-A22L 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EM-A22N       TCGA-EM-A22O       TCGA-EM-A22P       TCGA-EM-A22Q 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EM-A2CJ       TCGA-EM-A2CK       TCGA-EM-A2CL       TCGA-EM-A2CN 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EM-A2CO       TCGA-EM-A2CP       TCGA-EM-A2CQ       TCGA-EM-A2CR 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EM-A2CS       TCGA-EM-A2CT       TCGA-EM-A2CU       TCGA-EM-A2OW 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EM-A2OX       TCGA-EM-A2OY       TCGA-EM-A2P0       TCGA-EM-A2P1 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EM-A2P2       TCGA-EM-A2P3       TCGA-EM-A3AI       TCGA-EM-A3AJ 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EM-A3AK       TCGA-EM-A3AL       TCGA-EM-A3AN       TCGA-EM-A3AO 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EM-A3AP       TCGA-EM-A3AR       TCGA-EM-A3FJ       TCGA-EM-A3FM 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EM-A3FN       TCGA-EM-A3FP       TCGA-EM-A3FR       TCGA-EM-A3O3 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EM-A3O6       TCGA-EM-A3O7       TCGA-EM-A3O8       TCGA-EM-A3O9 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EM-A3OA       TCGA-EM-A3OB       TCGA-EM-A3ST       TCGA-EM-A3SU 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EM-A3SX       TCGA-EM-A3SY       TCGA-EM-A3SZ       TCGA-EM-A4FF 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EM-A4FH       TCGA-EM-A4FK       TCGA-EM-A4FM       TCGA-EM-A4FN 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EM-A4FQ       TCGA-EM-A4FR       TCGA-EM-A4FU       TCGA-EM-A4FV 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EM-A4G1       TCGA-ET-A25G       TCGA-ET-A25I       TCGA-ET-A25J 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-ET-A25K       TCGA-ET-A25O       TCGA-ET-A25R       TCGA-ET-A2MY 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-ET-A2MZ       TCGA-ET-A2N0       TCGA-ET-A2N5       TCGA-ET-A39J 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-ET-A39M       TCGA-ET-A39N       TCGA-ET-A39O       TCGA-ET-A39P 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-ET-A39T       TCGA-ET-A3BN       TCGA-ET-A3BP       TCGA-ET-A3BQ 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-ET-A3BS       TCGA-ET-A3BT       TCGA-ET-A3BU       TCGA-ET-A3BW 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-ET-A3BX       TCGA-ET-A3DO       TCGA-ET-A3DS       TCGA-ET-A3DT 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-ET-A40P       TCGA-ET-A40Q       TCGA-ET-A40R       TCGA-ET-A40S 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-ET-A4KN       TCGA-ET-A4KQ       TCGA-FE-A22Z       TCGA-FE-A230 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-FE-A232       TCGA-FE-A233       TCGA-FE-A234       TCGA-FE-A235 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-FE-A236       TCGA-FE-A237       TCGA-FE-A23A       TCGA-FE-A3PA 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-FE-A3PB       TCGA-FE-A3PC       TCGA-FE-A3PD       TCGA-FY-A2QD 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-FY-A3I4       TCGA-FY-A3I5       TCGA-FY-A3ON       TCGA-FY-A3R8 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-FY-A3TY       TCGA-FY-A3W9       TCGA-FY-A3YR       TCGA-FY-A40K 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-FY-A40L       TCGA-FY-A40M       TCGA-FY-A40N       TCGA-FY-A4B3 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-GE-A2C6       TCGA-H2-A421       TCGA-IM-A3EB       TCGA-IM-A3ED 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-IM-A3U2       TCGA-IM-A3U3       TCGA-IM-A41Y       TCGA-IM-A41Z 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-IM-A420       TCGA-IM-A4EB       TCGA-J8-A3O0       TCGA-J8-A3YD 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-J8-A3YG       TCGA-KS-A41F       TCGA-KS-A41I       TCGA-KS-A41J 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-KS-A41L       TCGA-KS-A4I3       TCGA-KS-A4I5       TCGA-KS-A4I7 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-KS-A4I9       TCGA-KS-A4IB       TCGA-KS-A4IC       TCGA-KS-A4ID 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-L6-A4EP       TCGA-L6-A4EQ       TCGA-L6-A4EU       TCGA-MK-A4N6 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-MK-A4N7       TCGA-MK-A4N9       TCGA-QD-A8IV 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
                  vv
clus               AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  RANBP9 MUTATED                                  0     0
  RANBP9 WILD-TYPE                                1    51
                  vv
clus               BLACK OR AFRICAN AMERICAN WHITE
  RANBP9 MUTATED                           0     2
  RANBP9 WILD-TYPE                        26   320
D35V16, multiclass
[1] "Remove cluster labels:" "RANBP9 MUTATED"        
clus
  RANBP9 MUTATED RANBP9 WILD-TYPE 
               2              398 
      TCGA-BJ-A290       TCGA-BJ-A45K       TCGA-CE-A13K       TCGA-DE-A0XZ 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A13L       TCGA-DJ-A2PR       TCGA-DJ-A3UU       TCGA-DJ-A3UW 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A3V4       TCGA-DJ-A3VI       TCGA-DJ-A3VK       TCGA-E3-A3E5 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A3CR       TCGA-EL-A3CS       TCGA-EL-A3CY       TCGA-EL-A3D0 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A3D5       TCGA-EL-A3GQ       TCGA-EL-A3H2       TCGA-EL-A3H8 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A3N3       TCGA-ET-A3BO       TCGA-ET-A3BV       TCGA-FK-A3SD 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-FY-A76V       TCGA-J8-A3NZ       TCGA-J8-A4HW       TCGA-L6-A4ET 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-MK-A84Z       TCGA-4C-A93U       TCGA-BJ-A0YZ       TCGA-BJ-A0Z2 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-BJ-A0Z3       TCGA-BJ-A0Z9       TCGA-BJ-A0ZA       TCGA-BJ-A0ZB 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-BJ-A0ZC       TCGA-BJ-A0ZE       TCGA-BJ-A0ZG       TCGA-BJ-A0ZH 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-BJ-A0ZJ       TCGA-BJ-A18Y       TCGA-BJ-A18Z       TCGA-BJ-A191 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-BJ-A192       TCGA-BJ-A28R       TCGA-BJ-A28S       TCGA-BJ-A28T 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-BJ-A28V       TCGA-BJ-A28X       TCGA-BJ-A28Z       TCGA-BJ-A2N7 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-BJ-A2N8       TCGA-BJ-A2N9       TCGA-BJ-A2NA       TCGA-BJ-A2P4 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-BJ-A3EZ       TCGA-BJ-A3F0       TCGA-BJ-A3PR       TCGA-BJ-A3PT 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-BJ-A3PU       TCGA-BJ-A45D       TCGA-BJ-A45E       TCGA-BJ-A45F 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-BJ-A45G       TCGA-BJ-A45H       TCGA-BJ-A45I       TCGA-BJ-A45J 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-BJ-A4O8       TCGA-BJ-A4O9       TCGA-CE-A27D       TCGA-CE-A3MD 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-CE-A3ME       TCGA-CE-A481       TCGA-CE-A482       TCGA-CE-A483 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-CE-A484       TCGA-CE-A485       TCGA-DE-A0Y2       TCGA-DE-A0Y3 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DE-A2OL       TCGA-DE-A3KN       TCGA-DE-A4M8       TCGA-DE-A4M9 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DE-A4MA       TCGA-DE-A4MB       TCGA-DE-A4MC       TCGA-DE-A4MD 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DE-A69J       TCGA-DE-A69K       TCGA-DE-A7U5       TCGA-DJ-A13M 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A13O       TCGA-DJ-A13P       TCGA-DJ-A13R       TCGA-DJ-A13S 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A13T       TCGA-DJ-A13U       TCGA-DJ-A13W       TCGA-DJ-A1QD 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A1QE       TCGA-DJ-A1QF       TCGA-DJ-A1QG       TCGA-DJ-A1QH 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A1QI       TCGA-DJ-A1QM       TCGA-DJ-A1QO       TCGA-DJ-A1QQ 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A2PN       TCGA-DJ-A2PO       TCGA-DJ-A2PQ       TCGA-DJ-A2PS 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A2PT       TCGA-DJ-A2PU       TCGA-DJ-A2PV       TCGA-DJ-A2PW 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A2PX       TCGA-DJ-A2PY       TCGA-DJ-A2PZ       TCGA-DJ-A2Q0 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A2Q1       TCGA-DJ-A2Q2       TCGA-DJ-A2Q3       TCGA-DJ-A2Q4 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A2Q5       TCGA-DJ-A2Q6       TCGA-DJ-A2Q7       TCGA-DJ-A2Q9 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A2QA       TCGA-DJ-A2QB       TCGA-DJ-A3UK       TCGA-DJ-A3UM 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A3UN       TCGA-DJ-A3UO       TCGA-DJ-A3UQ       TCGA-DJ-A3UR 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A3US       TCGA-DJ-A3UT       TCGA-DJ-A3UX       TCGA-DJ-A3UY 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A3UZ       TCGA-DJ-A3V2       TCGA-DJ-A3V3       TCGA-DJ-A3V5 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A3V7       TCGA-DJ-A3V8       TCGA-DJ-A3V9       TCGA-DJ-A3VD 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A3VE       TCGA-DJ-A3VF       TCGA-DJ-A3VG       TCGA-DJ-A3VJ 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A3VL       TCGA-DJ-A3VM       TCGA-DJ-A4UL       TCGA-DJ-A4UP 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A4UQ       TCGA-DJ-A4UR       TCGA-DJ-A4UT       TCGA-DJ-A4UW 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DJ-A4V0       TCGA-DJ-A4V4       TCGA-DJ-A4V5       TCGA-DO-A1JZ 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-DO-A1K0       TCGA-DO-A2HM       TCGA-E3-A3DY       TCGA-E3-A3DZ 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-E3-A3E0       TCGA-E3-A3E1       TCGA-E3-A3E2       TCGA-E3-A3E3 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-E8-A242       TCGA-E8-A2EA       TCGA-E8-A2JQ       TCGA-E8-A3X7 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-E8-A413       TCGA-E8-A414       TCGA-E8-A415       TCGA-E8-A416 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-E8-A417       TCGA-E8-A419       TCGA-E8-A432       TCGA-E8-A433 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-E8-A434       TCGA-E8-A436       TCGA-E8-A437       TCGA-E8-A438 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-E8-A44K       TCGA-E8-A44M       TCGA-EL-A3CL       TCGA-EL-A3CM 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A3CN       TCGA-EL-A3CO       TCGA-EL-A3CP       TCGA-EL-A3CT 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A3CU       TCGA-EL-A3CV       TCGA-EL-A3CW       TCGA-EL-A3CX 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A3CZ       TCGA-EL-A3D1       TCGA-EL-A3D4       TCGA-EL-A3D6 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A3GO       TCGA-EL-A3GP       TCGA-EL-A3GR       TCGA-EL-A3GS 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A3GU       TCGA-EL-A3GV       TCGA-EL-A3GW       TCGA-EL-A3GX 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A3GY       TCGA-EL-A3GZ       TCGA-EL-A3H1       TCGA-EL-A3H3 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A3H4       TCGA-EL-A3H5       TCGA-EL-A3H7       TCGA-EL-A3MW 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A3MX       TCGA-EL-A3MZ       TCGA-EL-A3N2       TCGA-EL-A3T0 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A3T1       TCGA-EL-A3T2       TCGA-EL-A3T3       TCGA-EL-A3T6 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A3T7       TCGA-EL-A3T8       TCGA-EL-A3T9       TCGA-EL-A3TA 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A3TB       TCGA-EL-A3ZG       TCGA-EL-A3ZH       TCGA-EL-A3ZK 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A3ZL       TCGA-EL-A3ZN       TCGA-EL-A3ZO       TCGA-EL-A3ZP 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A3ZQ       TCGA-EL-A3ZR       TCGA-EL-A3ZS       TCGA-EL-A3ZT 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A4JV       TCGA-EL-A4JW       TCGA-EL-A4JX       TCGA-EL-A4JZ 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A4K0       TCGA-EL-A4K1       TCGA-EL-A4K2       TCGA-EL-A4K4 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A4K6       TCGA-EL-A4K7       TCGA-EL-A4K9       TCGA-EL-A4KD 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EL-A4KG       TCGA-EL-A4KH       TCGA-EL-A4KI       TCGA-EM-A22M 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-EM-A22O       TCGA-EM-A2OV       TCGA-EM-A3AI       TCGA-ET-A25G 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-ET-A25I       TCGA-ET-A25J       TCGA-ET-A25K       TCGA-ET-A25O 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-ET-A25R       TCGA-ET-A2MX       TCGA-ET-A2MY       TCGA-ET-A2MZ 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-ET-A2N0       TCGA-ET-A2N1       TCGA-ET-A2N3       TCGA-ET-A2N4 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-ET-A2N5       TCGA-ET-A39I       TCGA-ET-A39J       TCGA-ET-A39K 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-ET-A39M       TCGA-ET-A39N       TCGA-ET-A39O       TCGA-ET-A39P 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-ET-A39R       TCGA-ET-A39S       TCGA-ET-A39T       TCGA-ET-A3BN 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-ET-A3BP       TCGA-ET-A3BQ       TCGA-ET-A3BS       TCGA-ET-A3BT 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-ET-A3BU       TCGA-ET-A3BW       TCGA-ET-A3BX       TCGA-ET-A3DO 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-ET-A3DP       TCGA-ET-A3DQ       TCGA-ET-A3DR       TCGA-ET-A3DS 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-ET-A3DT       TCGA-ET-A3DU       TCGA-ET-A3DV       TCGA-ET-A3DW 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-ET-A40P       TCGA-ET-A40Q       TCGA-ET-A40R       TCGA-ET-A40S 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-ET-A40T       TCGA-ET-A4KN       TCGA-ET-A4KQ       TCGA-FE-A22Z 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-FE-A230       TCGA-FE-A231       TCGA-FE-A232       TCGA-FE-A233 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-FE-A234       TCGA-FE-A235       TCGA-FE-A236       TCGA-FE-A237 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-FE-A23A       TCGA-FE-A3PA       TCGA-FE-A3PB       TCGA-FE-A3PC 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-FE-A3PD       TCGA-FK-A3S3       TCGA-FK-A3SB       TCGA-FK-A3SE 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-FK-A3SG       TCGA-FK-A4UB       TCGA-FY-A2QD       TCGA-FY-A3BL 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-FY-A3I4       TCGA-FY-A3I5       TCGA-FY-A3NM       TCGA-FY-A3NP 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-FY-A3ON       TCGA-FY-A3R6       TCGA-FY-A3R7       TCGA-FY-A3R8 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-FY-A3R9       TCGA-FY-A3RA       TCGA-FY-A3TY       TCGA-FY-A3W9 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-FY-A3WA       TCGA-FY-A3YR       TCGA-FY-A40K       TCGA-FY-A40L 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-FY-A40M       TCGA-FY-A40N       TCGA-FY-A4B0       TCGA-FY-A4B3 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-FY-A4B4       TCGA-GE-A2C6       TCGA-H2-A26U       TCGA-H2-A2K9 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-H2-A3RH       TCGA-H2-A3RI       TCGA-H2-A421       TCGA-H2-A422 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-IM-A3EB       TCGA-IM-A3ED       TCGA-IM-A3U2       TCGA-IM-A3U3 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-IM-A41Y       TCGA-IM-A41Z       TCGA-IM-A420       TCGA-IM-A4EB 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-J8-A3O0       TCGA-J8-A3O1       TCGA-J8-A3O2       TCGA-J8-A3YD 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-J8-A3YE       TCGA-J8-A3YF       TCGA-J8-A3YG       TCGA-J8-A3YH 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-J8-A42S       TCGA-J8-A4HY       TCGA-KS-A41F       TCGA-KS-A41I 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-KS-A41J       TCGA-KS-A41L       TCGA-KS-A4I1       TCGA-KS-A4I3 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-KS-A4I5       TCGA-KS-A4I7       TCGA-KS-A4I9       TCGA-KS-A4IB 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-KS-A4IC       TCGA-KS-A4ID       TCGA-L6-A4EP       TCGA-L6-A4EQ 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-L6-A4EU       TCGA-MK-A4N6       TCGA-MK-A4N7       TCGA-MK-A4N9 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
      TCGA-QD-A8IV       TCGA-E8-A418 
"RANBP9 WILD-TYPE" "RANBP9 WILD-TYPE" 
D35V17, binary
                  cls
clus                 0   1
  RANBP9 MUTATED     0   2
  RANBP9 WILD-TYPE  38 349
[1] "tbl2"
                  cls
clus               [,1] [,2]
  RANBP9 MUTATED      0    2
  RANBP9 WILD-TYPE   38  349
                        clus
vv                       RANBP9 MUTATED RANBP9 WILD-TYPE
  HISPANIC OR LATINO                  0               38
  NOT HISPANIC OR LATINO              2              349
[1] 2 2
[1] FALSE

Clustering(36) Variable = DGCR8 MUTATION ANALYSIS
D36V1, survival
                 sevent
clus2               0   1
  DGCR8 MUTATED     3   0
  DGCR8 WILD-TYPE 474  14
  DGCR8 MUTATED DGCR8 WILD-TYPE 
              3             488 
  DGCR8 MUTATED DGCR8 WILD-TYPE 
              0              14 
$`DGCR8 MUTATED`
TCGA-DJ-A2Q6 TCGA-EM-A2CR TCGA-EM-A3AP 
       36.46        13.64         8.35 

$`DGCR8 WILD-TYPE`
TCGA-BJ-A290 TCGA-BJ-A45K TCGA-CE-A13K TCGA-DE-A0XZ TCGA-DJ-A13L TCGA-DJ-A2PR 
       30.21        23.18        12.66        35.84         9.96        27.45 
TCGA-DJ-A3UU TCGA-DJ-A3UW TCGA-DJ-A3V4 TCGA-DJ-A3VI TCGA-DJ-A3VK TCGA-E3-A3E5 
       23.44        59.57        42.54         3.12        24.76        39.95 
TCGA-EL-A3CR TCGA-EL-A3CS TCGA-EL-A3CY TCGA-EL-A3D0 TCGA-EL-A3D5 TCGA-EL-A3GQ 
        7.66        45.53         4.18       139.86        57.11        50.24 
TCGA-EL-A3H2 TCGA-EL-A3H8 TCGA-EL-A3MY TCGA-EL-A3N3 TCGA-EM-A3AQ TCGA-ET-A3BO 
       33.50       150.48        17.52       178.29        29.72        50.40 
TCGA-ET-A3BV TCGA-FK-A3SD TCGA-FY-A76V TCGA-J8-A3NZ TCGA-J8-A4HW TCGA-L6-A4ET 
       75.42         1.05         1.68        17.23         2.60        21.83 
TCGA-MK-A84Z TCGA-4C-A93U TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0Z3 
       23.93         4.24        24.79        13.78        49.78        16.34 
TCGA-BJ-A0Z9 TCGA-BJ-A0ZA TCGA-BJ-A0ZB TCGA-BJ-A0ZC TCGA-BJ-A0ZE TCGA-BJ-A0ZG 
       41.33        18.87         4.01        11.57        16.73        25.48 
TCGA-BJ-A0ZH TCGA-BJ-A0ZJ TCGA-BJ-A18Y TCGA-BJ-A18Z TCGA-BJ-A191 TCGA-BJ-A192 
       15.12        42.08        51.39        41.52         4.83        44.35 
TCGA-BJ-A28R TCGA-BJ-A28S TCGA-BJ-A28T TCGA-BJ-A28V TCGA-BJ-A28X TCGA-BJ-A28Z 
       42.15        21.04        35.54        32.45        30.97        11.08 
TCGA-BJ-A2N7 TCGA-BJ-A2N8 TCGA-BJ-A2N9 TCGA-BJ-A2NA TCGA-BJ-A2P4 TCGA-BJ-A3EZ 
       18.38        16.57        20.48        18.97        12.82        16.01 
TCGA-BJ-A3F0 TCGA-BJ-A3PR TCGA-BJ-A3PT TCGA-BJ-A3PU TCGA-BJ-A45D TCGA-BJ-A45E 
       13.94        36.39        23.31        18.64        10.88        21.01 
TCGA-BJ-A45F TCGA-BJ-A45G TCGA-BJ-A45H TCGA-BJ-A45I TCGA-BJ-A45J TCGA-BJ-A4O8 
        3.45        23.84        28.44        15.45        21.63        19.43 
TCGA-BJ-A4O9 TCGA-CE-A27D TCGA-CE-A3MD TCGA-CE-A3ME TCGA-CE-A481 TCGA-CE-A482 
       23.47        12.30        12.79        12.46        11.38        10.68 
TCGA-CE-A483 TCGA-CE-A484 TCGA-CE-A485 TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DE-A2OL 
       15.02        12.43        12.66        21.63        50.17        37.64 
TCGA-DE-A3KN TCGA-DE-A4M8 TCGA-DE-A4M9 TCGA-DE-A4MA TCGA-DE-A4MB TCGA-DE-A4MC 
       27.32        18.54        18.84        30.12        11.57        30.02 
TCGA-DE-A4MD TCGA-DE-A69J TCGA-DE-A69K TCGA-DE-A7U5 TCGA-DJ-A13M TCGA-DJ-A13O 
       25.12        14.70        14.27         2.76        48.79        38.17 
TCGA-DJ-A13P TCGA-DJ-A13R TCGA-DJ-A13S TCGA-DJ-A13T TCGA-DJ-A13U TCGA-DJ-A13V 
      169.32        18.58         8.71        56.19        52.27        43.17 
TCGA-DJ-A13W TCGA-DJ-A13X TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QG 
       52.37         8.32        48.07       135.91        30.61        44.98 
TCGA-DJ-A1QH TCGA-DJ-A1QI TCGA-DJ-A1QL TCGA-DJ-A1QM TCGA-DJ-A1QN TCGA-DJ-A1QO 
       42.51        14.96        17.59         6.02        42.58        47.41 
TCGA-DJ-A1QQ TCGA-DJ-A2PN TCGA-DJ-A2PO TCGA-DJ-A2PP TCGA-DJ-A2PQ TCGA-DJ-A2PS 
       17.56        10.09         7.99        30.58        35.41        26.20 
TCGA-DJ-A2PT TCGA-DJ-A2PU TCGA-DJ-A2PV TCGA-DJ-A2PW TCGA-DJ-A2PX TCGA-DJ-A2PY 
       38.83        33.96        31.99        34.85        28.96         8.78 
TCGA-DJ-A2PZ TCGA-DJ-A2Q0 TCGA-DJ-A2Q1 TCGA-DJ-A2Q2 TCGA-DJ-A2Q3 TCGA-DJ-A2Q4 
        8.42        34.36        37.74        43.96        40.24        33.93 
TCGA-DJ-A2Q5 TCGA-DJ-A2Q7 TCGA-DJ-A2Q8 TCGA-DJ-A2Q9 TCGA-DJ-A2QA TCGA-DJ-A2QB 
       37.48        35.11        39.09        35.90        33.53        35.18 
TCGA-DJ-A2QC TCGA-DJ-A3UK TCGA-DJ-A3UM TCGA-DJ-A3UN TCGA-DJ-A3UO TCGA-DJ-A3UP 
       39.95        36.92        31.04        32.42        31.46        16.41 
TCGA-DJ-A3UQ TCGA-DJ-A3UR TCGA-DJ-A3US TCGA-DJ-A3UT TCGA-DJ-A3UX TCGA-DJ-A3UY 
       19.56        36.33        32.81        36.33        11.34        35.87 
TCGA-DJ-A3UZ TCGA-DJ-A3V0 TCGA-DJ-A3V2 TCGA-DJ-A3V3 TCGA-DJ-A3V5 TCGA-DJ-A3V7 
       40.96        36.99        20.22        30.61        19.20        23.21 
TCGA-DJ-A3V8 TCGA-DJ-A3V9 TCGA-DJ-A3VA TCGA-DJ-A3VB TCGA-DJ-A3VD TCGA-DJ-A3VE 
       21.27        20.48        24.82        22.92        40.70        18.97 
TCGA-DJ-A3VF TCGA-DJ-A3VG TCGA-DJ-A3VJ TCGA-DJ-A3VL TCGA-DJ-A3VM TCGA-DJ-A4UL 
        9.60        35.67        36.43        23.44        27.62        30.87 
TCGA-DJ-A4UP TCGA-DJ-A4UQ TCGA-DJ-A4UR TCGA-DJ-A4UT TCGA-DJ-A4UW TCGA-DJ-A4V0 
       30.12        33.04        34.78        27.06        26.93        35.54 
TCGA-DJ-A4V2 TCGA-DJ-A4V4 TCGA-DJ-A4V5 TCGA-DO-A1JZ TCGA-DO-A1K0 TCGA-DO-A2HM 
        3.12        15.81        35.38        54.90        21.53         2.33 
TCGA-E3-A3DY TCGA-E3-A3DZ TCGA-E3-A3E0 TCGA-E3-A3E1 TCGA-E3-A3E2 TCGA-E3-A3E3 
       92.55        47.21        66.38        80.52        63.19        52.44 
TCGA-E8-A242 TCGA-E8-A2EA TCGA-E8-A2JQ TCGA-E8-A3X7 TCGA-E8-A413 TCGA-E8-A414 
       31.23        35.67        11.70        31.27        29.98        31.50 
TCGA-E8-A415 TCGA-E8-A416 TCGA-E8-A417 TCGA-E8-A419 TCGA-E8-A432 TCGA-E8-A433 
       31.04        31.30        30.84        25.45        30.61        31.27 
TCGA-E8-A434 TCGA-E8-A436 TCGA-E8-A437 TCGA-E8-A438 TCGA-E8-A44K TCGA-E8-A44M 
       31.33        14.96        39.88        33.50        31.00        30.15 
TCGA-EL-A3CL TCGA-EL-A3CM TCGA-EL-A3CN TCGA-EL-A3CO TCGA-EL-A3CP TCGA-EL-A3CT 
       31.66        26.73       155.54        97.74       158.83        60.95 
TCGA-EL-A3CU TCGA-EL-A3CV TCGA-EL-A3CW TCGA-EL-A3CX TCGA-EL-A3CZ TCGA-EL-A3D1 
      157.15        37.94        57.01       106.62        79.50        98.53 
TCGA-EL-A3D4 TCGA-EL-A3D6 TCGA-EL-A3GO TCGA-EL-A3GP TCGA-EL-A3GR TCGA-EL-A3GS 
       69.57       108.36        64.87        49.51       115.10        65.39 
TCGA-EL-A3GU TCGA-EL-A3GV TCGA-EL-A3GW TCGA-EL-A3GX TCGA-EL-A3GY TCGA-EL-A3GZ 
      136.01        50.37        50.20       147.75       101.13       139.99 
TCGA-EL-A3H1 TCGA-EL-A3H3 TCGA-EL-A3H4 TCGA-EL-A3H5 TCGA-EL-A3H7 TCGA-EL-A3MW 
       49.32        43.36        49.71        83.57       139.00       108.66 
TCGA-EL-A3MX TCGA-EL-A3MZ TCGA-EL-A3N2 TCGA-EL-A3T0 TCGA-EL-A3T1 TCGA-EL-A3T2 
       57.63        52.50        29.65       142.52       129.57        32.48 
TCGA-EL-A3T3 TCGA-EL-A3T6 TCGA-EL-A3T7 TCGA-EL-A3T8 TCGA-EL-A3T9 TCGA-EL-A3TA 
      132.07        98.24        41.29       107.47         5.72        66.90 
TCGA-EL-A3TB TCGA-EL-A3ZG TCGA-EL-A3ZH TCGA-EL-A3ZK TCGA-EL-A3ZL TCGA-EL-A3ZM 
       82.82        89.56        91.17        51.78        62.30        36.03 
TCGA-EL-A3ZN TCGA-EL-A3ZO TCGA-EL-A3ZP TCGA-EL-A3ZQ TCGA-EL-A3ZR TCGA-EL-A3ZS 
       53.06        72.69        65.49        61.22        60.16         7.07 
TCGA-EL-A3ZT TCGA-EL-A4JV TCGA-EL-A4JW TCGA-EL-A4JX TCGA-EL-A4JZ TCGA-EL-A4K0 
       59.44        57.47        34.72        45.96        61.02        31.04 
TCGA-EL-A4K1 TCGA-EL-A4K2 TCGA-EL-A4K4 TCGA-EL-A4K6 TCGA-EL-A4K7 TCGA-EL-A4K9 
       34.39        30.51        53.36        44.15        41.13        47.84 
TCGA-EL-A4KD TCGA-EL-A4KG TCGA-EL-A4KH TCGA-EL-A4KI TCGA-EM-A1CS TCGA-EM-A1CT 
       43.59        24.30        27.06        23.90        26.86        18.18 
TCGA-EM-A1CU TCGA-EM-A1CV TCGA-EM-A1CW TCGA-EM-A1YA TCGA-EM-A1YB TCGA-EM-A1YC 
       20.91        48.49        18.05        19.79        19.46        78.61 
TCGA-EM-A1YD TCGA-EM-A1YE TCGA-EM-A22I TCGA-EM-A22J TCGA-EM-A22K TCGA-EM-A22L 
       57.01        54.08        14.73        14.50        15.75        10.45 
TCGA-EM-A22M TCGA-EM-A22N TCGA-EM-A22O TCGA-EM-A22P TCGA-EM-A22Q TCGA-EM-A2CJ 
       14.53        10.65        44.19        41.29        14.24        47.57 
TCGA-EM-A2CK TCGA-EM-A2CL TCGA-EM-A2CN TCGA-EM-A2CO TCGA-EM-A2CP TCGA-EM-A2CQ 
       17.88        13.18        23.51         6.05         2.99        12.30 
TCGA-EM-A2CS TCGA-EM-A2CT TCGA-EM-A2CU TCGA-EM-A2OV TCGA-EM-A2OW TCGA-EM-A2OX 
       27.65        48.46        13.15        22.16        40.34        19.73 
TCGA-EM-A2OY TCGA-EM-A2OZ TCGA-EM-A2P0 TCGA-EM-A2P1 TCGA-EM-A2P2 TCGA-EM-A2P3 
       32.32        33.96        17.59        17.46        17.29        14.60 
TCGA-EM-A3AI TCGA-EM-A3AJ TCGA-EM-A3AK TCGA-EM-A3AL TCGA-EM-A3AN TCGA-EM-A3AO 
       22.52        30.94        15.68        14.14        33.07        44.52 
TCGA-EM-A3AR TCGA-EM-A3FJ TCGA-EM-A3FK TCGA-EM-A3FL TCGA-EM-A3FM TCGA-EM-A3FN 
       37.25        27.95        23.77        47.38        21.01        12.07 
TCGA-EM-A3FO TCGA-EM-A3FP TCGA-EM-A3FQ TCGA-EM-A3FR TCGA-EM-A3O3 TCGA-EM-A3O6 
       17.49        17.39        16.18        15.02        14.50        15.06 
TCGA-EM-A3O7 TCGA-EM-A3O8 TCGA-EM-A3O9 TCGA-EM-A3OA TCGA-EM-A3OB TCGA-EM-A3ST 
        7.33        12.53         9.24        27.02        38.66        38.86 
TCGA-EM-A3SU TCGA-EM-A3SX TCGA-EM-A3SY TCGA-EM-A3SZ TCGA-EM-A4FF TCGA-EM-A4FH 
       29.95        29.85        13.51        12.79        84.59        29.33 
TCGA-EM-A4FK TCGA-EM-A4FM TCGA-EM-A4FN TCGA-EM-A4FO TCGA-EM-A4FQ TCGA-EM-A4FR 
       21.34         5.33        26.37        26.37        22.45        21.53 
TCGA-EM-A4FU TCGA-EM-A4FV TCGA-EM-A4G1 TCGA-ET-A25G TCGA-ET-A25I TCGA-ET-A25J 
       60.49        24.46        13.68        81.93        81.70        77.56 
TCGA-ET-A25K TCGA-ET-A25O TCGA-ET-A25R TCGA-ET-A2MX TCGA-ET-A2MY TCGA-ET-A2MZ 
       70.42        65.29        63.45        88.41        58.75        37.25 
TCGA-ET-A2N0 TCGA-ET-A2N1 TCGA-ET-A2N3 TCGA-ET-A2N4 TCGA-ET-A2N5 TCGA-ET-A39I 
       52.60        54.35        83.34         2.66        80.88        33.24 
TCGA-ET-A39J TCGA-ET-A39K TCGA-ET-A39L TCGA-ET-A39M TCGA-ET-A39N TCGA-ET-A39O 
      106.09       107.41       108.46        84.89       123.32       100.57 
TCGA-ET-A39P TCGA-ET-A39R TCGA-ET-A39S TCGA-ET-A39T TCGA-ET-A3BN TCGA-ET-A3BP 
       95.34        94.13        55.10        98.20        28.24        79.10 
TCGA-ET-A3BQ TCGA-ET-A3BS TCGA-ET-A3BT TCGA-ET-A3BU TCGA-ET-A3BW TCGA-ET-A3BX 
       76.64         5.79        87.62        77.82        46.65        52.47 
TCGA-ET-A3DO TCGA-ET-A3DP TCGA-ET-A3DQ TCGA-ET-A3DR TCGA-ET-A3DS TCGA-ET-A3DT 
      116.78        94.59        84.85        80.58        66.84        43.73 
TCGA-ET-A3DU TCGA-ET-A3DV TCGA-ET-A3DW TCGA-ET-A40P TCGA-ET-A40Q TCGA-ET-A40R 
       62.83       166.62        24.72        43.99        46.26        44.38 
TCGA-ET-A40S TCGA-ET-A40T TCGA-ET-A4KN TCGA-ET-A4KQ TCGA-FE-A22Z TCGA-FE-A230 
       40.21        37.48        33.17        31.40        73.74        71.44 
TCGA-FE-A231 TCGA-FE-A232 TCGA-FE-A233 TCGA-FE-A234 TCGA-FE-A235 TCGA-FE-A236 
       31.59        79.69        24.69        68.22       117.40        66.77 
TCGA-FE-A237 TCGA-FE-A23A TCGA-FE-A3PA TCGA-FE-A3PB TCGA-FE-A3PC TCGA-FE-A3PD 
      112.80        81.83       106.36        85.15        85.68        78.77 
TCGA-FK-A3S3 TCGA-FK-A3SB TCGA-FK-A3SE TCGA-FK-A3SG TCGA-FK-A3SH TCGA-FK-A4UB 
       71.08         4.11        22.03         0.92        48.10       116.09 
TCGA-FY-A2QD TCGA-FY-A3BL TCGA-FY-A3I4 TCGA-FY-A3I5 TCGA-FY-A3NM TCGA-FY-A3NP 
        1.25        20.42        17.82         7.82        29.10        16.14 
TCGA-FY-A3ON TCGA-FY-A3R6 TCGA-FY-A3R7 TCGA-FY-A3R8 TCGA-FY-A3R9 TCGA-FY-A3RA 
       19.56        13.91        16.27        15.68        16.57        18.08 
TCGA-FY-A3TY TCGA-FY-A3W9 TCGA-FY-A3WA TCGA-FY-A3YR TCGA-FY-A40K TCGA-FY-A40L 
       23.31        21.63        17.06        17.36        15.16        23.87 
TCGA-FY-A40M TCGA-FY-A40N TCGA-FY-A4B0 TCGA-FY-A4B3 TCGA-FY-A4B4 TCGA-GE-A2C6 
       22.49        19.04        13.81        14.04        21.60        12.53 
TCGA-H2-A26U TCGA-H2-A2K9 TCGA-H2-A3RH TCGA-H2-A3RI TCGA-H2-A421 TCGA-H2-A422 
       17.00        21.67        12.46        11.01        20.05        18.61 
TCGA-IM-A3EB TCGA-IM-A3ED TCGA-IM-A3U2 TCGA-IM-A3U3 TCGA-IM-A41Y TCGA-IM-A41Z 
       48.92        47.41        18.51        16.90        21.83        31.10 
TCGA-IM-A420 TCGA-IM-A4EB TCGA-J8-A3O0 TCGA-J8-A3O1 TCGA-J8-A3O2 TCGA-J8-A3YD 
        8.22        25.64        43.17        27.19        11.24        31.82 
TCGA-J8-A3YE TCGA-J8-A3YF TCGA-J8-A3YG TCGA-J8-A3YH TCGA-J8-A42S TCGA-J8-A4HY 
       27.85        24.69        22.29         5.75         2.47         0.20 
TCGA-KS-A41F TCGA-KS-A41I TCGA-KS-A41J TCGA-KS-A41L TCGA-KS-A4I1 TCGA-KS-A4I3 
      143.57        15.98        15.68       113.85        26.70        43.69 
TCGA-KS-A4I5 TCGA-KS-A4I7 TCGA-KS-A4I9 TCGA-KS-A4IB TCGA-KS-A4IC TCGA-KS-A4ID 
       18.64        32.45        87.39        84.72        35.28        33.24 
TCGA-L6-A4EP TCGA-L6-A4EQ TCGA-L6-A4EU TCGA-MK-A4N6 TCGA-MK-A4N7 TCGA-MK-A4N9 
       33.40        40.37         9.50        36.10        32.45        30.21 
TCGA-QD-A8IV TCGA-E8-A418 
       12.89         3.02 

  DGCR8 MUTATED DGCR8 WILD-TYPE 
           8.35            0.20 
  DGCR8 MUTATED DGCR8 WILD-TYPE 
          36.46          178.29 
  DGCR8 MUTATED DGCR8 WILD-TYPE 
         13.640          31.165 
[1] "8.3 - 36.5 (13.6)"  "0.2 - 178.3 (31.2)"
[1] "hr="     "1200000"
D36V2, continuous
                 vv
clus              STAGE I STAGE II STAGE III STAGE IV STAGE IVA STAGE IVC
  DGCR8 MUTATED         2        1         0        0         0         0
  DGCR8 WILD-TYPE     276       49       108        2        46         6
D36V3, multiclass
           clus
vv          DGCR8 MUTATED DGCR8 WILD-TYPE
  STAGE I               2             276
  STAGE II              1              49
  STAGE III             0             108
  STAGE IV              0               2
  STAGE IVA             0              46
  STAGE IVC             0               6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus               T1  T2  T3  T4
  DGCR8 MUTATED     1   2   0   0
  DGCR8 WILD-TYPE 140 160 164  23
D36V4, multiclass
    clus
vv   DGCR8 MUTATED DGCR8 WILD-TYPE
  T1             1             140
  T2             2             160
  T3             0             164
  T4             0              23
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D36V5, binary
                 cls
clus                0   1
  DGCR8 MUTATED     1   1
  DGCR8 WILD-TYPE 219 221
[1] "tbl2"
                 cls
clus              [,1] [,2]
  DGCR8 MUTATED      1    1
  DGCR8 WILD-TYPE  219  221
   clus
vv  DGCR8 MUTATED DGCR8 WILD-TYPE
  0             1             219
  1             1             221
[1] 2 2
[1] FALSE
D36V6, binary
                 cls
clus                0   1
  DGCR8 MUTATED     1   0
  DGCR8 WILD-TYPE 275   9
[1] "tbl2"
                 cls
clus              [,1] [,2]
  DGCR8 MUTATED      1    0
  DGCR8 WILD-TYPE  275    9
   clus
vv  DGCR8 MUTATED DGCR8 WILD-TYPE
  0             1             275
  1             0               9
[1] 2 2
[1] FALSE
D36V7, binary
                 cls
clus                0   1
  DGCR8 MUTATED     3   0
  DGCR8 WILD-TYPE 359 130
[1] "tbl2"
                 cls
clus              [,1] [,2]
  DGCR8 MUTATED      3    0
  DGCR8 WILD-TYPE  359  130
        clus
vv       DGCR8 MUTATED DGCR8 WILD-TYPE
  FEMALE             3             359
  MALE               0             130
[1] 2 2
[1] FALSE
D36V8, binary
                 cls
clus                0   1
  DGCR8 MUTATED     2   1
  DGCR8 WILD-TYPE 177 297
[1] "tbl2"
                 cls
clus              [,1] [,2]
  DGCR8 MUTATED      2    1
  DGCR8 WILD-TYPE  177  297
     clus
vv    DGCR8 MUTATED DGCR8 WILD-TYPE
  NO              2             177
  YES             1             297
[1] 2 2
[1] FALSE
                 vv
clus              OTHER, SPECIFY THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  DGCR8 MUTATED                0                                             1
  DGCR8 WILD-TYPE              7                                           347
                 vv
clus              THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  DGCR8 MUTATED                                                                        2
  DGCR8 WILD-TYPE                                                                    100
                 vv
clus              THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  DGCR8 MUTATED                                                                     0
  DGCR8 WILD-TYPE                                                                  35
D36V9, multiclass
                                                                        clus
vv                                                                       DGCR8 MUTATED
  OTHER, SPECIFY                                                                     0
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                      1
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)             2
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                0
                                                                        clus
vv                                                                       DGCR8 WILD-TYPE
  OTHER, SPECIFY                                                                       7
  THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL                                      347
  THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)             100
  THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)                 35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D36V10, binary
                 cls
clus                0   1
  DGCR8 MUTATED     3   0
  DGCR8 WILD-TYPE 412  17
[1] "tbl2"
                 cls
clus              [,1] [,2]
  DGCR8 MUTATED      3    0
  DGCR8 WILD-TYPE  412   17
     clus
vv    DGCR8 MUTATED DGCR8 WILD-TYPE
  NO              3             412
  YES             0              17
[1] 2 2
[1] FALSE
                 vv
clus              MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE VERY ADVANCED (T4B)
  DGCR8 MUTATED              1                       0    2                   0
  DGCR8 WILD-TYPE          129                      18  326                   1
D36V11, multiclass
                         clus
vv                        DGCR8 MUTATED DGCR8 WILD-TYPE
  MINIMAL (T3)                        1             129
  MODERATE/ADVANCED (T4A)             0              18
  NONE                                2             326
  VERY ADVANCED (T4B)                 0               1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus               R0  R1  R2  RX
  DGCR8 MUTATED     3   0   0   0
  DGCR8 WILD-TYPE 376  51   4  30
D36V12, multiclass
    clus
vv   DGCR8 MUTATED DGCR8 WILD-TYPE
  R0             3             376
  R1             0              51
  R2             0               4
  RX             0              30
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D36V13, continuous
[1] "Remove cluster labels:" "DGCR8 MUTATED"         
clus
  DGCR8 MUTATED DGCR8 WILD-TYPE 
              2             376 
     TCGA-BJ-A290      TCGA-BJ-A45K      TCGA-CE-A13K      TCGA-DE-A0XZ 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DJ-A2PR      TCGA-DJ-A3UU      TCGA-DJ-A3UW      TCGA-DJ-A3V4 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DJ-A3VI      TCGA-DJ-A3VK      TCGA-E3-A3E5      TCGA-EL-A3CR 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EL-A3CS      TCGA-EL-A3CY      TCGA-EL-A3D0      TCGA-EL-A3D5 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EL-A3GQ      TCGA-EL-A3H8      TCGA-EM-A3AQ      TCGA-ET-A3BO 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-ET-A3BV      TCGA-J8-A3NZ      TCGA-J8-A4HW      TCGA-4C-A93U 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-BJ-A0Z0      TCGA-BJ-A0Z3      TCGA-BJ-A0Z9      TCGA-BJ-A0ZA 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-BJ-A0ZB      TCGA-BJ-A0ZH      TCGA-BJ-A0ZJ      TCGA-BJ-A18Y 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-BJ-A18Z      TCGA-BJ-A191      TCGA-BJ-A28R      TCGA-BJ-A28T 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-BJ-A28X      TCGA-BJ-A28Z      TCGA-BJ-A2N8      TCGA-BJ-A2N9 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-BJ-A2NA      TCGA-BJ-A3EZ      TCGA-BJ-A3PR      TCGA-BJ-A3PU 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-BJ-A45D      TCGA-BJ-A45E      TCGA-BJ-A45G      TCGA-BJ-A45I 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-BJ-A45J      TCGA-BJ-A4O8      TCGA-BJ-A4O9      TCGA-CE-A3MD 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-CE-A483      TCGA-CE-A484      TCGA-CE-A485      TCGA-DE-A0Y2 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DE-A0Y3      TCGA-DE-A3KN      TCGA-DE-A4M8      TCGA-DE-A4MA 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DE-A4MB      TCGA-DE-A4MC      TCGA-DE-A4MD      TCGA-DE-A69K 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DE-A7U5      TCGA-DJ-A13M      TCGA-DJ-A13O      TCGA-DJ-A13R 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DJ-A13T      TCGA-DJ-A13V      TCGA-DJ-A13W      TCGA-DJ-A13X 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DJ-A1QG      TCGA-DJ-A1QH      TCGA-DJ-A1QM      TCGA-DJ-A2PO 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DJ-A2PP      TCGA-DJ-A2PQ      TCGA-DJ-A2PS      TCGA-DJ-A2PT 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DJ-A2PU      TCGA-DJ-A2PV      TCGA-DJ-A2PW      TCGA-DJ-A2PX 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DJ-A2PY      TCGA-DJ-A2PZ      TCGA-DJ-A2Q0      TCGA-DJ-A2Q1 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DJ-A2Q2      TCGA-DJ-A2Q3      TCGA-DJ-A2Q4      TCGA-DJ-A2Q5 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DJ-A2Q7      TCGA-DJ-A2Q8      TCGA-DJ-A2Q9      TCGA-DJ-A2QA 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DJ-A2QB      TCGA-DJ-A3UK      TCGA-DJ-A3UM      TCGA-DJ-A3UN 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DJ-A3UO      TCGA-DJ-A3UP      TCGA-DJ-A3UQ      TCGA-DJ-A3UR 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DJ-A3UX      TCGA-DJ-A3UZ      TCGA-DJ-A3V0      TCGA-DJ-A3V2 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DJ-A3V3      TCGA-DJ-A3V5      TCGA-DJ-A3V7      TCGA-DJ-A3V8 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DJ-A3V9      TCGA-DJ-A3VA      TCGA-DJ-A3VB      TCGA-DJ-A3VD 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DJ-A3VF      TCGA-DJ-A3VG      TCGA-DJ-A3VJ      TCGA-DJ-A3VL 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DJ-A4UL      TCGA-DJ-A4UP      TCGA-DJ-A4UQ      TCGA-DJ-A4UR 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DJ-A4UW      TCGA-DJ-A4V2      TCGA-DJ-A4V5      TCGA-DO-A1K0 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DO-A2HM      TCGA-E3-A3DY      TCGA-E3-A3DZ      TCGA-E3-A3E0 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-E3-A3E1      TCGA-E3-A3E2      TCGA-E3-A3E3      TCGA-E8-A242 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-E8-A2EA      TCGA-E8-A2JQ      TCGA-E8-A414      TCGA-E8-A415 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-E8-A417      TCGA-E8-A419      TCGA-E8-A433      TCGA-E8-A436 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-E8-A438      TCGA-E8-A44K      TCGA-EL-A3CM      TCGA-EL-A3CN 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EL-A3CO      TCGA-EL-A3CT      TCGA-EL-A3CU      TCGA-EL-A3CV 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EL-A3CW      TCGA-EL-A3CX      TCGA-EL-A3CZ      TCGA-EL-A3D1 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EL-A3D4      TCGA-EL-A3D6      TCGA-EL-A3GO      TCGA-EL-A3GP 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EL-A3GS      TCGA-EL-A3GU      TCGA-EL-A3GV      TCGA-EL-A3GX 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EL-A3H3      TCGA-EL-A3H4      TCGA-EL-A3H5      TCGA-EL-A3H7 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EL-A3MW      TCGA-EL-A3MX      TCGA-EL-A3MZ      TCGA-EL-A3N2 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EL-A3T0      TCGA-EL-A3T1      TCGA-EL-A3T2      TCGA-EL-A3TB 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EL-A3ZH      TCGA-EL-A3ZK      TCGA-EL-A3ZL      TCGA-EL-A3ZM 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EL-A3ZN      TCGA-EL-A3ZO      TCGA-EL-A3ZP      TCGA-EL-A3ZS 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EL-A4JV      TCGA-EL-A4JW      TCGA-EL-A4JX      TCGA-EL-A4JZ 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EL-A4K0      TCGA-EL-A4K1      TCGA-EL-A4K2      TCGA-EL-A4K4 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EL-A4K6      TCGA-EL-A4K7      TCGA-EL-A4KD      TCGA-EL-A4KG 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EL-A4KI      TCGA-EM-A1CS      TCGA-EM-A1CT      TCGA-EM-A1CU 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EM-A1CV      TCGA-EM-A1CW      TCGA-EM-A1YC      TCGA-EM-A1YD 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EM-A1YE      TCGA-EM-A22I      TCGA-EM-A22J      TCGA-EM-A22K 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EM-A22L      TCGA-EM-A22M      TCGA-EM-A22N      TCGA-EM-A22O 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EM-A22P      TCGA-EM-A22Q      TCGA-EM-A2CK      TCGA-EM-A2CN 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EM-A2CP      TCGA-EM-A2CQ      TCGA-EM-A2CS      TCGA-EM-A2CT 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EM-A2CU      TCGA-EM-A2OV      TCGA-EM-A2OX      TCGA-EM-A2OY 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EM-A2OZ      TCGA-EM-A2P0      TCGA-EM-A2P1      TCGA-EM-A2P2 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EM-A3AJ      TCGA-EM-A3AK      TCGA-EM-A3AL      TCGA-EM-A3AN 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EM-A3AO      TCGA-EM-A3AR      TCGA-EM-A3FJ      TCGA-EM-A3FK 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EM-A3FM      TCGA-EM-A3FN      TCGA-EM-A3FO      TCGA-EM-A3FP 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EM-A3FQ      TCGA-EM-A3FR      TCGA-EM-A3O3      TCGA-EM-A3O8 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EM-A3O9      TCGA-EM-A3OA      TCGA-EM-A3OB      TCGA-EM-A3ST 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EM-A3SU      TCGA-EM-A3SX      TCGA-EM-A3SZ      TCGA-EM-A4FF 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EM-A4FM      TCGA-EM-A4FN      TCGA-EM-A4FO      TCGA-EM-A4FQ 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EM-A4FR      TCGA-EM-A4FV      TCGA-EM-A4G1      TCGA-ET-A25G 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-ET-A25I      TCGA-ET-A25J      TCGA-ET-A25K      TCGA-ET-A25O 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-ET-A2MX      TCGA-ET-A2MZ      TCGA-ET-A2N0      TCGA-ET-A2N1 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-ET-A2N4      TCGA-ET-A39K      TCGA-ET-A39L      TCGA-ET-A39O 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-ET-A39P      TCGA-ET-A39R      TCGA-ET-A39S      TCGA-ET-A39T 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-ET-A3BP      TCGA-ET-A3BQ      TCGA-ET-A3BS      TCGA-ET-A3BT 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-ET-A3BU      TCGA-ET-A3BX      TCGA-ET-A3DQ      TCGA-ET-A3DR 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-ET-A3DS      TCGA-ET-A3DT      TCGA-ET-A3DU      TCGA-ET-A3DV 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-ET-A3DW      TCGA-ET-A40P      TCGA-ET-A40Q      TCGA-ET-A40R 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-ET-A40S      TCGA-ET-A40T      TCGA-ET-A4KN      TCGA-FE-A22Z 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-FE-A230      TCGA-FE-A231      TCGA-FE-A232      TCGA-FE-A233 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-FE-A234      TCGA-FE-A235      TCGA-FE-A236      TCGA-FE-A237 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-FE-A23A      TCGA-FE-A3PB      TCGA-FE-A3PC      TCGA-FE-A3PD 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-FK-A3S3      TCGA-FK-A3SB      TCGA-FK-A3SE      TCGA-FK-A3SG 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-FK-A3SH      TCGA-FK-A4UB      TCGA-FY-A2QD      TCGA-FY-A3I4 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-FY-A3I5      TCGA-FY-A3NM      TCGA-FY-A3NN      TCGA-FY-A3ON 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-FY-A3R6      TCGA-FY-A3R7      TCGA-FY-A3R9      TCGA-FY-A3TY 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-FY-A3W9      TCGA-FY-A3YR      TCGA-FY-A40K      TCGA-FY-A40L 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-FY-A40M      TCGA-FY-A40N      TCGA-FY-A4B3      TCGA-FY-A4B4 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-GE-A2C6      TCGA-H2-A26U      TCGA-H2-A2K9      TCGA-H2-A3RH 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-H2-A3RI      TCGA-H2-A421      TCGA-H2-A422      TCGA-IM-A3EB 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-IM-A3ED      TCGA-IM-A3U2      TCGA-IM-A3U3      TCGA-IM-A41Y 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-IM-A41Z      TCGA-IM-A420      TCGA-IM-A4EB      TCGA-J8-A3O0 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-J8-A3O1      TCGA-J8-A3O2      TCGA-J8-A3YD      TCGA-J8-A3YE 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-J8-A3YF      TCGA-J8-A3YG      TCGA-J8-A3YH      TCGA-J8-A42S 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-J8-A4HY      TCGA-KS-A41F      TCGA-KS-A41I      TCGA-KS-A41J 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-KS-A41L      TCGA-KS-A4I1      TCGA-KS-A4I3      TCGA-KS-A4I5 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-KS-A4I7      TCGA-KS-A4I9      TCGA-KS-A4IB      TCGA-KS-A4IC 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-KS-A4ID      TCGA-L6-A4EP      TCGA-L6-A4EQ      TCGA-L6-A4EU 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-MK-A4N6      TCGA-MK-A4N7      TCGA-MK-A4N9      TCGA-QD-A8IV 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
D36V14, binary
                 cls
clus                0   1
  DGCR8 MUTATED     2   1
  DGCR8 WILD-TYPE 219 261
[1] "tbl2"
                 cls
clus              [,1] [,2]
  DGCR8 MUTATED      2    1
  DGCR8 WILD-TYPE  219  261
            clus
vv           DGCR8 MUTATED DGCR8 WILD-TYPE
  MULTIFOCAL             2             219
  UNIFOCAL               1             261
[1] 2 2
[1] FALSE
D36V15, continuous
                 vv
clus              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DGCR8 MUTATED                                  0     0
  DGCR8 WILD-TYPE                                1    51
                 vv
clus              BLACK OR AFRICAN AMERICAN WHITE
  DGCR8 MUTATED                           0     1
  DGCR8 WILD-TYPE                        26   321
D36V16, multiclass
[1] "Remove cluster labels:" "DGCR8 MUTATED"         
clus
  DGCR8 MUTATED DGCR8 WILD-TYPE 
              1             399 
     TCGA-BJ-A290      TCGA-BJ-A45K      TCGA-CE-A13K      TCGA-DE-A0XZ 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DJ-A13L      TCGA-DJ-A2PR      TCGA-DJ-A3UU      TCGA-DJ-A3UW 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DJ-A3V4      TCGA-DJ-A3VI      TCGA-DJ-A3VK      TCGA-E3-A3E5 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EL-A3CR      TCGA-EL-A3CS      TCGA-EL-A3CY      TCGA-EL-A3D0 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EL-A3D5      TCGA-EL-A3GQ      TCGA-EL-A3H2      TCGA-EL-A3H8 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EL-A3MY      TCGA-EL-A3N3      TCGA-ET-A3BO      TCGA-ET-A3BV 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-FK-A3SD      TCGA-FY-A76V      TCGA-J8-A3NZ      TCGA-J8-A4HW 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-L6-A4ET      TCGA-MK-A84Z      TCGA-4C-A93U      TCGA-BJ-A0YZ 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-BJ-A0Z2      TCGA-BJ-A0Z3      TCGA-BJ-A0Z9      TCGA-BJ-A0ZA 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-BJ-A0ZB      TCGA-BJ-A0ZC      TCGA-BJ-A0ZE      TCGA-BJ-A0ZG 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-BJ-A0ZH      TCGA-BJ-A0ZJ      TCGA-BJ-A18Y      TCGA-BJ-A18Z 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-BJ-A191      TCGA-BJ-A192      TCGA-BJ-A28R      TCGA-BJ-A28S 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-BJ-A28T      TCGA-BJ-A28V      TCGA-BJ-A28X      TCGA-BJ-A28Z 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-BJ-A2N7      TCGA-BJ-A2N8      TCGA-BJ-A2N9      TCGA-BJ-A2NA 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-BJ-A2P4      TCGA-BJ-A3EZ      TCGA-BJ-A3F0      TCGA-BJ-A3PR 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-BJ-A3PT      TCGA-BJ-A3PU      TCGA-BJ-A45D      TCGA-BJ-A45E 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-BJ-A45F      TCGA-BJ-A45G      TCGA-BJ-A45H      TCGA-BJ-A45I 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-BJ-A45J      TCGA-BJ-A4O8      TCGA-BJ-A4O9      TCGA-CE-A27D 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-CE-A3MD      TCGA-CE-A3ME      TCGA-CE-A481      TCGA-CE-A482 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-CE-A483      TCGA-CE-A484      TCGA-CE-A485      TCGA-DE-A0Y2 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DE-A0Y3      TCGA-DE-A2OL      TCGA-DE-A3KN      TCGA-DE-A4M8 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DE-A4M9      TCGA-DE-A4MA      TCGA-DE-A4MB      TCGA-DE-A4MC 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DE-A4MD      TCGA-DE-A69J      TCGA-DE-A69K      TCGA-DE-A7U5 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DJ-A13M      TCGA-DJ-A13O      TCGA-DJ-A13P      TCGA-DJ-A13R 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DJ-A13S      TCGA-DJ-A13T      TCGA-DJ-A13U      TCGA-DJ-A13W 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DJ-A1QD      TCGA-DJ-A1QE      TCGA-DJ-A1QF      TCGA-DJ-A1QG 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DJ-A1QH      TCGA-DJ-A1QI      TCGA-DJ-A1QM      TCGA-DJ-A1QO 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DJ-A1QQ      TCGA-DJ-A2PN      TCGA-DJ-A2PO      TCGA-DJ-A2PQ 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DJ-A2PS      TCGA-DJ-A2PT      TCGA-DJ-A2PU      TCGA-DJ-A2PV 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DJ-A2PW      TCGA-DJ-A2PX      TCGA-DJ-A2PY      TCGA-DJ-A2PZ 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DJ-A2Q0      TCGA-DJ-A2Q1      TCGA-DJ-A2Q2      TCGA-DJ-A2Q3 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DJ-A2Q4      TCGA-DJ-A2Q5      TCGA-DJ-A2Q7      TCGA-DJ-A2Q9 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DJ-A2QA      TCGA-DJ-A2QB      TCGA-DJ-A3UK      TCGA-DJ-A3UM 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DJ-A3UN      TCGA-DJ-A3UO      TCGA-DJ-A3UQ      TCGA-DJ-A3UR 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DJ-A3US      TCGA-DJ-A3UT      TCGA-DJ-A3UX      TCGA-DJ-A3UY 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DJ-A3UZ      TCGA-DJ-A3V2      TCGA-DJ-A3V3      TCGA-DJ-A3V5 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DJ-A3V7      TCGA-DJ-A3V8      TCGA-DJ-A3V9      TCGA-DJ-A3VD 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DJ-A3VE      TCGA-DJ-A3VF      TCGA-DJ-A3VG      TCGA-DJ-A3VJ 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DJ-A3VL      TCGA-DJ-A3VM      TCGA-DJ-A4UL      TCGA-DJ-A4UP 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DJ-A4UQ      TCGA-DJ-A4UR      TCGA-DJ-A4UT      TCGA-DJ-A4UW 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DJ-A4V0      TCGA-DJ-A4V4      TCGA-DJ-A4V5      TCGA-DO-A1JZ 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-DO-A1K0      TCGA-DO-A2HM      TCGA-E3-A3DY      TCGA-E3-A3DZ 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-E3-A3E0      TCGA-E3-A3E1      TCGA-E3-A3E2      TCGA-E3-A3E3 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-E8-A242      TCGA-E8-A2EA      TCGA-E8-A2JQ      TCGA-E8-A3X7 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-E8-A413      TCGA-E8-A414      TCGA-E8-A415      TCGA-E8-A416 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-E8-A417      TCGA-E8-A419      TCGA-E8-A432      TCGA-E8-A433 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-E8-A434      TCGA-E8-A436      TCGA-E8-A437      TCGA-E8-A438 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-E8-A44K      TCGA-E8-A44M      TCGA-EL-A3CL      TCGA-EL-A3CM 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EL-A3CN      TCGA-EL-A3CO      TCGA-EL-A3CP      TCGA-EL-A3CT 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EL-A3CU      TCGA-EL-A3CV      TCGA-EL-A3CW      TCGA-EL-A3CX 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EL-A3CZ      TCGA-EL-A3D1      TCGA-EL-A3D4      TCGA-EL-A3D6 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EL-A3GO      TCGA-EL-A3GP      TCGA-EL-A3GR      TCGA-EL-A3GS 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EL-A3GU      TCGA-EL-A3GV      TCGA-EL-A3GW      TCGA-EL-A3GX 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EL-A3GY      TCGA-EL-A3GZ      TCGA-EL-A3H1      TCGA-EL-A3H3 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EL-A3H4      TCGA-EL-A3H5      TCGA-EL-A3H7      TCGA-EL-A3MW 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EL-A3MX      TCGA-EL-A3MZ      TCGA-EL-A3N2      TCGA-EL-A3T0 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EL-A3T1      TCGA-EL-A3T2      TCGA-EL-A3T3      TCGA-EL-A3T6 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EL-A3T7      TCGA-EL-A3T8      TCGA-EL-A3T9      TCGA-EL-A3TA 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EL-A3TB      TCGA-EL-A3ZG      TCGA-EL-A3ZH      TCGA-EL-A3ZK 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EL-A3ZL      TCGA-EL-A3ZN      TCGA-EL-A3ZO      TCGA-EL-A3ZP 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EL-A3ZQ      TCGA-EL-A3ZR      TCGA-EL-A3ZS      TCGA-EL-A3ZT 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EL-A4JV      TCGA-EL-A4JW      TCGA-EL-A4JX      TCGA-EL-A4JZ 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EL-A4K0      TCGA-EL-A4K1      TCGA-EL-A4K2      TCGA-EL-A4K4 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EL-A4K6      TCGA-EL-A4K7      TCGA-EL-A4K9      TCGA-EL-A4KD 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EL-A4KG      TCGA-EL-A4KH      TCGA-EL-A4KI      TCGA-EM-A22M 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-EM-A22O      TCGA-EM-A2OV      TCGA-EM-A3AI      TCGA-ET-A25G 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-ET-A25I      TCGA-ET-A25J      TCGA-ET-A25K      TCGA-ET-A25O 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-ET-A25R      TCGA-ET-A2MX      TCGA-ET-A2MY      TCGA-ET-A2MZ 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-ET-A2N0      TCGA-ET-A2N1      TCGA-ET-A2N3      TCGA-ET-A2N4 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-ET-A2N5      TCGA-ET-A39I      TCGA-ET-A39J      TCGA-ET-A39K 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-ET-A39M      TCGA-ET-A39N      TCGA-ET-A39O      TCGA-ET-A39P 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-ET-A39R      TCGA-ET-A39S      TCGA-ET-A39T      TCGA-ET-A3BN 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-ET-A3BP      TCGA-ET-A3BQ      TCGA-ET-A3BS      TCGA-ET-A3BT 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-ET-A3BU      TCGA-ET-A3BW      TCGA-ET-A3BX      TCGA-ET-A3DO 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-ET-A3DP      TCGA-ET-A3DQ      TCGA-ET-A3DR      TCGA-ET-A3DS 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-ET-A3DT      TCGA-ET-A3DU      TCGA-ET-A3DV      TCGA-ET-A3DW 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-ET-A40P      TCGA-ET-A40Q      TCGA-ET-A40R      TCGA-ET-A40S 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-ET-A40T      TCGA-ET-A4KN      TCGA-ET-A4KQ      TCGA-FE-A22Z 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-FE-A230      TCGA-FE-A231      TCGA-FE-A232      TCGA-FE-A233 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-FE-A234      TCGA-FE-A235      TCGA-FE-A236      TCGA-FE-A237 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-FE-A23A      TCGA-FE-A3PA      TCGA-FE-A3PB      TCGA-FE-A3PC 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-FE-A3PD      TCGA-FK-A3S3      TCGA-FK-A3SB      TCGA-FK-A3SE 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-FK-A3SG      TCGA-FK-A3SH      TCGA-FK-A4UB      TCGA-FY-A2QD 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-FY-A3BL      TCGA-FY-A3I4      TCGA-FY-A3I5      TCGA-FY-A3NM 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-FY-A3NP      TCGA-FY-A3ON      TCGA-FY-A3R6      TCGA-FY-A3R7 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-FY-A3R8      TCGA-FY-A3R9      TCGA-FY-A3RA      TCGA-FY-A3TY 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-FY-A3W9      TCGA-FY-A3WA      TCGA-FY-A3YR      TCGA-FY-A40K 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-FY-A40L      TCGA-FY-A40M      TCGA-FY-A40N      TCGA-FY-A4B0 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-FY-A4B3      TCGA-FY-A4B4      TCGA-GE-A2C6      TCGA-H2-A26U 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-H2-A2K9      TCGA-H2-A3RH      TCGA-H2-A3RI      TCGA-H2-A421 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-H2-A422      TCGA-IM-A3EB      TCGA-IM-A3ED      TCGA-IM-A3U2 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-IM-A3U3      TCGA-IM-A41Y      TCGA-IM-A41Z      TCGA-IM-A420 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-IM-A4EB      TCGA-J8-A3O0      TCGA-J8-A3O1      TCGA-J8-A3O2 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-J8-A3YD      TCGA-J8-A3YE      TCGA-J8-A3YF      TCGA-J8-A3YG 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-J8-A3YH      TCGA-J8-A42S      TCGA-J8-A4HY      TCGA-KS-A41F 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-KS-A41I      TCGA-KS-A41J      TCGA-KS-A41L      TCGA-KS-A4I1 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-KS-A4I3      TCGA-KS-A4I5      TCGA-KS-A4I7      TCGA-KS-A4I9 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-KS-A4IB      TCGA-KS-A4IC      TCGA-KS-A4ID      TCGA-L6-A4EP 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-L6-A4EQ      TCGA-L6-A4EU      TCGA-MK-A4N6      TCGA-MK-A4N7 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
     TCGA-MK-A4N9      TCGA-QD-A8IV      TCGA-E8-A418 
"DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" "DGCR8 WILD-TYPE" 
D36V17, binary
                 cls
clus                0   1
  DGCR8 MUTATED     0   1
  DGCR8 WILD-TYPE  38 350
[1] "tbl2"
                 cls
clus              [,1] [,2]
  DGCR8 MUTATED      0    1
  DGCR8 WILD-TYPE   38  350
                        clus
vv                       DGCR8 MUTATED DGCR8 WILD-TYPE
  HISPANIC OR LATINO                 0              38
  NOT HISPANIC OR LATINO             1             350
[1] 2 2
[1] FALSE
