[1] "ofn"         "-oTKIPAN-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/KIPAN-TP/19775252/KIPAN-TP.merged_data.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/KIPAN-TP/19782223/transformed.cor.cli.txt"

nPatients in clinical file=938, in cluster file=882, common to both=881
[1]  39 881
[1] "AMP PEAK  1(1Q32.1) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  1(1Q32.1) MUTATED AMP PEAK  1(1Q32.1) WILD-TYPE 
                           82                           799 
  AMP PEAK  1(1Q32.1) MUTATED AMP PEAK  1(1Q32.1) WILD-TYPE 
                           82                           799 
[1] "AMP PEAK  2(2Q32.1) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  2(2Q32.1) MUTATED AMP PEAK  2(2Q32.1) WILD-TYPE 
                          136                           745 
  AMP PEAK  2(2Q32.1) MUTATED AMP PEAK  2(2Q32.1) WILD-TYPE 
                          136                           745 
[1] "AMP PEAK  3(3Q26.32) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  3(3Q26.32) MUTATED AMP PEAK  3(3Q26.32) WILD-TYPE 
                           193                            688 
  AMP PEAK  3(3Q26.32) MUTATED AMP PEAK  3(3Q26.32) WILD-TYPE 
                           193                            688 
[1] "AMP PEAK  4(5Q35.1) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  4(5Q35.1) MUTATED AMP PEAK  4(5Q35.1) WILD-TYPE 
                          376                           505 
  AMP PEAK  4(5Q35.1) MUTATED AMP PEAK  4(5Q35.1) WILD-TYPE 
                          376                           505 
[1] "AMP PEAK  5(7Q31.2) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  5(7Q31.2) MUTATED AMP PEAK  5(7Q31.2) WILD-TYPE 
                          377                           504 
  AMP PEAK  5(7Q31.2) MUTATED AMP PEAK  5(7Q31.2) WILD-TYPE 
                          377                           504 
[1] "AMP PEAK  6(8Q24.22) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  6(8Q24.22) MUTATED AMP PEAK  6(8Q24.22) WILD-TYPE 
                           125                            756 
  AMP PEAK  6(8Q24.22) MUTATED AMP PEAK  6(8Q24.22) WILD-TYPE 
                           125                            756 
[1] "AMP PEAK  7(10P14) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  7(10P14) MUTATED AMP PEAK  7(10P14) WILD-TYPE 
                          34                          847 
  AMP PEAK  7(10P14) MUTATED AMP PEAK  7(10P14) WILD-TYPE 
                          34                          847 
[1] "AMP PEAK  8(17Q25.2) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  8(17Q25.2) MUTATED AMP PEAK  8(17Q25.2) WILD-TYPE 
                           244                            637 
  AMP PEAK  8(17Q25.2) MUTATED AMP PEAK  8(17Q25.2) WILD-TYPE 
                           244                            637 
[1] "AMP PEAK  9(19P13.2) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  9(19P13.2) MUTATED AMP PEAK  9(19P13.2) WILD-TYPE 
                            98                            783 
  AMP PEAK  9(19P13.2) MUTATED AMP PEAK  9(19P13.2) WILD-TYPE 
                            98                            783 
[1] "AMP PEAK 10(XP22.2) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 10(XP22.2) MUTATED AMP PEAK 10(XP22.2) WILD-TYPE 
                          126                           755 
  AMP PEAK 10(XP22.2) MUTATED AMP PEAK 10(XP22.2) WILD-TYPE 
                          126                           755 
[1] "AMP PEAK 11(XP11.4) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 11(XP11.4) MUTATED AMP PEAK 11(XP11.4) WILD-TYPE 
                          134                           747 
  AMP PEAK 11(XP11.4) MUTATED AMP PEAK 11(XP11.4) WILD-TYPE 
                          134                           747 
[1] "AMP PEAK 12(XQ11.2) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 12(XQ11.2) MUTATED AMP PEAK 12(XQ11.2) WILD-TYPE 
                          135                           746 
  AMP PEAK 12(XQ11.2) MUTATED AMP PEAK 12(XQ11.2) WILD-TYPE 
                          135                           746 
[1] "AMP PEAK 13(XQ28) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 13(XQ28) MUTATED AMP PEAK 13(XQ28) WILD-TYPE 
                        137                         744 
  AMP PEAK 13(XQ28) MUTATED AMP PEAK 13(XQ28) WILD-TYPE 
                        137                         744 
[1] "DEL PEAK  1(1P36.31) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  1(1P36.31) MUTATED DEL PEAK  1(1P36.31) WILD-TYPE 
                           209                            672 
  DEL PEAK  1(1P36.31) MUTATED DEL PEAK  1(1P36.31) WILD-TYPE 
                           209                            672 
[1] "DEL PEAK  2(1P31.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  2(1P31.1) MUTATED DEL PEAK  2(1P31.1) WILD-TYPE 
                          166                           715 
  DEL PEAK  2(1P31.1) MUTATED DEL PEAK  2(1P31.1) WILD-TYPE 
                          166                           715 
[1] "DEL PEAK  3(1Q43) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  3(1Q43) MUTATED DEL PEAK  3(1Q43) WILD-TYPE 
                        114                         767 
  DEL PEAK  3(1Q43) MUTATED DEL PEAK  3(1Q43) WILD-TYPE 
                        114                         767 
[1] "DEL PEAK  4(2Q37.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  4(2Q37.3) MUTATED DEL PEAK  4(2Q37.3) WILD-TYPE 
                          111                           770 
  DEL PEAK  4(2Q37.3) MUTATED DEL PEAK  4(2Q37.3) WILD-TYPE 
                          111                           770 
[1] "DEL PEAK  5(3P26.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  5(3P26.3) MUTATED DEL PEAK  5(3P26.3) WILD-TYPE 
                          489                           392 
  DEL PEAK  5(3P26.3) MUTATED DEL PEAK  5(3P26.3) WILD-TYPE 
                          489                           392 
[1] "DEL PEAK  6(3P21.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  6(3P21.2) MUTATED DEL PEAK  6(3P21.2) WILD-TYPE 
                          503                           378 
  DEL PEAK  6(3P21.2) MUTATED DEL PEAK  6(3P21.2) WILD-TYPE 
                          503                           378 
[1] "DEL PEAK  7(3P14.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  7(3P14.1) MUTATED DEL PEAK  7(3P14.1) WILD-TYPE 
                          408                           473 
  DEL PEAK  7(3P14.1) MUTATED DEL PEAK  7(3P14.1) WILD-TYPE 
                          408                           473 
[1] "DEL PEAK  8(3P12.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  8(3P12.2) MUTATED DEL PEAK  8(3P12.2) WILD-TYPE 
                          336                           545 
  DEL PEAK  8(3P12.2) MUTATED DEL PEAK  8(3P12.2) WILD-TYPE 
                          336                           545 
[1] "DEL PEAK  9(4Q34.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  9(4Q34.3) MUTATED DEL PEAK  9(4Q34.3) WILD-TYPE 
                          113                           768 
  DEL PEAK  9(4Q34.3) MUTATED DEL PEAK  9(4Q34.3) WILD-TYPE 
                          113                           768 
[1] "DEL PEAK 10(5P15.33) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 10(5P15.33) MUTATED DEL PEAK 10(5P15.33) WILD-TYPE 
                            31                            850 
  DEL PEAK 10(5P15.33) MUTATED DEL PEAK 10(5P15.33) WILD-TYPE 
                            31                            850 
[1] "DEL PEAK 11(6Q22.31) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 11(6Q22.31) MUTATED DEL PEAK 11(6Q22.31) WILD-TYPE 
                           227                            654 
  DEL PEAK 11(6Q22.31) MUTATED DEL PEAK 11(6Q22.31) WILD-TYPE 
                           227                            654 
[1] "DEL PEAK 12(6Q26) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 12(6Q26) MUTATED DEL PEAK 12(6Q26) WILD-TYPE 
                        233                         648 
  DEL PEAK 12(6Q26) MUTATED DEL PEAK 12(6Q26) WILD-TYPE 
                        233                         648 
[1] "DEL PEAK 13(6Q26) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 13(6Q26) MUTATED DEL PEAK 13(6Q26) WILD-TYPE 
                        234                         647 
  DEL PEAK 13(6Q26) MUTATED DEL PEAK 13(6Q26) WILD-TYPE 
                        234                         647 
[1] "DEL PEAK 14(8P23.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 14(8P23.2) MUTATED DEL PEAK 14(8P23.2) WILD-TYPE 
                          184                           697 
  DEL PEAK 14(8P23.2) MUTATED DEL PEAK 14(8P23.2) WILD-TYPE 
                          184                           697 
[1] "DEL PEAK 15(9P23) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 15(9P23) MUTATED DEL PEAK 15(9P23) WILD-TYPE 
                        198                         683 
  DEL PEAK 15(9P23) MUTATED DEL PEAK 15(9P23) WILD-TYPE 
                        198                         683 
[1] "DEL PEAK 16(9P21.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 16(9P21.3) MUTATED DEL PEAK 16(9P21.3) WILD-TYPE 
                          208                           673 
  DEL PEAK 16(9P21.3) MUTATED DEL PEAK 16(9P21.3) WILD-TYPE 
                          208                           673 
[1] "DEL PEAK 17(10Q23.31) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 17(10Q23.31) MUTATED DEL PEAK 17(10Q23.31) WILD-TYPE 
                            164                             717 
  DEL PEAK 17(10Q23.31) MUTATED DEL PEAK 17(10Q23.31) WILD-TYPE 
                            164                             717 
[1] "DEL PEAK 18(11Q21) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 18(11Q21) MUTATED DEL PEAK 18(11Q21) WILD-TYPE 
                          61                          820 
  DEL PEAK 18(11Q21) MUTATED DEL PEAK 18(11Q21) WILD-TYPE 
                          61                          820 
[1] "DEL PEAK 19(11Q23.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 19(11Q23.1) MUTATED DEL PEAK 19(11Q23.1) WILD-TYPE 
                            71                            810 
  DEL PEAK 19(11Q23.1) MUTATED DEL PEAK 19(11Q23.1) WILD-TYPE 
                            71                            810 
[1] "DEL PEAK 20(13Q12.13) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 20(13Q12.13) MUTATED DEL PEAK 20(13Q12.13) WILD-TYPE 
                            150                             731 
  DEL PEAK 20(13Q12.13) MUTATED DEL PEAK 20(13Q12.13) WILD-TYPE 
                            150                             731 
[1] "DEL PEAK 21(13Q14.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 21(13Q14.2) MUTATED DEL PEAK 21(13Q14.2) WILD-TYPE 
                           149                            732 
  DEL PEAK 21(13Q14.2) MUTATED DEL PEAK 21(13Q14.2) WILD-TYPE 
                           149                            732 
[1] "DEL PEAK 22(14Q31.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 22(14Q31.1) MUTATED DEL PEAK 22(14Q31.1) WILD-TYPE 
                           279                            602 
  DEL PEAK 22(14Q31.1) MUTATED DEL PEAK 22(14Q31.1) WILD-TYPE 
                           279                            602 
[1] "DEL PEAK 23(16Q23.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 23(16Q23.3) MUTATED DEL PEAK 23(16Q23.3) WILD-TYPE 
                            37                            844 
  DEL PEAK 23(16Q23.3) MUTATED DEL PEAK 23(16Q23.3) WILD-TYPE 
                            37                            844 
[1] "DEL PEAK 24(18Q22.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 24(18Q22.2) MUTATED DEL PEAK 24(18Q22.2) WILD-TYPE 
                           155                            726 
  DEL PEAK 24(18Q22.2) MUTATED DEL PEAK 24(18Q22.2) WILD-TYPE 
                           155                            726 
[1] "DEL PEAK 25(19P13.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 25(19P13.3) MUTATED DEL PEAK 25(19P13.3) WILD-TYPE 
                            43                            838 
  DEL PEAK 25(19P13.3) MUTATED DEL PEAK 25(19P13.3) WILD-TYPE 
                            43                            838 
[1] "DEL PEAK 26(XP22.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 26(XP22.2) MUTATED DEL PEAK 26(XP22.2) WILD-TYPE 
                          127                           754 
  DEL PEAK 26(XP22.2) MUTATED DEL PEAK 26(XP22.2) WILD-TYPE 
                          127                           754 
[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] "DAYS_TO_LAST_KNOWN_ALIVE"            
[13] "RADIATION_THERAPY"                   
[14] "KARNOFSKY_PERFORMANCE_SCORE"         
[15] "HISTOLOGICAL_TYPE"                   
[16] "NUMBER_PACK_YEARS_SMOKED"            
[17] "YEAR_OF_TOBACCO_SMOKING_ONSET"       
[18] "RACE"                                
[19] "ETHNICITY"                           

Input Data has 19 rows and 881 columns.

[1] "Last Follow UP"
Variable 1:'YEARS_TO_BIRTH':	nDistinctValues=63,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'VITAL_STATUS':	nDistinctValues=2,	numeric=TRUE,	binary=TRUE,	exclude=FALSE.
Variable 3:'DAYS_TO_DEATH':	nDistinctValues=213,	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=612,	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=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'PATHOLOGY_T_STAGE':	nDistinctValues=12,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'PATHOLOGY_N_STAGE':	nDistinctValues=4,	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=17,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
[1] "exclude grep('DATE', vnms) to deal with survival parameters seperately"
Variable 12:'DAYS_TO_LAST_KNOWN_ALIVE':	nDistinctValues=44,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
[1] "exclude grep('DAYS_?TO', vnms) to deal with survival parameters seperately"
Variable 13:'RADIATION_THERAPY':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 14:'KARNOFSKY_PERFORMANCE_SCORE':	nDistinctValues=10,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 15:'HISTOLOGICAL_TYPE':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 16:'NUMBER_PACK_YEARS_SMOKED':	nDistinctValues=44,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 17:'YEAR_OF_TOBACCO_SMOKING_ONSET':	nDistinctValues=40,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 18:'RACE':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 19:'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 881 columns, 1 survival variables, and 13 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"             "KARNOFSKY_PERFORMANCE_SCORE"  
 [9] "HISTOLOGICAL_TYPE"             "NUMBER_PACK_YEARS_SMOKED"     
[11] "YEAR_OF_TOBACCO_SMOKING_ONSET" "RACE"                         
[13] "ETHNICITY"                    
YEARS_TO_BIRTH, nv=63, binary=FALSE, numeric=TRUE
PATHOLOGIC_STAGE, nv=4, binary=FALSE, numeric=FALSE
PATHOLOGY_T_STAGE, nv=4, binary=FALSE, numeric=TRUE
[1] "grepl('PATHOLOGY.T',vnm)"
vv
 T1  T2  T3  T4 
479 127 258  15 
[1] "table(vv)"
vv
 T1  T2  T3  T4 
479 127 258  15 
$ClinVariableName
[1] "PATHOLOGY_T_STAGE"

$Table
vv
 T1  T2  T3  T4 
479 127 258  15 

$nClasses
[1] 4

$ClinVariableType
[1] "multiclass(4)"


 T1  T2  T3  T4 
479 127 258  15 
PATHOLOGY_N_STAGE, nv=3, binary=FALSE, numeric=TRUE
[1] "grepl('PATHOLOGY.N',vnm)"
vv
 N0  N1  N2 
322  44   7 
[1] "table(vv)"
vv
 N0  N1  N2 
322  44   7 
$ClinVariableName
[1] "PATHOLOGY_N_STAGE"

$Table
vv
 N0  N1  N2 
322  44   7 

$nClasses
[1] 3

$ClinVariableType
[1] "multiclass(3)"


 N0  N1  N2 
322  44   7 
PATHOLOGY_M_STAGE, nv=2, binary=FALSE, numeric=TRUE
GENDER, nv=2, binary=FALSE, numeric=FALSE
RADIATION_THERAPY, nv=2, binary=FALSE, numeric=FALSE
KARNOFSKY_PERFORMANCE_SCORE, nv=10, binary=FALSE, numeric=TRUE
HISTOLOGICAL_TYPE, nv=3, binary=FALSE, numeric=FALSE
NUMBER_PACK_YEARS_SMOKED, nv=44, binary=FALSE, numeric=TRUE
YEAR_OF_TOBACCO_SMOKING_ONSET, nv=40, binary=FALSE, numeric=TRUE
RACE, nv=4, binary=FALSE, numeric=FALSE
ETHNICITY, nv=2, binary=FALSE, numeric=FALSE

Clustering(1) Variable = AMP PEAK  1(1Q32.1) MUTATION ANALYSIS
D1V1, survival
                               sevent
clus2                             0   1
  AMP PEAK  1(1Q32.1) MUTATED    45  36
  AMP PEAK  1(1Q32.1) WILD-TYPE 600 192
  AMP PEAK  1(1Q32.1) MUTATED AMP PEAK  1(1Q32.1) WILD-TYPE 
                           81                           792 
  AMP PEAK  1(1Q32.1) MUTATED AMP PEAK  1(1Q32.1) WILD-TYPE 
                           36                           192 
$`AMP PEAK  1(1Q32.1) MUTATED`
TCGA-KN-8427 TCGA-A3-3316 TCGA-A3-3336 TCGA-A3-3343 TCGA-A3-3372 TCGA-A3-3382 
        0.99        49.08        34.29        31.07        24.16        18.87 
TCGA-AK-3430 TCGA-AK-3450 TCGA-AK-3455 TCGA-B0-4712 TCGA-B0-4713 TCGA-B0-4815 
       15.78        49.28        22.45        43.96         6.64        52.21 
TCGA-B0-4819 TCGA-B0-4838 TCGA-B0-4848 TCGA-B0-5092 TCGA-B0-5096 TCGA-B0-5109 
        6.02        27.42        29.03        15.09         2.24        19.30 
TCGA-B0-5115 TCGA-B0-5701 TCGA-B4-5843 TCGA-B8-4143 TCGA-B8-5551 TCGA-BP-4160 
       52.73        80.91         0.36        23.31         0.53        94.72 
TCGA-BP-4161 TCGA-BP-4174 TCGA-BP-4176 TCGA-BP-4329 TCGA-BP-4331 TCGA-BP-4342 
       90.28        61.78        64.27        27.78        80.68        74.17 
TCGA-BP-4352 TCGA-BP-4756 TCGA-BP-4768 TCGA-BP-4771 TCGA-BP-4781 TCGA-BP-4963 
       11.31        12.30        13.15         5.33        68.38        60.30 
TCGA-BP-4971 TCGA-BP-4974 TCGA-BP-4986 TCGA-BP-5173 TCGA-BP-5175 TCGA-CJ-4635 
       48.89         6.90        25.81         1.74        30.64        46.55 
TCGA-CJ-4640 TCGA-CJ-4873 TCGA-CJ-4876 TCGA-CJ-4881 TCGA-CJ-4895 TCGA-CJ-4916 
      114.41        74.27        64.27        66.21        39.45        45.14 
TCGA-CJ-4923 TCGA-CJ-5675 TCGA-CJ-5678 TCGA-CJ-5679 TCGA-CJ-6027 TCGA-CJ-6032 
       18.81       129.40        18.87        22.32       118.85       119.64 
TCGA-CW-5587 TCGA-CW-6090 TCGA-CW-6097 TCGA-CZ-4854 TCGA-CZ-4858 TCGA-CZ-4859 
       73.18        83.90        18.77        46.16        69.21        58.75 
TCGA-CZ-5452 TCGA-G6-A5PC TCGA-MM-A564 TCGA-2Z-A9J2 TCGA-5P-A9K9 TCGA-A4-7287 
       58.82         7.96        19.96        59.01        19.36        19.63 
TCGA-A4-A5Y1 TCGA-AL-3466 TCGA-AL-A5DJ TCGA-BQ-5885 TCGA-BQ-5887 TCGA-BQ-5890 
       12.99         9.63        49.25        30.28        25.35         7.66 
TCGA-BQ-5891 TCGA-BQ-5893 TCGA-DZ-6131 TCGA-G7-6789 TCGA-G7-A8LD TCGA-GL-7966 
        0.95         7.92        79.86         4.01        16.90         3.68 
TCGA-IA-A40Y TCGA-Q2-A5QZ TCGA-WN-A9G9 
        2.04        14.07        26.01 

$`AMP PEAK  1(1Q32.1) WILD-TYPE`
TCGA-KL-8323 TCGA-KL-8324 TCGA-KL-8325 TCGA-KL-8326 TCGA-KL-8327 TCGA-KL-8328 
       38.07       141.73        23.84       109.22       137.06       102.81 
TCGA-KL-8329 TCGA-KL-8330 TCGA-KL-8331 TCGA-KL-8332 TCGA-KL-8333 TCGA-KL-8334 
       90.48       108.62        98.96        84.89        98.33        96.95 
TCGA-KL-8335 TCGA-KL-8336 TCGA-KL-8337 TCGA-KL-8338 TCGA-KL-8339 TCGA-KL-8340 
       92.55        30.25        44.84        86.56        28.11        66.54 
TCGA-KL-8341 TCGA-KL-8342 TCGA-KL-8343 TCGA-KL-8344 TCGA-KL-8345 TCGA-KL-8346 
       24.79        73.91        71.41        28.80        54.74        62.37 
TCGA-KM-8438 TCGA-KM-8439 TCGA-KM-8440 TCGA-KM-8441 TCGA-KM-8442 TCGA-KM-8443 
      151.96        23.28        44.91        28.80        47.24        49.97 
TCGA-KM-8476 TCGA-KM-8477 TCGA-KM-8639 TCGA-KN-8418 TCGA-KN-8419 TCGA-KN-8421 
      123.12        51.06        31.33       129.37        23.47        87.91 
TCGA-KN-8422 TCGA-KN-8423 TCGA-KN-8424 TCGA-KN-8425 TCGA-KN-8426 TCGA-KN-8428 
       25.48        25.91        65.19       104.52         3.55        52.27 
TCGA-KN-8429 TCGA-KN-8431 TCGA-KN-8432 TCGA-KN-8433 TCGA-KN-8434 TCGA-KN-8435 
       87.12        19.33         2.50        11.21        59.08       115.00 
TCGA-KN-8436 TCGA-KN-8437 TCGA-KO-8403 TCGA-KO-8404 TCGA-KO-8405 TCGA-KO-8406 
       42.35       100.87       105.47        10.68       100.47       103.40 
TCGA-KO-8407 TCGA-KO-8408 TCGA-KO-8409 TCGA-KO-8410 TCGA-KO-8411 TCGA-KO-8413 
       92.71        16.67       104.55       103.10       130.13        99.88 
TCGA-KO-8414 TCGA-KO-8415 TCGA-KO-8416 TCGA-KO-8417 TCGA-3Z-A93Z TCGA-6D-AA2E 
      105.60        96.62        90.48        92.55        12.66        11.90 
TCGA-A3-3306 TCGA-A3-3307 TCGA-A3-3308 TCGA-A3-3311 TCGA-A3-3313 TCGA-A3-3317 
       36.82        47.21         0.53        39.16        24.16        49.02 
TCGA-A3-3319 TCGA-A3-3320 TCGA-A3-3322 TCGA-A3-3323 TCGA-A3-3324 TCGA-A3-3325 
       37.15        49.58        48.59        36.36        38.99        38.47 
TCGA-A3-3326 TCGA-A3-3331 TCGA-A3-3335 TCGA-A3-3346 TCGA-A3-3347 TCGA-A3-3349 
       37.38        48.82        62.01         4.50        52.93        45.53 
TCGA-A3-3351 TCGA-A3-3352 TCGA-A3-3357 TCGA-A3-3358 TCGA-A3-3359 TCGA-A3-3362 
       29.92        18.44        88.37        42.97        82.32        51.25 
TCGA-A3-3363 TCGA-A3-3365 TCGA-A3-3367 TCGA-A3-3370 TCGA-A3-3373 TCGA-A3-3374 
       10.49        28.70        74.63        74.76        53.29        43.20 
TCGA-A3-3376 TCGA-A3-3378 TCGA-A3-3380 TCGA-A3-3383 TCGA-A3-3385 TCGA-A3-3387 
       55.76        20.71        18.64        28.31        65.52        20.28 
TCGA-A3-A6NI TCGA-A3-A6NJ TCGA-A3-A6NL TCGA-A3-A6NN TCGA-A3-A8CQ TCGA-A3-A8OV 
       33.47        15.39        22.65         0.10         0.10        11.18 
TCGA-A3-A8OW TCGA-AK-3425 TCGA-AK-3426 TCGA-AK-3427 TCGA-AK-3428 TCGA-AK-3429 
       10.62       109.91        29.10       117.80        73.08       109.41 
TCGA-AK-3431 TCGA-AK-3433 TCGA-AK-3434 TCGA-AK-3436 TCGA-AK-3440 TCGA-AK-3443 
       73.68       112.08        68.61       109.51        94.19        46.78 
TCGA-AK-3444 TCGA-AK-3445 TCGA-AK-3447 TCGA-AK-3451 TCGA-AK-3453 TCGA-AK-3454 
       48.36        78.64        40.01        94.29        83.21        28.73 
TCGA-AK-3456 TCGA-AK-3458 TCGA-AK-3460 TCGA-AK-3461 TCGA-AK-3465 TCGA-AS-3777 
       37.58        38.40        82.45        72.89        12.13        40.70 
TCGA-AS-3778 TCGA-B0-4688 TCGA-B0-4690 TCGA-B0-4691 TCGA-B0-4693 TCGA-B0-4694 
        1.41         3.32         1.41         4.57         2.53         3.48 
TCGA-B0-4696 TCGA-B0-4697 TCGA-B0-4698 TCGA-B0-4699 TCGA-B0-4700 TCGA-B0-4701 
       28.47        19.00         1.38         3.62        65.10         7.82 
TCGA-B0-4703 TCGA-B0-4706 TCGA-B0-4707 TCGA-B0-4710 TCGA-B0-4714 TCGA-B0-4718 
        5.98         2.14        19.73        57.70         3.25        58.45 
TCGA-B0-4810 TCGA-B0-4811 TCGA-B0-4813 TCGA-B0-4814 TCGA-B0-4816 TCGA-B0-4817 
       15.72        46.59         0.59         5.52        45.07        33.50 
TCGA-B0-4818 TCGA-B0-4821 TCGA-B0-4822 TCGA-B0-4823 TCGA-B0-4824 TCGA-B0-4827 
       16.77        40.44        36.53        14.93        54.48        29.10 
TCGA-B0-4828 TCGA-B0-4833 TCGA-B0-4834 TCGA-B0-4836 TCGA-B0-4837 TCGA-B0-4839 
       10.09        78.44        68.71        40.70        45.30        53.88 
TCGA-B0-4841 TCGA-B0-4842 TCGA-B0-4843 TCGA-B0-4844 TCGA-B0-4845 TCGA-B0-4846 
        6.71        56.68        10.52        10.29        65.29        39.45 
TCGA-B0-4847 TCGA-B0-4849 TCGA-B0-4852 TCGA-B0-4945 TCGA-B0-5075 TCGA-B0-5077 
       26.07         2.27        36.85        70.52        20.94        43.30 
TCGA-B0-5080 TCGA-B0-5081 TCGA-B0-5084 TCGA-B0-5085 TCGA-B0-5088 TCGA-B0-5094 
       11.24        11.90         7.30        25.32        18.51        10.95 
TCGA-B0-5095 TCGA-B0-5097 TCGA-B0-5098 TCGA-B0-5099 TCGA-B0-5100 TCGA-B0-5102 
        8.05        21.86        52.08        15.95        62.89        90.87 
TCGA-B0-5104 TCGA-B0-5106 TCGA-B0-5107 TCGA-B0-5108 TCGA-B0-5110 TCGA-B0-5113 
       90.48        52.54        30.48        58.59        66.05        38.63 
TCGA-B0-5116 TCGA-B0-5117 TCGA-B0-5119 TCGA-B0-5120 TCGA-B0-5121 TCGA-B0-5399 
       41.88        52.87        51.02        38.43        48.82        46.39 
TCGA-B0-5400 TCGA-B0-5402 TCGA-B0-5690 TCGA-B0-5691 TCGA-B0-5692 TCGA-B0-5693 
       56.98        42.41       111.52       112.80       129.67       133.94 
TCGA-B0-5694 TCGA-B0-5695 TCGA-B0-5696 TCGA-B0-5697 TCGA-B0-5698 TCGA-B0-5699 
       15.78        70.68        85.78        86.47       119.38       126.28 
TCGA-B0-5702 TCGA-B0-5703 TCGA-B0-5705 TCGA-B0-5706 TCGA-B0-5709 TCGA-B0-5710 
       71.41        73.84       149.16       105.37       130.65        79.89 
TCGA-B0-5711 TCGA-B0-5712 TCGA-B0-5713 TCGA-B0-5812 TCGA-B2-3923 TCGA-B2-3924 
      131.15        89.49        91.46       126.05        32.61        35.90 
TCGA-B2-4098 TCGA-B2-4099 TCGA-B2-4101 TCGA-B2-4102 TCGA-B2-5633 TCGA-B2-5635 
        1.68        31.96        21.30        31.30        31.66        24.82 
TCGA-B2-5639 TCGA-B2-5641 TCGA-B2-A4SR TCGA-B4-5377 TCGA-B4-5378 TCGA-B4-5832 
       32.98        21.57        16.67        12.00         5.75         5.10 
TCGA-B4-5834 TCGA-B4-5835 TCGA-B4-5836 TCGA-B4-5838 TCGA-B4-5844 TCGA-B8-4146 
        0.85         0.53         4.64         5.46         0.23        16.80 
TCGA-B8-4148 TCGA-B8-4151 TCGA-B8-4153 TCGA-B8-4154 TCGA-B8-4619 TCGA-B8-4620 
       27.16        42.71        25.05        45.37        17.19        25.55 
TCGA-B8-4621 TCGA-B8-4622 TCGA-B8-5158 TCGA-B8-5159 TCGA-B8-5162 TCGA-B8-5163 
       25.91        50.14        20.91        23.74         1.18        27.02 
TCGA-B8-5164 TCGA-B8-5165 TCGA-B8-5545 TCGA-B8-5546 TCGA-B8-5549 TCGA-B8-5550 
        0.85        24.23        50.14        16.60         6.38        48.53 
TCGA-B8-5552 TCGA-B8-5553 TCGA-B8-A54D TCGA-B8-A54E TCGA-B8-A54F TCGA-B8-A54G 
       34.39        14.30        27.29        29.88        17.06         1.74 
TCGA-B8-A54H TCGA-B8-A54I TCGA-B8-A54J TCGA-B8-A54K TCGA-B8-A7U6 TCGA-B8-A8YJ 
        8.42         4.93        17.36        15.42        16.27        14.17 
TCGA-BP-4158 TCGA-BP-4159 TCGA-BP-4162 TCGA-BP-4163 TCGA-BP-4164 TCGA-BP-4165 
      111.02        85.51       101.06        93.34        32.61        99.85 
TCGA-BP-4166 TCGA-BP-4167 TCGA-BP-4169 TCGA-BP-4170 TCGA-BP-4173 TCGA-BP-4177 
        0.43        89.36        23.05        77.03        62.24        54.90 
TCGA-BP-4325 TCGA-BP-4326 TCGA-BP-4327 TCGA-BP-4330 TCGA-BP-4332 TCGA-BP-4334 
       97.45        53.42         3.58        62.07        37.25        21.21 
TCGA-BP-4335 TCGA-BP-4337 TCGA-BP-4338 TCGA-BP-4340 TCGA-BP-4341 TCGA-BP-4343 
       15.16         0.07        93.99        18.48        52.24        62.86 
TCGA-BP-4344 TCGA-BP-4346 TCGA-BP-4347 TCGA-BP-4349 TCGA-BP-4351 TCGA-BP-4353 
       54.77        49.08        44.94        12.23        31.89        12.33 
TCGA-BP-4354 TCGA-BP-4355 TCGA-BP-4758 TCGA-BP-4759 TCGA-BP-4760 TCGA-BP-4761 
       33.99        31.33        72.59        77.98        77.62         5.98 
TCGA-BP-4762 TCGA-BP-4763 TCGA-BP-4765 TCGA-BP-4766 TCGA-BP-4769 TCGA-BP-4770 
       44.15        41.75        71.80        48.07        61.68        10.82 
TCGA-BP-4774 TCGA-BP-4775 TCGA-BP-4776 TCGA-BP-4777 TCGA-BP-4782 TCGA-BP-4784 
       61.97        60.59        13.51        56.91        11.64        60.95 
TCGA-BP-4787 TCGA-BP-4789 TCGA-BP-4790 TCGA-BP-4795 TCGA-BP-4797 TCGA-BP-4798 
       15.78        48.95        36.53        20.38        36.39        10.98 
TCGA-BP-4799 TCGA-BP-4801 TCGA-BP-4803 TCGA-BP-4804 TCGA-BP-4807 TCGA-BP-4959 
       37.25        36.95         6.71        47.97         6.94        87.45 
TCGA-BP-4960 TCGA-BP-4961 TCGA-BP-4962 TCGA-BP-4964 TCGA-BP-4965 TCGA-BP-4967 
       71.41        63.62        58.68        61.22        61.51         6.74 
TCGA-BP-4968 TCGA-BP-4969 TCGA-BP-4970 TCGA-BP-4972 TCGA-BP-4973 TCGA-BP-4975 
       57.40        58.98        14.24        49.38        45.50        47.11 
TCGA-BP-4976 TCGA-BP-4977 TCGA-BP-4981 TCGA-BP-4982 TCGA-BP-4983 TCGA-BP-4985 
       53.65        14.93        36.07        33.34        46.45        31.30 
TCGA-BP-4987 TCGA-BP-4988 TCGA-BP-4989 TCGA-BP-4991 TCGA-BP-4992 TCGA-BP-4993 
       36.95        27.22         3.88        46.45        16.47         5.82 
TCGA-BP-4994 TCGA-BP-4995 TCGA-BP-4998 TCGA-BP-4999 TCGA-BP-5000 TCGA-BP-5001 
       43.00        45.07        30.64        41.62        18.51        38.70 
TCGA-BP-5004 TCGA-BP-5006 TCGA-BP-5007 TCGA-BP-5008 TCGA-BP-5009 TCGA-BP-5010 
       37.02        27.62        37.48        35.21        36.23        28.87 
TCGA-BP-5168 TCGA-BP-5169 TCGA-BP-5170 TCGA-BP-5174 TCGA-BP-5176 TCGA-BP-5177 
       48.10         6.35        79.30        74.20        52.27         9.63 
TCGA-BP-5178 TCGA-BP-5180 TCGA-BP-5181 TCGA-BP-5182 TCGA-BP-5183 TCGA-BP-5184 
       62.86        74.40        49.15        38.30        42.44        37.25 
TCGA-BP-5185 TCGA-BP-5186 TCGA-BP-5187 TCGA-BP-5189 TCGA-BP-5190 TCGA-BP-5191 
       37.22        22.78        13.35        27.02        33.24        31.79 
TCGA-BP-5192 TCGA-BP-5194 TCGA-BP-5195 TCGA-BP-5196 TCGA-BP-5198 TCGA-BP-5199 
       23.47        13.41        24.62        33.47        19.82        44.55 
TCGA-BP-5200 TCGA-BP-5201 TCGA-BP-5202 TCGA-CJ-4634 TCGA-CJ-4636 TCGA-CJ-4637 
       34.95        31.27         0.95       115.00        63.25        73.22 
TCGA-CJ-4638 TCGA-CJ-4639 TCGA-CJ-4641 TCGA-CJ-4642 TCGA-CJ-4643 TCGA-CJ-4644 
       14.17       106.16        54.61       105.37        58.95        11.05 
TCGA-CJ-4868 TCGA-CJ-4869 TCGA-CJ-4870 TCGA-CJ-4871 TCGA-CJ-4872 TCGA-CJ-4874 
       21.24        83.97        49.25        79.66        10.72        75.06 
TCGA-CJ-4875 TCGA-CJ-4878 TCGA-CJ-4882 TCGA-CJ-4884 TCGA-CJ-4885 TCGA-CJ-4886 
      116.84        71.87        61.91        57.83       113.46        64.18 
TCGA-CJ-4887 TCGA-CJ-4888 TCGA-CJ-4889 TCGA-CJ-4890 TCGA-CJ-4891 TCGA-CJ-4892 
       30.64        51.52        63.98       115.69        26.93        50.01 
TCGA-CJ-4893 TCGA-CJ-4894 TCGA-CJ-4897 TCGA-CJ-4899 TCGA-CJ-4900 TCGA-CJ-4901 
       24.66        27.65       109.84        50.24        56.35        47.67 
TCGA-CJ-4902 TCGA-CJ-4903 TCGA-CJ-4904 TCGA-CJ-4905 TCGA-CJ-4907 TCGA-CJ-4908 
       49.97        51.25       108.56        49.18        49.28        50.33 
TCGA-CJ-4912 TCGA-CJ-4913 TCGA-CJ-4918 TCGA-CJ-4920 TCGA-CJ-5671 TCGA-CJ-5672 
       54.48        38.56         3.06         4.57       131.08        72.00 
TCGA-CJ-5676 TCGA-CJ-5677 TCGA-CJ-5680 TCGA-CJ-5681 TCGA-CJ-5682 TCGA-CJ-5683 
      133.71        25.71        25.25        18.15       122.83        62.10 
TCGA-CJ-5684 TCGA-CJ-5686 TCGA-CJ-5689 TCGA-CJ-6028 TCGA-CJ-6030 TCGA-CJ-6031 
       73.35        67.00        53.26        53.42        75.58        62.66 
TCGA-CJ-6033 TCGA-CW-5580 TCGA-CW-5581 TCGA-CW-5583 TCGA-CW-5584 TCGA-CW-5585 
        7.36        64.57        92.02        81.83         5.39        85.78 
TCGA-CW-5588 TCGA-CW-5589 TCGA-CW-5591 TCGA-CW-6087 TCGA-CW-6088 TCGA-CW-6093 
       66.31        78.18        74.66         1.35       105.93       103.43 
TCGA-CZ-4853 TCGA-CZ-4856 TCGA-CZ-4857 TCGA-CZ-4860 TCGA-CZ-4861 TCGA-CZ-4862 
       25.45         0.59        47.08         6.77        14.66       107.54 
TCGA-CZ-4863 TCGA-CZ-4864 TCGA-CZ-4865 TCGA-CZ-4866 TCGA-CZ-5451 TCGA-CZ-5453 
       63.39        93.04         5.46        61.41        63.42        79.53 
TCGA-CZ-5454 TCGA-CZ-5455 TCGA-CZ-5456 TCGA-CZ-5457 TCGA-CZ-5458 TCGA-CZ-5459 
       23.74        18.44        79.63        90.54        91.69        55.33 
TCGA-CZ-5460 TCGA-CZ-5461 TCGA-CZ-5462 TCGA-CZ-5463 TCGA-CZ-5464 TCGA-CZ-5465 
       94.45        10.85        10.22        21.76        69.96        84.30 
TCGA-CZ-5466 TCGA-CZ-5467 TCGA-CZ-5468 TCGA-CZ-5469 TCGA-CZ-5470 TCGA-CZ-5982 
       22.52         2.40         1.94        31.10        12.69        80.19 
TCGA-CZ-5984 TCGA-CZ-5985 TCGA-CZ-5986 TCGA-CZ-5987 TCGA-CZ-5988 TCGA-CZ-5989 
       67.96        65.65        12.26        14.63        22.78        62.63 
TCGA-DV-5565 TCGA-DV-5566 TCGA-DV-5567 TCGA-DV-5568 TCGA-DV-5569 TCGA-DV-5573 
       13.28        45.96        65.88        12.16        11.67        37.15 
TCGA-DV-5574 TCGA-DV-5575 TCGA-DV-5576 TCGA-DV-A4VX TCGA-DV-A4VZ TCGA-DV-A4W0 
       66.28        56.84        23.90        53.46        12.00        81.21 
TCGA-EU-5904 TCGA-EU-5905 TCGA-EU-5906 TCGA-EU-5907 TCGA-G6-A8L6 TCGA-G6-A8L7 
       18.12         3.91         6.77         4.18        10.29        70.13 
TCGA-G6-A8L8 TCGA-GK-A6C7 TCGA-MM-A563 TCGA-MM-A84U TCGA-MW-A4EC TCGA-T7-A92I 
       35.87         2.01        19.43        23.01        16.37        11.70 
TCGA-2K-A9WE TCGA-2Z-A9J1 TCGA-2Z-A9J3 TCGA-2Z-A9J5 TCGA-2Z-A9J6 TCGA-2Z-A9J7 
        7.04        75.55        58.22       100.27        56.91         4.57 
TCGA-2Z-A9J8 TCGA-2Z-A9J9 TCGA-2Z-A9JD TCGA-2Z-A9JE TCGA-2Z-A9JG TCGA-2Z-A9JI 
       91.73        75.42        34.85        56.81        54.64        51.52 
TCGA-2Z-A9JJ TCGA-2Z-A9JK TCGA-2Z-A9JL TCGA-2Z-A9JM TCGA-2Z-A9JN TCGA-2Z-A9JO 
       39.88        38.99        33.07        30.71        24.33        31.20 
TCGA-2Z-A9JP TCGA-2Z-A9JQ TCGA-2Z-A9JR TCGA-2Z-A9JS TCGA-2Z-A9JT TCGA-4A-A93W 
       29.36        25.58         5.29        16.18        22.49         0.13 
TCGA-4A-A93X TCGA-4A-A93Y TCGA-5P-A9JU TCGA-5P-A9JV TCGA-5P-A9JW TCGA-5P-A9JY 
       12.82        11.57        12.26        67.17       106.55        49.58 
TCGA-5P-A9JZ TCGA-5P-A9K0 TCGA-5P-A9K2 TCGA-5P-A9K3 TCGA-5P-A9K4 TCGA-5P-A9K6 
       90.21        22.26        78.64        15.48        71.80        62.93 
TCGA-5P-A9K8 TCGA-5P-A9KA TCGA-5P-A9KC TCGA-5P-A9KE TCGA-5P-A9KH TCGA-A4-7286 
       43.04        12.99        12.39        27.09        67.43        18.21 
TCGA-A4-7288 TCGA-A4-7583 TCGA-A4-7584 TCGA-A4-7585 TCGA-A4-7732 TCGA-A4-7734 
       61.05         0.10        21.37        35.18        19.13         0.89 
TCGA-A4-7828 TCGA-A4-7915 TCGA-A4-7996 TCGA-A4-7997 TCGA-A4-8098 TCGA-A4-8310 
        7.82         0.23        16.64        30.48        29.46        25.64 
TCGA-A4-8311 TCGA-A4-8312 TCGA-A4-8515 TCGA-A4-8516 TCGA-A4-8517 TCGA-A4-8518 
       23.97        23.28        23.31         0.76        19.63        19.73 
TCGA-A4-8630 TCGA-A4-A48D TCGA-A4-A4ZT TCGA-A4-A57E TCGA-A4-A5DU TCGA-A4-A5XZ 
       14.33        12.46        16.96         8.48        16.31        15.75 
TCGA-A4-A5Y0 TCGA-A4-A6HP TCGA-AL-3467 TCGA-AL-3468 TCGA-AL-3471 TCGA-AL-3472 
        8.28        12.46        70.19        76.64        49.32        66.71 
TCGA-AL-3473 TCGA-AL-7173 TCGA-AT-A5NU TCGA-B1-5398 TCGA-B1-7332 TCGA-B1-A47M 
       62.66        67.73         2.20        19.56        37.51        21.67 
TCGA-B1-A47N TCGA-B1-A47O TCGA-B1-A654 TCGA-B1-A655 TCGA-B1-A656 TCGA-B1-A657 
       24.56        16.87        20.25        16.77        20.32        21.07 
TCGA-B3-3925 TCGA-B3-3926 TCGA-B3-4103 TCGA-B3-4104 TCGA-B3-8121 TCGA-B3-A6W5 
       33.83        10.09        30.58        34.49        12.46        10.16 
TCGA-B9-4113 TCGA-B9-4114 TCGA-B9-4115 TCGA-B9-4116 TCGA-B9-4117 TCGA-B9-4617 
       50.50        28.18        26.40        20.61         0.46         1.15 
TCGA-B9-5155 TCGA-B9-5156 TCGA-B9-7268 TCGA-B9-A44B TCGA-B9-A5W7 TCGA-B9-A5W8 
       15.12        43.99        22.06         2.10        19.23        17.23 
TCGA-B9-A5W9 TCGA-B9-A69E TCGA-B9-A8YH TCGA-B9-A8YI TCGA-BQ-5875 TCGA-BQ-5876 
        0.16        14.86        17.49        12.30        86.76        19.27 
TCGA-BQ-5877 TCGA-BQ-5878 TCGA-BQ-5879 TCGA-BQ-5880 TCGA-BQ-5881 TCGA-BQ-5882 
        8.88        63.72        22.92        43.20        47.80        21.63 
TCGA-BQ-5883 TCGA-BQ-5884 TCGA-BQ-5886 TCGA-BQ-5888 TCGA-BQ-5889 TCGA-BQ-5892 
       40.83        26.04        26.04        13.25        10.82        11.97 
TCGA-BQ-5894 TCGA-BQ-7044 TCGA-BQ-7045 TCGA-BQ-7046 TCGA-BQ-7048 TCGA-BQ-7049 
        2.76       123.62        48.26        96.92        93.34        44.84 
TCGA-BQ-7050 TCGA-BQ-7051 TCGA-BQ-7053 TCGA-BQ-7055 TCGA-BQ-7056 TCGA-BQ-7058 
       61.28        50.40        49.84        26.27        20.12        11.28 
TCGA-BQ-7059 TCGA-BQ-7060 TCGA-BQ-7061 TCGA-BQ-7062 TCGA-DW-5560 TCGA-DW-5561 
        7.63         7.04         7.17         3.81        48.85        13.61 
TCGA-DW-7834 TCGA-DW-7836 TCGA-DW-7837 TCGA-DW-7838 TCGA-DW-7839 TCGA-DW-7840 
      129.86        35.93        37.55        24.46        13.78         3.75 
TCGA-DW-7841 TCGA-DW-7842 TCGA-DW-7963 TCGA-DZ-6132 TCGA-DZ-6133 TCGA-DZ-6134 
       14.63         3.02        40.77        80.88        51.19        61.02 
TCGA-DZ-6135 TCGA-EV-5901 TCGA-EV-5902 TCGA-EV-5903 TCGA-F9-A4JJ TCGA-F9-A7Q0 
       74.60        34.19        19.00        24.89        10.68        13.08 
TCGA-F9-A7VF TCGA-F9-A8NY TCGA-F9-A97G TCGA-G7-6790 TCGA-G7-6792 TCGA-G7-6793 
        2.40         1.18         0.43        51.78        90.90        11.05 
TCGA-G7-6795 TCGA-G7-6796 TCGA-G7-6797 TCGA-G7-7501 TCGA-G7-7502 TCGA-G7-A4TM 
       39.25        71.44        25.15        20.52        25.84         6.38 
TCGA-G7-A8LB TCGA-G7-A8LC TCGA-G7-A8LE TCGA-GL-6846 TCGA-GL-7773 TCGA-GL-8500 
       17.98        23.08        80.65       194.79        12.92        27.65 
TCGA-GL-A4EM TCGA-GL-A59R TCGA-GL-A59T TCGA-GL-A9DC TCGA-GL-A9DD TCGA-GL-A9DE 
        1.05        12.43        17.95        12.89        11.21        16.31 
TCGA-HE-A5NF TCGA-HE-A5NH TCGA-HE-A5NI TCGA-HE-A5NJ TCGA-HE-A5NK TCGA-HE-A5NL 
       84.89        26.01        11.84        56.75        73.25        25.22 
TCGA-IA-A40U TCGA-IA-A40X TCGA-IA-A83S TCGA-IA-A83T TCGA-IA-A83V TCGA-IA-A83W 
       16.80        19.99        85.78        88.24        96.69        67.17 
TCGA-IZ-8195 TCGA-IZ-8196 TCGA-IZ-A6M8 TCGA-IZ-A6M9 TCGA-J7-6720 TCGA-J7-8537 
       22.26        21.34        16.34        12.36        12.76        10.55 
TCGA-KV-A6GD TCGA-KV-A6GE TCGA-KV-A74V TCGA-MH-A55W TCGA-MH-A55Z TCGA-MH-A560 
       18.41        29.10        11.41        34.29        27.78        30.38 
TCGA-MH-A561 TCGA-MH-A562 TCGA-MH-A854 TCGA-MH-A855 TCGA-MH-A856 TCGA-MH-A857 
       27.65        20.25        17.62        12.13        31.13        29.26 
TCGA-O9-A75Z TCGA-P4-A5E6 TCGA-P4-A5E7 TCGA-P4-A5E8 TCGA-P4-A5EA TCGA-P4-A5EB 
       15.48        99.78        87.09        42.94         6.61        99.12 
TCGA-P4-A5ED TCGA-P4-AAVK TCGA-P4-AAVL TCGA-P4-AAVM TCGA-P4-AAVO TCGA-PJ-A5Z8 
       92.58        52.27        16.01        50.60        78.90        19.73 
TCGA-PJ-A5Z9 TCGA-SX-A71R TCGA-SX-A71S TCGA-SX-A71U TCGA-SX-A71V TCGA-SX-A7SL 
       17.75        47.90        49.45        44.61        28.80        27.06 
TCGA-SX-A7SM TCGA-SX-A7SN TCGA-SX-A7SO TCGA-SX-A7SP TCGA-SX-A7SQ TCGA-SX-A7SR 
       11.93        19.00        41.33        16.31        41.62        26.47 
TCGA-SX-A7SS TCGA-SX-A7SU TCGA-UN-AAZ9 TCGA-UZ-A9PJ TCGA-UZ-A9PK TCGA-UZ-A9PL 
       53.10        43.76        18.02        26.20       117.40       103.63 
TCGA-UZ-A9PM TCGA-UZ-A9PN TCGA-UZ-A9PO TCGA-UZ-A9PP TCGA-UZ-A9PQ TCGA-UZ-A9PR 
      125.29        37.35        62.83        98.96        86.27        86.37 
TCGA-UZ-A9PS TCGA-UZ-A9PU TCGA-UZ-A9PV TCGA-UZ-A9PX TCGA-UZ-A9PZ TCGA-UZ-A9Q0 
       71.24        30.67        47.47        65.13        21.60       110.73 
TCGA-UZ-A9Q1 TCGA-V9-A7HT TCGA-WN-AB4C TCGA-Y8-A894 TCGA-Y8-A895 TCGA-Y8-A896 
       51.35        31.73        39.06        18.64        15.91        18.64 
TCGA-Y8-A897 TCGA-Y8-A898 TCGA-Y8-A8RY TCGA-Y8-A8RZ TCGA-Y8-A8S0 TCGA-Y8-A8S1 
       18.05        15.62        25.28         3.68         6.02        13.28 

  AMP PEAK  1(1Q32.1) MUTATED AMP PEAK  1(1Q32.1) WILD-TYPE 
                         0.36                          0.07 
  AMP PEAK  1(1Q32.1) MUTATED AMP PEAK  1(1Q32.1) WILD-TYPE 
                       129.40                        194.79 
  AMP PEAK  1(1Q32.1) MUTATED AMP PEAK  1(1Q32.1) WILD-TYPE 
                       27.420                        35.915 
[1] "0.4 - 129.4 (27.4)" "0.1 - 194.8 (35.9)"
[1] "hr=" "2.1"
D1V2, continuous
                               vv
clus                            STAGE I STAGE II STAGE III STAGE IV
  AMP PEAK  1(1Q32.1) MUTATED        24       10        31       16
  AMP PEAK  1(1Q32.1) WILD-TYPE     431       94       160       88
D1V3, multiclass
           clus
vv          AMP PEAK  1(1Q32.1) MUTATED AMP PEAK  1(1Q32.1) WILD-TYPE
  STAGE I                            24                           431
  STAGE II                           10                            94
  STAGE III                          31                           160
  STAGE IV                           16                            88
[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                             T1  T2  T3  T4
  AMP PEAK  1(1Q32.1) MUTATED    27  12  42   1
  AMP PEAK  1(1Q32.1) WILD-TYPE 452 115 216  14
D1V4, multiclass
    clus
vv   AMP PEAK  1(1Q32.1) MUTATED AMP PEAK  1(1Q32.1) WILD-TYPE
  T1                          27                           452
  T2                          12                           115
  T3                          42                           216
  T4                           1                            14
[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                             N0  N1  N2
  AMP PEAK  1(1Q32.1) MUTATED    35  10   2
  AMP PEAK  1(1Q32.1) WILD-TYPE 287  34   5
D1V5, multiclass
    clus
vv   AMP PEAK  1(1Q32.1) MUTATED AMP PEAK  1(1Q32.1) WILD-TYPE
  N0                          35                           287
  N1                          10                            34
  N2                           2                             5
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D1V6, binary
                               cls
clus                              0   1
  AMP PEAK  1(1Q32.1) MUTATED    54  14
  AMP PEAK  1(1Q32.1) WILD-TYPE 491  75
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  1(1Q32.1) MUTATED     54   14
  AMP PEAK  1(1Q32.1) WILD-TYPE  491   75
   clus
vv  AMP PEAK  1(1Q32.1) MUTATED AMP PEAK  1(1Q32.1) WILD-TYPE
  0                          54                           491
  1                          14                            75
[1] 2 2
[1] FALSE
D1V7, binary
                               cls
clus                              0   1
  AMP PEAK  1(1Q32.1) MUTATED    30  52
  AMP PEAK  1(1Q32.1) WILD-TYPE 262 537
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  1(1Q32.1) MUTATED     30   52
  AMP PEAK  1(1Q32.1) WILD-TYPE  262  537
        clus
vv       AMP PEAK  1(1Q32.1) MUTATED AMP PEAK  1(1Q32.1) WILD-TYPE
  FEMALE                          30                           262
  MALE                            52                           537
[1] 2 2
[1] FALSE
D1V8, binary
                               cls
clus                              0   1
  AMP PEAK  1(1Q32.1) MUTATED    19   0
  AMP PEAK  1(1Q32.1) WILD-TYPE 381   3
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  1(1Q32.1) MUTATED     19    0
  AMP PEAK  1(1Q32.1) WILD-TYPE  381    3
     clus
vv    AMP PEAK  1(1Q32.1) MUTATED AMP PEAK  1(1Q32.1) WILD-TYPE
  NO                           19                           381
  YES                           0                             3
[1] 2 2
[1] FALSE
D1V9, continuous
                               vv
clus                            KIDNEY CHROMOPHOBE
  AMP PEAK  1(1Q32.1) MUTATED                    1
  AMP PEAK  1(1Q32.1) WILD-TYPE                 65
                               vv
clus                            KIDNEY CLEAR CELL RENAL CARCINOMA
  AMP PEAK  1(1Q32.1) MUTATED                                  62
  AMP PEAK  1(1Q32.1) WILD-TYPE                               466
                               vv
clus                            KIDNEY PAPILLARY RENAL CELL CARCINOMA
  AMP PEAK  1(1Q32.1) MUTATED                                      19
  AMP PEAK  1(1Q32.1) WILD-TYPE                                   268
D1V10, multiclass
                                       clus
vv                                      AMP PEAK  1(1Q32.1) MUTATED
  KIDNEY CHROMOPHOBE                                              1
  KIDNEY CLEAR CELL RENAL CARCINOMA                              62
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                          19
                                       clus
vv                                      AMP PEAK  1(1Q32.1) WILD-TYPE
  KIDNEY CHROMOPHOBE                                               65
  KIDNEY CLEAR CELL RENAL CARCINOMA                               466
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                           268
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D1V11, continuous
D1V12, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK  1(1Q32.1) MUTATED                                  0     1
  AMP PEAK  1(1Q32.1) WILD-TYPE                                2    14
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  1(1Q32.1) MUTATED                           5    75
  AMP PEAK  1(1Q32.1) WILD-TYPE                       116   644
D1V13, multiclass
                                  clus
vv                                 AMP PEAK  1(1Q32.1) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                      1
  BLACK OR AFRICAN AMERICAN                                  5
  WHITE                                                     75
                                  clus
vv                                 AMP PEAK  1(1Q32.1) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             2
  ASIAN                                                       14
  BLACK OR AFRICAN AMERICAN                                  116
  WHITE                                                      644
[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"
D1V14, binary
                               cls
clus                              0   1
  AMP PEAK  1(1Q32.1) MUTATED     6  53
  AMP PEAK  1(1Q32.1) WILD-TYPE  36 568
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  1(1Q32.1) MUTATED      6   53
  AMP PEAK  1(1Q32.1) WILD-TYPE   36  568
                        clus
vv                       AMP PEAK  1(1Q32.1) MUTATED
  HISPANIC OR LATINO                               6
  NOT HISPANIC OR LATINO                          53
                        clus
vv                       AMP PEAK  1(1Q32.1) WILD-TYPE
  HISPANIC OR LATINO                                36
  NOT HISPANIC OR LATINO                           568
[1] 2 2
[1] FALSE

Clustering(2) Variable = AMP PEAK  2(2Q32.1) MUTATION ANALYSIS
D2V1, survival
                               sevent
clus2                             0   1
  AMP PEAK  2(2Q32.1) MUTATED   103  33
  AMP PEAK  2(2Q32.1) WILD-TYPE 542 195
  AMP PEAK  2(2Q32.1) MUTATED AMP PEAK  2(2Q32.1) WILD-TYPE 
                          136                           737 
  AMP PEAK  2(2Q32.1) MUTATED AMP PEAK  2(2Q32.1) WILD-TYPE 
                           33                           195 
$`AMP PEAK  2(2Q32.1) MUTATED`
TCGA-KN-8427 TCGA-KO-8410 TCGA-3Z-A93Z TCGA-A3-3372 TCGA-A3-3382 TCGA-A3-A8CQ 
        0.99       103.10        12.66        24.16        18.87         0.10 
TCGA-AK-3429 TCGA-AK-3444 TCGA-AK-3450 TCGA-B0-4706 TCGA-B0-4707 TCGA-B0-4710 
      109.41        48.36        49.28         2.14        19.73        57.70 
TCGA-B0-4811 TCGA-B0-4821 TCGA-B0-5099 TCGA-B0-5104 TCGA-B0-5113 TCGA-B0-5702 
       46.59        40.44        15.95        90.48        38.63        71.41 
TCGA-B4-5832 TCGA-B4-5838 TCGA-B4-5843 TCGA-B8-4620 TCGA-B8-5159 TCGA-B8-5550 
        5.10         5.46         0.36        25.55        23.74        48.53 
TCGA-B8-5551 TCGA-B8-A54I TCGA-BP-4161 TCGA-BP-4162 TCGA-BP-4166 TCGA-BP-4170 
        0.53         4.93        90.28       101.06         0.43        77.03 
TCGA-BP-4174 TCGA-BP-4337 TCGA-BP-4338 TCGA-BP-4340 TCGA-BP-4342 TCGA-BP-4347 
       61.78         0.07        93.99        18.48        74.17        44.94 
TCGA-BP-4349 TCGA-BP-4351 TCGA-BP-4756 TCGA-BP-4763 TCGA-BP-4766 TCGA-BP-4768 
       12.23        31.89        12.30        41.75        48.07        13.15 
TCGA-BP-4775 TCGA-BP-4781 TCGA-BP-4799 TCGA-BP-4804 TCGA-BP-4969 TCGA-BP-4985 
       60.59        68.38        37.25        47.97        58.98        31.30 
TCGA-BP-4989 TCGA-BP-5001 TCGA-BP-5173 TCGA-BP-5174 TCGA-BP-5177 TCGA-BP-5178 
        3.88        38.70         1.74        74.20         9.63        62.86 
TCGA-BP-5185 TCGA-BP-5196 TCGA-BP-5200 TCGA-CJ-4644 TCGA-CJ-4876 TCGA-CJ-4893 
       37.22        33.47        34.95        11.05        64.27        24.66 
TCGA-CJ-4897 TCGA-CJ-4901 TCGA-CJ-4903 TCGA-CJ-4907 TCGA-CJ-5671 TCGA-CJ-5672 
      109.84        47.67        51.25        49.28       131.08        72.00 
TCGA-CJ-5676 TCGA-CJ-5682 TCGA-CJ-6028 TCGA-CJ-6032 TCGA-CW-5587 TCGA-CW-5591 
      133.71       122.83        53.42       119.64        73.18        74.66 
TCGA-CZ-4854 TCGA-CZ-4859 TCGA-CZ-4860 TCGA-CZ-5456 TCGA-CZ-5457 TCGA-CZ-5460 
       46.16        58.75         6.77        79.63        90.54        94.45 
TCGA-CZ-5461 TCGA-CZ-5469 TCGA-DV-A4VX TCGA-DV-A4W0 TCGA-EU-5905 TCGA-2Z-A9J5 
       10.85        31.10        53.46        81.21         3.91       100.27 
TCGA-2Z-A9JR TCGA-5P-A9K9 TCGA-A4-7585 TCGA-A4-A4ZT TCGA-A4-A57E TCGA-A4-A5DU 
        5.29        19.36        35.18        16.96         8.48        16.31 
TCGA-A4-A5XZ TCGA-A4-A5Y0 TCGA-AL-3466 TCGA-AL-3471 TCGA-AL-7173 TCGA-AT-A5NU 
       15.75         8.28         9.63        49.32        67.73         2.20 
TCGA-B1-7332 TCGA-B1-A657 TCGA-B3-A6W5 TCGA-B9-4117 TCGA-B9-A44B TCGA-B9-A69E 
       37.51        21.07        10.16         0.46         2.10        14.86 
TCGA-BQ-5878 TCGA-BQ-5885 TCGA-BQ-5892 TCGA-BQ-5893 TCGA-BQ-5894 TCGA-BQ-7046 
       63.72        30.28        11.97         7.92         2.76        96.92 
TCGA-DW-5561 TCGA-DZ-6131 TCGA-DZ-6133 TCGA-F9-A8NY TCGA-G7-6789 TCGA-G7-6790 
       13.61        79.86        51.19         1.18         4.01        51.78 
TCGA-G7-6795 TCGA-G7-7502 TCGA-G7-A8LC TCGA-GL-7966 TCGA-GL-A59T TCGA-HE-A5NF 
       39.25        25.84        23.08         3.68        17.95        84.89 
TCGA-HE-A5NI TCGA-IA-A40U TCGA-IA-A40Y TCGA-KV-A6GD TCGA-KV-A6GE TCGA-KV-A74V 
       11.84        16.80         2.04        18.41        29.10        11.41 
TCGA-MH-A55W TCGA-P4-A5E8 TCGA-P4-A5EB TCGA-PJ-A5Z9 TCGA-Q2-A5QZ TCGA-SX-A71V 
       34.29        42.94        99.12        17.75        14.07        28.80 
TCGA-SX-A7SQ TCGA-UZ-A9PK TCGA-UZ-A9PQ TCGA-V9-A7HT 
       41.62       117.40        86.27        31.73 

$`AMP PEAK  2(2Q32.1) WILD-TYPE`
TCGA-KL-8323 TCGA-KL-8324 TCGA-KL-8325 TCGA-KL-8326 TCGA-KL-8327 TCGA-KL-8328 
       38.07       141.73        23.84       109.22       137.06       102.81 
TCGA-KL-8329 TCGA-KL-8330 TCGA-KL-8331 TCGA-KL-8332 TCGA-KL-8333 TCGA-KL-8334 
       90.48       108.62        98.96        84.89        98.33        96.95 
TCGA-KL-8335 TCGA-KL-8336 TCGA-KL-8337 TCGA-KL-8338 TCGA-KL-8339 TCGA-KL-8340 
       92.55        30.25        44.84        86.56        28.11        66.54 
TCGA-KL-8341 TCGA-KL-8342 TCGA-KL-8343 TCGA-KL-8344 TCGA-KL-8345 TCGA-KL-8346 
       24.79        73.91        71.41        28.80        54.74        62.37 
TCGA-KM-8438 TCGA-KM-8439 TCGA-KM-8440 TCGA-KM-8441 TCGA-KM-8442 TCGA-KM-8443 
      151.96        23.28        44.91        28.80        47.24        49.97 
TCGA-KM-8476 TCGA-KM-8477 TCGA-KM-8639 TCGA-KN-8418 TCGA-KN-8419 TCGA-KN-8421 
      123.12        51.06        31.33       129.37        23.47        87.91 
TCGA-KN-8422 TCGA-KN-8423 TCGA-KN-8424 TCGA-KN-8425 TCGA-KN-8426 TCGA-KN-8428 
       25.48        25.91        65.19       104.52         3.55        52.27 
TCGA-KN-8429 TCGA-KN-8431 TCGA-KN-8432 TCGA-KN-8433 TCGA-KN-8434 TCGA-KN-8435 
       87.12        19.33         2.50        11.21        59.08       115.00 
TCGA-KN-8436 TCGA-KN-8437 TCGA-KO-8403 TCGA-KO-8404 TCGA-KO-8405 TCGA-KO-8406 
       42.35       100.87       105.47        10.68       100.47       103.40 
TCGA-KO-8407 TCGA-KO-8408 TCGA-KO-8409 TCGA-KO-8411 TCGA-KO-8413 TCGA-KO-8414 
       92.71        16.67       104.55       130.13        99.88       105.60 
TCGA-KO-8415 TCGA-KO-8416 TCGA-KO-8417 TCGA-6D-AA2E TCGA-A3-3306 TCGA-A3-3307 
       96.62        90.48        92.55        11.90        36.82        47.21 
TCGA-A3-3308 TCGA-A3-3311 TCGA-A3-3313 TCGA-A3-3316 TCGA-A3-3317 TCGA-A3-3319 
        0.53        39.16        24.16        49.08        49.02        37.15 
TCGA-A3-3320 TCGA-A3-3322 TCGA-A3-3323 TCGA-A3-3324 TCGA-A3-3325 TCGA-A3-3326 
       49.58        48.59        36.36        38.99        38.47        37.38 
TCGA-A3-3331 TCGA-A3-3335 TCGA-A3-3336 TCGA-A3-3343 TCGA-A3-3346 TCGA-A3-3347 
       48.82        62.01        34.29        31.07         4.50        52.93 
TCGA-A3-3349 TCGA-A3-3351 TCGA-A3-3352 TCGA-A3-3357 TCGA-A3-3358 TCGA-A3-3359 
       45.53        29.92        18.44        88.37        42.97        82.32 
TCGA-A3-3362 TCGA-A3-3363 TCGA-A3-3365 TCGA-A3-3367 TCGA-A3-3370 TCGA-A3-3373 
       51.25        10.49        28.70        74.63        74.76        53.29 
TCGA-A3-3374 TCGA-A3-3376 TCGA-A3-3378 TCGA-A3-3380 TCGA-A3-3383 TCGA-A3-3385 
       43.20        55.76        20.71        18.64        28.31        65.52 
TCGA-A3-3387 TCGA-A3-A6NI TCGA-A3-A6NJ TCGA-A3-A6NL TCGA-A3-A6NN TCGA-A3-A8OV 
       20.28        33.47        15.39        22.65         0.10        11.18 
TCGA-A3-A8OW TCGA-AK-3425 TCGA-AK-3426 TCGA-AK-3427 TCGA-AK-3428 TCGA-AK-3430 
       10.62       109.91        29.10       117.80        73.08        15.78 
TCGA-AK-3431 TCGA-AK-3433 TCGA-AK-3434 TCGA-AK-3436 TCGA-AK-3440 TCGA-AK-3443 
       73.68       112.08        68.61       109.51        94.19        46.78 
TCGA-AK-3445 TCGA-AK-3447 TCGA-AK-3451 TCGA-AK-3453 TCGA-AK-3454 TCGA-AK-3455 
       78.64        40.01        94.29        83.21        28.73        22.45 
TCGA-AK-3456 TCGA-AK-3458 TCGA-AK-3460 TCGA-AK-3461 TCGA-AK-3465 TCGA-AS-3777 
       37.58        38.40        82.45        72.89        12.13        40.70 
TCGA-AS-3778 TCGA-B0-4688 TCGA-B0-4690 TCGA-B0-4691 TCGA-B0-4693 TCGA-B0-4694 
        1.41         3.32         1.41         4.57         2.53         3.48 
TCGA-B0-4696 TCGA-B0-4697 TCGA-B0-4698 TCGA-B0-4699 TCGA-B0-4700 TCGA-B0-4701 
       28.47        19.00         1.38         3.62        65.10         7.82 
TCGA-B0-4703 TCGA-B0-4712 TCGA-B0-4713 TCGA-B0-4714 TCGA-B0-4718 TCGA-B0-4810 
        5.98        43.96         6.64         3.25        58.45        15.72 
TCGA-B0-4813 TCGA-B0-4814 TCGA-B0-4815 TCGA-B0-4816 TCGA-B0-4817 TCGA-B0-4818 
        0.59         5.52        52.21        45.07        33.50        16.77 
TCGA-B0-4819 TCGA-B0-4822 TCGA-B0-4823 TCGA-B0-4824 TCGA-B0-4827 TCGA-B0-4828 
        6.02        36.53        14.93        54.48        29.10        10.09 
TCGA-B0-4833 TCGA-B0-4834 TCGA-B0-4836 TCGA-B0-4837 TCGA-B0-4838 TCGA-B0-4839 
       78.44        68.71        40.70        45.30        27.42        53.88 
TCGA-B0-4841 TCGA-B0-4842 TCGA-B0-4843 TCGA-B0-4844 TCGA-B0-4845 TCGA-B0-4846 
        6.71        56.68        10.52        10.29        65.29        39.45 
TCGA-B0-4847 TCGA-B0-4848 TCGA-B0-4849 TCGA-B0-4852 TCGA-B0-4945 TCGA-B0-5075 
       26.07        29.03         2.27        36.85        70.52        20.94 
TCGA-B0-5077 TCGA-B0-5080 TCGA-B0-5081 TCGA-B0-5084 TCGA-B0-5085 TCGA-B0-5088 
       43.30        11.24        11.90         7.30        25.32        18.51 
TCGA-B0-5092 TCGA-B0-5094 TCGA-B0-5095 TCGA-B0-5096 TCGA-B0-5097 TCGA-B0-5098 
       15.09        10.95         8.05         2.24        21.86        52.08 
TCGA-B0-5100 TCGA-B0-5102 TCGA-B0-5106 TCGA-B0-5107 TCGA-B0-5108 TCGA-B0-5109 
       62.89        90.87        52.54        30.48        58.59        19.30 
TCGA-B0-5110 TCGA-B0-5115 TCGA-B0-5116 TCGA-B0-5117 TCGA-B0-5119 TCGA-B0-5120 
       66.05        52.73        41.88        52.87        51.02        38.43 
TCGA-B0-5121 TCGA-B0-5399 TCGA-B0-5400 TCGA-B0-5402 TCGA-B0-5690 TCGA-B0-5691 
       48.82        46.39        56.98        42.41       111.52       112.80 
TCGA-B0-5692 TCGA-B0-5693 TCGA-B0-5694 TCGA-B0-5695 TCGA-B0-5696 TCGA-B0-5697 
      129.67       133.94        15.78        70.68        85.78        86.47 
TCGA-B0-5698 TCGA-B0-5699 TCGA-B0-5701 TCGA-B0-5703 TCGA-B0-5705 TCGA-B0-5706 
      119.38       126.28        80.91        73.84       149.16       105.37 
TCGA-B0-5709 TCGA-B0-5710 TCGA-B0-5711 TCGA-B0-5712 TCGA-B0-5713 TCGA-B0-5812 
      130.65        79.89       131.15        89.49        91.46       126.05 
TCGA-B2-3923 TCGA-B2-3924 TCGA-B2-4098 TCGA-B2-4099 TCGA-B2-4101 TCGA-B2-4102 
       32.61        35.90         1.68        31.96        21.30        31.30 
TCGA-B2-5633 TCGA-B2-5635 TCGA-B2-5639 TCGA-B2-5641 TCGA-B2-A4SR TCGA-B4-5377 
       31.66        24.82        32.98        21.57        16.67        12.00 
TCGA-B4-5378 TCGA-B4-5834 TCGA-B4-5835 TCGA-B4-5836 TCGA-B4-5844 TCGA-B8-4143 
        5.75         0.85         0.53         4.64         0.23        23.31 
TCGA-B8-4146 TCGA-B8-4148 TCGA-B8-4151 TCGA-B8-4153 TCGA-B8-4154 TCGA-B8-4619 
       16.80        27.16        42.71        25.05        45.37        17.19 
TCGA-B8-4621 TCGA-B8-4622 TCGA-B8-5158 TCGA-B8-5162 TCGA-B8-5163 TCGA-B8-5164 
       25.91        50.14        20.91         1.18        27.02         0.85 
TCGA-B8-5165 TCGA-B8-5545 TCGA-B8-5546 TCGA-B8-5549 TCGA-B8-5552 TCGA-B8-5553 
       24.23        50.14        16.60         6.38        34.39        14.30 
TCGA-B8-A54D TCGA-B8-A54E TCGA-B8-A54F TCGA-B8-A54G TCGA-B8-A54H TCGA-B8-A54J 
       27.29        29.88        17.06         1.74         8.42        17.36 
TCGA-B8-A54K TCGA-B8-A7U6 TCGA-B8-A8YJ TCGA-BP-4158 TCGA-BP-4159 TCGA-BP-4160 
       15.42        16.27        14.17       111.02        85.51        94.72 
TCGA-BP-4163 TCGA-BP-4164 TCGA-BP-4165 TCGA-BP-4167 TCGA-BP-4169 TCGA-BP-4173 
       93.34        32.61        99.85        89.36        23.05        62.24 
TCGA-BP-4176 TCGA-BP-4177 TCGA-BP-4325 TCGA-BP-4326 TCGA-BP-4327 TCGA-BP-4329 
       64.27        54.90        97.45        53.42         3.58        27.78 
TCGA-BP-4330 TCGA-BP-4331 TCGA-BP-4332 TCGA-BP-4334 TCGA-BP-4335 TCGA-BP-4341 
       62.07        80.68        37.25        21.21        15.16        52.24 
TCGA-BP-4343 TCGA-BP-4344 TCGA-BP-4346 TCGA-BP-4352 TCGA-BP-4353 TCGA-BP-4354 
       62.86        54.77        49.08        11.31        12.33        33.99 
TCGA-BP-4355 TCGA-BP-4758 TCGA-BP-4759 TCGA-BP-4760 TCGA-BP-4761 TCGA-BP-4762 
       31.33        72.59        77.98        77.62         5.98        44.15 
TCGA-BP-4765 TCGA-BP-4769 TCGA-BP-4770 TCGA-BP-4771 TCGA-BP-4774 TCGA-BP-4776 
       71.80        61.68        10.82         5.33        61.97        13.51 
TCGA-BP-4777 TCGA-BP-4782 TCGA-BP-4784 TCGA-BP-4787 TCGA-BP-4789 TCGA-BP-4790 
       56.91        11.64        60.95        15.78        48.95        36.53 
TCGA-BP-4795 TCGA-BP-4797 TCGA-BP-4798 TCGA-BP-4801 TCGA-BP-4803 TCGA-BP-4807 
       20.38        36.39        10.98        36.95         6.71         6.94 
TCGA-BP-4959 TCGA-BP-4960 TCGA-BP-4961 TCGA-BP-4962 TCGA-BP-4963 TCGA-BP-4964 
       87.45        71.41        63.62        58.68        60.30        61.22 
TCGA-BP-4965 TCGA-BP-4967 TCGA-BP-4968 TCGA-BP-4970 TCGA-BP-4971 TCGA-BP-4972 
       61.51         6.74        57.40        14.24        48.89        49.38 
TCGA-BP-4973 TCGA-BP-4974 TCGA-BP-4975 TCGA-BP-4976 TCGA-BP-4977 TCGA-BP-4981 
       45.50         6.90        47.11        53.65        14.93        36.07 
TCGA-BP-4982 TCGA-BP-4983 TCGA-BP-4986 TCGA-BP-4987 TCGA-BP-4988 TCGA-BP-4991 
       33.34        46.45        25.81        36.95        27.22        46.45 
TCGA-BP-4992 TCGA-BP-4993 TCGA-BP-4994 TCGA-BP-4995 TCGA-BP-4998 TCGA-BP-4999 
       16.47         5.82        43.00        45.07        30.64        41.62 
TCGA-BP-5000 TCGA-BP-5004 TCGA-BP-5006 TCGA-BP-5007 TCGA-BP-5008 TCGA-BP-5009 
       18.51        37.02        27.62        37.48        35.21        36.23 
TCGA-BP-5010 TCGA-BP-5168 TCGA-BP-5169 TCGA-BP-5170 TCGA-BP-5175 TCGA-BP-5176 
       28.87        48.10         6.35        79.30        30.64        52.27 
TCGA-BP-5180 TCGA-BP-5181 TCGA-BP-5182 TCGA-BP-5183 TCGA-BP-5184 TCGA-BP-5186 
       74.40        49.15        38.30        42.44        37.25        22.78 
TCGA-BP-5187 TCGA-BP-5189 TCGA-BP-5190 TCGA-BP-5191 TCGA-BP-5192 TCGA-BP-5194 
       13.35        27.02        33.24        31.79        23.47        13.41 
TCGA-BP-5195 TCGA-BP-5198 TCGA-BP-5199 TCGA-BP-5201 TCGA-BP-5202 TCGA-CJ-4634 
       24.62        19.82        44.55        31.27         0.95       115.00 
TCGA-CJ-4635 TCGA-CJ-4636 TCGA-CJ-4637 TCGA-CJ-4638 TCGA-CJ-4639 TCGA-CJ-4640 
       46.55        63.25        73.22        14.17       106.16       114.41 
TCGA-CJ-4641 TCGA-CJ-4642 TCGA-CJ-4643 TCGA-CJ-4868 TCGA-CJ-4869 TCGA-CJ-4870 
       54.61       105.37        58.95        21.24        83.97        49.25 
TCGA-CJ-4871 TCGA-CJ-4872 TCGA-CJ-4873 TCGA-CJ-4874 TCGA-CJ-4875 TCGA-CJ-4878 
       79.66        10.72        74.27        75.06       116.84        71.87 
TCGA-CJ-4881 TCGA-CJ-4882 TCGA-CJ-4884 TCGA-CJ-4885 TCGA-CJ-4886 TCGA-CJ-4887 
       66.21        61.91        57.83       113.46        64.18        30.64 
TCGA-CJ-4888 TCGA-CJ-4889 TCGA-CJ-4890 TCGA-CJ-4891 TCGA-CJ-4892 TCGA-CJ-4894 
       51.52        63.98       115.69        26.93        50.01        27.65 
TCGA-CJ-4895 TCGA-CJ-4899 TCGA-CJ-4900 TCGA-CJ-4902 TCGA-CJ-4904 TCGA-CJ-4905 
       39.45        50.24        56.35        49.97       108.56        49.18 
TCGA-CJ-4908 TCGA-CJ-4912 TCGA-CJ-4913 TCGA-CJ-4916 TCGA-CJ-4918 TCGA-CJ-4920 
       50.33        54.48        38.56        45.14         3.06         4.57 
TCGA-CJ-4923 TCGA-CJ-5675 TCGA-CJ-5677 TCGA-CJ-5678 TCGA-CJ-5679 TCGA-CJ-5680 
       18.81       129.40        25.71        18.87        22.32        25.25 
TCGA-CJ-5681 TCGA-CJ-5683 TCGA-CJ-5684 TCGA-CJ-5686 TCGA-CJ-5689 TCGA-CJ-6027 
       18.15        62.10        73.35        67.00        53.26       118.85 
TCGA-CJ-6030 TCGA-CJ-6031 TCGA-CJ-6033 TCGA-CW-5580 TCGA-CW-5581 TCGA-CW-5583 
       75.58        62.66         7.36        64.57        92.02        81.83 
TCGA-CW-5584 TCGA-CW-5585 TCGA-CW-5588 TCGA-CW-5589 TCGA-CW-6087 TCGA-CW-6088 
        5.39        85.78        66.31        78.18         1.35       105.93 
TCGA-CW-6090 TCGA-CW-6093 TCGA-CW-6097 TCGA-CZ-4853 TCGA-CZ-4856 TCGA-CZ-4857 
       83.90       103.43        18.77        25.45         0.59        47.08 
TCGA-CZ-4858 TCGA-CZ-4861 TCGA-CZ-4862 TCGA-CZ-4863 TCGA-CZ-4864 TCGA-CZ-4865 
       69.21        14.66       107.54        63.39        93.04         5.46 
TCGA-CZ-4866 TCGA-CZ-5451 TCGA-CZ-5452 TCGA-CZ-5453 TCGA-CZ-5454 TCGA-CZ-5455 
       61.41        63.42        58.82        79.53        23.74        18.44 
TCGA-CZ-5458 TCGA-CZ-5459 TCGA-CZ-5462 TCGA-CZ-5463 TCGA-CZ-5464 TCGA-CZ-5465 
       91.69        55.33        10.22        21.76        69.96        84.30 
TCGA-CZ-5466 TCGA-CZ-5467 TCGA-CZ-5468 TCGA-CZ-5470 TCGA-CZ-5982 TCGA-CZ-5984 
       22.52         2.40         1.94        12.69        80.19        67.96 
TCGA-CZ-5985 TCGA-CZ-5986 TCGA-CZ-5987 TCGA-CZ-5988 TCGA-CZ-5989 TCGA-DV-5565 
       65.65        12.26        14.63        22.78        62.63        13.28 
TCGA-DV-5566 TCGA-DV-5567 TCGA-DV-5568 TCGA-DV-5569 TCGA-DV-5573 TCGA-DV-5574 
       45.96        65.88        12.16        11.67        37.15        66.28 
TCGA-DV-5575 TCGA-DV-5576 TCGA-DV-A4VZ TCGA-EU-5904 TCGA-EU-5906 TCGA-EU-5907 
       56.84        23.90        12.00        18.12         6.77         4.18 
TCGA-G6-A5PC TCGA-G6-A8L6 TCGA-G6-A8L7 TCGA-G6-A8L8 TCGA-GK-A6C7 TCGA-MM-A563 
        7.96        10.29        70.13        35.87         2.01        19.43 
TCGA-MM-A564 TCGA-MM-A84U TCGA-MW-A4EC TCGA-T7-A92I TCGA-2K-A9WE TCGA-2Z-A9J1 
       19.96        23.01        16.37        11.70         7.04        75.55 
TCGA-2Z-A9J2 TCGA-2Z-A9J3 TCGA-2Z-A9J6 TCGA-2Z-A9J7 TCGA-2Z-A9J8 TCGA-2Z-A9J9 
       59.01        58.22        56.91         4.57        91.73        75.42 
TCGA-2Z-A9JD TCGA-2Z-A9JE TCGA-2Z-A9JG TCGA-2Z-A9JI TCGA-2Z-A9JJ TCGA-2Z-A9JK 
       34.85        56.81        54.64        51.52        39.88        38.99 
TCGA-2Z-A9JL TCGA-2Z-A9JM TCGA-2Z-A9JN TCGA-2Z-A9JO TCGA-2Z-A9JP TCGA-2Z-A9JQ 
       33.07        30.71        24.33        31.20        29.36        25.58 
TCGA-2Z-A9JS TCGA-2Z-A9JT TCGA-4A-A93W TCGA-4A-A93X TCGA-4A-A93Y TCGA-5P-A9JU 
       16.18        22.49         0.13        12.82        11.57        12.26 
TCGA-5P-A9JV TCGA-5P-A9JW TCGA-5P-A9JY TCGA-5P-A9JZ TCGA-5P-A9K0 TCGA-5P-A9K2 
       67.17       106.55        49.58        90.21        22.26        78.64 
TCGA-5P-A9K3 TCGA-5P-A9K4 TCGA-5P-A9K6 TCGA-5P-A9K8 TCGA-5P-A9KA TCGA-5P-A9KC 
       15.48        71.80        62.93        43.04        12.99        12.39 
TCGA-5P-A9KE TCGA-5P-A9KH TCGA-A4-7286 TCGA-A4-7287 TCGA-A4-7288 TCGA-A4-7583 
       27.09        67.43        18.21        19.63        61.05         0.10 
TCGA-A4-7584 TCGA-A4-7732 TCGA-A4-7734 TCGA-A4-7828 TCGA-A4-7915 TCGA-A4-7996 
       21.37        19.13         0.89         7.82         0.23        16.64 
TCGA-A4-7997 TCGA-A4-8098 TCGA-A4-8310 TCGA-A4-8311 TCGA-A4-8312 TCGA-A4-8515 
       30.48        29.46        25.64        23.97        23.28        23.31 
TCGA-A4-8516 TCGA-A4-8517 TCGA-A4-8518 TCGA-A4-8630 TCGA-A4-A48D TCGA-A4-A5Y1 
        0.76        19.63        19.73        14.33        12.46        12.99 
TCGA-A4-A6HP TCGA-AL-3467 TCGA-AL-3468 TCGA-AL-3472 TCGA-AL-3473 TCGA-AL-A5DJ 
       12.46        70.19        76.64        66.71        62.66        49.25 
TCGA-B1-5398 TCGA-B1-A47M TCGA-B1-A47N TCGA-B1-A47O TCGA-B1-A654 TCGA-B1-A655 
       19.56        21.67        24.56        16.87        20.25        16.77 
TCGA-B1-A656 TCGA-B3-3925 TCGA-B3-3926 TCGA-B3-4103 TCGA-B3-4104 TCGA-B3-8121 
       20.32        33.83        10.09        30.58        34.49        12.46 
TCGA-B9-4113 TCGA-B9-4114 TCGA-B9-4115 TCGA-B9-4116 TCGA-B9-4617 TCGA-B9-5155 
       50.50        28.18        26.40        20.61         1.15        15.12 
TCGA-B9-5156 TCGA-B9-7268 TCGA-B9-A5W7 TCGA-B9-A5W8 TCGA-B9-A5W9 TCGA-B9-A8YH 
       43.99        22.06        19.23        17.23         0.16        17.49 
TCGA-B9-A8YI TCGA-BQ-5875 TCGA-BQ-5876 TCGA-BQ-5877 TCGA-BQ-5879 TCGA-BQ-5880 
       12.30        86.76        19.27         8.88        22.92        43.20 
TCGA-BQ-5881 TCGA-BQ-5882 TCGA-BQ-5883 TCGA-BQ-5884 TCGA-BQ-5886 TCGA-BQ-5887 
       47.80        21.63        40.83        26.04        26.04        25.35 
TCGA-BQ-5888 TCGA-BQ-5889 TCGA-BQ-5890 TCGA-BQ-5891 TCGA-BQ-7044 TCGA-BQ-7045 
       13.25        10.82         7.66         0.95       123.62        48.26 
TCGA-BQ-7048 TCGA-BQ-7049 TCGA-BQ-7050 TCGA-BQ-7051 TCGA-BQ-7053 TCGA-BQ-7055 
       93.34        44.84        61.28        50.40        49.84        26.27 
TCGA-BQ-7056 TCGA-BQ-7058 TCGA-BQ-7059 TCGA-BQ-7060 TCGA-BQ-7061 TCGA-BQ-7062 
       20.12        11.28         7.63         7.04         7.17         3.81 
TCGA-DW-5560 TCGA-DW-7834 TCGA-DW-7836 TCGA-DW-7837 TCGA-DW-7838 TCGA-DW-7839 
       48.85       129.86        35.93        37.55        24.46        13.78 
TCGA-DW-7840 TCGA-DW-7841 TCGA-DW-7842 TCGA-DW-7963 TCGA-DZ-6132 TCGA-DZ-6134 
        3.75        14.63         3.02        40.77        80.88        61.02 
TCGA-DZ-6135 TCGA-EV-5901 TCGA-EV-5902 TCGA-EV-5903 TCGA-F9-A4JJ TCGA-F9-A7Q0 
       74.60        34.19        19.00        24.89        10.68        13.08 
TCGA-F9-A7VF TCGA-F9-A97G TCGA-G7-6792 TCGA-G7-6793 TCGA-G7-6796 TCGA-G7-6797 
        2.40         0.43        90.90        11.05        71.44        25.15 
TCGA-G7-7501 TCGA-G7-A4TM TCGA-G7-A8LB TCGA-G7-A8LD TCGA-G7-A8LE TCGA-GL-6846 
       20.52         6.38        17.98        16.90        80.65       194.79 
TCGA-GL-7773 TCGA-GL-8500 TCGA-GL-A4EM TCGA-GL-A59R TCGA-GL-A9DC TCGA-GL-A9DD 
       12.92        27.65         1.05        12.43        12.89        11.21 
TCGA-GL-A9DE TCGA-HE-A5NH TCGA-HE-A5NJ TCGA-HE-A5NK TCGA-HE-A5NL TCGA-IA-A40X 
       16.31        26.01        56.75        73.25        25.22        19.99 
TCGA-IA-A83S TCGA-IA-A83T TCGA-IA-A83V TCGA-IA-A83W TCGA-IZ-8195 TCGA-IZ-8196 
       85.78        88.24        96.69        67.17        22.26        21.34 
TCGA-IZ-A6M8 TCGA-IZ-A6M9 TCGA-J7-6720 TCGA-J7-8537 TCGA-MH-A55Z TCGA-MH-A560 
       16.34        12.36        12.76        10.55        27.78        30.38 
TCGA-MH-A561 TCGA-MH-A562 TCGA-MH-A854 TCGA-MH-A855 TCGA-MH-A856 TCGA-MH-A857 
       27.65        20.25        17.62        12.13        31.13        29.26 
TCGA-O9-A75Z TCGA-P4-A5E6 TCGA-P4-A5E7 TCGA-P4-A5EA TCGA-P4-A5ED TCGA-P4-AAVK 
       15.48        99.78        87.09         6.61        92.58        52.27 
TCGA-P4-AAVL TCGA-P4-AAVM TCGA-P4-AAVO TCGA-PJ-A5Z8 TCGA-SX-A71R TCGA-SX-A71S 
       16.01        50.60        78.90        19.73        47.90        49.45 
TCGA-SX-A71U TCGA-SX-A7SL TCGA-SX-A7SM TCGA-SX-A7SN TCGA-SX-A7SO TCGA-SX-A7SP 
       44.61        27.06        11.93        19.00        41.33        16.31 
TCGA-SX-A7SR TCGA-SX-A7SS TCGA-SX-A7SU TCGA-UN-AAZ9 TCGA-UZ-A9PJ TCGA-UZ-A9PL 
       26.47        53.10        43.76        18.02        26.20       103.63 
TCGA-UZ-A9PM TCGA-UZ-A9PN TCGA-UZ-A9PO TCGA-UZ-A9PP TCGA-UZ-A9PR TCGA-UZ-A9PS 
      125.29        37.35        62.83        98.96        86.37        71.24 
TCGA-UZ-A9PU TCGA-UZ-A9PV TCGA-UZ-A9PX TCGA-UZ-A9PZ TCGA-UZ-A9Q0 TCGA-UZ-A9Q1 
       30.67        47.47        65.13        21.60       110.73        51.35 
TCGA-WN-A9G9 TCGA-WN-AB4C TCGA-Y8-A894 TCGA-Y8-A895 TCGA-Y8-A896 TCGA-Y8-A897 
       26.01        39.06        18.64        15.91        18.64        18.05 
TCGA-Y8-A898 TCGA-Y8-A8RY TCGA-Y8-A8RZ TCGA-Y8-A8S0 TCGA-Y8-A8S1 
       15.62        25.28         3.68         6.02        13.28 

  AMP PEAK  2(2Q32.1) MUTATED AMP PEAK  2(2Q32.1) WILD-TYPE 
                         0.07                          0.10 
  AMP PEAK  2(2Q32.1) MUTATED AMP PEAK  2(2Q32.1) WILD-TYPE 
                       133.71                        194.79 
  AMP PEAK  2(2Q32.1) MUTATED AMP PEAK  2(2Q32.1) WILD-TYPE 
                        33.88                         34.85 
[1] "0.1 - 133.7 (33.9)" "0.1 - 194.8 (34.9)"
[1] "hr=" "1"  
D2V2, continuous
                               vv
clus                            STAGE I STAGE II STAGE III STAGE IV
  AMP PEAK  2(2Q32.1) MUTATED        68       12        36       18
  AMP PEAK  2(2Q32.1) WILD-TYPE     387       92       155       86
D2V3, multiclass
           clus
vv          AMP PEAK  2(2Q32.1) MUTATED AMP PEAK  2(2Q32.1) WILD-TYPE
  STAGE I                            68                           387
  STAGE II                           12                            92
  STAGE III                          36                           155
  STAGE IV                           18                            86
[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                             T1  T2  T3  T4
  AMP PEAK  2(2Q32.1) MUTATED    69  16  48   3
  AMP PEAK  2(2Q32.1) WILD-TYPE 410 111 210  12
D2V4, multiclass
    clus
vv   AMP PEAK  2(2Q32.1) MUTATED AMP PEAK  2(2Q32.1) WILD-TYPE
  T1                          69                           410
  T2                          16                           111
  T3                          48                           210
  T4                           3                            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"
                               vv
clus                             N0  N1  N2
  AMP PEAK  2(2Q32.1) MUTATED    48  11   3
  AMP PEAK  2(2Q32.1) WILD-TYPE 274  33   4
D2V5, multiclass
    clus
vv   AMP PEAK  2(2Q32.1) MUTATED AMP PEAK  2(2Q32.1) WILD-TYPE
  N0                          48                           274
  N1                          11                            33
  N2                           3                             4
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D2V6, binary
                               cls
clus                              0   1
  AMP PEAK  2(2Q32.1) MUTATED    85  13
  AMP PEAK  2(2Q32.1) WILD-TYPE 460  76
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  2(2Q32.1) MUTATED     85   13
  AMP PEAK  2(2Q32.1) WILD-TYPE  460   76
   clus
vv  AMP PEAK  2(2Q32.1) MUTATED AMP PEAK  2(2Q32.1) WILD-TYPE
  0                          85                           460
  1                          13                            76
[1] 2 2
[1] FALSE
D2V7, binary
                               cls
clus                              0   1
  AMP PEAK  2(2Q32.1) MUTATED    51  85
  AMP PEAK  2(2Q32.1) WILD-TYPE 241 504
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  2(2Q32.1) MUTATED     51   85
  AMP PEAK  2(2Q32.1) WILD-TYPE  241  504
        clus
vv       AMP PEAK  2(2Q32.1) MUTATED AMP PEAK  2(2Q32.1) WILD-TYPE
  FEMALE                          51                           241
  MALE                            85                           504
[1] 2 2
[1] FALSE
D2V8, binary
                               cls
clus                              0   1
  AMP PEAK  2(2Q32.1) MUTATED    56   1
  AMP PEAK  2(2Q32.1) WILD-TYPE 344   2
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  2(2Q32.1) MUTATED     56    1
  AMP PEAK  2(2Q32.1) WILD-TYPE  344    2
     clus
vv    AMP PEAK  2(2Q32.1) MUTATED AMP PEAK  2(2Q32.1) WILD-TYPE
  NO                           56                           344
  YES                           1                             2
[1] 2 2
[1] FALSE
D2V9, continuous
                               vv
clus                            KIDNEY CHROMOPHOBE
  AMP PEAK  2(2Q32.1) MUTATED                    2
  AMP PEAK  2(2Q32.1) WILD-TYPE                 64
                               vv
clus                            KIDNEY CLEAR CELL RENAL CARCINOMA
  AMP PEAK  2(2Q32.1) MUTATED                                  81
  AMP PEAK  2(2Q32.1) WILD-TYPE                               447
                               vv
clus                            KIDNEY PAPILLARY RENAL CELL CARCINOMA
  AMP PEAK  2(2Q32.1) MUTATED                                      53
  AMP PEAK  2(2Q32.1) WILD-TYPE                                   234
D2V10, multiclass
                                       clus
vv                                      AMP PEAK  2(2Q32.1) MUTATED
  KIDNEY CHROMOPHOBE                                              2
  KIDNEY CLEAR CELL RENAL CARCINOMA                              81
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                          53
                                       clus
vv                                      AMP PEAK  2(2Q32.1) WILD-TYPE
  KIDNEY CHROMOPHOBE                                               64
  KIDNEY CLEAR CELL RENAL CARCINOMA                               447
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                           234
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D2V11, continuous
D2V12, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK  2(2Q32.1) MUTATED                                  0     3
  AMP PEAK  2(2Q32.1) WILD-TYPE                                2    12
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  2(2Q32.1) MUTATED                          15   115
  AMP PEAK  2(2Q32.1) WILD-TYPE                       106   604
D2V13, multiclass
                                  clus
vv                                 AMP PEAK  2(2Q32.1) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                      3
  BLACK OR AFRICAN AMERICAN                                 15
  WHITE                                                    115
                                  clus
vv                                 AMP PEAK  2(2Q32.1) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             2
  ASIAN                                                       12
  BLACK OR AFRICAN AMERICAN                                  106
  WHITE                                                      604
[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"
D2V14, binary
                               cls
clus                              0   1
  AMP PEAK  2(2Q32.1) MUTATED     7  90
  AMP PEAK  2(2Q32.1) WILD-TYPE  35 531
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  2(2Q32.1) MUTATED      7   90
  AMP PEAK  2(2Q32.1) WILD-TYPE   35  531
                        clus
vv                       AMP PEAK  2(2Q32.1) MUTATED
  HISPANIC OR LATINO                               7
  NOT HISPANIC OR LATINO                          90
                        clus
vv                       AMP PEAK  2(2Q32.1) WILD-TYPE
  HISPANIC OR LATINO                                35
  NOT HISPANIC OR LATINO                           531
[1] 2 2
[1] FALSE

Clustering(3) Variable = AMP PEAK  3(3Q26.32) MUTATION ANALYSIS
D3V1, survival
                                sevent
clus2                              0   1
  AMP PEAK  3(3Q26.32) MUTATED   133  54
  AMP PEAK  3(3Q26.32) WILD-TYPE 512 174
  AMP PEAK  3(3Q26.32) MUTATED AMP PEAK  3(3Q26.32) WILD-TYPE 
                           187                            686 
  AMP PEAK  3(3Q26.32) MUTATED AMP PEAK  3(3Q26.32) WILD-TYPE 
                            54                            174 
$`AMP PEAK  3(3Q26.32) MUTATED`
TCGA-KL-8331 TCGA-KL-8339 TCGA-KL-8346 TCGA-KM-8443 TCGA-KN-8427 TCGA-A3-3325 
       98.96        28.11        62.37        49.97         0.99        38.47 
TCGA-A3-3374 TCGA-A3-3387 TCGA-AK-3434 TCGA-AK-3436 TCGA-AK-3440 TCGA-AK-3453 
       43.20        20.28        68.61       109.51        94.19        83.21 
TCGA-B0-4690 TCGA-B0-4696 TCGA-B0-4699 TCGA-B0-4712 TCGA-B0-4713 TCGA-B0-4833 
        1.41        28.47         3.62        43.96         6.64        78.44 
TCGA-B0-4845 TCGA-B0-5081 TCGA-B0-5084 TCGA-B0-5094 TCGA-B0-5097 TCGA-B0-5098 
       65.29        11.90         7.30        10.95        21.86        52.08 
TCGA-B0-5102 TCGA-B0-5109 TCGA-B0-5116 TCGA-B0-5690 TCGA-B0-5696 TCGA-B0-5710 
       90.87        19.30        41.88       111.52        85.78        79.89 
TCGA-B0-5712 TCGA-B4-5835 TCGA-B4-5838 TCGA-B8-4143 TCGA-B8-4620 TCGA-B8-4621 
       89.49         0.53         5.46        23.31        25.55        25.91 
TCGA-B8-5163 TCGA-B8-5549 TCGA-B8-5551 TCGA-B8-A54G TCGA-B8-A54I TCGA-BP-4163 
       27.02         6.38         0.53         1.74         4.93        93.34 
TCGA-BP-4167 TCGA-BP-4329 TCGA-BP-4337 TCGA-BP-4338 TCGA-BP-4351 TCGA-BP-4352 
       89.36        27.78         0.07        93.99        31.89        11.31 
TCGA-BP-4761 TCGA-BP-4762 TCGA-BP-4768 TCGA-BP-4781 TCGA-BP-4960 TCGA-BP-4964 
        5.98        44.15        13.15        68.38        71.41        61.22 
TCGA-BP-4969 TCGA-BP-4985 TCGA-BP-4994 TCGA-BP-5169 TCGA-BP-5175 TCGA-BP-5178 
       58.98        31.30        43.00         6.35        30.64        62.86 
TCGA-BP-5198 TCGA-CJ-4638 TCGA-CJ-4640 TCGA-CJ-4644 TCGA-CJ-4868 TCGA-CJ-4871 
       19.82        14.17       114.41        11.05        21.24        79.66 
TCGA-CJ-4873 TCGA-CJ-4878 TCGA-CJ-4881 TCGA-CJ-4897 TCGA-CJ-4900 TCGA-CJ-4901 
       74.27        71.87        66.21       109.84        56.35        47.67 
TCGA-CJ-4907 TCGA-CJ-6028 TCGA-CJ-6033 TCGA-CW-5588 TCGA-CW-5591 TCGA-CW-6087 
       49.28        53.42         7.36        66.31        74.66         1.35 
TCGA-CW-6097 TCGA-CZ-4858 TCGA-CZ-4860 TCGA-CZ-4861 TCGA-CZ-5456 TCGA-CZ-5460 
       18.77        69.21         6.77        14.66        79.63        94.45 
TCGA-CZ-5461 TCGA-CZ-5464 TCGA-CZ-5465 TCGA-CZ-5468 TCGA-CZ-5469 TCGA-CZ-5984 
       10.85        69.96        84.30         1.94        31.10        67.96 
TCGA-DV-A4VX TCGA-EU-5905 TCGA-2K-A9WE TCGA-2Z-A9J2 TCGA-2Z-A9J3 TCGA-2Z-A9J5 
       53.46         3.91         7.04        59.01        58.22       100.27 
TCGA-2Z-A9J6 TCGA-5P-A9JY TCGA-5P-A9K2 TCGA-5P-A9K4 TCGA-5P-A9K9 TCGA-5P-A9KA 
       56.91        49.58        78.64        71.80        19.36        12.99 
TCGA-5P-A9KC TCGA-A4-7287 TCGA-A4-7997 TCGA-A4-8311 TCGA-A4-8515 TCGA-A4-8516 
       12.39        19.63        30.48        23.97        23.31         0.76 
TCGA-A4-8518 TCGA-A4-8630 TCGA-A4-A48D TCGA-A4-A4ZT TCGA-A4-A5DU TCGA-A4-A5XZ 
       19.73        14.33        12.46        16.96        16.31        15.75 
TCGA-AL-3468 TCGA-AL-3471 TCGA-AT-A5NU TCGA-B1-7332 TCGA-B1-A47M TCGA-B1-A657 
       76.64        49.32         2.20        37.51        21.67        21.07 
TCGA-B3-4103 TCGA-B3-A6W5 TCGA-B9-4114 TCGA-B9-4117 TCGA-B9-4617 TCGA-B9-5155 
       30.58        10.16        28.18         0.46         1.15        15.12 
TCGA-B9-5156 TCGA-B9-7268 TCGA-B9-A44B TCGA-B9-A8YH TCGA-BQ-5881 TCGA-BQ-5886 
       43.99        22.06         2.10        17.49        47.80        26.04 
TCGA-BQ-5890 TCGA-BQ-7045 TCGA-BQ-7046 TCGA-BQ-7060 TCGA-BQ-7062 TCGA-DW-7836 
        7.66        48.26        96.92         7.04         3.81        35.93 
TCGA-DW-7837 TCGA-DW-7838 TCGA-DW-7963 TCGA-DZ-6132 TCGA-DZ-6133 TCGA-DZ-6135 
       37.55        24.46        40.77        80.88        51.19        74.60 
TCGA-EV-5901 TCGA-F9-A7Q0 TCGA-F9-A7VF TCGA-G7-6790 TCGA-G7-A8LB TCGA-G7-A8LD 
       34.19        13.08         2.40        51.78        17.98        16.90 
TCGA-GL-6846 TCGA-GL-A59T TCGA-GL-A9DD TCGA-HE-A5NF TCGA-HE-A5NI TCGA-HE-A5NL 
      194.79        17.95        11.21        84.89        11.84        25.22 
TCGA-IA-A40Y TCGA-IA-A83S TCGA-IA-A83W TCGA-KV-A6GD TCGA-KV-A6GE TCGA-KV-A74V 
        2.04        85.78        67.17        18.41        29.10        11.41 
TCGA-MH-A55W TCGA-P4-A5E6 TCGA-P4-A5E7 TCGA-P4-A5EA TCGA-P4-AAVL TCGA-P4-AAVM 
       34.29        99.78        87.09         6.61        16.01        50.60 
TCGA-PJ-A5Z9 TCGA-Q2-A5QZ TCGA-SX-A71V TCGA-SX-A7SN TCGA-SX-A7SP TCGA-SX-A7SQ 
       17.75        14.07        28.80        19.00        16.31        41.62 
TCGA-SX-A7SS TCGA-UZ-A9PK TCGA-UZ-A9PM TCGA-UZ-A9PN TCGA-UZ-A9PS TCGA-UZ-A9PU 
       53.10       117.40       125.29        37.35        71.24        30.67 
TCGA-UZ-A9PV TCGA-UZ-A9PZ TCGA-UZ-A9Q0 TCGA-UZ-A9Q1 TCGA-V9-A7HT TCGA-Y8-A895 
       47.47        21.60       110.73        51.35        31.73        15.91 
TCGA-Y8-A8RZ 
        3.68 

$`AMP PEAK  3(3Q26.32) WILD-TYPE`
TCGA-KL-8323 TCGA-KL-8324 TCGA-KL-8325 TCGA-KL-8326 TCGA-KL-8327 TCGA-KL-8328 
       38.07       141.73        23.84       109.22       137.06       102.81 
TCGA-KL-8329 TCGA-KL-8330 TCGA-KL-8332 TCGA-KL-8333 TCGA-KL-8334 TCGA-KL-8335 
       90.48       108.62        84.89        98.33        96.95        92.55 
TCGA-KL-8336 TCGA-KL-8337 TCGA-KL-8338 TCGA-KL-8340 TCGA-KL-8341 TCGA-KL-8342 
       30.25        44.84        86.56        66.54        24.79        73.91 
TCGA-KL-8343 TCGA-KL-8344 TCGA-KL-8345 TCGA-KM-8438 TCGA-KM-8439 TCGA-KM-8440 
       71.41        28.80        54.74       151.96        23.28        44.91 
TCGA-KM-8441 TCGA-KM-8442 TCGA-KM-8476 TCGA-KM-8477 TCGA-KM-8639 TCGA-KN-8418 
       28.80        47.24       123.12        51.06        31.33       129.37 
TCGA-KN-8419 TCGA-KN-8421 TCGA-KN-8422 TCGA-KN-8423 TCGA-KN-8424 TCGA-KN-8425 
       23.47        87.91        25.48        25.91        65.19       104.52 
TCGA-KN-8426 TCGA-KN-8428 TCGA-KN-8429 TCGA-KN-8431 TCGA-KN-8432 TCGA-KN-8433 
        3.55        52.27        87.12        19.33         2.50        11.21 
TCGA-KN-8434 TCGA-KN-8435 TCGA-KN-8436 TCGA-KN-8437 TCGA-KO-8403 TCGA-KO-8404 
       59.08       115.00        42.35       100.87       105.47        10.68 
TCGA-KO-8405 TCGA-KO-8406 TCGA-KO-8407 TCGA-KO-8408 TCGA-KO-8409 TCGA-KO-8410 
      100.47       103.40        92.71        16.67       104.55       103.10 
TCGA-KO-8411 TCGA-KO-8413 TCGA-KO-8414 TCGA-KO-8415 TCGA-KO-8416 TCGA-KO-8417 
      130.13        99.88       105.60        96.62        90.48        92.55 
TCGA-3Z-A93Z TCGA-6D-AA2E TCGA-A3-3306 TCGA-A3-3307 TCGA-A3-3308 TCGA-A3-3311 
       12.66        11.90        36.82        47.21         0.53        39.16 
TCGA-A3-3313 TCGA-A3-3316 TCGA-A3-3317 TCGA-A3-3319 TCGA-A3-3320 TCGA-A3-3322 
       24.16        49.08        49.02        37.15        49.58        48.59 
TCGA-A3-3323 TCGA-A3-3324 TCGA-A3-3326 TCGA-A3-3331 TCGA-A3-3335 TCGA-A3-3336 
       36.36        38.99        37.38        48.82        62.01        34.29 
TCGA-A3-3343 TCGA-A3-3346 TCGA-A3-3347 TCGA-A3-3349 TCGA-A3-3351 TCGA-A3-3352 
       31.07         4.50        52.93        45.53        29.92        18.44 
TCGA-A3-3357 TCGA-A3-3358 TCGA-A3-3359 TCGA-A3-3362 TCGA-A3-3363 TCGA-A3-3365 
       88.37        42.97        82.32        51.25        10.49        28.70 
TCGA-A3-3367 TCGA-A3-3370 TCGA-A3-3372 TCGA-A3-3373 TCGA-A3-3376 TCGA-A3-3378 
       74.63        74.76        24.16        53.29        55.76        20.71 
TCGA-A3-3380 TCGA-A3-3382 TCGA-A3-3383 TCGA-A3-3385 TCGA-A3-A6NI TCGA-A3-A6NJ 
       18.64        18.87        28.31        65.52        33.47        15.39 
TCGA-A3-A6NL TCGA-A3-A6NN TCGA-A3-A8CQ TCGA-A3-A8OV TCGA-A3-A8OW TCGA-AK-3425 
       22.65         0.10         0.10        11.18        10.62       109.91 
TCGA-AK-3426 TCGA-AK-3427 TCGA-AK-3428 TCGA-AK-3429 TCGA-AK-3430 TCGA-AK-3431 
       29.10       117.80        73.08       109.41        15.78        73.68 
TCGA-AK-3433 TCGA-AK-3443 TCGA-AK-3444 TCGA-AK-3445 TCGA-AK-3447 TCGA-AK-3450 
      112.08        46.78        48.36        78.64        40.01        49.28 
TCGA-AK-3451 TCGA-AK-3454 TCGA-AK-3455 TCGA-AK-3456 TCGA-AK-3458 TCGA-AK-3460 
       94.29        28.73        22.45        37.58        38.40        82.45 
TCGA-AK-3461 TCGA-AK-3465 TCGA-AS-3777 TCGA-AS-3778 TCGA-B0-4688 TCGA-B0-4691 
       72.89        12.13        40.70         1.41         3.32         4.57 
TCGA-B0-4693 TCGA-B0-4694 TCGA-B0-4697 TCGA-B0-4698 TCGA-B0-4700 TCGA-B0-4701 
        2.53         3.48        19.00         1.38        65.10         7.82 
TCGA-B0-4703 TCGA-B0-4706 TCGA-B0-4707 TCGA-B0-4710 TCGA-B0-4714 TCGA-B0-4718 
        5.98         2.14        19.73        57.70         3.25        58.45 
TCGA-B0-4810 TCGA-B0-4811 TCGA-B0-4813 TCGA-B0-4814 TCGA-B0-4815 TCGA-B0-4816 
       15.72        46.59         0.59         5.52        52.21        45.07 
TCGA-B0-4817 TCGA-B0-4818 TCGA-B0-4819 TCGA-B0-4821 TCGA-B0-4822 TCGA-B0-4823 
       33.50        16.77         6.02        40.44        36.53        14.93 
TCGA-B0-4824 TCGA-B0-4827 TCGA-B0-4828 TCGA-B0-4834 TCGA-B0-4836 TCGA-B0-4837 
       54.48        29.10        10.09        68.71        40.70        45.30 
TCGA-B0-4838 TCGA-B0-4839 TCGA-B0-4841 TCGA-B0-4842 TCGA-B0-4843 TCGA-B0-4844 
       27.42        53.88         6.71        56.68        10.52        10.29 
TCGA-B0-4846 TCGA-B0-4847 TCGA-B0-4848 TCGA-B0-4849 TCGA-B0-4852 TCGA-B0-4945 
       39.45        26.07        29.03         2.27        36.85        70.52 
TCGA-B0-5075 TCGA-B0-5077 TCGA-B0-5080 TCGA-B0-5085 TCGA-B0-5088 TCGA-B0-5092 
       20.94        43.30        11.24        25.32        18.51        15.09 
TCGA-B0-5095 TCGA-B0-5096 TCGA-B0-5099 TCGA-B0-5100 TCGA-B0-5104 TCGA-B0-5106 
        8.05         2.24        15.95        62.89        90.48        52.54 
TCGA-B0-5107 TCGA-B0-5108 TCGA-B0-5110 TCGA-B0-5113 TCGA-B0-5115 TCGA-B0-5117 
       30.48        58.59        66.05        38.63        52.73        52.87 
TCGA-B0-5119 TCGA-B0-5120 TCGA-B0-5121 TCGA-B0-5399 TCGA-B0-5400 TCGA-B0-5402 
       51.02        38.43        48.82        46.39        56.98        42.41 
TCGA-B0-5691 TCGA-B0-5692 TCGA-B0-5693 TCGA-B0-5694 TCGA-B0-5695 TCGA-B0-5697 
      112.80       129.67       133.94        15.78        70.68        86.47 
TCGA-B0-5698 TCGA-B0-5699 TCGA-B0-5701 TCGA-B0-5702 TCGA-B0-5703 TCGA-B0-5705 
      119.38       126.28        80.91        71.41        73.84       149.16 
TCGA-B0-5706 TCGA-B0-5709 TCGA-B0-5711 TCGA-B0-5713 TCGA-B0-5812 TCGA-B2-3923 
      105.37       130.65       131.15        91.46       126.05        32.61 
TCGA-B2-3924 TCGA-B2-4098 TCGA-B2-4099 TCGA-B2-4101 TCGA-B2-4102 TCGA-B2-5633 
       35.90         1.68        31.96        21.30        31.30        31.66 
TCGA-B2-5635 TCGA-B2-5639 TCGA-B2-5641 TCGA-B2-A4SR TCGA-B4-5377 TCGA-B4-5378 
       24.82        32.98        21.57        16.67        12.00         5.75 
TCGA-B4-5832 TCGA-B4-5834 TCGA-B4-5836 TCGA-B4-5843 TCGA-B4-5844 TCGA-B8-4146 
        5.10         0.85         4.64         0.36         0.23        16.80 
TCGA-B8-4148 TCGA-B8-4151 TCGA-B8-4153 TCGA-B8-4154 TCGA-B8-4619 TCGA-B8-4622 
       27.16        42.71        25.05        45.37        17.19        50.14 
TCGA-B8-5158 TCGA-B8-5159 TCGA-B8-5162 TCGA-B8-5164 TCGA-B8-5165 TCGA-B8-5545 
       20.91        23.74         1.18         0.85        24.23        50.14 
TCGA-B8-5546 TCGA-B8-5550 TCGA-B8-5552 TCGA-B8-5553 TCGA-B8-A54D TCGA-B8-A54E 
       16.60        48.53        34.39        14.30        27.29        29.88 
TCGA-B8-A54F TCGA-B8-A54H TCGA-B8-A54J TCGA-B8-A54K TCGA-B8-A7U6 TCGA-B8-A8YJ 
       17.06         8.42        17.36        15.42        16.27        14.17 
TCGA-BP-4158 TCGA-BP-4159 TCGA-BP-4160 TCGA-BP-4161 TCGA-BP-4162 TCGA-BP-4164 
      111.02        85.51        94.72        90.28       101.06        32.61 
TCGA-BP-4165 TCGA-BP-4166 TCGA-BP-4169 TCGA-BP-4170 TCGA-BP-4173 TCGA-BP-4174 
       99.85         0.43        23.05        77.03        62.24        61.78 
TCGA-BP-4176 TCGA-BP-4177 TCGA-BP-4325 TCGA-BP-4326 TCGA-BP-4327 TCGA-BP-4330 
       64.27        54.90        97.45        53.42         3.58        62.07 
TCGA-BP-4331 TCGA-BP-4332 TCGA-BP-4334 TCGA-BP-4335 TCGA-BP-4340 TCGA-BP-4341 
       80.68        37.25        21.21        15.16        18.48        52.24 
TCGA-BP-4342 TCGA-BP-4343 TCGA-BP-4344 TCGA-BP-4346 TCGA-BP-4347 TCGA-BP-4349 
       74.17        62.86        54.77        49.08        44.94        12.23 
TCGA-BP-4353 TCGA-BP-4354 TCGA-BP-4355 TCGA-BP-4756 TCGA-BP-4758 TCGA-BP-4759 
       12.33        33.99        31.33        12.30        72.59        77.98 
TCGA-BP-4760 TCGA-BP-4763 TCGA-BP-4765 TCGA-BP-4766 TCGA-BP-4769 TCGA-BP-4770 
       77.62        41.75        71.80        48.07        61.68        10.82 
TCGA-BP-4771 TCGA-BP-4774 TCGA-BP-4775 TCGA-BP-4776 TCGA-BP-4777 TCGA-BP-4782 
        5.33        61.97        60.59        13.51        56.91        11.64 
TCGA-BP-4784 TCGA-BP-4787 TCGA-BP-4789 TCGA-BP-4790 TCGA-BP-4795 TCGA-BP-4797 
       60.95        15.78        48.95        36.53        20.38        36.39 
TCGA-BP-4798 TCGA-BP-4799 TCGA-BP-4801 TCGA-BP-4803 TCGA-BP-4804 TCGA-BP-4807 
       10.98        37.25        36.95         6.71        47.97         6.94 
TCGA-BP-4959 TCGA-BP-4961 TCGA-BP-4962 TCGA-BP-4963 TCGA-BP-4965 TCGA-BP-4967 
       87.45        63.62        58.68        60.30        61.51         6.74 
TCGA-BP-4968 TCGA-BP-4970 TCGA-BP-4971 TCGA-BP-4972 TCGA-BP-4973 TCGA-BP-4974 
       57.40        14.24        48.89        49.38        45.50         6.90 
TCGA-BP-4975 TCGA-BP-4976 TCGA-BP-4977 TCGA-BP-4981 TCGA-BP-4982 TCGA-BP-4983 
       47.11        53.65        14.93        36.07        33.34        46.45 
TCGA-BP-4986 TCGA-BP-4987 TCGA-BP-4988 TCGA-BP-4989 TCGA-BP-4991 TCGA-BP-4992 
       25.81        36.95        27.22         3.88        46.45        16.47 
TCGA-BP-4993 TCGA-BP-4995 TCGA-BP-4998 TCGA-BP-4999 TCGA-BP-5000 TCGA-BP-5001 
        5.82        45.07        30.64        41.62        18.51        38.70 
TCGA-BP-5004 TCGA-BP-5006 TCGA-BP-5007 TCGA-BP-5008 TCGA-BP-5009 TCGA-BP-5010 
       37.02        27.62        37.48        35.21        36.23        28.87 
TCGA-BP-5168 TCGA-BP-5170 TCGA-BP-5173 TCGA-BP-5174 TCGA-BP-5176 TCGA-BP-5177 
       48.10        79.30         1.74        74.20        52.27         9.63 
TCGA-BP-5180 TCGA-BP-5181 TCGA-BP-5182 TCGA-BP-5183 TCGA-BP-5184 TCGA-BP-5185 
       74.40        49.15        38.30        42.44        37.25        37.22 
TCGA-BP-5186 TCGA-BP-5187 TCGA-BP-5189 TCGA-BP-5190 TCGA-BP-5191 TCGA-BP-5192 
       22.78        13.35        27.02        33.24        31.79        23.47 
TCGA-BP-5194 TCGA-BP-5195 TCGA-BP-5196 TCGA-BP-5199 TCGA-BP-5200 TCGA-BP-5201 
       13.41        24.62        33.47        44.55        34.95        31.27 
TCGA-BP-5202 TCGA-CJ-4634 TCGA-CJ-4635 TCGA-CJ-4636 TCGA-CJ-4637 TCGA-CJ-4639 
        0.95       115.00        46.55        63.25        73.22       106.16 
TCGA-CJ-4641 TCGA-CJ-4642 TCGA-CJ-4643 TCGA-CJ-4869 TCGA-CJ-4870 TCGA-CJ-4872 
       54.61       105.37        58.95        83.97        49.25        10.72 
TCGA-CJ-4874 TCGA-CJ-4875 TCGA-CJ-4876 TCGA-CJ-4882 TCGA-CJ-4884 TCGA-CJ-4885 
       75.06       116.84        64.27        61.91        57.83       113.46 
TCGA-CJ-4886 TCGA-CJ-4887 TCGA-CJ-4888 TCGA-CJ-4889 TCGA-CJ-4890 TCGA-CJ-4891 
       64.18        30.64        51.52        63.98       115.69        26.93 
TCGA-CJ-4892 TCGA-CJ-4893 TCGA-CJ-4894 TCGA-CJ-4895 TCGA-CJ-4899 TCGA-CJ-4902 
       50.01        24.66        27.65        39.45        50.24        49.97 
TCGA-CJ-4903 TCGA-CJ-4904 TCGA-CJ-4905 TCGA-CJ-4908 TCGA-CJ-4912 TCGA-CJ-4913 
       51.25       108.56        49.18        50.33        54.48        38.56 
TCGA-CJ-4916 TCGA-CJ-4918 TCGA-CJ-4920 TCGA-CJ-4923 TCGA-CJ-5671 TCGA-CJ-5672 
       45.14         3.06         4.57        18.81       131.08        72.00 
TCGA-CJ-5675 TCGA-CJ-5676 TCGA-CJ-5677 TCGA-CJ-5678 TCGA-CJ-5679 TCGA-CJ-5680 
      129.40       133.71        25.71        18.87        22.32        25.25 
TCGA-CJ-5681 TCGA-CJ-5682 TCGA-CJ-5683 TCGA-CJ-5684 TCGA-CJ-5686 TCGA-CJ-5689 
       18.15       122.83        62.10        73.35        67.00        53.26 
TCGA-CJ-6027 TCGA-CJ-6030 TCGA-CJ-6031 TCGA-CJ-6032 TCGA-CW-5580 TCGA-CW-5581 
      118.85        75.58        62.66       119.64        64.57        92.02 
TCGA-CW-5583 TCGA-CW-5584 TCGA-CW-5585 TCGA-CW-5587 TCGA-CW-5589 TCGA-CW-6088 
       81.83         5.39        85.78        73.18        78.18       105.93 
TCGA-CW-6090 TCGA-CW-6093 TCGA-CZ-4853 TCGA-CZ-4854 TCGA-CZ-4856 TCGA-CZ-4857 
       83.90       103.43        25.45        46.16         0.59        47.08 
TCGA-CZ-4859 TCGA-CZ-4862 TCGA-CZ-4863 TCGA-CZ-4864 TCGA-CZ-4865 TCGA-CZ-4866 
       58.75       107.54        63.39        93.04         5.46        61.41 
TCGA-CZ-5451 TCGA-CZ-5452 TCGA-CZ-5453 TCGA-CZ-5454 TCGA-CZ-5455 TCGA-CZ-5457 
       63.42        58.82        79.53        23.74        18.44        90.54 
TCGA-CZ-5458 TCGA-CZ-5459 TCGA-CZ-5462 TCGA-CZ-5463 TCGA-CZ-5466 TCGA-CZ-5467 
       91.69        55.33        10.22        21.76        22.52         2.40 
TCGA-CZ-5470 TCGA-CZ-5982 TCGA-CZ-5985 TCGA-CZ-5986 TCGA-CZ-5987 TCGA-CZ-5988 
       12.69        80.19        65.65        12.26        14.63        22.78 
TCGA-CZ-5989 TCGA-DV-5565 TCGA-DV-5566 TCGA-DV-5567 TCGA-DV-5568 TCGA-DV-5569 
       62.63        13.28        45.96        65.88        12.16        11.67 
TCGA-DV-5573 TCGA-DV-5574 TCGA-DV-5575 TCGA-DV-5576 TCGA-DV-A4VZ TCGA-DV-A4W0 
       37.15        66.28        56.84        23.90        12.00        81.21 
TCGA-EU-5904 TCGA-EU-5906 TCGA-EU-5907 TCGA-G6-A5PC TCGA-G6-A8L6 TCGA-G6-A8L7 
       18.12         6.77         4.18         7.96        10.29        70.13 
TCGA-G6-A8L8 TCGA-GK-A6C7 TCGA-MM-A563 TCGA-MM-A564 TCGA-MM-A84U TCGA-MW-A4EC 
       35.87         2.01        19.43        19.96        23.01        16.37 
TCGA-T7-A92I TCGA-2Z-A9J1 TCGA-2Z-A9J7 TCGA-2Z-A9J8 TCGA-2Z-A9J9 TCGA-2Z-A9JD 
       11.70        75.55         4.57        91.73        75.42        34.85 
TCGA-2Z-A9JE TCGA-2Z-A9JG TCGA-2Z-A9JI TCGA-2Z-A9JJ TCGA-2Z-A9JK TCGA-2Z-A9JL 
       56.81        54.64        51.52        39.88        38.99        33.07 
TCGA-2Z-A9JM TCGA-2Z-A9JN TCGA-2Z-A9JO TCGA-2Z-A9JP TCGA-2Z-A9JQ TCGA-2Z-A9JR 
       30.71        24.33        31.20        29.36        25.58         5.29 
TCGA-2Z-A9JS TCGA-2Z-A9JT TCGA-4A-A93W TCGA-4A-A93X TCGA-4A-A93Y TCGA-5P-A9JU 
       16.18        22.49         0.13        12.82        11.57        12.26 
TCGA-5P-A9JV TCGA-5P-A9JW TCGA-5P-A9JZ TCGA-5P-A9K0 TCGA-5P-A9K3 TCGA-5P-A9K6 
       67.17       106.55        90.21        22.26        15.48        62.93 
TCGA-5P-A9K8 TCGA-5P-A9KE TCGA-5P-A9KH TCGA-A4-7286 TCGA-A4-7288 TCGA-A4-7583 
       43.04        27.09        67.43        18.21        61.05         0.10 
TCGA-A4-7584 TCGA-A4-7585 TCGA-A4-7732 TCGA-A4-7734 TCGA-A4-7828 TCGA-A4-7915 
       21.37        35.18        19.13         0.89         7.82         0.23 
TCGA-A4-7996 TCGA-A4-8098 TCGA-A4-8310 TCGA-A4-8312 TCGA-A4-8517 TCGA-A4-A57E 
       16.64        29.46        25.64        23.28        19.63         8.48 
TCGA-A4-A5Y0 TCGA-A4-A5Y1 TCGA-A4-A6HP TCGA-AL-3466 TCGA-AL-3467 TCGA-AL-3472 
        8.28        12.99        12.46         9.63        70.19        66.71 
TCGA-AL-3473 TCGA-AL-7173 TCGA-AL-A5DJ TCGA-B1-5398 TCGA-B1-A47N TCGA-B1-A47O 
       62.66        67.73        49.25        19.56        24.56        16.87 
TCGA-B1-A654 TCGA-B1-A655 TCGA-B1-A656 TCGA-B3-3925 TCGA-B3-3926 TCGA-B3-4104 
       20.25        16.77        20.32        33.83        10.09        34.49 
TCGA-B3-8121 TCGA-B9-4113 TCGA-B9-4115 TCGA-B9-4116 TCGA-B9-A5W7 TCGA-B9-A5W8 
       12.46        50.50        26.40        20.61        19.23        17.23 
TCGA-B9-A5W9 TCGA-B9-A69E TCGA-B9-A8YI TCGA-BQ-5875 TCGA-BQ-5876 TCGA-BQ-5877 
        0.16        14.86        12.30        86.76        19.27         8.88 
TCGA-BQ-5878 TCGA-BQ-5879 TCGA-BQ-5880 TCGA-BQ-5882 TCGA-BQ-5883 TCGA-BQ-5884 
       63.72        22.92        43.20        21.63        40.83        26.04 
TCGA-BQ-5885 TCGA-BQ-5887 TCGA-BQ-5888 TCGA-BQ-5889 TCGA-BQ-5891 TCGA-BQ-5892 
       30.28        25.35        13.25        10.82         0.95        11.97 
TCGA-BQ-5893 TCGA-BQ-5894 TCGA-BQ-7044 TCGA-BQ-7048 TCGA-BQ-7049 TCGA-BQ-7050 
        7.92         2.76       123.62        93.34        44.84        61.28 
TCGA-BQ-7051 TCGA-BQ-7053 TCGA-BQ-7055 TCGA-BQ-7056 TCGA-BQ-7058 TCGA-BQ-7059 
       50.40        49.84        26.27        20.12        11.28         7.63 
TCGA-BQ-7061 TCGA-DW-5560 TCGA-DW-5561 TCGA-DW-7834 TCGA-DW-7839 TCGA-DW-7840 
        7.17        48.85        13.61       129.86        13.78         3.75 
TCGA-DW-7841 TCGA-DW-7842 TCGA-DZ-6131 TCGA-DZ-6134 TCGA-EV-5902 TCGA-EV-5903 
       14.63         3.02        79.86        61.02        19.00        24.89 
TCGA-F9-A4JJ TCGA-F9-A8NY TCGA-F9-A97G TCGA-G7-6789 TCGA-G7-6792 TCGA-G7-6793 
       10.68         1.18         0.43         4.01        90.90        11.05 
TCGA-G7-6795 TCGA-G7-6796 TCGA-G7-6797 TCGA-G7-7501 TCGA-G7-7502 TCGA-G7-A4TM 
       39.25        71.44        25.15        20.52        25.84         6.38 
TCGA-G7-A8LC TCGA-G7-A8LE TCGA-GL-7773 TCGA-GL-7966 TCGA-GL-8500 TCGA-GL-A4EM 
       23.08        80.65        12.92         3.68        27.65         1.05 
TCGA-GL-A59R TCGA-GL-A9DC TCGA-GL-A9DE TCGA-HE-A5NH TCGA-HE-A5NJ TCGA-HE-A5NK 
       12.43        12.89        16.31        26.01        56.75        73.25 
TCGA-IA-A40U TCGA-IA-A40X TCGA-IA-A83T TCGA-IA-A83V TCGA-IZ-8195 TCGA-IZ-8196 
       16.80        19.99        88.24        96.69        22.26        21.34 
TCGA-IZ-A6M8 TCGA-IZ-A6M9 TCGA-J7-6720 TCGA-J7-8537 TCGA-MH-A55Z TCGA-MH-A560 
       16.34        12.36        12.76        10.55        27.78        30.38 
TCGA-MH-A561 TCGA-MH-A562 TCGA-MH-A854 TCGA-MH-A855 TCGA-MH-A856 TCGA-MH-A857 
       27.65        20.25        17.62        12.13        31.13        29.26 
TCGA-O9-A75Z TCGA-P4-A5E8 TCGA-P4-A5EB TCGA-P4-A5ED TCGA-P4-AAVK TCGA-P4-AAVO 
       15.48        42.94        99.12        92.58        52.27        78.90 
TCGA-PJ-A5Z8 TCGA-SX-A71R TCGA-SX-A71S TCGA-SX-A71U TCGA-SX-A7SL TCGA-SX-A7SM 
       19.73        47.90        49.45        44.61        27.06        11.93 
TCGA-SX-A7SO TCGA-SX-A7SR TCGA-SX-A7SU TCGA-UN-AAZ9 TCGA-UZ-A9PJ TCGA-UZ-A9PL 
       41.33        26.47        43.76        18.02        26.20       103.63 
TCGA-UZ-A9PO TCGA-UZ-A9PP TCGA-UZ-A9PQ TCGA-UZ-A9PR TCGA-UZ-A9PX TCGA-WN-A9G9 
       62.83        98.96        86.27        86.37        65.13        26.01 
TCGA-WN-AB4C TCGA-Y8-A894 TCGA-Y8-A896 TCGA-Y8-A897 TCGA-Y8-A898 TCGA-Y8-A8RY 
       39.06        18.64        18.64        18.05        15.62        25.28 
TCGA-Y8-A8S0 TCGA-Y8-A8S1 
        6.02        13.28 

  AMP PEAK  3(3Q26.32) MUTATED AMP PEAK  3(3Q26.32) WILD-TYPE 
                          0.07                           0.10 
  AMP PEAK  3(3Q26.32) MUTATED AMP PEAK  3(3Q26.32) WILD-TYPE 
                        194.79                         151.96 
  AMP PEAK  3(3Q26.32) MUTATED AMP PEAK  3(3Q26.32) WILD-TYPE 
                        30.580                         36.295 
[1] "0.1 - 194.8 (30.6)" "0.1 - 152.0 (36.3)"
[1] "hr=" "1.2"
D3V2, continuous
                                vv
clus                             STAGE I STAGE II STAGE III STAGE IV
  AMP PEAK  3(3Q26.32) MUTATED        90       20        42       31
  AMP PEAK  3(3Q26.32) WILD-TYPE     365       84       149       73
D3V3, multiclass
           clus
vv          AMP PEAK  3(3Q26.32) MUTATED AMP PEAK  3(3Q26.32) WILD-TYPE
  STAGE I                             90                            365
  STAGE II                            20                             84
  STAGE III                           42                            149
  STAGE IV                            31                             73
[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                              T1  T2  T3  T4
  AMP PEAK  3(3Q26.32) MUTATED    97  26  63   6
  AMP PEAK  3(3Q26.32) WILD-TYPE 382 101 195   9
D3V4, multiclass
    clus
vv   AMP PEAK  3(3Q26.32) MUTATED AMP PEAK  3(3Q26.32) WILD-TYPE
  T1                           97                            382
  T2                           26                            101
  T3                           63                            195
  T4                            6                              9
[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                              N0  N1  N2
  AMP PEAK  3(3Q26.32) MUTATED    59  15   1
  AMP PEAK  3(3Q26.32) WILD-TYPE 263  29   6
D3V5, multiclass
    clus
vv   AMP PEAK  3(3Q26.32) MUTATED AMP PEAK  3(3Q26.32) WILD-TYPE
  N0                           59                            263
  N1                           15                             29
  N2                            1                              6
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D3V6, binary
                                cls
clus                               0   1
  AMP PEAK  3(3Q26.32) MUTATED    90  26
  AMP PEAK  3(3Q26.32) WILD-TYPE 455  63
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  3(3Q26.32) MUTATED     90   26
  AMP PEAK  3(3Q26.32) WILD-TYPE  455   63
   clus
vv  AMP PEAK  3(3Q26.32) MUTATED AMP PEAK  3(3Q26.32) WILD-TYPE
  0                           90                            455
  1                           26                             63
[1] 2 2
[1] FALSE
D3V7, binary
                                cls
clus                               0   1
  AMP PEAK  3(3Q26.32) MUTATED    56 137
  AMP PEAK  3(3Q26.32) WILD-TYPE 236 452
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  3(3Q26.32) MUTATED     56  137
  AMP PEAK  3(3Q26.32) WILD-TYPE  236  452
        clus
vv       AMP PEAK  3(3Q26.32) MUTATED AMP PEAK  3(3Q26.32) WILD-TYPE
  FEMALE                           56                            236
  MALE                            137                            452
[1] 2 2
[1] FALSE
D3V8, binary
                                cls
clus                               0   1
  AMP PEAK  3(3Q26.32) MUTATED    95   0
  AMP PEAK  3(3Q26.32) WILD-TYPE 305   3
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  3(3Q26.32) MUTATED     95    0
  AMP PEAK  3(3Q26.32) WILD-TYPE  305    3
     clus
vv    AMP PEAK  3(3Q26.32) MUTATED AMP PEAK  3(3Q26.32) WILD-TYPE
  NO                            95                            305
  YES                            0                              3
[1] 2 2
[1] FALSE
D3V9, continuous
                                vv
clus                             KIDNEY CHROMOPHOBE
  AMP PEAK  3(3Q26.32) MUTATED                    6
  AMP PEAK  3(3Q26.32) WILD-TYPE                 60
                                vv
clus                             KIDNEY CLEAR CELL RENAL CARCINOMA
  AMP PEAK  3(3Q26.32) MUTATED                                  87
  AMP PEAK  3(3Q26.32) WILD-TYPE                               441
                                vv
clus                             KIDNEY PAPILLARY RENAL CELL CARCINOMA
  AMP PEAK  3(3Q26.32) MUTATED                                     100
  AMP PEAK  3(3Q26.32) WILD-TYPE                                   187
D3V10, multiclass
                                       clus
vv                                      AMP PEAK  3(3Q26.32) MUTATED
  KIDNEY CHROMOPHOBE                                               6
  KIDNEY CLEAR CELL RENAL CARCINOMA                               87
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                          100
                                       clus
vv                                      AMP PEAK  3(3Q26.32) WILD-TYPE
  KIDNEY CHROMOPHOBE                                                60
  KIDNEY CLEAR CELL RENAL CARCINOMA                                441
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                            187
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D3V11, continuous
D3V12, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK  3(3Q26.32) MUTATED                                  2     1
  AMP PEAK  3(3Q26.32) WILD-TYPE                                0    14
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  3(3Q26.32) MUTATED                          26   155
  AMP PEAK  3(3Q26.32) WILD-TYPE                        95   564
D3V13, multiclass
                                  clus
vv                                 AMP PEAK  3(3Q26.32) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            2
  ASIAN                                                       1
  BLACK OR AFRICAN AMERICAN                                  26
  WHITE                                                     155
                                  clus
vv                                 AMP PEAK  3(3Q26.32) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              0
  ASIAN                                                        14
  BLACK OR AFRICAN AMERICAN                                    95
  WHITE                                                       564
[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"
D3V14, binary
                                cls
clus                               0   1
  AMP PEAK  3(3Q26.32) MUTATED     8 142
  AMP PEAK  3(3Q26.32) WILD-TYPE  34 479
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  3(3Q26.32) MUTATED      8  142
  AMP PEAK  3(3Q26.32) WILD-TYPE   34  479
                        clus
vv                       AMP PEAK  3(3Q26.32) MUTATED
  HISPANIC OR LATINO                                8
  NOT HISPANIC OR LATINO                          142
                        clus
vv                       AMP PEAK  3(3Q26.32) WILD-TYPE
  HISPANIC OR LATINO                                 34
  NOT HISPANIC OR LATINO                            479
[1] 2 2
[1] FALSE

Clustering(4) Variable = AMP PEAK  4(5Q35.1) MUTATION ANALYSIS
D4V1, survival
                               sevent
clus2                             0   1
  AMP PEAK  4(5Q35.1) MUTATED   263 112
  AMP PEAK  4(5Q35.1) WILD-TYPE 382 116
  AMP PEAK  4(5Q35.1) MUTATED AMP PEAK  4(5Q35.1) WILD-TYPE 
                          375                           498 
  AMP PEAK  4(5Q35.1) MUTATED AMP PEAK  4(5Q35.1) WILD-TYPE 
                          112                           116 
$`AMP PEAK  4(5Q35.1) MUTATED`
TCGA-KL-8327 TCGA-KL-8339 TCGA-KN-8426 TCGA-KN-8427 TCGA-KN-8428 TCGA-KN-8436 
      137.06        28.11         3.55         0.99        52.27        42.35 
TCGA-KO-8404 TCGA-KO-8414 TCGA-3Z-A93Z TCGA-A3-3307 TCGA-A3-3316 TCGA-A3-3317 
       10.68       105.60        12.66        47.21        49.08        49.02 
TCGA-A3-3320 TCGA-A3-3322 TCGA-A3-3324 TCGA-A3-3325 TCGA-A3-3326 TCGA-A3-3331 
       49.58        48.59        38.99        38.47        37.38        48.82 
TCGA-A3-3335 TCGA-A3-3336 TCGA-A3-3347 TCGA-A3-3351 TCGA-A3-3352 TCGA-A3-3357 
       62.01        34.29        52.93        29.92        18.44        88.37 
TCGA-A3-3358 TCGA-A3-3359 TCGA-A3-3362 TCGA-A3-3370 TCGA-A3-3372 TCGA-A3-3374 
       42.97        82.32        51.25        74.76        24.16        43.20 
TCGA-A3-3376 TCGA-A3-3380 TCGA-A3-3382 TCGA-A3-3385 TCGA-A3-3387 TCGA-A3-A6NI 
       55.76        18.64        18.87        65.52        20.28        33.47 
TCGA-A3-A6NJ TCGA-A3-A6NL TCGA-A3-A6NN TCGA-A3-A8OW TCGA-AK-3429 TCGA-AK-3430 
       15.39        22.65         0.10        10.62       109.41        15.78 
TCGA-AK-3436 TCGA-AK-3440 TCGA-AK-3444 TCGA-AK-3445 TCGA-AK-3451 TCGA-AK-3453 
      109.51        94.19        48.36        78.64        94.29        83.21 
TCGA-AK-3454 TCGA-AK-3458 TCGA-AK-3460 TCGA-AK-3461 TCGA-B0-4691 TCGA-B0-4693 
       28.73        38.40        82.45        72.89         4.57         2.53 
TCGA-B0-4700 TCGA-B0-4701 TCGA-B0-4703 TCGA-B0-4707 TCGA-B0-4710 TCGA-B0-4712 
       65.10         7.82         5.98        19.73        57.70        43.96 
TCGA-B0-4713 TCGA-B0-4714 TCGA-B0-4811 TCGA-B0-4814 TCGA-B0-4817 TCGA-B0-4819 
        6.64         3.25        46.59         5.52        33.50         6.02 
TCGA-B0-4821 TCGA-B0-4822 TCGA-B0-4823 TCGA-B0-4828 TCGA-B0-4833 TCGA-B0-4836 
       40.44        36.53        14.93        10.09        78.44        40.70 
TCGA-B0-4838 TCGA-B0-4839 TCGA-B0-4841 TCGA-B0-4842 TCGA-B0-4844 TCGA-B0-4847 
       27.42        53.88         6.71        56.68        10.29        26.07 
TCGA-B0-4848 TCGA-B0-4849 TCGA-B0-4852 TCGA-B0-4945 TCGA-B0-5075 TCGA-B0-5077 
       29.03         2.27        36.85        70.52        20.94        43.30 
TCGA-B0-5081 TCGA-B0-5085 TCGA-B0-5088 TCGA-B0-5092 TCGA-B0-5094 TCGA-B0-5095 
       11.90        25.32        18.51        15.09        10.95         8.05 
TCGA-B0-5099 TCGA-B0-5102 TCGA-B0-5106 TCGA-B0-5108 TCGA-B0-5109 TCGA-B0-5110 
       15.95        90.87        52.54        58.59        19.30        66.05 
TCGA-B0-5113 TCGA-B0-5115 TCGA-B0-5119 TCGA-B0-5120 TCGA-B0-5121 TCGA-B0-5400 
       38.63        52.73        51.02        38.43        48.82        56.98 
TCGA-B0-5402 TCGA-B0-5691 TCGA-B0-5692 TCGA-B0-5693 TCGA-B0-5694 TCGA-B0-5696 
       42.41       112.80       129.67       133.94        15.78        85.78 
TCGA-B0-5697 TCGA-B0-5698 TCGA-B0-5701 TCGA-B0-5702 TCGA-B0-5705 TCGA-B0-5709 
       86.47       119.38        80.91        71.41       149.16       130.65 
TCGA-B0-5710 TCGA-B0-5711 TCGA-B0-5712 TCGA-B0-5713 TCGA-B0-5812 TCGA-B2-3924 
       79.89       131.15        89.49        91.46       126.05        35.90 
TCGA-B2-4099 TCGA-B2-4101 TCGA-B2-4102 TCGA-B2-5633 TCGA-B2-5635 TCGA-B2-5639 
       31.96        21.30        31.30        31.66        24.82        32.98 
TCGA-B2-5641 TCGA-B4-5832 TCGA-B4-5834 TCGA-B4-5838 TCGA-B8-4143 TCGA-B8-4146 
       21.57         5.10         0.85         5.46        23.31        16.80 
TCGA-B8-4620 TCGA-B8-5158 TCGA-B8-5159 TCGA-B8-5163 TCGA-B8-5165 TCGA-B8-5549 
       25.55        20.91        23.74        27.02        24.23         6.38 
TCGA-B8-5550 TCGA-B8-5551 TCGA-B8-5552 TCGA-B8-5553 TCGA-B8-A54G TCGA-B8-A54H 
       48.53         0.53        34.39        14.30         1.74         8.42 
TCGA-B8-A54I TCGA-B8-A54J TCGA-B8-A7U6 TCGA-BP-4158 TCGA-BP-4159 TCGA-BP-4160 
        4.93        17.36        16.27       111.02        85.51        94.72 
TCGA-BP-4162 TCGA-BP-4163 TCGA-BP-4166 TCGA-BP-4167 TCGA-BP-4173 TCGA-BP-4174 
      101.06        93.34         0.43        89.36        62.24        61.78 
TCGA-BP-4176 TCGA-BP-4177 TCGA-BP-4330 TCGA-BP-4331 TCGA-BP-4335 TCGA-BP-4337 
       64.27        54.90        62.07        80.68        15.16         0.07 
TCGA-BP-4338 TCGA-BP-4342 TCGA-BP-4343 TCGA-BP-4344 TCGA-BP-4347 TCGA-BP-4351 
       93.99        74.17        62.86        54.77        44.94        31.89 
TCGA-BP-4352 TCGA-BP-4353 TCGA-BP-4355 TCGA-BP-4758 TCGA-BP-4759 TCGA-BP-4762 
       11.31        12.33        31.33        72.59        77.98        44.15 
TCGA-BP-4763 TCGA-BP-4768 TCGA-BP-4775 TCGA-BP-4776 TCGA-BP-4777 TCGA-BP-4781 
       41.75        13.15        60.59        13.51        56.91        68.38 
TCGA-BP-4787 TCGA-BP-4789 TCGA-BP-4790 TCGA-BP-4797 TCGA-BP-4799 TCGA-BP-4801 
       15.78        48.95        36.53        36.39        37.25        36.95 
TCGA-BP-4804 TCGA-BP-4959 TCGA-BP-4960 TCGA-BP-4961 TCGA-BP-4962 TCGA-BP-4963 
       47.97        87.45        71.41        63.62        58.68        60.30 
TCGA-BP-4964 TCGA-BP-4965 TCGA-BP-4967 TCGA-BP-4968 TCGA-BP-4969 TCGA-BP-4971 
       61.22        61.51         6.74        57.40        58.98        48.89 
TCGA-BP-4972 TCGA-BP-4973 TCGA-BP-4974 TCGA-BP-4975 TCGA-BP-4976 TCGA-BP-4977 
       49.38        45.50         6.90        47.11        53.65        14.93 
TCGA-BP-4981 TCGA-BP-4982 TCGA-BP-4983 TCGA-BP-4985 TCGA-BP-4986 TCGA-BP-4988 
       36.07        33.34        46.45        31.30        25.81        27.22 
TCGA-BP-4989 TCGA-BP-4991 TCGA-BP-4992 TCGA-BP-4994 TCGA-BP-4995 TCGA-BP-4999 
        3.88        46.45        16.47        43.00        45.07        41.62 
TCGA-BP-5004 TCGA-BP-5006 TCGA-BP-5007 TCGA-BP-5008 TCGA-BP-5009 TCGA-BP-5168 
       37.02        27.62        37.48        35.21        36.23        48.10 
TCGA-BP-5170 TCGA-BP-5173 TCGA-BP-5175 TCGA-BP-5177 TCGA-BP-5178 TCGA-BP-5181 
       79.30         1.74        30.64         9.63        62.86        49.15 
TCGA-BP-5183 TCGA-BP-5185 TCGA-BP-5187 TCGA-BP-5189 TCGA-BP-5190 TCGA-BP-5191 
       42.44        37.22        13.35        27.02        33.24        31.79 
TCGA-BP-5192 TCGA-BP-5198 TCGA-BP-5200 TCGA-BP-5201 TCGA-BP-5202 TCGA-CJ-4635 
       23.47        19.82        34.95        31.27         0.95        46.55 
TCGA-CJ-4636 TCGA-CJ-4637 TCGA-CJ-4638 TCGA-CJ-4639 TCGA-CJ-4641 TCGA-CJ-4644 
       63.25        73.22        14.17       106.16        54.61        11.05 
TCGA-CJ-4869 TCGA-CJ-4871 TCGA-CJ-4873 TCGA-CJ-4874 TCGA-CJ-4875 TCGA-CJ-4876 
       83.97        79.66        74.27        75.06       116.84        64.27 
TCGA-CJ-4884 TCGA-CJ-4885 TCGA-CJ-4886 TCGA-CJ-4887 TCGA-CJ-4890 TCGA-CJ-4892 
       57.83       113.46        64.18        30.64       115.69        50.01 
TCGA-CJ-4893 TCGA-CJ-4897 TCGA-CJ-4899 TCGA-CJ-4900 TCGA-CJ-4901 TCGA-CJ-4902 
       24.66       109.84        50.24        56.35        47.67        49.97 
TCGA-CJ-4903 TCGA-CJ-4904 TCGA-CJ-4907 TCGA-CJ-4908 TCGA-CJ-4912 TCGA-CJ-4916 
       51.25       108.56        49.28        50.33        54.48        45.14 
TCGA-CJ-4918 TCGA-CJ-4923 TCGA-CJ-5671 TCGA-CJ-5672 TCGA-CJ-5675 TCGA-CJ-5676 
        3.06        18.81       131.08        72.00       129.40       133.71 
TCGA-CJ-5678 TCGA-CJ-5679 TCGA-CJ-5682 TCGA-CJ-5683 TCGA-CJ-5684 TCGA-CJ-5686 
       18.87        22.32       122.83        62.10        73.35        67.00 
TCGA-CJ-6027 TCGA-CJ-6028 TCGA-CJ-6031 TCGA-CJ-6033 TCGA-CW-5581 TCGA-CW-5583 
      118.85        53.42        62.66         7.36        92.02        81.83 
TCGA-CW-5585 TCGA-CW-5587 TCGA-CW-5588 TCGA-CW-5589 TCGA-CW-5591 TCGA-CZ-4853 
       85.78        73.18        66.31        78.18        74.66        25.45 
TCGA-CZ-4854 TCGA-CZ-4856 TCGA-CZ-4857 TCGA-CZ-4858 TCGA-CZ-4859 TCGA-CZ-4860 
       46.16         0.59        47.08        69.21        58.75         6.77 
TCGA-CZ-4861 TCGA-CZ-4863 TCGA-CZ-4864 TCGA-CZ-4866 TCGA-CZ-5451 TCGA-CZ-5452 
       14.66        63.39        93.04        61.41        63.42        58.82 
TCGA-CZ-5453 TCGA-CZ-5454 TCGA-CZ-5455 TCGA-CZ-5456 TCGA-CZ-5457 TCGA-CZ-5458 
       79.53        23.74        18.44        79.63        90.54        91.69 
TCGA-CZ-5461 TCGA-CZ-5462 TCGA-CZ-5463 TCGA-CZ-5464 TCGA-CZ-5466 TCGA-CZ-5467 
       10.85        10.22        21.76        69.96        22.52         2.40 
TCGA-CZ-5468 TCGA-CZ-5469 TCGA-CZ-5470 TCGA-CZ-5984 TCGA-CZ-5985 TCGA-CZ-5986 
        1.94        31.10        12.69        67.96        65.65        12.26 
TCGA-CZ-5989 TCGA-DV-5568 TCGA-DV-5569 TCGA-DV-5573 TCGA-DV-5574 TCGA-DV-A4VX 
       62.63        12.16        11.67        37.15        66.28        53.46 
TCGA-DV-A4W0 TCGA-EU-5904 TCGA-EU-5905 TCGA-EU-5906 TCGA-EU-5907 TCGA-G6-A5PC 
       81.21        18.12         3.91         6.77         4.18         7.96 
TCGA-G6-A8L6 TCGA-GK-A6C7 TCGA-MM-A564 TCGA-MW-A4EC TCGA-2K-A9WE TCGA-2Z-A9JK 
       10.29         2.01        19.96        16.37         7.04        38.99 
TCGA-2Z-A9JR TCGA-4A-A93X TCGA-5P-A9K3 TCGA-5P-A9K9 TCGA-A4-8098 TCGA-A4-8516 
        5.29        12.82        15.48        19.36        29.46         0.76 
TCGA-A4-A48D TCGA-A4-A57E TCGA-AL-3466 TCGA-AL-3473 TCGA-B1-5398 TCGA-B1-A656 
       12.46         8.48         9.63        62.66        19.56        20.32 
TCGA-B9-4117 TCGA-B9-A5W9 TCGA-BQ-5887 TCGA-BQ-5890 TCGA-BQ-5891 TCGA-BQ-5892 
        0.46         0.16        25.35         7.66         0.95        11.97 
TCGA-DW-7838 TCGA-EV-5902 TCGA-F9-A7Q0 TCGA-F9-A97G TCGA-G7-6789 TCGA-G7-A8LC 
       24.46        19.00        13.08         0.43         4.01        23.08 
TCGA-GL-A4EM TCGA-HE-A5NK TCGA-IA-A40X TCGA-IA-A40Y TCGA-KV-A6GD TCGA-P4-A5E6 
        1.05        73.25        19.99         2.04        18.41        99.78 
TCGA-P4-A5EB TCGA-Q2-A5QZ TCGA-SX-A7SQ 
       99.12        14.07        41.62 

$`AMP PEAK  4(5Q35.1) WILD-TYPE`
TCGA-KL-8323 TCGA-KL-8324 TCGA-KL-8325 TCGA-KL-8326 TCGA-KL-8328 TCGA-KL-8329 
       38.07       141.73        23.84       109.22       102.81        90.48 
TCGA-KL-8330 TCGA-KL-8331 TCGA-KL-8332 TCGA-KL-8333 TCGA-KL-8334 TCGA-KL-8335 
      108.62        98.96        84.89        98.33        96.95        92.55 
TCGA-KL-8336 TCGA-KL-8337 TCGA-KL-8338 TCGA-KL-8340 TCGA-KL-8341 TCGA-KL-8342 
       30.25        44.84        86.56        66.54        24.79        73.91 
TCGA-KL-8343 TCGA-KL-8344 TCGA-KL-8345 TCGA-KL-8346 TCGA-KM-8438 TCGA-KM-8439 
       71.41        28.80        54.74        62.37       151.96        23.28 
TCGA-KM-8440 TCGA-KM-8441 TCGA-KM-8442 TCGA-KM-8443 TCGA-KM-8476 TCGA-KM-8477 
       44.91        28.80        47.24        49.97       123.12        51.06 
TCGA-KM-8639 TCGA-KN-8418 TCGA-KN-8419 TCGA-KN-8421 TCGA-KN-8422 TCGA-KN-8423 
       31.33       129.37        23.47        87.91        25.48        25.91 
TCGA-KN-8424 TCGA-KN-8425 TCGA-KN-8429 TCGA-KN-8431 TCGA-KN-8432 TCGA-KN-8433 
       65.19       104.52        87.12        19.33         2.50        11.21 
TCGA-KN-8434 TCGA-KN-8435 TCGA-KN-8437 TCGA-KO-8403 TCGA-KO-8405 TCGA-KO-8406 
       59.08       115.00       100.87       105.47       100.47       103.40 
TCGA-KO-8407 TCGA-KO-8408 TCGA-KO-8409 TCGA-KO-8410 TCGA-KO-8411 TCGA-KO-8413 
       92.71        16.67       104.55       103.10       130.13        99.88 
TCGA-KO-8415 TCGA-KO-8416 TCGA-KO-8417 TCGA-6D-AA2E TCGA-A3-3306 TCGA-A3-3308 
       96.62        90.48        92.55        11.90        36.82         0.53 
TCGA-A3-3311 TCGA-A3-3313 TCGA-A3-3319 TCGA-A3-3323 TCGA-A3-3343 TCGA-A3-3346 
       39.16        24.16        37.15        36.36        31.07         4.50 
TCGA-A3-3349 TCGA-A3-3363 TCGA-A3-3365 TCGA-A3-3367 TCGA-A3-3373 TCGA-A3-3378 
       45.53        10.49        28.70        74.63        53.29        20.71 
TCGA-A3-3383 TCGA-A3-A8CQ TCGA-A3-A8OV TCGA-AK-3425 TCGA-AK-3426 TCGA-AK-3427 
       28.31         0.10        11.18       109.91        29.10       117.80 
TCGA-AK-3428 TCGA-AK-3431 TCGA-AK-3433 TCGA-AK-3434 TCGA-AK-3443 TCGA-AK-3447 
       73.08        73.68       112.08        68.61        46.78        40.01 
TCGA-AK-3450 TCGA-AK-3455 TCGA-AK-3456 TCGA-AK-3465 TCGA-AS-3777 TCGA-AS-3778 
       49.28        22.45        37.58        12.13        40.70         1.41 
TCGA-B0-4688 TCGA-B0-4690 TCGA-B0-4694 TCGA-B0-4696 TCGA-B0-4697 TCGA-B0-4698 
        3.32         1.41         3.48        28.47        19.00         1.38 
TCGA-B0-4699 TCGA-B0-4706 TCGA-B0-4718 TCGA-B0-4810 TCGA-B0-4813 TCGA-B0-4815 
        3.62         2.14        58.45        15.72         0.59        52.21 
TCGA-B0-4816 TCGA-B0-4818 TCGA-B0-4824 TCGA-B0-4827 TCGA-B0-4834 TCGA-B0-4837 
       45.07        16.77        54.48        29.10        68.71        45.30 
TCGA-B0-4843 TCGA-B0-4845 TCGA-B0-4846 TCGA-B0-5080 TCGA-B0-5084 TCGA-B0-5096 
       10.52        65.29        39.45        11.24         7.30         2.24 
TCGA-B0-5097 TCGA-B0-5098 TCGA-B0-5100 TCGA-B0-5104 TCGA-B0-5107 TCGA-B0-5116 
       21.86        52.08        62.89        90.48        30.48        41.88 
TCGA-B0-5117 TCGA-B0-5399 TCGA-B0-5690 TCGA-B0-5695 TCGA-B0-5699 TCGA-B0-5703 
       52.87        46.39       111.52        70.68       126.28        73.84 
TCGA-B0-5706 TCGA-B2-3923 TCGA-B2-4098 TCGA-B2-A4SR TCGA-B4-5377 TCGA-B4-5378 
      105.37        32.61         1.68        16.67        12.00         5.75 
TCGA-B4-5835 TCGA-B4-5836 TCGA-B4-5843 TCGA-B4-5844 TCGA-B8-4148 TCGA-B8-4151 
        0.53         4.64         0.36         0.23        27.16        42.71 
TCGA-B8-4153 TCGA-B8-4154 TCGA-B8-4619 TCGA-B8-4621 TCGA-B8-4622 TCGA-B8-5162 
       25.05        45.37        17.19        25.91        50.14         1.18 
TCGA-B8-5164 TCGA-B8-5545 TCGA-B8-5546 TCGA-B8-A54D TCGA-B8-A54E TCGA-B8-A54F 
        0.85        50.14        16.60        27.29        29.88        17.06 
TCGA-B8-A54K TCGA-B8-A8YJ TCGA-BP-4161 TCGA-BP-4164 TCGA-BP-4165 TCGA-BP-4169 
       15.42        14.17        90.28        32.61        99.85        23.05 
TCGA-BP-4170 TCGA-BP-4325 TCGA-BP-4326 TCGA-BP-4327 TCGA-BP-4329 TCGA-BP-4332 
       77.03        97.45        53.42         3.58        27.78        37.25 
TCGA-BP-4334 TCGA-BP-4340 TCGA-BP-4341 TCGA-BP-4346 TCGA-BP-4349 TCGA-BP-4354 
       21.21        18.48        52.24        49.08        12.23        33.99 
TCGA-BP-4756 TCGA-BP-4760 TCGA-BP-4761 TCGA-BP-4765 TCGA-BP-4766 TCGA-BP-4769 
       12.30        77.62         5.98        71.80        48.07        61.68 
TCGA-BP-4770 TCGA-BP-4771 TCGA-BP-4774 TCGA-BP-4782 TCGA-BP-4784 TCGA-BP-4795 
       10.82         5.33        61.97        11.64        60.95        20.38 
TCGA-BP-4798 TCGA-BP-4803 TCGA-BP-4807 TCGA-BP-4970 TCGA-BP-4987 TCGA-BP-4993 
       10.98         6.71         6.94        14.24        36.95         5.82 
TCGA-BP-4998 TCGA-BP-5000 TCGA-BP-5001 TCGA-BP-5010 TCGA-BP-5169 TCGA-BP-5174 
       30.64        18.51        38.70        28.87         6.35        74.20 
TCGA-BP-5176 TCGA-BP-5180 TCGA-BP-5182 TCGA-BP-5184 TCGA-BP-5186 TCGA-BP-5194 
       52.27        74.40        38.30        37.25        22.78        13.41 
TCGA-BP-5195 TCGA-BP-5196 TCGA-BP-5199 TCGA-CJ-4634 TCGA-CJ-4640 TCGA-CJ-4642 
       24.62        33.47        44.55       115.00       114.41       105.37 
TCGA-CJ-4643 TCGA-CJ-4868 TCGA-CJ-4870 TCGA-CJ-4872 TCGA-CJ-4878 TCGA-CJ-4881 
       58.95        21.24        49.25        10.72        71.87        66.21 
TCGA-CJ-4882 TCGA-CJ-4888 TCGA-CJ-4889 TCGA-CJ-4891 TCGA-CJ-4894 TCGA-CJ-4895 
       61.91        51.52        63.98        26.93        27.65        39.45 
TCGA-CJ-4905 TCGA-CJ-4913 TCGA-CJ-4920 TCGA-CJ-5677 TCGA-CJ-5680 TCGA-CJ-5681 
       49.18        38.56         4.57        25.71        25.25        18.15 
TCGA-CJ-5689 TCGA-CJ-6030 TCGA-CJ-6032 TCGA-CW-5580 TCGA-CW-5584 TCGA-CW-6087 
       53.26        75.58       119.64        64.57         5.39         1.35 
TCGA-CW-6088 TCGA-CW-6090 TCGA-CW-6093 TCGA-CW-6097 TCGA-CZ-4862 TCGA-CZ-4865 
      105.93        83.90       103.43        18.77       107.54         5.46 
TCGA-CZ-5459 TCGA-CZ-5460 TCGA-CZ-5465 TCGA-CZ-5982 TCGA-CZ-5987 TCGA-CZ-5988 
       55.33        94.45        84.30        80.19        14.63        22.78 
TCGA-DV-5565 TCGA-DV-5566 TCGA-DV-5567 TCGA-DV-5575 TCGA-DV-5576 TCGA-DV-A4VZ 
       13.28        45.96        65.88        56.84        23.90        12.00 
TCGA-G6-A8L7 TCGA-G6-A8L8 TCGA-MM-A563 TCGA-MM-A84U TCGA-T7-A92I TCGA-2Z-A9J1 
       70.13        35.87        19.43        23.01        11.70        75.55 
TCGA-2Z-A9J2 TCGA-2Z-A9J3 TCGA-2Z-A9J5 TCGA-2Z-A9J6 TCGA-2Z-A9J7 TCGA-2Z-A9J8 
       59.01        58.22       100.27        56.91         4.57        91.73 
TCGA-2Z-A9J9 TCGA-2Z-A9JD TCGA-2Z-A9JE TCGA-2Z-A9JG TCGA-2Z-A9JI TCGA-2Z-A9JJ 
       75.42        34.85        56.81        54.64        51.52        39.88 
TCGA-2Z-A9JL TCGA-2Z-A9JM TCGA-2Z-A9JN TCGA-2Z-A9JO TCGA-2Z-A9JP TCGA-2Z-A9JQ 
       33.07        30.71        24.33        31.20        29.36        25.58 
TCGA-2Z-A9JS TCGA-2Z-A9JT TCGA-4A-A93W TCGA-4A-A93Y TCGA-5P-A9JU TCGA-5P-A9JV 
       16.18        22.49         0.13        11.57        12.26        67.17 
TCGA-5P-A9JW TCGA-5P-A9JY TCGA-5P-A9JZ TCGA-5P-A9K0 TCGA-5P-A9K2 TCGA-5P-A9K4 
      106.55        49.58        90.21        22.26        78.64        71.80 
TCGA-5P-A9K6 TCGA-5P-A9K8 TCGA-5P-A9KA TCGA-5P-A9KC TCGA-5P-A9KE TCGA-5P-A9KH 
       62.93        43.04        12.99        12.39        27.09        67.43 
TCGA-A4-7286 TCGA-A4-7287 TCGA-A4-7288 TCGA-A4-7583 TCGA-A4-7584 TCGA-A4-7585 
       18.21        19.63        61.05         0.10        21.37        35.18 
TCGA-A4-7732 TCGA-A4-7734 TCGA-A4-7828 TCGA-A4-7915 TCGA-A4-7996 TCGA-A4-7997 
       19.13         0.89         7.82         0.23        16.64        30.48 
TCGA-A4-8310 TCGA-A4-8311 TCGA-A4-8312 TCGA-A4-8515 TCGA-A4-8517 TCGA-A4-8518 
       25.64        23.97        23.28        23.31        19.63        19.73 
TCGA-A4-8630 TCGA-A4-A4ZT TCGA-A4-A5DU TCGA-A4-A5XZ TCGA-A4-A5Y0 TCGA-A4-A5Y1 
       14.33        16.96        16.31        15.75         8.28        12.99 
TCGA-A4-A6HP TCGA-AL-3467 TCGA-AL-3468 TCGA-AL-3471 TCGA-AL-3472 TCGA-AL-7173 
       12.46        70.19        76.64        49.32        66.71        67.73 
TCGA-AL-A5DJ TCGA-AT-A5NU TCGA-B1-7332 TCGA-B1-A47M TCGA-B1-A47N TCGA-B1-A47O 
       49.25         2.20        37.51        21.67        24.56        16.87 
TCGA-B1-A654 TCGA-B1-A655 TCGA-B1-A657 TCGA-B3-3925 TCGA-B3-3926 TCGA-B3-4103 
       20.25        16.77        21.07        33.83        10.09        30.58 
TCGA-B3-4104 TCGA-B3-8121 TCGA-B3-A6W5 TCGA-B9-4113 TCGA-B9-4114 TCGA-B9-4115 
       34.49        12.46        10.16        50.50        28.18        26.40 
TCGA-B9-4116 TCGA-B9-4617 TCGA-B9-5155 TCGA-B9-5156 TCGA-B9-7268 TCGA-B9-A44B 
       20.61         1.15        15.12        43.99        22.06         2.10 
TCGA-B9-A5W7 TCGA-B9-A5W8 TCGA-B9-A69E TCGA-B9-A8YH TCGA-B9-A8YI TCGA-BQ-5875 
       19.23        17.23        14.86        17.49        12.30        86.76 
TCGA-BQ-5876 TCGA-BQ-5877 TCGA-BQ-5878 TCGA-BQ-5879 TCGA-BQ-5880 TCGA-BQ-5881 
       19.27         8.88        63.72        22.92        43.20        47.80 
TCGA-BQ-5882 TCGA-BQ-5883 TCGA-BQ-5884 TCGA-BQ-5885 TCGA-BQ-5886 TCGA-BQ-5888 
       21.63        40.83        26.04        30.28        26.04        13.25 
TCGA-BQ-5889 TCGA-BQ-5893 TCGA-BQ-5894 TCGA-BQ-7044 TCGA-BQ-7045 TCGA-BQ-7046 
       10.82         7.92         2.76       123.62        48.26        96.92 
TCGA-BQ-7048 TCGA-BQ-7049 TCGA-BQ-7050 TCGA-BQ-7051 TCGA-BQ-7053 TCGA-BQ-7055 
       93.34        44.84        61.28        50.40        49.84        26.27 
TCGA-BQ-7056 TCGA-BQ-7058 TCGA-BQ-7059 TCGA-BQ-7060 TCGA-BQ-7061 TCGA-BQ-7062 
       20.12        11.28         7.63         7.04         7.17         3.81 
TCGA-DW-5560 TCGA-DW-5561 TCGA-DW-7834 TCGA-DW-7836 TCGA-DW-7837 TCGA-DW-7839 
       48.85        13.61       129.86        35.93        37.55        13.78 
TCGA-DW-7840 TCGA-DW-7841 TCGA-DW-7842 TCGA-DW-7963 TCGA-DZ-6131 TCGA-DZ-6132 
        3.75        14.63         3.02        40.77        79.86        80.88 
TCGA-DZ-6133 TCGA-DZ-6134 TCGA-DZ-6135 TCGA-EV-5901 TCGA-EV-5903 TCGA-F9-A4JJ 
       51.19        61.02        74.60        34.19        24.89        10.68 
TCGA-F9-A7VF TCGA-F9-A8NY TCGA-G7-6790 TCGA-G7-6792 TCGA-G7-6793 TCGA-G7-6795 
        2.40         1.18        51.78        90.90        11.05        39.25 
TCGA-G7-6796 TCGA-G7-6797 TCGA-G7-7501 TCGA-G7-7502 TCGA-G7-A4TM TCGA-G7-A8LB 
       71.44        25.15        20.52        25.84         6.38        17.98 
TCGA-G7-A8LD TCGA-G7-A8LE TCGA-GL-6846 TCGA-GL-7773 TCGA-GL-7966 TCGA-GL-8500 
       16.90        80.65       194.79        12.92         3.68        27.65 
TCGA-GL-A59R TCGA-GL-A59T TCGA-GL-A9DC TCGA-GL-A9DD TCGA-GL-A9DE TCGA-HE-A5NF 
       12.43        17.95        12.89        11.21        16.31        84.89 
TCGA-HE-A5NH TCGA-HE-A5NI TCGA-HE-A5NJ TCGA-HE-A5NL TCGA-IA-A40U TCGA-IA-A83S 
       26.01        11.84        56.75        25.22        16.80        85.78 
TCGA-IA-A83T TCGA-IA-A83V TCGA-IA-A83W TCGA-IZ-8195 TCGA-IZ-8196 TCGA-IZ-A6M8 
       88.24        96.69        67.17        22.26        21.34        16.34 
TCGA-IZ-A6M9 TCGA-J7-6720 TCGA-J7-8537 TCGA-KV-A6GE TCGA-KV-A74V TCGA-MH-A55W 
       12.36        12.76        10.55        29.10        11.41        34.29 
TCGA-MH-A55Z TCGA-MH-A560 TCGA-MH-A561 TCGA-MH-A562 TCGA-MH-A854 TCGA-MH-A855 
       27.78        30.38        27.65        20.25        17.62        12.13 
TCGA-MH-A856 TCGA-MH-A857 TCGA-O9-A75Z TCGA-P4-A5E7 TCGA-P4-A5E8 TCGA-P4-A5EA 
       31.13        29.26        15.48        87.09        42.94         6.61 
TCGA-P4-A5ED TCGA-P4-AAVK TCGA-P4-AAVL TCGA-P4-AAVM TCGA-P4-AAVO TCGA-PJ-A5Z8 
       92.58        52.27        16.01        50.60        78.90        19.73 
TCGA-PJ-A5Z9 TCGA-SX-A71R TCGA-SX-A71S TCGA-SX-A71U TCGA-SX-A71V TCGA-SX-A7SL 
       17.75        47.90        49.45        44.61        28.80        27.06 
TCGA-SX-A7SM TCGA-SX-A7SN TCGA-SX-A7SO TCGA-SX-A7SP TCGA-SX-A7SR TCGA-SX-A7SS 
       11.93        19.00        41.33        16.31        26.47        53.10 
TCGA-SX-A7SU TCGA-UN-AAZ9 TCGA-UZ-A9PJ TCGA-UZ-A9PK TCGA-UZ-A9PL TCGA-UZ-A9PM 
       43.76        18.02        26.20       117.40       103.63       125.29 
TCGA-UZ-A9PN TCGA-UZ-A9PO TCGA-UZ-A9PP TCGA-UZ-A9PQ TCGA-UZ-A9PR TCGA-UZ-A9PS 
       37.35        62.83        98.96        86.27        86.37        71.24 
TCGA-UZ-A9PU TCGA-UZ-A9PV TCGA-UZ-A9PX TCGA-UZ-A9PZ TCGA-UZ-A9Q0 TCGA-UZ-A9Q1 
       30.67        47.47        65.13        21.60       110.73        51.35 
TCGA-V9-A7HT TCGA-WN-A9G9 TCGA-WN-AB4C TCGA-Y8-A894 TCGA-Y8-A895 TCGA-Y8-A896 
       31.73        26.01        39.06        18.64        15.91        18.64 
TCGA-Y8-A897 TCGA-Y8-A898 TCGA-Y8-A8RY TCGA-Y8-A8RZ TCGA-Y8-A8S0 TCGA-Y8-A8S1 
       18.05        15.62        25.28         3.68         6.02        13.28 

  AMP PEAK  4(5Q35.1) MUTATED AMP PEAK  4(5Q35.1) WILD-TYPE 
                         0.07                          0.10 
  AMP PEAK  4(5Q35.1) MUTATED AMP PEAK  4(5Q35.1) WILD-TYPE 
                       149.16                        194.79 
  AMP PEAK  4(5Q35.1) MUTATED AMP PEAK  4(5Q35.1) WILD-TYPE 
                        38.63                         30.43 
[1] "0.1 - 149.2 (38.6)" "0.1 - 194.8 (30.4)"
[1] "hr=" "1.2"
D4V2, continuous
                               vv
clus                            STAGE I STAGE II STAGE III STAGE IV
  AMP PEAK  4(5Q35.1) MUTATED       173       42        91       66
  AMP PEAK  4(5Q35.1) WILD-TYPE     282       62       100       38
D4V3, multiclass
           clus
vv          AMP PEAK  4(5Q35.1) MUTATED AMP PEAK  4(5Q35.1) WILD-TYPE
  STAGE I                           173                           282
  STAGE II                           42                            62
  STAGE III                          91                           100
  STAGE IV                           66                            38
[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                             T1  T2  T3  T4
  AMP PEAK  4(5Q35.1) MUTATED   180  56 133   7
  AMP PEAK  4(5Q35.1) WILD-TYPE 299  71 125   8
D4V4, multiclass
    clus
vv   AMP PEAK  4(5Q35.1) MUTATED AMP PEAK  4(5Q35.1) WILD-TYPE
  T1                         180                           299
  T2                          56                            71
  T3                         133                           125
  T4                           7                             8
[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                             N0  N1  N2
  AMP PEAK  4(5Q35.1) MUTATED   163  14   2
  AMP PEAK  4(5Q35.1) WILD-TYPE 159  30   5
D4V5, multiclass
    clus
vv   AMP PEAK  4(5Q35.1) MUTATED AMP PEAK  4(5Q35.1) WILD-TYPE
  N0                         163                           159
  N1                          14                            30
  N2                           2                             5
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D4V6, binary
                               cls
clus                              0   1
  AMP PEAK  4(5Q35.1) MUTATED   278  58
  AMP PEAK  4(5Q35.1) WILD-TYPE 267  31
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  4(5Q35.1) MUTATED    278   58
  AMP PEAK  4(5Q35.1) WILD-TYPE  267   31
   clus
vv  AMP PEAK  4(5Q35.1) MUTATED AMP PEAK  4(5Q35.1) WILD-TYPE
  0                         278                           267
  1                          58                            31
[1] 2 2
[1] FALSE
D4V7, binary
                               cls
clus                              0   1
  AMP PEAK  4(5Q35.1) MUTATED   118 258
  AMP PEAK  4(5Q35.1) WILD-TYPE 174 331
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  4(5Q35.1) MUTATED    118  258
  AMP PEAK  4(5Q35.1) WILD-TYPE  174  331
        clus
vv       AMP PEAK  4(5Q35.1) MUTATED AMP PEAK  4(5Q35.1) WILD-TYPE
  FEMALE                         118                           174
  MALE                           258                           331
[1] 2 2
[1] FALSE
D4V8, binary
                               cls
clus                              0   1
  AMP PEAK  4(5Q35.1) MUTATED   115   2
  AMP PEAK  4(5Q35.1) WILD-TYPE 285   1
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  4(5Q35.1) MUTATED    115    2
  AMP PEAK  4(5Q35.1) WILD-TYPE  285    1
     clus
vv    AMP PEAK  4(5Q35.1) MUTATED AMP PEAK  4(5Q35.1) WILD-TYPE
  NO                          115                           285
  YES                           2                             1
[1] 2 2
[1] FALSE
D4V9, continuous
                               vv
clus                            KIDNEY CHROMOPHOBE
  AMP PEAK  4(5Q35.1) MUTATED                    8
  AMP PEAK  4(5Q35.1) WILD-TYPE                 58
                               vv
clus                            KIDNEY CLEAR CELL RENAL CARCINOMA
  AMP PEAK  4(5Q35.1) MUTATED                                 332
  AMP PEAK  4(5Q35.1) WILD-TYPE                               196
                               vv
clus                            KIDNEY PAPILLARY RENAL CELL CARCINOMA
  AMP PEAK  4(5Q35.1) MUTATED                                      36
  AMP PEAK  4(5Q35.1) WILD-TYPE                                   251
D4V10, multiclass
                                       clus
vv                                      AMP PEAK  4(5Q35.1) MUTATED
  KIDNEY CHROMOPHOBE                                              8
  KIDNEY CLEAR CELL RENAL CARCINOMA                             332
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                          36
                                       clus
vv                                      AMP PEAK  4(5Q35.1) WILD-TYPE
  KIDNEY CHROMOPHOBE                                               58
  KIDNEY CLEAR CELL RENAL CARCINOMA                               196
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                           251
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D4V11, continuous
D4V12, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK  4(5Q35.1) MUTATED                                  0     5
  AMP PEAK  4(5Q35.1) WILD-TYPE                                2    10
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  4(5Q35.1) MUTATED                          31   333
  AMP PEAK  4(5Q35.1) WILD-TYPE                        90   386
D4V13, multiclass
                                  clus
vv                                 AMP PEAK  4(5Q35.1) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                      5
  BLACK OR AFRICAN AMERICAN                                 31
  WHITE                                                    333
                                  clus
vv                                 AMP PEAK  4(5Q35.1) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             2
  ASIAN                                                       10
  BLACK OR AFRICAN AMERICAN                                   90
  WHITE                                                      386
[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"
D4V14, binary
                               cls
clus                              0   1
  AMP PEAK  4(5Q35.1) MUTATED    17 256
  AMP PEAK  4(5Q35.1) WILD-TYPE  25 365
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  4(5Q35.1) MUTATED     17  256
  AMP PEAK  4(5Q35.1) WILD-TYPE   25  365
                        clus
vv                       AMP PEAK  4(5Q35.1) MUTATED
  HISPANIC OR LATINO                              17
  NOT HISPANIC OR LATINO                         256
                        clus
vv                       AMP PEAK  4(5Q35.1) WILD-TYPE
  HISPANIC OR LATINO                                25
  NOT HISPANIC OR LATINO                           365
[1] 2 2
[1] FALSE

Clustering(5) Variable = AMP PEAK  5(7Q31.2) MUTATION ANALYSIS
D5V1, survival
                               sevent
clus2                             0   1
  AMP PEAK  5(7Q31.2) MUTATED   278  93
  AMP PEAK  5(7Q31.2) WILD-TYPE 367 135
  AMP PEAK  5(7Q31.2) MUTATED AMP PEAK  5(7Q31.2) WILD-TYPE 
                          371                           502 
  AMP PEAK  5(7Q31.2) MUTATED AMP PEAK  5(7Q31.2) WILD-TYPE 
                           93                           135 
$`AMP PEAK  5(7Q31.2) MUTATED`
TCGA-KL-8324 TCGA-KL-8327 TCGA-KL-8331 TCGA-KL-8339 TCGA-KL-8341 TCGA-KL-8343 
      141.73       137.06        98.96        28.11        24.79        71.41 
TCGA-KL-8346 TCGA-KM-8438 TCGA-KM-8443 TCGA-KN-8419 TCGA-KN-8423 TCGA-KN-8425 
       62.37       151.96        49.97        23.47        25.91       104.52 
TCGA-KN-8426 TCGA-KN-8427 TCGA-KN-8428 TCGA-KN-8433 TCGA-KN-8436 TCGA-KO-8404 
        3.55         0.99        52.27        11.21        42.35        10.68 
TCGA-KO-8405 TCGA-KO-8408 TCGA-KO-8409 TCGA-KO-8413 TCGA-KO-8414 TCGA-KO-8415 
      100.47        16.67       104.55        99.88       105.60        96.62 
TCGA-A3-3313 TCGA-A3-3316 TCGA-A3-3317 TCGA-A3-3322 TCGA-A3-3324 TCGA-A3-3325 
       24.16        49.08        49.02        48.59        38.99        38.47 
TCGA-A3-3336 TCGA-A3-3347 TCGA-A3-3358 TCGA-A3-3363 TCGA-A3-3372 TCGA-A3-3374 
       34.29        52.93        42.97        10.49        24.16        43.20 
TCGA-A3-3382 TCGA-A3-3385 TCGA-A3-3387 TCGA-A3-A8CQ TCGA-A3-A8OV TCGA-AK-3425 
       18.87        65.52        20.28         0.10        11.18       109.91 
TCGA-AK-3427 TCGA-AK-3429 TCGA-AK-3430 TCGA-AK-3433 TCGA-AK-3436 TCGA-AK-3440 
      117.80       109.41        15.78       112.08       109.51        94.19 
TCGA-AK-3444 TCGA-AK-3453 TCGA-B0-4688 TCGA-B0-4690 TCGA-B0-4691 TCGA-B0-4694 
       48.36        83.21         3.32         1.41         4.57         3.48 
TCGA-B0-4696 TCGA-B0-4707 TCGA-B0-4710 TCGA-B0-4712 TCGA-B0-4714 TCGA-B0-4811 
       28.47        19.73        57.70        43.96         3.25        46.59 
TCGA-B0-4815 TCGA-B0-4819 TCGA-B0-4828 TCGA-B0-4838 TCGA-B0-4839 TCGA-B0-4841 
       52.21         6.02        10.09        27.42        53.88         6.71 
TCGA-B0-4852 TCGA-B0-5077 TCGA-B0-5094 TCGA-B0-5096 TCGA-B0-5102 TCGA-B0-5109 
       36.85        43.30        10.95         2.24        90.87        19.30 
TCGA-B0-5113 TCGA-B0-5116 TCGA-B0-5694 TCGA-B0-5698 TCGA-B0-5701 TCGA-B0-5703 
       38.63        41.88        15.78       119.38        80.91        73.84 
TCGA-B0-5713 TCGA-B2-3924 TCGA-B2-5639 TCGA-B4-5832 TCGA-B4-5835 TCGA-B4-5838 
       91.46        35.90        32.98         5.10         0.53         5.46 
TCGA-B4-5843 TCGA-B8-4143 TCGA-B8-4146 TCGA-B8-4619 TCGA-B8-4620 TCGA-B8-4621 
        0.36        23.31        16.80        17.19        25.55        25.91 
TCGA-B8-4622 TCGA-B8-5550 TCGA-B8-A54E TCGA-B8-A54I TCGA-BP-4158 TCGA-BP-4159 
       50.14        48.53        29.88         4.93       111.02        85.51 
TCGA-BP-4162 TCGA-BP-4166 TCGA-BP-4167 TCGA-BP-4170 TCGA-BP-4173 TCGA-BP-4174 
      101.06         0.43        89.36        77.03        62.24        61.78 
TCGA-BP-4176 TCGA-BP-4325 TCGA-BP-4332 TCGA-BP-4335 TCGA-BP-4337 TCGA-BP-4338 
       64.27        97.45        37.25        15.16         0.07        93.99 
TCGA-BP-4343 TCGA-BP-4351 TCGA-BP-4352 TCGA-BP-4354 TCGA-BP-4759 TCGA-BP-4766 
       62.86        31.89        11.31        33.99        77.98        48.07 
TCGA-BP-4768 TCGA-BP-4771 TCGA-BP-4775 TCGA-BP-4781 TCGA-BP-4787 TCGA-BP-4790 
       13.15         5.33        60.59        68.38        15.78        36.53 
TCGA-BP-4798 TCGA-BP-4799 TCGA-BP-4803 TCGA-BP-4804 TCGA-BP-4960 TCGA-BP-4962 
       10.98        37.25         6.71        47.97        71.41        58.68 
TCGA-BP-4963 TCGA-BP-4967 TCGA-BP-4969 TCGA-BP-4971 TCGA-BP-4973 TCGA-BP-4977 
       60.30         6.74        58.98        48.89        45.50        14.93 
TCGA-BP-4983 TCGA-BP-4985 TCGA-BP-4987 TCGA-BP-4989 TCGA-BP-4992 TCGA-BP-4994 
       46.45        31.30        36.95         3.88        16.47        43.00 
TCGA-BP-4998 TCGA-BP-5009 TCGA-BP-5169 TCGA-BP-5170 TCGA-BP-5173 TCGA-BP-5177 
       30.64        36.23         6.35        79.30         1.74         9.63 
TCGA-BP-5178 TCGA-BP-5198 TCGA-BP-5200 TCGA-BP-5201 TCGA-CJ-4635 TCGA-CJ-4636 
       62.86        19.82        34.95        31.27        46.55        63.25 
TCGA-CJ-4638 TCGA-CJ-4644 TCGA-CJ-4871 TCGA-CJ-4872 TCGA-CJ-4873 TCGA-CJ-4875 
       14.17        11.05        79.66        10.72        74.27       116.84 
TCGA-CJ-4885 TCGA-CJ-4887 TCGA-CJ-4889 TCGA-CJ-4897 TCGA-CJ-4901 TCGA-CJ-4903 
      113.46        30.64        63.98       109.84        47.67        51.25 
TCGA-CJ-4907 TCGA-CJ-4920 TCGA-CJ-5671 TCGA-CJ-5672 TCGA-CJ-5677 TCGA-CJ-5679 
       49.28         4.57       131.08        72.00        25.71        22.32 
TCGA-CJ-5682 TCGA-CJ-5683 TCGA-CJ-5684 TCGA-CJ-6028 TCGA-CW-5588 TCGA-CW-5591 
      122.83        62.10        73.35        53.42        66.31        74.66 
TCGA-CW-6087 TCGA-CW-6093 TCGA-CW-6097 TCGA-CZ-4854 TCGA-CZ-4857 TCGA-CZ-4858 
        1.35       103.43        18.77        46.16        47.08        69.21 
TCGA-CZ-4860 TCGA-CZ-4866 TCGA-CZ-5454 TCGA-CZ-5456 TCGA-CZ-5457 TCGA-CZ-5460 
        6.77        61.41        23.74        79.63        90.54        94.45 
TCGA-CZ-5461 TCGA-CZ-5464 TCGA-CZ-5466 TCGA-CZ-5468 TCGA-CZ-5469 TCGA-CZ-5984 
       10.85        69.96        22.52         1.94        31.10        67.96 
TCGA-CZ-5988 TCGA-DV-5565 TCGA-DV-5574 TCGA-DV-A4VX TCGA-G6-A8L7 TCGA-MM-A564 
       22.78        13.28        66.28        53.46        70.13        19.96 
TCGA-MM-A84U TCGA-2K-A9WE TCGA-2Z-A9J1 TCGA-2Z-A9J3 TCGA-2Z-A9J5 TCGA-2Z-A9J6 
       23.01         7.04        75.55        58.22       100.27        56.91 
TCGA-2Z-A9J7 TCGA-2Z-A9JD TCGA-2Z-A9JE TCGA-2Z-A9JL TCGA-2Z-A9JM TCGA-2Z-A9JP 
        4.57        34.85        56.81        33.07        30.71        29.36 
TCGA-2Z-A9JQ TCGA-2Z-A9JR TCGA-2Z-A9JS TCGA-2Z-A9JT TCGA-4A-A93W TCGA-4A-A93X 
       25.58         5.29        16.18        22.49         0.13        12.82 
TCGA-5P-A9JU TCGA-5P-A9JY TCGA-5P-A9JZ TCGA-5P-A9K0 TCGA-5P-A9K2 TCGA-5P-A9K4 
       12.26        49.58        90.21        22.26        78.64        71.80 
TCGA-5P-A9K6 TCGA-5P-A9K9 TCGA-5P-A9KC TCGA-5P-A9KE TCGA-A4-7288 TCGA-A4-7584 
       62.93        19.36        12.39        27.09        61.05        21.37 
TCGA-A4-7732 TCGA-A4-7734 TCGA-A4-7996 TCGA-A4-7997 TCGA-A4-8310 TCGA-A4-8311 
       19.13         0.89        16.64        30.48        25.64        23.97 
TCGA-A4-8515 TCGA-A4-8516 TCGA-A4-8517 TCGA-A4-8630 TCGA-A4-A4ZT TCGA-A4-A57E 
       23.31         0.76        19.63        14.33        16.96         8.48 
TCGA-A4-A5DU TCGA-A4-A5XZ TCGA-A4-A6HP TCGA-AL-3468 TCGA-AL-3471 TCGA-AL-3472 
       16.31        15.75        12.46        76.64        49.32        66.71 
TCGA-AL-7173 TCGA-AL-A5DJ TCGA-AT-A5NU TCGA-B1-A47M TCGA-B1-A47N TCGA-B1-A654 
       67.73        49.25         2.20        21.67        24.56        20.25 
TCGA-B1-A656 TCGA-B1-A657 TCGA-B3-3925 TCGA-B3-4103 TCGA-B3-8121 TCGA-B3-A6W5 
       20.32        21.07        33.83        30.58        12.46        10.16 
TCGA-B9-4113 TCGA-B9-4114 TCGA-B9-4115 TCGA-B9-4116 TCGA-B9-4117 TCGA-B9-4617 
       50.50        28.18        26.40        20.61         0.46         1.15 
TCGA-B9-5155 TCGA-B9-5156 TCGA-B9-7268 TCGA-B9-A5W7 TCGA-B9-A8YH TCGA-BQ-5881 
       15.12        43.99        22.06        19.23        17.49        47.80 
TCGA-BQ-5884 TCGA-BQ-5887 TCGA-BQ-5889 TCGA-BQ-5891 TCGA-BQ-5892 TCGA-BQ-5894 
       26.04        25.35        10.82         0.95        11.97         2.76 
TCGA-BQ-7044 TCGA-BQ-7045 TCGA-BQ-7046 TCGA-BQ-7051 TCGA-BQ-7059 TCGA-BQ-7060 
      123.62        48.26        96.92        50.40         7.63         7.04 
TCGA-BQ-7061 TCGA-BQ-7062 TCGA-DW-5560 TCGA-DW-5561 TCGA-DW-7834 TCGA-DW-7836 
        7.17         3.81        48.85        13.61       129.86        35.93 
TCGA-DW-7837 TCGA-DW-7838 TCGA-DW-7840 TCGA-DW-7841 TCGA-DW-7842 TCGA-DW-7963 
       37.55        24.46         3.75        14.63         3.02        40.77 
TCGA-DZ-6132 TCGA-DZ-6133 TCGA-DZ-6134 TCGA-EV-5901 TCGA-EV-5903 TCGA-F9-A7Q0 
       80.88        51.19        61.02        34.19        24.89        13.08 
TCGA-F9-A7VF TCGA-F9-A8NY TCGA-G7-6789 TCGA-G7-6790 TCGA-G7-6793 TCGA-G7-6795 
        2.40         1.18         4.01        51.78        11.05        39.25 
TCGA-G7-7502 TCGA-G7-A4TM TCGA-G7-A8LB TCGA-G7-A8LC TCGA-G7-A8LE TCGA-GL-6846 
       25.84         6.38        17.98        23.08        80.65       194.79 
TCGA-GL-7966 TCGA-GL-8500 TCGA-GL-A59R TCGA-GL-A59T TCGA-GL-A9DD TCGA-HE-A5NF 
        3.68        27.65        12.43        17.95        11.21        84.89 
TCGA-HE-A5NH TCGA-HE-A5NI TCGA-HE-A5NJ TCGA-HE-A5NL TCGA-IA-A40Y TCGA-IA-A83T 
       26.01        11.84        56.75        25.22         2.04        88.24 
TCGA-IA-A83V TCGA-IZ-8196 TCGA-IZ-A6M8 TCGA-IZ-A6M9 TCGA-J7-6720 TCGA-KV-A6GD 
       96.69        21.34        16.34        12.36        12.76        18.41 
TCGA-KV-A6GE TCGA-KV-A74V TCGA-MH-A55W TCGA-MH-A55Z TCGA-MH-A562 TCGA-O9-A75Z 
       29.10        11.41        34.29        27.78        20.25        15.48 
TCGA-P4-A5E7 TCGA-P4-AAVK TCGA-P4-AAVL TCGA-PJ-A5Z9 TCGA-Q2-A5QZ TCGA-SX-A71R 
       87.09        52.27        16.01        17.75        14.07        47.90 
TCGA-SX-A71S TCGA-SX-A71U TCGA-SX-A71V TCGA-SX-A7SM TCGA-SX-A7SN TCGA-SX-A7SP 
       49.45        44.61        28.80        11.93        19.00        16.31 
TCGA-SX-A7SQ TCGA-SX-A7SR TCGA-SX-A7SS TCGA-SX-A7SU TCGA-UZ-A9PJ TCGA-UZ-A9PK 
       41.62        26.47        53.10        43.76        26.20       117.40 
TCGA-UZ-A9PL TCGA-UZ-A9PM TCGA-UZ-A9PN TCGA-UZ-A9PO TCGA-UZ-A9PR TCGA-UZ-A9PU 
      103.63       125.29        37.35        62.83        86.37        30.67 
TCGA-UZ-A9PV TCGA-UZ-A9PX TCGA-UZ-A9PZ TCGA-UZ-A9Q0 TCGA-UZ-A9Q1 TCGA-V9-A7HT 
       47.47        65.13        21.60       110.73        51.35        31.73 
TCGA-Y8-A895 TCGA-Y8-A896 TCGA-Y8-A898 TCGA-Y8-A8RY TCGA-Y8-A8S0 
       15.91        18.64        15.62        25.28         6.02 

$`AMP PEAK  5(7Q31.2) WILD-TYPE`
TCGA-KL-8323 TCGA-KL-8325 TCGA-KL-8326 TCGA-KL-8328 TCGA-KL-8329 TCGA-KL-8330 
       38.07        23.84       109.22       102.81        90.48       108.62 
TCGA-KL-8332 TCGA-KL-8333 TCGA-KL-8334 TCGA-KL-8335 TCGA-KL-8336 TCGA-KL-8337 
       84.89        98.33        96.95        92.55        30.25        44.84 
TCGA-KL-8338 TCGA-KL-8340 TCGA-KL-8342 TCGA-KL-8344 TCGA-KL-8345 TCGA-KM-8439 
       86.56        66.54        73.91        28.80        54.74        23.28 
TCGA-KM-8440 TCGA-KM-8441 TCGA-KM-8442 TCGA-KM-8476 TCGA-KM-8477 TCGA-KM-8639 
       44.91        28.80        47.24       123.12        51.06        31.33 
TCGA-KN-8418 TCGA-KN-8421 TCGA-KN-8422 TCGA-KN-8424 TCGA-KN-8429 TCGA-KN-8431 
      129.37        87.91        25.48        65.19        87.12        19.33 
TCGA-KN-8432 TCGA-KN-8434 TCGA-KN-8435 TCGA-KN-8437 TCGA-KO-8403 TCGA-KO-8406 
        2.50        59.08       115.00       100.87       105.47       103.40 
TCGA-KO-8407 TCGA-KO-8410 TCGA-KO-8411 TCGA-KO-8416 TCGA-KO-8417 TCGA-3Z-A93Z 
       92.71       103.10       130.13        90.48        92.55        12.66 
TCGA-6D-AA2E TCGA-A3-3306 TCGA-A3-3307 TCGA-A3-3308 TCGA-A3-3311 TCGA-A3-3319 
       11.90        36.82        47.21         0.53        39.16        37.15 
TCGA-A3-3320 TCGA-A3-3323 TCGA-A3-3326 TCGA-A3-3331 TCGA-A3-3335 TCGA-A3-3343 
       49.58        36.36        37.38        48.82        62.01        31.07 
TCGA-A3-3346 TCGA-A3-3349 TCGA-A3-3351 TCGA-A3-3352 TCGA-A3-3357 TCGA-A3-3359 
        4.50        45.53        29.92        18.44        88.37        82.32 
TCGA-A3-3362 TCGA-A3-3365 TCGA-A3-3367 TCGA-A3-3370 TCGA-A3-3373 TCGA-A3-3376 
       51.25        28.70        74.63        74.76        53.29        55.76 
TCGA-A3-3378 TCGA-A3-3380 TCGA-A3-3383 TCGA-A3-A6NI TCGA-A3-A6NJ TCGA-A3-A6NL 
       20.71        18.64        28.31        33.47        15.39        22.65 
TCGA-A3-A6NN TCGA-A3-A8OW TCGA-AK-3426 TCGA-AK-3428 TCGA-AK-3431 TCGA-AK-3434 
        0.10        10.62        29.10        73.08        73.68        68.61 
TCGA-AK-3443 TCGA-AK-3445 TCGA-AK-3447 TCGA-AK-3450 TCGA-AK-3451 TCGA-AK-3454 
       46.78        78.64        40.01        49.28        94.29        28.73 
TCGA-AK-3455 TCGA-AK-3456 TCGA-AK-3458 TCGA-AK-3460 TCGA-AK-3461 TCGA-AK-3465 
       22.45        37.58        38.40        82.45        72.89        12.13 
TCGA-AS-3777 TCGA-AS-3778 TCGA-B0-4693 TCGA-B0-4697 TCGA-B0-4698 TCGA-B0-4699 
       40.70         1.41         2.53        19.00         1.38         3.62 
TCGA-B0-4700 TCGA-B0-4701 TCGA-B0-4703 TCGA-B0-4706 TCGA-B0-4713 TCGA-B0-4718 
       65.10         7.82         5.98         2.14         6.64        58.45 
TCGA-B0-4810 TCGA-B0-4813 TCGA-B0-4814 TCGA-B0-4816 TCGA-B0-4817 TCGA-B0-4818 
       15.72         0.59         5.52        45.07        33.50        16.77 
TCGA-B0-4821 TCGA-B0-4822 TCGA-B0-4823 TCGA-B0-4824 TCGA-B0-4827 TCGA-B0-4833 
       40.44        36.53        14.93        54.48        29.10        78.44 
TCGA-B0-4834 TCGA-B0-4836 TCGA-B0-4837 TCGA-B0-4842 TCGA-B0-4843 TCGA-B0-4844 
       68.71        40.70        45.30        56.68        10.52        10.29 
TCGA-B0-4845 TCGA-B0-4846 TCGA-B0-4847 TCGA-B0-4848 TCGA-B0-4849 TCGA-B0-4945 
       65.29        39.45        26.07        29.03         2.27        70.52 
TCGA-B0-5075 TCGA-B0-5080 TCGA-B0-5081 TCGA-B0-5084 TCGA-B0-5085 TCGA-B0-5088 
       20.94        11.24        11.90         7.30        25.32        18.51 
TCGA-B0-5092 TCGA-B0-5095 TCGA-B0-5097 TCGA-B0-5098 TCGA-B0-5099 TCGA-B0-5100 
       15.09         8.05        21.86        52.08        15.95        62.89 
TCGA-B0-5104 TCGA-B0-5106 TCGA-B0-5107 TCGA-B0-5108 TCGA-B0-5110 TCGA-B0-5115 
       90.48        52.54        30.48        58.59        66.05        52.73 
TCGA-B0-5117 TCGA-B0-5119 TCGA-B0-5120 TCGA-B0-5121 TCGA-B0-5399 TCGA-B0-5400 
       52.87        51.02        38.43        48.82        46.39        56.98 
TCGA-B0-5402 TCGA-B0-5690 TCGA-B0-5691 TCGA-B0-5692 TCGA-B0-5693 TCGA-B0-5695 
       42.41       111.52       112.80       129.67       133.94        70.68 
TCGA-B0-5696 TCGA-B0-5697 TCGA-B0-5699 TCGA-B0-5702 TCGA-B0-5705 TCGA-B0-5706 
       85.78        86.47       126.28        71.41       149.16       105.37 
TCGA-B0-5709 TCGA-B0-5710 TCGA-B0-5711 TCGA-B0-5712 TCGA-B0-5812 TCGA-B2-3923 
      130.65        79.89       131.15        89.49       126.05        32.61 
TCGA-B2-4098 TCGA-B2-4099 TCGA-B2-4101 TCGA-B2-4102 TCGA-B2-5633 TCGA-B2-5635 
        1.68        31.96        21.30        31.30        31.66        24.82 
TCGA-B2-5641 TCGA-B2-A4SR TCGA-B4-5377 TCGA-B4-5378 TCGA-B4-5834 TCGA-B4-5836 
       21.57        16.67        12.00         5.75         0.85         4.64 
TCGA-B4-5844 TCGA-B8-4148 TCGA-B8-4151 TCGA-B8-4153 TCGA-B8-4154 TCGA-B8-5158 
        0.23        27.16        42.71        25.05        45.37        20.91 
TCGA-B8-5159 TCGA-B8-5162 TCGA-B8-5163 TCGA-B8-5164 TCGA-B8-5165 TCGA-B8-5545 
       23.74         1.18        27.02         0.85        24.23        50.14 
TCGA-B8-5546 TCGA-B8-5549 TCGA-B8-5551 TCGA-B8-5552 TCGA-B8-5553 TCGA-B8-A54D 
       16.60         6.38         0.53        34.39        14.30        27.29 
TCGA-B8-A54F TCGA-B8-A54G TCGA-B8-A54H TCGA-B8-A54J TCGA-B8-A54K TCGA-B8-A7U6 
       17.06         1.74         8.42        17.36        15.42        16.27 
TCGA-B8-A8YJ TCGA-BP-4160 TCGA-BP-4161 TCGA-BP-4163 TCGA-BP-4164 TCGA-BP-4165 
       14.17        94.72        90.28        93.34        32.61        99.85 
TCGA-BP-4169 TCGA-BP-4177 TCGA-BP-4326 TCGA-BP-4327 TCGA-BP-4329 TCGA-BP-4330 
       23.05        54.90        53.42         3.58        27.78        62.07 
TCGA-BP-4331 TCGA-BP-4334 TCGA-BP-4340 TCGA-BP-4341 TCGA-BP-4342 TCGA-BP-4344 
       80.68        21.21        18.48        52.24        74.17        54.77 
TCGA-BP-4346 TCGA-BP-4347 TCGA-BP-4349 TCGA-BP-4353 TCGA-BP-4355 TCGA-BP-4756 
       49.08        44.94        12.23        12.33        31.33        12.30 
TCGA-BP-4758 TCGA-BP-4760 TCGA-BP-4761 TCGA-BP-4762 TCGA-BP-4763 TCGA-BP-4765 
       72.59        77.62         5.98        44.15        41.75        71.80 
TCGA-BP-4769 TCGA-BP-4770 TCGA-BP-4774 TCGA-BP-4776 TCGA-BP-4777 TCGA-BP-4782 
       61.68        10.82        61.97        13.51        56.91        11.64 
TCGA-BP-4784 TCGA-BP-4789 TCGA-BP-4795 TCGA-BP-4797 TCGA-BP-4801 TCGA-BP-4807 
       60.95        48.95        20.38        36.39        36.95         6.94 
TCGA-BP-4959 TCGA-BP-4961 TCGA-BP-4964 TCGA-BP-4965 TCGA-BP-4968 TCGA-BP-4970 
       87.45        63.62        61.22        61.51        57.40        14.24 
TCGA-BP-4972 TCGA-BP-4974 TCGA-BP-4975 TCGA-BP-4976 TCGA-BP-4981 TCGA-BP-4982 
       49.38         6.90        47.11        53.65        36.07        33.34 
TCGA-BP-4986 TCGA-BP-4988 TCGA-BP-4991 TCGA-BP-4993 TCGA-BP-4995 TCGA-BP-4999 
       25.81        27.22        46.45         5.82        45.07        41.62 
TCGA-BP-5000 TCGA-BP-5001 TCGA-BP-5004 TCGA-BP-5006 TCGA-BP-5007 TCGA-BP-5008 
       18.51        38.70        37.02        27.62        37.48        35.21 
TCGA-BP-5010 TCGA-BP-5168 TCGA-BP-5174 TCGA-BP-5175 TCGA-BP-5176 TCGA-BP-5180 
       28.87        48.10        74.20        30.64        52.27        74.40 
TCGA-BP-5181 TCGA-BP-5182 TCGA-BP-5183 TCGA-BP-5184 TCGA-BP-5185 TCGA-BP-5186 
       49.15        38.30        42.44        37.25        37.22        22.78 
TCGA-BP-5187 TCGA-BP-5189 TCGA-BP-5190 TCGA-BP-5191 TCGA-BP-5192 TCGA-BP-5194 
       13.35        27.02        33.24        31.79        23.47        13.41 
TCGA-BP-5195 TCGA-BP-5196 TCGA-BP-5199 TCGA-BP-5202 TCGA-CJ-4634 TCGA-CJ-4637 
       24.62        33.47        44.55         0.95       115.00        73.22 
TCGA-CJ-4639 TCGA-CJ-4640 TCGA-CJ-4641 TCGA-CJ-4642 TCGA-CJ-4643 TCGA-CJ-4868 
      106.16       114.41        54.61       105.37        58.95        21.24 
TCGA-CJ-4869 TCGA-CJ-4870 TCGA-CJ-4874 TCGA-CJ-4876 TCGA-CJ-4878 TCGA-CJ-4881 
       83.97        49.25        75.06        64.27        71.87        66.21 
TCGA-CJ-4882 TCGA-CJ-4884 TCGA-CJ-4886 TCGA-CJ-4888 TCGA-CJ-4890 TCGA-CJ-4891 
       61.91        57.83        64.18        51.52       115.69        26.93 
TCGA-CJ-4892 TCGA-CJ-4893 TCGA-CJ-4894 TCGA-CJ-4895 TCGA-CJ-4899 TCGA-CJ-4900 
       50.01        24.66        27.65        39.45        50.24        56.35 
TCGA-CJ-4902 TCGA-CJ-4904 TCGA-CJ-4905 TCGA-CJ-4908 TCGA-CJ-4912 TCGA-CJ-4913 
       49.97       108.56        49.18        50.33        54.48        38.56 
TCGA-CJ-4916 TCGA-CJ-4918 TCGA-CJ-4923 TCGA-CJ-5675 TCGA-CJ-5676 TCGA-CJ-5678 
       45.14         3.06        18.81       129.40       133.71        18.87 
TCGA-CJ-5680 TCGA-CJ-5681 TCGA-CJ-5686 TCGA-CJ-5689 TCGA-CJ-6027 TCGA-CJ-6030 
       25.25        18.15        67.00        53.26       118.85        75.58 
TCGA-CJ-6031 TCGA-CJ-6032 TCGA-CJ-6033 TCGA-CW-5580 TCGA-CW-5581 TCGA-CW-5583 
       62.66       119.64         7.36        64.57        92.02        81.83 
TCGA-CW-5584 TCGA-CW-5585 TCGA-CW-5587 TCGA-CW-5589 TCGA-CW-6088 TCGA-CW-6090 
        5.39        85.78        73.18        78.18       105.93        83.90 
TCGA-CZ-4853 TCGA-CZ-4856 TCGA-CZ-4859 TCGA-CZ-4861 TCGA-CZ-4862 TCGA-CZ-4863 
       25.45         0.59        58.75        14.66       107.54        63.39 
TCGA-CZ-4864 TCGA-CZ-4865 TCGA-CZ-5451 TCGA-CZ-5452 TCGA-CZ-5453 TCGA-CZ-5455 
       93.04         5.46        63.42        58.82        79.53        18.44 
TCGA-CZ-5458 TCGA-CZ-5459 TCGA-CZ-5462 TCGA-CZ-5463 TCGA-CZ-5465 TCGA-CZ-5467 
       91.69        55.33        10.22        21.76        84.30         2.40 
TCGA-CZ-5470 TCGA-CZ-5982 TCGA-CZ-5985 TCGA-CZ-5986 TCGA-CZ-5987 TCGA-CZ-5989 
       12.69        80.19        65.65        12.26        14.63        62.63 
TCGA-DV-5566 TCGA-DV-5567 TCGA-DV-5568 TCGA-DV-5569 TCGA-DV-5573 TCGA-DV-5575 
       45.96        65.88        12.16        11.67        37.15        56.84 
TCGA-DV-5576 TCGA-DV-A4VZ TCGA-DV-A4W0 TCGA-EU-5904 TCGA-EU-5905 TCGA-EU-5906 
       23.90        12.00        81.21        18.12         3.91         6.77 
TCGA-EU-5907 TCGA-G6-A5PC TCGA-G6-A8L6 TCGA-G6-A8L8 TCGA-GK-A6C7 TCGA-MM-A563 
        4.18         7.96        10.29        35.87         2.01        19.43 
TCGA-MW-A4EC TCGA-T7-A92I TCGA-2Z-A9J2 TCGA-2Z-A9J8 TCGA-2Z-A9J9 TCGA-2Z-A9JG 
       16.37        11.70        59.01        91.73        75.42        54.64 
TCGA-2Z-A9JI TCGA-2Z-A9JJ TCGA-2Z-A9JK TCGA-2Z-A9JN TCGA-2Z-A9JO TCGA-4A-A93Y 
       51.52        39.88        38.99        24.33        31.20        11.57 
TCGA-5P-A9JV TCGA-5P-A9JW TCGA-5P-A9K3 TCGA-5P-A9K8 TCGA-5P-A9KA TCGA-5P-A9KH 
       67.17       106.55        15.48        43.04        12.99        67.43 
TCGA-A4-7286 TCGA-A4-7287 TCGA-A4-7583 TCGA-A4-7585 TCGA-A4-7828 TCGA-A4-7915 
       18.21        19.63         0.10        35.18         7.82         0.23 
TCGA-A4-8098 TCGA-A4-8312 TCGA-A4-8518 TCGA-A4-A48D TCGA-A4-A5Y0 TCGA-A4-A5Y1 
       29.46        23.28        19.73        12.46         8.28        12.99 
TCGA-AL-3466 TCGA-AL-3467 TCGA-AL-3473 TCGA-B1-5398 TCGA-B1-7332 TCGA-B1-A47O 
        9.63        70.19        62.66        19.56        37.51        16.87 
TCGA-B1-A655 TCGA-B3-3926 TCGA-B3-4104 TCGA-B9-A44B TCGA-B9-A5W8 TCGA-B9-A5W9 
       16.77        10.09        34.49         2.10        17.23         0.16 
TCGA-B9-A69E TCGA-B9-A8YI TCGA-BQ-5875 TCGA-BQ-5876 TCGA-BQ-5877 TCGA-BQ-5878 
       14.86        12.30        86.76        19.27         8.88        63.72 
TCGA-BQ-5879 TCGA-BQ-5880 TCGA-BQ-5882 TCGA-BQ-5883 TCGA-BQ-5885 TCGA-BQ-5886 
       22.92        43.20        21.63        40.83        30.28        26.04 
TCGA-BQ-5888 TCGA-BQ-5890 TCGA-BQ-5893 TCGA-BQ-7048 TCGA-BQ-7049 TCGA-BQ-7050 
       13.25         7.66         7.92        93.34        44.84        61.28 
TCGA-BQ-7053 TCGA-BQ-7055 TCGA-BQ-7056 TCGA-BQ-7058 TCGA-DW-7839 TCGA-DZ-6131 
       49.84        26.27        20.12        11.28        13.78        79.86 
TCGA-DZ-6135 TCGA-EV-5902 TCGA-F9-A4JJ TCGA-F9-A97G TCGA-G7-6792 TCGA-G7-6796 
       74.60        19.00        10.68         0.43        90.90        71.44 
TCGA-G7-6797 TCGA-G7-7501 TCGA-G7-A8LD TCGA-GL-7773 TCGA-GL-A4EM TCGA-GL-A9DC 
       25.15        20.52        16.90        12.92         1.05        12.89 
TCGA-GL-A9DE TCGA-HE-A5NK TCGA-IA-A40U TCGA-IA-A40X TCGA-IA-A83S TCGA-IA-A83W 
       16.31        73.25        16.80        19.99        85.78        67.17 
TCGA-IZ-8195 TCGA-J7-8537 TCGA-MH-A560 TCGA-MH-A561 TCGA-MH-A854 TCGA-MH-A855 
       22.26        10.55        30.38        27.65        17.62        12.13 
TCGA-MH-A856 TCGA-MH-A857 TCGA-P4-A5E6 TCGA-P4-A5E8 TCGA-P4-A5EA TCGA-P4-A5EB 
       31.13        29.26        99.78        42.94         6.61        99.12 
TCGA-P4-A5ED TCGA-P4-AAVM TCGA-P4-AAVO TCGA-PJ-A5Z8 TCGA-SX-A7SL TCGA-SX-A7SO 
       92.58        50.60        78.90        19.73        27.06        41.33 
TCGA-UN-AAZ9 TCGA-UZ-A9PP TCGA-UZ-A9PQ TCGA-UZ-A9PS TCGA-WN-A9G9 TCGA-WN-AB4C 
       18.02        98.96        86.27        71.24        26.01        39.06 
TCGA-Y8-A894 TCGA-Y8-A897 TCGA-Y8-A8RZ TCGA-Y8-A8S1 
       18.64        18.05         3.68        13.28 

  AMP PEAK  5(7Q31.2) MUTATED AMP PEAK  5(7Q31.2) WILD-TYPE 
                         0.07                          0.10 
  AMP PEAK  5(7Q31.2) MUTATED AMP PEAK  5(7Q31.2) WILD-TYPE 
                       194.79                        149.16 
  AMP PEAK  5(7Q31.2) MUTATED AMP PEAK  5(7Q31.2) WILD-TYPE 
                       30.640                        37.315 
[1] "0.1 - 194.8 (30.6)" "0.1 - 149.2 (37.3)"
[1] "hr=" "1"  
D5V2, continuous
                               vv
clus                            STAGE I STAGE II STAGE III STAGE IV
  AMP PEAK  5(7Q31.2) MUTATED       194       38        70       57
  AMP PEAK  5(7Q31.2) WILD-TYPE     261       66       121       47
D5V3, multiclass
           clus
vv          AMP PEAK  5(7Q31.2) MUTATED AMP PEAK  5(7Q31.2) WILD-TYPE
  STAGE I                           194                           261
  STAGE II                           38                            66
  STAGE III                          70                           121
  STAGE IV                           57                            47
[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                             T1  T2  T3  T4
  AMP PEAK  5(7Q31.2) MUTATED   206  52 110   8
  AMP PEAK  5(7Q31.2) WILD-TYPE 273  75 148   7
D5V4, multiclass
    clus
vv   AMP PEAK  5(7Q31.2) MUTATED AMP PEAK  5(7Q31.2) WILD-TYPE
  T1                         206                           273
  T2                          52                            75
  T3                         110                           148
  T4                           8                             7
[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                             N0  N1  N2
  AMP PEAK  5(7Q31.2) MUTATED   121  21   5
  AMP PEAK  5(7Q31.2) WILD-TYPE 201  23   2
D5V5, multiclass
    clus
vv   AMP PEAK  5(7Q31.2) MUTATED AMP PEAK  5(7Q31.2) WILD-TYPE
  N0                         121                           201
  N1                          21                            23
  N2                           5                             2
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D5V6, binary
                               cls
clus                              0   1
  AMP PEAK  5(7Q31.2) MUTATED   191  47
  AMP PEAK  5(7Q31.2) WILD-TYPE 354  42
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  5(7Q31.2) MUTATED    191   47
  AMP PEAK  5(7Q31.2) WILD-TYPE  354   42
   clus
vv  AMP PEAK  5(7Q31.2) MUTATED AMP PEAK  5(7Q31.2) WILD-TYPE
  0                         191                           354
  1                          47                            42
[1] 2 2
[1] FALSE
D5V7, binary
                               cls
clus                              0   1
  AMP PEAK  5(7Q31.2) MUTATED    94 283
  AMP PEAK  5(7Q31.2) WILD-TYPE 198 306
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  5(7Q31.2) MUTATED     94  283
  AMP PEAK  5(7Q31.2) WILD-TYPE  198  306
        clus
vv       AMP PEAK  5(7Q31.2) MUTATED AMP PEAK  5(7Q31.2) WILD-TYPE
  FEMALE                          94                           198
  MALE                           283                           306
[1] 2 2
[1] FALSE
D5V8, binary
                               cls
clus                              0   1
  AMP PEAK  5(7Q31.2) MUTATED   186   3
  AMP PEAK  5(7Q31.2) WILD-TYPE 214   0
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  5(7Q31.2) MUTATED    186    3
  AMP PEAK  5(7Q31.2) WILD-TYPE  214    0
     clus
vv    AMP PEAK  5(7Q31.2) MUTATED AMP PEAK  5(7Q31.2) WILD-TYPE
  NO                          186                           214
  YES                           3                             0
[1] 2 2
[1] FALSE
D5V9, continuous
                               vv
clus                            KIDNEY CHROMOPHOBE
  AMP PEAK  5(7Q31.2) MUTATED                   25
  AMP PEAK  5(7Q31.2) WILD-TYPE                 41
                               vv
clus                            KIDNEY CLEAR CELL RENAL CARCINOMA
  AMP PEAK  5(7Q31.2) MUTATED                                 175
  AMP PEAK  5(7Q31.2) WILD-TYPE                               353
                               vv
clus                            KIDNEY PAPILLARY RENAL CELL CARCINOMA
  AMP PEAK  5(7Q31.2) MUTATED                                     177
  AMP PEAK  5(7Q31.2) WILD-TYPE                                   110
D5V10, multiclass
                                       clus
vv                                      AMP PEAK  5(7Q31.2) MUTATED
  KIDNEY CHROMOPHOBE                                             25
  KIDNEY CLEAR CELL RENAL CARCINOMA                             175
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                         177
                                       clus
vv                                      AMP PEAK  5(7Q31.2) WILD-TYPE
  KIDNEY CHROMOPHOBE                                               41
  KIDNEY CLEAR CELL RENAL CARCINOMA                               353
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                           110
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D5V11, continuous
D5V12, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK  5(7Q31.2) MUTATED                                  2     8
  AMP PEAK  5(7Q31.2) WILD-TYPE                                0     7
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  5(7Q31.2) MUTATED                          45   309
  AMP PEAK  5(7Q31.2) WILD-TYPE                        76   410
D5V13, multiclass
                                  clus
vv                                 AMP PEAK  5(7Q31.2) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           2
  ASIAN                                                      8
  BLACK OR AFRICAN AMERICAN                                 45
  WHITE                                                    309
                                  clus
vv                                 AMP PEAK  5(7Q31.2) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             0
  ASIAN                                                        7
  BLACK OR AFRICAN AMERICAN                                   76
  WHITE                                                      410
[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"
D5V14, binary
                               cls
clus                              0   1
  AMP PEAK  5(7Q31.2) MUTATED    14 275
  AMP PEAK  5(7Q31.2) WILD-TYPE  28 346
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  5(7Q31.2) MUTATED     14  275
  AMP PEAK  5(7Q31.2) WILD-TYPE   28  346
                        clus
vv                       AMP PEAK  5(7Q31.2) MUTATED
  HISPANIC OR LATINO                              14
  NOT HISPANIC OR LATINO                         275
                        clus
vv                       AMP PEAK  5(7Q31.2) WILD-TYPE
  HISPANIC OR LATINO                                28
  NOT HISPANIC OR LATINO                           346
[1] 2 2
[1] FALSE

Clustering(6) Variable = AMP PEAK  6(8Q24.22) MUTATION ANALYSIS
D6V1, survival
                                sevent
clus2                              0   1
  AMP PEAK  6(8Q24.22) MUTATED    79  45
  AMP PEAK  6(8Q24.22) WILD-TYPE 566 183
  AMP PEAK  6(8Q24.22) MUTATED AMP PEAK  6(8Q24.22) WILD-TYPE 
                           124                            749 
  AMP PEAK  6(8Q24.22) MUTATED AMP PEAK  6(8Q24.22) WILD-TYPE 
                            45                            183 
$`AMP PEAK  6(8Q24.22) MUTATED`
TCGA-KL-8324 TCGA-KL-8331 TCGA-KL-8339 TCGA-KL-8346 TCGA-KM-8438 TCGA-KM-8443 
      141.73        98.96        28.11        62.37       151.96        49.97 
TCGA-KN-8419 TCGA-KN-8423 TCGA-KN-8426 TCGA-KN-8427 TCGA-KN-8428 TCGA-KN-8433 
       23.47        25.91         3.55         0.99        52.27        11.21 
TCGA-KO-8405 TCGA-KO-8409 TCGA-KO-8410 TCGA-KO-8413 TCGA-KO-8415 TCGA-A3-3308 
      100.47       104.55       103.10        99.88        96.62         0.53 
TCGA-A3-3313 TCGA-A3-3316 TCGA-A3-3319 TCGA-A3-3325 TCGA-A3-3336 TCGA-AK-3425 
       24.16        49.08        37.15        38.47        34.29       109.91 
TCGA-AK-3433 TCGA-AK-3434 TCGA-AK-3445 TCGA-AK-3454 TCGA-B0-4688 TCGA-B0-4698 
      112.08        68.61        78.64        28.73         3.32         1.38 
TCGA-B0-4703 TCGA-B0-4707 TCGA-B0-4712 TCGA-B0-4713 TCGA-B0-4813 TCGA-B0-4815 
        5.98        19.73        43.96         6.64         0.59        52.21 
TCGA-B0-4821 TCGA-B0-4828 TCGA-B0-4844 TCGA-B0-5081 TCGA-B0-5097 TCGA-B0-5108 
       40.44        10.09        10.29        11.90        21.86        58.59 
TCGA-B0-5109 TCGA-B0-5701 TCGA-B0-5703 TCGA-B4-5832 TCGA-B8-5158 TCGA-B8-5163 
       19.30        80.91        73.84         5.10        20.91        27.02 
TCGA-B8-5551 TCGA-B8-A54I TCGA-BP-4174 TCGA-BP-4338 TCGA-BP-4342 TCGA-BP-4352 
        0.53         4.93        61.78        93.99        74.17        11.31 
TCGA-BP-4759 TCGA-BP-4761 TCGA-BP-4768 TCGA-BP-4787 TCGA-BP-4798 TCGA-BP-4799 
       77.98         5.98        13.15        15.78        10.98        37.25 
TCGA-BP-4962 TCGA-BP-4983 TCGA-BP-4985 TCGA-BP-5000 TCGA-BP-5169 TCGA-BP-5173 
       58.68        46.45        31.30        18.51         6.35         1.74 
TCGA-BP-5175 TCGA-BP-5177 TCGA-BP-5185 TCGA-BP-5191 TCGA-BP-5198 TCGA-CJ-4871 
       30.64         9.63        37.22        31.79        19.82        79.66 
TCGA-CJ-4881 TCGA-CJ-4890 TCGA-CJ-4901 TCGA-CJ-4912 TCGA-CJ-4923 TCGA-CJ-5677 
       66.21       115.69        47.67        54.48        18.81        25.71 
TCGA-CJ-6031 TCGA-CJ-6033 TCGA-CW-5588 TCGA-CW-5591 TCGA-CZ-4854 TCGA-CZ-4858 
       62.66         7.36        66.31        74.66        46.16        69.21 
TCGA-CZ-4866 TCGA-CZ-5456 TCGA-CZ-5462 TCGA-CZ-5464 TCGA-CZ-5465 TCGA-CZ-5466 
       61.41        79.63        10.22        69.96        84.30        22.52 
TCGA-CZ-5468 TCGA-CZ-5469 TCGA-CZ-5470 TCGA-CZ-5987 TCGA-DV-A4VX TCGA-MM-A564 
        1.94        31.10        12.69        14.63        53.46        19.96 
TCGA-2Z-A9J2 TCGA-2Z-A9J3 TCGA-2Z-A9JP TCGA-4A-A93X TCGA-5P-A9JU TCGA-5P-A9K9 
       59.01        58.22        29.36        12.82        12.26        19.36 
TCGA-A4-8630 TCGA-AL-3466 TCGA-AL-3471 TCGA-B9-A5W9 TCGA-BQ-5880 TCGA-BQ-5887 
       14.33         9.63        49.32         0.16        43.20        25.35 
TCGA-BQ-7056 TCGA-F9-A8NY TCGA-F9-A97G TCGA-G7-6789 TCGA-G7-6793 TCGA-G7-A8LD 
       20.12         1.18         0.43         4.01        11.05        16.90 
TCGA-GL-7966 TCGA-GL-A4EM TCGA-IA-A40Y TCGA-IZ-8195 TCGA-P4-A5EA TCGA-P4-AAVL 
        3.68         1.05         2.04        22.26         6.61        16.01 
TCGA-Q2-A5QZ TCGA-SX-A71U TCGA-SX-A7SR TCGA-V9-A7HT 
       14.07        44.61        26.47        31.73 

$`AMP PEAK  6(8Q24.22) WILD-TYPE`
TCGA-KL-8323 TCGA-KL-8325 TCGA-KL-8326 TCGA-KL-8327 TCGA-KL-8328 TCGA-KL-8329 
       38.07        23.84       109.22       137.06       102.81        90.48 
TCGA-KL-8330 TCGA-KL-8332 TCGA-KL-8333 TCGA-KL-8334 TCGA-KL-8335 TCGA-KL-8336 
      108.62        84.89        98.33        96.95        92.55        30.25 
TCGA-KL-8337 TCGA-KL-8338 TCGA-KL-8340 TCGA-KL-8341 TCGA-KL-8342 TCGA-KL-8343 
       44.84        86.56        66.54        24.79        73.91        71.41 
TCGA-KL-8344 TCGA-KL-8345 TCGA-KM-8439 TCGA-KM-8440 TCGA-KM-8441 TCGA-KM-8442 
       28.80        54.74        23.28        44.91        28.80        47.24 
TCGA-KM-8476 TCGA-KM-8477 TCGA-KM-8639 TCGA-KN-8418 TCGA-KN-8421 TCGA-KN-8422 
      123.12        51.06        31.33       129.37        87.91        25.48 
TCGA-KN-8424 TCGA-KN-8425 TCGA-KN-8429 TCGA-KN-8431 TCGA-KN-8432 TCGA-KN-8434 
       65.19       104.52        87.12        19.33         2.50        59.08 
TCGA-KN-8435 TCGA-KN-8436 TCGA-KN-8437 TCGA-KO-8403 TCGA-KO-8404 TCGA-KO-8406 
      115.00        42.35       100.87       105.47        10.68       103.40 
TCGA-KO-8407 TCGA-KO-8408 TCGA-KO-8411 TCGA-KO-8414 TCGA-KO-8416 TCGA-KO-8417 
       92.71        16.67       130.13       105.60        90.48        92.55 
TCGA-3Z-A93Z TCGA-6D-AA2E TCGA-A3-3306 TCGA-A3-3307 TCGA-A3-3311 TCGA-A3-3317 
       12.66        11.90        36.82        47.21        39.16        49.02 
TCGA-A3-3320 TCGA-A3-3322 TCGA-A3-3323 TCGA-A3-3324 TCGA-A3-3326 TCGA-A3-3331 
       49.58        48.59        36.36        38.99        37.38        48.82 
TCGA-A3-3335 TCGA-A3-3343 TCGA-A3-3346 TCGA-A3-3347 TCGA-A3-3349 TCGA-A3-3351 
       62.01        31.07         4.50        52.93        45.53        29.92 
TCGA-A3-3352 TCGA-A3-3357 TCGA-A3-3358 TCGA-A3-3359 TCGA-A3-3362 TCGA-A3-3363 
       18.44        88.37        42.97        82.32        51.25        10.49 
TCGA-A3-3365 TCGA-A3-3367 TCGA-A3-3370 TCGA-A3-3372 TCGA-A3-3373 TCGA-A3-3374 
       28.70        74.63        74.76        24.16        53.29        43.20 
TCGA-A3-3376 TCGA-A3-3378 TCGA-A3-3380 TCGA-A3-3382 TCGA-A3-3383 TCGA-A3-3385 
       55.76        20.71        18.64        18.87        28.31        65.52 
TCGA-A3-3387 TCGA-A3-A6NI TCGA-A3-A6NJ TCGA-A3-A6NL TCGA-A3-A6NN TCGA-A3-A8CQ 
       20.28        33.47        15.39        22.65         0.10         0.10 
TCGA-A3-A8OV TCGA-A3-A8OW TCGA-AK-3426 TCGA-AK-3427 TCGA-AK-3428 TCGA-AK-3429 
       11.18        10.62        29.10       117.80        73.08       109.41 
TCGA-AK-3430 TCGA-AK-3431 TCGA-AK-3436 TCGA-AK-3440 TCGA-AK-3443 TCGA-AK-3444 
       15.78        73.68       109.51        94.19        46.78        48.36 
TCGA-AK-3447 TCGA-AK-3450 TCGA-AK-3451 TCGA-AK-3453 TCGA-AK-3455 TCGA-AK-3456 
       40.01        49.28        94.29        83.21        22.45        37.58 
TCGA-AK-3458 TCGA-AK-3460 TCGA-AK-3461 TCGA-AK-3465 TCGA-AS-3777 TCGA-AS-3778 
       38.40        82.45        72.89        12.13        40.70         1.41 
TCGA-B0-4690 TCGA-B0-4691 TCGA-B0-4693 TCGA-B0-4694 TCGA-B0-4696 TCGA-B0-4697 
        1.41         4.57         2.53         3.48        28.47        19.00 
TCGA-B0-4699 TCGA-B0-4700 TCGA-B0-4701 TCGA-B0-4706 TCGA-B0-4710 TCGA-B0-4714 
        3.62        65.10         7.82         2.14        57.70         3.25 
TCGA-B0-4718 TCGA-B0-4810 TCGA-B0-4811 TCGA-B0-4814 TCGA-B0-4816 TCGA-B0-4817 
       58.45        15.72        46.59         5.52        45.07        33.50 
TCGA-B0-4818 TCGA-B0-4819 TCGA-B0-4822 TCGA-B0-4823 TCGA-B0-4824 TCGA-B0-4827 
       16.77         6.02        36.53        14.93        54.48        29.10 
TCGA-B0-4833 TCGA-B0-4834 TCGA-B0-4836 TCGA-B0-4837 TCGA-B0-4838 TCGA-B0-4839 
       78.44        68.71        40.70        45.30        27.42        53.88 
TCGA-B0-4841 TCGA-B0-4842 TCGA-B0-4843 TCGA-B0-4845 TCGA-B0-4846 TCGA-B0-4847 
        6.71        56.68        10.52        65.29        39.45        26.07 
TCGA-B0-4848 TCGA-B0-4849 TCGA-B0-4852 TCGA-B0-4945 TCGA-B0-5075 TCGA-B0-5077 
       29.03         2.27        36.85        70.52        20.94        43.30 
TCGA-B0-5080 TCGA-B0-5084 TCGA-B0-5085 TCGA-B0-5088 TCGA-B0-5092 TCGA-B0-5094 
       11.24         7.30        25.32        18.51        15.09        10.95 
TCGA-B0-5095 TCGA-B0-5096 TCGA-B0-5098 TCGA-B0-5099 TCGA-B0-5100 TCGA-B0-5102 
        8.05         2.24        52.08        15.95        62.89        90.87 
TCGA-B0-5104 TCGA-B0-5106 TCGA-B0-5107 TCGA-B0-5110 TCGA-B0-5113 TCGA-B0-5115 
       90.48        52.54        30.48        66.05        38.63        52.73 
TCGA-B0-5116 TCGA-B0-5117 TCGA-B0-5119 TCGA-B0-5120 TCGA-B0-5121 TCGA-B0-5399 
       41.88        52.87        51.02        38.43        48.82        46.39 
TCGA-B0-5400 TCGA-B0-5402 TCGA-B0-5690 TCGA-B0-5691 TCGA-B0-5692 TCGA-B0-5693 
       56.98        42.41       111.52       112.80       129.67       133.94 
TCGA-B0-5694 TCGA-B0-5695 TCGA-B0-5696 TCGA-B0-5697 TCGA-B0-5698 TCGA-B0-5699 
       15.78        70.68        85.78        86.47       119.38       126.28 
TCGA-B0-5702 TCGA-B0-5705 TCGA-B0-5706 TCGA-B0-5709 TCGA-B0-5710 TCGA-B0-5711 
       71.41       149.16       105.37       130.65        79.89       131.15 
TCGA-B0-5712 TCGA-B0-5713 TCGA-B0-5812 TCGA-B2-3923 TCGA-B2-3924 TCGA-B2-4098 
       89.49        91.46       126.05        32.61        35.90         1.68 
TCGA-B2-4099 TCGA-B2-4101 TCGA-B2-4102 TCGA-B2-5633 TCGA-B2-5635 TCGA-B2-5639 
       31.96        21.30        31.30        31.66        24.82        32.98 
TCGA-B2-5641 TCGA-B2-A4SR TCGA-B4-5377 TCGA-B4-5378 TCGA-B4-5834 TCGA-B4-5835 
       21.57        16.67        12.00         5.75         0.85         0.53 
TCGA-B4-5836 TCGA-B4-5838 TCGA-B4-5843 TCGA-B4-5844 TCGA-B8-4143 TCGA-B8-4146 
        4.64         5.46         0.36         0.23        23.31        16.80 
TCGA-B8-4148 TCGA-B8-4151 TCGA-B8-4153 TCGA-B8-4154 TCGA-B8-4619 TCGA-B8-4620 
       27.16        42.71        25.05        45.37        17.19        25.55 
TCGA-B8-4621 TCGA-B8-4622 TCGA-B8-5159 TCGA-B8-5162 TCGA-B8-5164 TCGA-B8-5165 
       25.91        50.14        23.74         1.18         0.85        24.23 
TCGA-B8-5545 TCGA-B8-5546 TCGA-B8-5549 TCGA-B8-5550 TCGA-B8-5552 TCGA-B8-5553 
       50.14        16.60         6.38        48.53        34.39        14.30 
TCGA-B8-A54D TCGA-B8-A54E TCGA-B8-A54F TCGA-B8-A54G TCGA-B8-A54H TCGA-B8-A54J 
       27.29        29.88        17.06         1.74         8.42        17.36 
TCGA-B8-A54K TCGA-B8-A7U6 TCGA-B8-A8YJ TCGA-BP-4158 TCGA-BP-4159 TCGA-BP-4160 
       15.42        16.27        14.17       111.02        85.51        94.72 
TCGA-BP-4161 TCGA-BP-4162 TCGA-BP-4163 TCGA-BP-4164 TCGA-BP-4165 TCGA-BP-4166 
       90.28       101.06        93.34        32.61        99.85         0.43 
TCGA-BP-4167 TCGA-BP-4169 TCGA-BP-4170 TCGA-BP-4173 TCGA-BP-4176 TCGA-BP-4177 
       89.36        23.05        77.03        62.24        64.27        54.90 
TCGA-BP-4325 TCGA-BP-4326 TCGA-BP-4327 TCGA-BP-4329 TCGA-BP-4330 TCGA-BP-4331 
       97.45        53.42         3.58        27.78        62.07        80.68 
TCGA-BP-4332 TCGA-BP-4334 TCGA-BP-4335 TCGA-BP-4337 TCGA-BP-4340 TCGA-BP-4341 
       37.25        21.21        15.16         0.07        18.48        52.24 
TCGA-BP-4343 TCGA-BP-4344 TCGA-BP-4346 TCGA-BP-4347 TCGA-BP-4349 TCGA-BP-4351 
       62.86        54.77        49.08        44.94        12.23        31.89 
TCGA-BP-4353 TCGA-BP-4354 TCGA-BP-4355 TCGA-BP-4756 TCGA-BP-4758 TCGA-BP-4760 
       12.33        33.99        31.33        12.30        72.59        77.62 
TCGA-BP-4762 TCGA-BP-4763 TCGA-BP-4765 TCGA-BP-4766 TCGA-BP-4769 TCGA-BP-4770 
       44.15        41.75        71.80        48.07        61.68        10.82 
TCGA-BP-4771 TCGA-BP-4774 TCGA-BP-4775 TCGA-BP-4776 TCGA-BP-4777 TCGA-BP-4781 
        5.33        61.97        60.59        13.51        56.91        68.38 
TCGA-BP-4782 TCGA-BP-4784 TCGA-BP-4789 TCGA-BP-4790 TCGA-BP-4795 TCGA-BP-4797 
       11.64        60.95        48.95        36.53        20.38        36.39 
TCGA-BP-4801 TCGA-BP-4803 TCGA-BP-4804 TCGA-BP-4807 TCGA-BP-4959 TCGA-BP-4960 
       36.95         6.71        47.97         6.94        87.45        71.41 
TCGA-BP-4961 TCGA-BP-4963 TCGA-BP-4964 TCGA-BP-4965 TCGA-BP-4967 TCGA-BP-4968 
       63.62        60.30        61.22        61.51         6.74        57.40 
TCGA-BP-4969 TCGA-BP-4970 TCGA-BP-4971 TCGA-BP-4972 TCGA-BP-4973 TCGA-BP-4974 
       58.98        14.24        48.89        49.38        45.50         6.90 
TCGA-BP-4975 TCGA-BP-4976 TCGA-BP-4977 TCGA-BP-4981 TCGA-BP-4982 TCGA-BP-4986 
       47.11        53.65        14.93        36.07        33.34        25.81 
TCGA-BP-4987 TCGA-BP-4988 TCGA-BP-4989 TCGA-BP-4991 TCGA-BP-4992 TCGA-BP-4993 
       36.95        27.22         3.88        46.45        16.47         5.82 
TCGA-BP-4994 TCGA-BP-4995 TCGA-BP-4998 TCGA-BP-4999 TCGA-BP-5001 TCGA-BP-5004 
       43.00        45.07        30.64        41.62        38.70        37.02 
TCGA-BP-5006 TCGA-BP-5007 TCGA-BP-5008 TCGA-BP-5009 TCGA-BP-5010 TCGA-BP-5168 
       27.62        37.48        35.21        36.23        28.87        48.10 
TCGA-BP-5170 TCGA-BP-5174 TCGA-BP-5176 TCGA-BP-5178 TCGA-BP-5180 TCGA-BP-5181 
       79.30        74.20        52.27        62.86        74.40        49.15 
TCGA-BP-5182 TCGA-BP-5183 TCGA-BP-5184 TCGA-BP-5186 TCGA-BP-5187 TCGA-BP-5189 
       38.30        42.44        37.25        22.78        13.35        27.02 
TCGA-BP-5190 TCGA-BP-5192 TCGA-BP-5194 TCGA-BP-5195 TCGA-BP-5196 TCGA-BP-5199 
       33.24        23.47        13.41        24.62        33.47        44.55 
TCGA-BP-5200 TCGA-BP-5201 TCGA-BP-5202 TCGA-CJ-4634 TCGA-CJ-4635 TCGA-CJ-4636 
       34.95        31.27         0.95       115.00        46.55        63.25 
TCGA-CJ-4637 TCGA-CJ-4638 TCGA-CJ-4639 TCGA-CJ-4640 TCGA-CJ-4641 TCGA-CJ-4642 
       73.22        14.17       106.16       114.41        54.61       105.37 
TCGA-CJ-4643 TCGA-CJ-4644 TCGA-CJ-4868 TCGA-CJ-4869 TCGA-CJ-4870 TCGA-CJ-4872 
       58.95        11.05        21.24        83.97        49.25        10.72 
TCGA-CJ-4873 TCGA-CJ-4874 TCGA-CJ-4875 TCGA-CJ-4876 TCGA-CJ-4878 TCGA-CJ-4882 
       74.27        75.06       116.84        64.27        71.87        61.91 
TCGA-CJ-4884 TCGA-CJ-4885 TCGA-CJ-4886 TCGA-CJ-4887 TCGA-CJ-4888 TCGA-CJ-4889 
       57.83       113.46        64.18        30.64        51.52        63.98 
TCGA-CJ-4891 TCGA-CJ-4892 TCGA-CJ-4893 TCGA-CJ-4894 TCGA-CJ-4895 TCGA-CJ-4897 
       26.93        50.01        24.66        27.65        39.45       109.84 
TCGA-CJ-4899 TCGA-CJ-4900 TCGA-CJ-4902 TCGA-CJ-4903 TCGA-CJ-4904 TCGA-CJ-4905 
       50.24        56.35        49.97        51.25       108.56        49.18 
TCGA-CJ-4907 TCGA-CJ-4908 TCGA-CJ-4913 TCGA-CJ-4916 TCGA-CJ-4918 TCGA-CJ-4920 
       49.28        50.33        38.56        45.14         3.06         4.57 
TCGA-CJ-5671 TCGA-CJ-5672 TCGA-CJ-5675 TCGA-CJ-5676 TCGA-CJ-5678 TCGA-CJ-5679 
      131.08        72.00       129.40       133.71        18.87        22.32 
TCGA-CJ-5680 TCGA-CJ-5681 TCGA-CJ-5682 TCGA-CJ-5683 TCGA-CJ-5684 TCGA-CJ-5686 
       25.25        18.15       122.83        62.10        73.35        67.00 
TCGA-CJ-5689 TCGA-CJ-6027 TCGA-CJ-6028 TCGA-CJ-6030 TCGA-CJ-6032 TCGA-CW-5580 
       53.26       118.85        53.42        75.58       119.64        64.57 
TCGA-CW-5581 TCGA-CW-5583 TCGA-CW-5584 TCGA-CW-5585 TCGA-CW-5587 TCGA-CW-5589 
       92.02        81.83         5.39        85.78        73.18        78.18 
TCGA-CW-6087 TCGA-CW-6088 TCGA-CW-6090 TCGA-CW-6093 TCGA-CW-6097 TCGA-CZ-4853 
        1.35       105.93        83.90       103.43        18.77        25.45 
TCGA-CZ-4856 TCGA-CZ-4857 TCGA-CZ-4859 TCGA-CZ-4860 TCGA-CZ-4861 TCGA-CZ-4862 
        0.59        47.08        58.75         6.77        14.66       107.54 
TCGA-CZ-4863 TCGA-CZ-4864 TCGA-CZ-4865 TCGA-CZ-5451 TCGA-CZ-5452 TCGA-CZ-5453 
       63.39        93.04         5.46        63.42        58.82        79.53 
TCGA-CZ-5454 TCGA-CZ-5455 TCGA-CZ-5457 TCGA-CZ-5458 TCGA-CZ-5459 TCGA-CZ-5460 
       23.74        18.44        90.54        91.69        55.33        94.45 
TCGA-CZ-5461 TCGA-CZ-5463 TCGA-CZ-5467 TCGA-CZ-5982 TCGA-CZ-5984 TCGA-CZ-5985 
       10.85        21.76         2.40        80.19        67.96        65.65 
TCGA-CZ-5986 TCGA-CZ-5988 TCGA-CZ-5989 TCGA-DV-5565 TCGA-DV-5566 TCGA-DV-5567 
       12.26        22.78        62.63        13.28        45.96        65.88 
TCGA-DV-5568 TCGA-DV-5569 TCGA-DV-5573 TCGA-DV-5574 TCGA-DV-5575 TCGA-DV-5576 
       12.16        11.67        37.15        66.28        56.84        23.90 
TCGA-DV-A4VZ TCGA-DV-A4W0 TCGA-EU-5904 TCGA-EU-5905 TCGA-EU-5906 TCGA-EU-5907 
       12.00        81.21        18.12         3.91         6.77         4.18 
TCGA-G6-A5PC TCGA-G6-A8L6 TCGA-G6-A8L7 TCGA-G6-A8L8 TCGA-GK-A6C7 TCGA-MM-A563 
        7.96        10.29        70.13        35.87         2.01        19.43 
TCGA-MM-A84U TCGA-MW-A4EC TCGA-T7-A92I TCGA-2K-A9WE TCGA-2Z-A9J1 TCGA-2Z-A9J5 
       23.01        16.37        11.70         7.04        75.55       100.27 
TCGA-2Z-A9J6 TCGA-2Z-A9J7 TCGA-2Z-A9J8 TCGA-2Z-A9J9 TCGA-2Z-A9JD TCGA-2Z-A9JE 
       56.91         4.57        91.73        75.42        34.85        56.81 
TCGA-2Z-A9JG TCGA-2Z-A9JI TCGA-2Z-A9JJ TCGA-2Z-A9JK TCGA-2Z-A9JL TCGA-2Z-A9JM 
       54.64        51.52        39.88        38.99        33.07        30.71 
TCGA-2Z-A9JN TCGA-2Z-A9JO TCGA-2Z-A9JQ TCGA-2Z-A9JR TCGA-2Z-A9JS TCGA-2Z-A9JT 
       24.33        31.20        25.58         5.29        16.18        22.49 
TCGA-4A-A93W TCGA-4A-A93Y TCGA-5P-A9JV TCGA-5P-A9JW TCGA-5P-A9JY TCGA-5P-A9JZ 
        0.13        11.57        67.17       106.55        49.58        90.21 
TCGA-5P-A9K0 TCGA-5P-A9K2 TCGA-5P-A9K3 TCGA-5P-A9K4 TCGA-5P-A9K6 TCGA-5P-A9K8 
       22.26        78.64        15.48        71.80        62.93        43.04 
TCGA-5P-A9KA TCGA-5P-A9KC TCGA-5P-A9KE TCGA-5P-A9KH TCGA-A4-7286 TCGA-A4-7287 
       12.99        12.39        27.09        67.43        18.21        19.63 
TCGA-A4-7288 TCGA-A4-7583 TCGA-A4-7584 TCGA-A4-7585 TCGA-A4-7732 TCGA-A4-7734 
       61.05         0.10        21.37        35.18        19.13         0.89 
TCGA-A4-7828 TCGA-A4-7915 TCGA-A4-7996 TCGA-A4-7997 TCGA-A4-8098 TCGA-A4-8310 
        7.82         0.23        16.64        30.48        29.46        25.64 
TCGA-A4-8311 TCGA-A4-8312 TCGA-A4-8515 TCGA-A4-8516 TCGA-A4-8517 TCGA-A4-8518 
       23.97        23.28        23.31         0.76        19.63        19.73 
TCGA-A4-A48D TCGA-A4-A4ZT TCGA-A4-A57E TCGA-A4-A5DU TCGA-A4-A5XZ TCGA-A4-A5Y0 
       12.46        16.96         8.48        16.31        15.75         8.28 
TCGA-A4-A5Y1 TCGA-A4-A6HP TCGA-AL-3467 TCGA-AL-3468 TCGA-AL-3472 TCGA-AL-3473 
       12.99        12.46        70.19        76.64        66.71        62.66 
TCGA-AL-7173 TCGA-AL-A5DJ TCGA-AT-A5NU TCGA-B1-5398 TCGA-B1-7332 TCGA-B1-A47M 
       67.73        49.25         2.20        19.56        37.51        21.67 
TCGA-B1-A47N TCGA-B1-A47O TCGA-B1-A654 TCGA-B1-A655 TCGA-B1-A656 TCGA-B1-A657 
       24.56        16.87        20.25        16.77        20.32        21.07 
TCGA-B3-3925 TCGA-B3-3926 TCGA-B3-4103 TCGA-B3-4104 TCGA-B3-8121 TCGA-B3-A6W5 
       33.83        10.09        30.58        34.49        12.46        10.16 
TCGA-B9-4113 TCGA-B9-4114 TCGA-B9-4115 TCGA-B9-4116 TCGA-B9-4117 TCGA-B9-4617 
       50.50        28.18        26.40        20.61         0.46         1.15 
TCGA-B9-5155 TCGA-B9-5156 TCGA-B9-7268 TCGA-B9-A44B TCGA-B9-A5W7 TCGA-B9-A5W8 
       15.12        43.99        22.06         2.10        19.23        17.23 
TCGA-B9-A69E TCGA-B9-A8YH TCGA-B9-A8YI TCGA-BQ-5875 TCGA-BQ-5876 TCGA-BQ-5877 
       14.86        17.49        12.30        86.76        19.27         8.88 
TCGA-BQ-5878 TCGA-BQ-5879 TCGA-BQ-5881 TCGA-BQ-5882 TCGA-BQ-5883 TCGA-BQ-5884 
       63.72        22.92        47.80        21.63        40.83        26.04 
TCGA-BQ-5885 TCGA-BQ-5886 TCGA-BQ-5888 TCGA-BQ-5889 TCGA-BQ-5890 TCGA-BQ-5891 
       30.28        26.04        13.25        10.82         7.66         0.95 
TCGA-BQ-5892 TCGA-BQ-5893 TCGA-BQ-5894 TCGA-BQ-7044 TCGA-BQ-7045 TCGA-BQ-7046 
       11.97         7.92         2.76       123.62        48.26        96.92 
TCGA-BQ-7048 TCGA-BQ-7049 TCGA-BQ-7050 TCGA-BQ-7051 TCGA-BQ-7053 TCGA-BQ-7055 
       93.34        44.84        61.28        50.40        49.84        26.27 
TCGA-BQ-7058 TCGA-BQ-7059 TCGA-BQ-7060 TCGA-BQ-7061 TCGA-BQ-7062 TCGA-DW-5560 
       11.28         7.63         7.04         7.17         3.81        48.85 
TCGA-DW-5561 TCGA-DW-7834 TCGA-DW-7836 TCGA-DW-7837 TCGA-DW-7838 TCGA-DW-7839 
       13.61       129.86        35.93        37.55        24.46        13.78 
TCGA-DW-7840 TCGA-DW-7841 TCGA-DW-7842 TCGA-DW-7963 TCGA-DZ-6131 TCGA-DZ-6132 
        3.75        14.63         3.02        40.77        79.86        80.88 
TCGA-DZ-6133 TCGA-DZ-6134 TCGA-DZ-6135 TCGA-EV-5901 TCGA-EV-5902 TCGA-EV-5903 
       51.19        61.02        74.60        34.19        19.00        24.89 
TCGA-F9-A4JJ TCGA-F9-A7Q0 TCGA-F9-A7VF TCGA-G7-6790 TCGA-G7-6792 TCGA-G7-6795 
       10.68        13.08         2.40        51.78        90.90        39.25 
TCGA-G7-6796 TCGA-G7-6797 TCGA-G7-7501 TCGA-G7-7502 TCGA-G7-A4TM TCGA-G7-A8LB 
       71.44        25.15        20.52        25.84         6.38        17.98 
TCGA-G7-A8LC TCGA-G7-A8LE TCGA-GL-6846 TCGA-GL-7773 TCGA-GL-8500 TCGA-GL-A59R 
       23.08        80.65       194.79        12.92        27.65        12.43 
TCGA-GL-A59T TCGA-GL-A9DC TCGA-GL-A9DD TCGA-GL-A9DE TCGA-HE-A5NF TCGA-HE-A5NH 
       17.95        12.89        11.21        16.31        84.89        26.01 
TCGA-HE-A5NI TCGA-HE-A5NJ TCGA-HE-A5NK TCGA-HE-A5NL TCGA-IA-A40U TCGA-IA-A40X 
       11.84        56.75        73.25        25.22        16.80        19.99 
TCGA-IA-A83S TCGA-IA-A83T TCGA-IA-A83V TCGA-IA-A83W TCGA-IZ-8196 TCGA-IZ-A6M8 
       85.78        88.24        96.69        67.17        21.34        16.34 
TCGA-IZ-A6M9 TCGA-J7-6720 TCGA-J7-8537 TCGA-KV-A6GD TCGA-KV-A6GE TCGA-KV-A74V 
       12.36        12.76        10.55        18.41        29.10        11.41 
TCGA-MH-A55W TCGA-MH-A55Z TCGA-MH-A560 TCGA-MH-A561 TCGA-MH-A562 TCGA-MH-A854 
       34.29        27.78        30.38        27.65        20.25        17.62 
TCGA-MH-A855 TCGA-MH-A856 TCGA-MH-A857 TCGA-O9-A75Z TCGA-P4-A5E6 TCGA-P4-A5E7 
       12.13        31.13        29.26        15.48        99.78        87.09 
TCGA-P4-A5E8 TCGA-P4-A5EB TCGA-P4-A5ED TCGA-P4-AAVK TCGA-P4-AAVM TCGA-P4-AAVO 
       42.94        99.12        92.58        52.27        50.60        78.90 
TCGA-PJ-A5Z8 TCGA-PJ-A5Z9 TCGA-SX-A71R TCGA-SX-A71S TCGA-SX-A71V TCGA-SX-A7SL 
       19.73        17.75        47.90        49.45        28.80        27.06 
TCGA-SX-A7SM TCGA-SX-A7SN TCGA-SX-A7SO TCGA-SX-A7SP TCGA-SX-A7SQ TCGA-SX-A7SS 
       11.93        19.00        41.33        16.31        41.62        53.10 
TCGA-SX-A7SU TCGA-UN-AAZ9 TCGA-UZ-A9PJ TCGA-UZ-A9PK TCGA-UZ-A9PL TCGA-UZ-A9PM 
       43.76        18.02        26.20       117.40       103.63       125.29 
TCGA-UZ-A9PN TCGA-UZ-A9PO TCGA-UZ-A9PP TCGA-UZ-A9PQ TCGA-UZ-A9PR TCGA-UZ-A9PS 
       37.35        62.83        98.96        86.27        86.37        71.24 
TCGA-UZ-A9PU TCGA-UZ-A9PV TCGA-UZ-A9PX TCGA-UZ-A9PZ TCGA-UZ-A9Q0 TCGA-UZ-A9Q1 
       30.67        47.47        65.13        21.60       110.73        51.35 
TCGA-WN-A9G9 TCGA-WN-AB4C TCGA-Y8-A894 TCGA-Y8-A895 TCGA-Y8-A896 TCGA-Y8-A897 
       26.01        39.06        18.64        15.91        18.64        18.05 
TCGA-Y8-A898 TCGA-Y8-A8RY TCGA-Y8-A8RZ TCGA-Y8-A8S0 TCGA-Y8-A8S1 
       15.62        25.28         3.68         6.02        13.28 

  AMP PEAK  6(8Q24.22) MUTATED AMP PEAK  6(8Q24.22) WILD-TYPE 
                          0.16                           0.07 
  AMP PEAK  6(8Q24.22) MUTATED AMP PEAK  6(8Q24.22) WILD-TYPE 
                        151.96                         194.79 
  AMP PEAK  6(8Q24.22) MUTATED AMP PEAK  6(8Q24.22) WILD-TYPE 
                        26.745                         36.360 
[1] "0.2 - 152.0 (26.7)" "0.1 - 194.8 (36.4)"
[1] "hr=" "1.7"
D6V2, continuous
                                vv
clus                             STAGE I STAGE II STAGE III STAGE IV
  AMP PEAK  6(8Q24.22) MUTATED        35       23        39       27
  AMP PEAK  6(8Q24.22) WILD-TYPE     420       81       152       77
D6V3, multiclass
           clus
vv          AMP PEAK  6(8Q24.22) MUTATED AMP PEAK  6(8Q24.22) WILD-TYPE
  STAGE I                             35                            420
  STAGE II                            23                             81
  STAGE III                           39                            152
  STAGE IV                            27                             77
[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                              T1  T2  T3  T4
  AMP PEAK  6(8Q24.22) MUTATED    36  24  61   4
  AMP PEAK  6(8Q24.22) WILD-TYPE 443 103 197  11
D6V4, multiclass
    clus
vv   AMP PEAK  6(8Q24.22) MUTATED AMP PEAK  6(8Q24.22) WILD-TYPE
  T1                           36                            443
  T2                           24                            103
  T3                           61                            197
  T4                            4                             11
[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                              N0  N1  N2
  AMP PEAK  6(8Q24.22) MUTATED    53  13   3
  AMP PEAK  6(8Q24.22) WILD-TYPE 269  31   4
D6V5, multiclass
    clus
vv   AMP PEAK  6(8Q24.22) MUTATED AMP PEAK  6(8Q24.22) WILD-TYPE
  N0                           53                            269
  N1                           13                             31
  N2                            3                              4
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D6V6, binary
                                cls
clus                               0   1
  AMP PEAK  6(8Q24.22) MUTATED    74  22
  AMP PEAK  6(8Q24.22) WILD-TYPE 471  67
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  6(8Q24.22) MUTATED     74   22
  AMP PEAK  6(8Q24.22) WILD-TYPE  471   67
   clus
vv  AMP PEAK  6(8Q24.22) MUTATED AMP PEAK  6(8Q24.22) WILD-TYPE
  0                           74                            471
  1                           22                             67
[1] 2 2
[1] FALSE
D6V7, binary
                                cls
clus                               0   1
  AMP PEAK  6(8Q24.22) MUTATED    38  87
  AMP PEAK  6(8Q24.22) WILD-TYPE 254 502
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  6(8Q24.22) MUTATED     38   87
  AMP PEAK  6(8Q24.22) WILD-TYPE  254  502
        clus
vv       AMP PEAK  6(8Q24.22) MUTATED AMP PEAK  6(8Q24.22) WILD-TYPE
  FEMALE                           38                            254
  MALE                             87                            502
[1] 2 2
[1] FALSE
D6V8, binary
                                cls
clus                               0   1
  AMP PEAK  6(8Q24.22) MUTATED    49   0
  AMP PEAK  6(8Q24.22) WILD-TYPE 351   3
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  6(8Q24.22) MUTATED     49    0
  AMP PEAK  6(8Q24.22) WILD-TYPE  351    3
     clus
vv    AMP PEAK  6(8Q24.22) MUTATED AMP PEAK  6(8Q24.22) WILD-TYPE
  NO                            49                            351
  YES                            0                              3
[1] 2 2
[1] FALSE
D6V9, continuous
                                vv
clus                             KIDNEY CHROMOPHOBE
  AMP PEAK  6(8Q24.22) MUTATED                   18
  AMP PEAK  6(8Q24.22) WILD-TYPE                 48
                                vv
clus                             KIDNEY CLEAR CELL RENAL CARCINOMA
  AMP PEAK  6(8Q24.22) MUTATED                                  79
  AMP PEAK  6(8Q24.22) WILD-TYPE                               449
                                vv
clus                             KIDNEY PAPILLARY RENAL CELL CARCINOMA
  AMP PEAK  6(8Q24.22) MUTATED                                      28
  AMP PEAK  6(8Q24.22) WILD-TYPE                                   259
D6V10, multiclass
                                       clus
vv                                      AMP PEAK  6(8Q24.22) MUTATED
  KIDNEY CHROMOPHOBE                                              18
  KIDNEY CLEAR CELL RENAL CARCINOMA                               79
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                           28
                                       clus
vv                                      AMP PEAK  6(8Q24.22) WILD-TYPE
  KIDNEY CHROMOPHOBE                                                48
  KIDNEY CLEAR CELL RENAL CARCINOMA                                449
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                            259
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D6V11, continuous
D6V12, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK  6(8Q24.22) MUTATED                                  0     4
  AMP PEAK  6(8Q24.22) WILD-TYPE                                2    11
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  6(8Q24.22) MUTATED                           8   110
  AMP PEAK  6(8Q24.22) WILD-TYPE                       113   609
D6V13, multiclass
                                  clus
vv                                 AMP PEAK  6(8Q24.22) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                       4
  BLACK OR AFRICAN AMERICAN                                   8
  WHITE                                                     110
                                  clus
vv                                 AMP PEAK  6(8Q24.22) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              2
  ASIAN                                                        11
  BLACK OR AFRICAN AMERICAN                                   113
  WHITE                                                       609
[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"
D6V14, binary
                                cls
clus                               0   1
  AMP PEAK  6(8Q24.22) MUTATED     5  84
  AMP PEAK  6(8Q24.22) WILD-TYPE  37 537
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  6(8Q24.22) MUTATED      5   84
  AMP PEAK  6(8Q24.22) WILD-TYPE   37  537
                        clus
vv                       AMP PEAK  6(8Q24.22) MUTATED
  HISPANIC OR LATINO                                5
  NOT HISPANIC OR LATINO                           84
                        clus
vv                       AMP PEAK  6(8Q24.22) WILD-TYPE
  HISPANIC OR LATINO                                 37
  NOT HISPANIC OR LATINO                            537
[1] 2 2
[1] FALSE

Clustering(7) Variable = AMP PEAK  7(10P14) MUTATION ANALYSIS
D7V1, survival
                              sevent
clus2                            0   1
  AMP PEAK  7(10P14) MUTATED    22  11
  AMP PEAK  7(10P14) WILD-TYPE 623 217
  AMP PEAK  7(10P14) MUTATED AMP PEAK  7(10P14) WILD-TYPE 
                          33                          840 
  AMP PEAK  7(10P14) MUTATED AMP PEAK  7(10P14) WILD-TYPE 
                          11                          217 
$`AMP PEAK  7(10P14) MUTATED`
TCGA-KL-8324 TCGA-KN-8427 TCGA-KN-8433 TCGA-KN-8436 TCGA-A3-3316 TCGA-AK-3453 
      141.73         0.99        11.21        42.35        49.08        83.21 
TCGA-B0-4688 TCGA-B0-4690 TCGA-B0-5109 TCGA-B4-5832 TCGA-B4-5838 TCGA-B8-4143 
        3.32         1.41        19.30         5.10         5.46        23.31 
TCGA-BP-4338 TCGA-BP-4342 TCGA-BP-4768 TCGA-BP-4781 TCGA-BP-4986 TCGA-BP-5175 
       93.99        74.17        13.15        68.38        25.81        30.64 
TCGA-CJ-5675 TCGA-CW-5588 TCGA-CZ-4854 TCGA-CZ-4866 TCGA-CZ-5454 TCGA-EU-5905 
      129.40        66.31        46.16        61.41        23.74         3.91 
TCGA-5P-A9K9 TCGA-A4-8098 TCGA-AL-3468 TCGA-B9-4617 TCGA-BQ-5882 TCGA-F9-A7Q0 
       19.36        29.46        76.64         1.15        21.63        13.08 
TCGA-F9-A8NY TCGA-SX-A7SS TCGA-UZ-A9PQ 
        1.18        53.10        86.27 

$`AMP PEAK  7(10P14) WILD-TYPE`
TCGA-KL-8323 TCGA-KL-8325 TCGA-KL-8326 TCGA-KL-8327 TCGA-KL-8328 TCGA-KL-8329 
       38.07        23.84       109.22       137.06       102.81        90.48 
TCGA-KL-8330 TCGA-KL-8331 TCGA-KL-8332 TCGA-KL-8333 TCGA-KL-8334 TCGA-KL-8335 
      108.62        98.96        84.89        98.33        96.95        92.55 
TCGA-KL-8336 TCGA-KL-8337 TCGA-KL-8338 TCGA-KL-8339 TCGA-KL-8340 TCGA-KL-8341 
       30.25        44.84        86.56        28.11        66.54        24.79 
TCGA-KL-8342 TCGA-KL-8343 TCGA-KL-8344 TCGA-KL-8345 TCGA-KL-8346 TCGA-KM-8438 
       73.91        71.41        28.80        54.74        62.37       151.96 
TCGA-KM-8439 TCGA-KM-8440 TCGA-KM-8441 TCGA-KM-8442 TCGA-KM-8443 TCGA-KM-8476 
       23.28        44.91        28.80        47.24        49.97       123.12 
TCGA-KM-8477 TCGA-KM-8639 TCGA-KN-8418 TCGA-KN-8419 TCGA-KN-8421 TCGA-KN-8422 
       51.06        31.33       129.37        23.47        87.91        25.48 
TCGA-KN-8423 TCGA-KN-8424 TCGA-KN-8425 TCGA-KN-8426 TCGA-KN-8428 TCGA-KN-8429 
       25.91        65.19       104.52         3.55        52.27        87.12 
TCGA-KN-8431 TCGA-KN-8432 TCGA-KN-8434 TCGA-KN-8435 TCGA-KN-8437 TCGA-KO-8403 
       19.33         2.50        59.08       115.00       100.87       105.47 
TCGA-KO-8404 TCGA-KO-8405 TCGA-KO-8406 TCGA-KO-8407 TCGA-KO-8408 TCGA-KO-8409 
       10.68       100.47       103.40        92.71        16.67       104.55 
TCGA-KO-8410 TCGA-KO-8411 TCGA-KO-8413 TCGA-KO-8414 TCGA-KO-8415 TCGA-KO-8416 
      103.10       130.13        99.88       105.60        96.62        90.48 
TCGA-KO-8417 TCGA-3Z-A93Z TCGA-6D-AA2E TCGA-A3-3306 TCGA-A3-3307 TCGA-A3-3308 
       92.55        12.66        11.90        36.82        47.21         0.53 
TCGA-A3-3311 TCGA-A3-3313 TCGA-A3-3317 TCGA-A3-3319 TCGA-A3-3320 TCGA-A3-3322 
       39.16        24.16        49.02        37.15        49.58        48.59 
TCGA-A3-3323 TCGA-A3-3324 TCGA-A3-3325 TCGA-A3-3326 TCGA-A3-3331 TCGA-A3-3335 
       36.36        38.99        38.47        37.38        48.82        62.01 
TCGA-A3-3336 TCGA-A3-3343 TCGA-A3-3346 TCGA-A3-3347 TCGA-A3-3349 TCGA-A3-3351 
       34.29        31.07         4.50        52.93        45.53        29.92 
TCGA-A3-3352 TCGA-A3-3357 TCGA-A3-3358 TCGA-A3-3359 TCGA-A3-3362 TCGA-A3-3363 
       18.44        88.37        42.97        82.32        51.25        10.49 
TCGA-A3-3365 TCGA-A3-3367 TCGA-A3-3370 TCGA-A3-3372 TCGA-A3-3373 TCGA-A3-3374 
       28.70        74.63        74.76        24.16        53.29        43.20 
TCGA-A3-3376 TCGA-A3-3378 TCGA-A3-3380 TCGA-A3-3382 TCGA-A3-3383 TCGA-A3-3385 
       55.76        20.71        18.64        18.87        28.31        65.52 
TCGA-A3-3387 TCGA-A3-A6NI TCGA-A3-A6NJ TCGA-A3-A6NL TCGA-A3-A6NN TCGA-A3-A8CQ 
       20.28        33.47        15.39        22.65         0.10         0.10 
TCGA-A3-A8OV TCGA-A3-A8OW TCGA-AK-3425 TCGA-AK-3426 TCGA-AK-3427 TCGA-AK-3428 
       11.18        10.62       109.91        29.10       117.80        73.08 
TCGA-AK-3429 TCGA-AK-3430 TCGA-AK-3431 TCGA-AK-3433 TCGA-AK-3434 TCGA-AK-3436 
      109.41        15.78        73.68       112.08        68.61       109.51 
TCGA-AK-3440 TCGA-AK-3443 TCGA-AK-3444 TCGA-AK-3445 TCGA-AK-3447 TCGA-AK-3450 
       94.19        46.78        48.36        78.64        40.01        49.28 
TCGA-AK-3451 TCGA-AK-3454 TCGA-AK-3455 TCGA-AK-3456 TCGA-AK-3458 TCGA-AK-3460 
       94.29        28.73        22.45        37.58        38.40        82.45 
TCGA-AK-3461 TCGA-AK-3465 TCGA-AS-3777 TCGA-AS-3778 TCGA-B0-4691 TCGA-B0-4693 
       72.89        12.13        40.70         1.41         4.57         2.53 
TCGA-B0-4694 TCGA-B0-4696 TCGA-B0-4697 TCGA-B0-4698 TCGA-B0-4699 TCGA-B0-4700 
        3.48        28.47        19.00         1.38         3.62        65.10 
TCGA-B0-4701 TCGA-B0-4703 TCGA-B0-4706 TCGA-B0-4707 TCGA-B0-4710 TCGA-B0-4712 
        7.82         5.98         2.14        19.73        57.70        43.96 
TCGA-B0-4713 TCGA-B0-4714 TCGA-B0-4718 TCGA-B0-4810 TCGA-B0-4811 TCGA-B0-4813 
        6.64         3.25        58.45        15.72        46.59         0.59 
TCGA-B0-4814 TCGA-B0-4815 TCGA-B0-4816 TCGA-B0-4817 TCGA-B0-4818 TCGA-B0-4819 
        5.52        52.21        45.07        33.50        16.77         6.02 
TCGA-B0-4821 TCGA-B0-4822 TCGA-B0-4823 TCGA-B0-4824 TCGA-B0-4827 TCGA-B0-4828 
       40.44        36.53        14.93        54.48        29.10        10.09 
TCGA-B0-4833 TCGA-B0-4834 TCGA-B0-4836 TCGA-B0-4837 TCGA-B0-4838 TCGA-B0-4839 
       78.44        68.71        40.70        45.30        27.42        53.88 
TCGA-B0-4841 TCGA-B0-4842 TCGA-B0-4843 TCGA-B0-4844 TCGA-B0-4845 TCGA-B0-4846 
        6.71        56.68        10.52        10.29        65.29        39.45 
TCGA-B0-4847 TCGA-B0-4848 TCGA-B0-4849 TCGA-B0-4852 TCGA-B0-4945 TCGA-B0-5075 
       26.07        29.03         2.27        36.85        70.52        20.94 
TCGA-B0-5077 TCGA-B0-5080 TCGA-B0-5081 TCGA-B0-5084 TCGA-B0-5085 TCGA-B0-5088 
       43.30        11.24        11.90         7.30        25.32        18.51 
TCGA-B0-5092 TCGA-B0-5094 TCGA-B0-5095 TCGA-B0-5096 TCGA-B0-5097 TCGA-B0-5098 
       15.09        10.95         8.05         2.24        21.86        52.08 
TCGA-B0-5099 TCGA-B0-5100 TCGA-B0-5102 TCGA-B0-5104 TCGA-B0-5106 TCGA-B0-5107 
       15.95        62.89        90.87        90.48        52.54        30.48 
TCGA-B0-5108 TCGA-B0-5110 TCGA-B0-5113 TCGA-B0-5115 TCGA-B0-5116 TCGA-B0-5117 
       58.59        66.05        38.63        52.73        41.88        52.87 
TCGA-B0-5119 TCGA-B0-5120 TCGA-B0-5121 TCGA-B0-5399 TCGA-B0-5400 TCGA-B0-5402 
       51.02        38.43        48.82        46.39        56.98        42.41 
TCGA-B0-5690 TCGA-B0-5691 TCGA-B0-5692 TCGA-B0-5693 TCGA-B0-5694 TCGA-B0-5695 
      111.52       112.80       129.67       133.94        15.78        70.68 
TCGA-B0-5696 TCGA-B0-5697 TCGA-B0-5698 TCGA-B0-5699 TCGA-B0-5701 TCGA-B0-5702 
       85.78        86.47       119.38       126.28        80.91        71.41 
TCGA-B0-5703 TCGA-B0-5705 TCGA-B0-5706 TCGA-B0-5709 TCGA-B0-5710 TCGA-B0-5711 
       73.84       149.16       105.37       130.65        79.89       131.15 
TCGA-B0-5712 TCGA-B0-5713 TCGA-B0-5812 TCGA-B2-3923 TCGA-B2-3924 TCGA-B2-4098 
       89.49        91.46       126.05        32.61        35.90         1.68 
TCGA-B2-4099 TCGA-B2-4101 TCGA-B2-4102 TCGA-B2-5633 TCGA-B2-5635 TCGA-B2-5639 
       31.96        21.30        31.30        31.66        24.82        32.98 
TCGA-B2-5641 TCGA-B2-A4SR TCGA-B4-5377 TCGA-B4-5378 TCGA-B4-5834 TCGA-B4-5835 
       21.57        16.67        12.00         5.75         0.85         0.53 
TCGA-B4-5836 TCGA-B4-5843 TCGA-B4-5844 TCGA-B8-4146 TCGA-B8-4148 TCGA-B8-4151 
        4.64         0.36         0.23        16.80        27.16        42.71 
TCGA-B8-4153 TCGA-B8-4154 TCGA-B8-4619 TCGA-B8-4620 TCGA-B8-4621 TCGA-B8-4622 
       25.05        45.37        17.19        25.55        25.91        50.14 
TCGA-B8-5158 TCGA-B8-5159 TCGA-B8-5162 TCGA-B8-5163 TCGA-B8-5164 TCGA-B8-5165 
       20.91        23.74         1.18        27.02         0.85        24.23 
TCGA-B8-5545 TCGA-B8-5546 TCGA-B8-5549 TCGA-B8-5550 TCGA-B8-5551 TCGA-B8-5552 
       50.14        16.60         6.38        48.53         0.53        34.39 
TCGA-B8-5553 TCGA-B8-A54D TCGA-B8-A54E TCGA-B8-A54F TCGA-B8-A54G TCGA-B8-A54H 
       14.30        27.29        29.88        17.06         1.74         8.42 
TCGA-B8-A54I TCGA-B8-A54J TCGA-B8-A54K TCGA-B8-A7U6 TCGA-B8-A8YJ TCGA-BP-4158 
        4.93        17.36        15.42        16.27        14.17       111.02 
TCGA-BP-4159 TCGA-BP-4160 TCGA-BP-4161 TCGA-BP-4162 TCGA-BP-4163 TCGA-BP-4164 
       85.51        94.72        90.28       101.06        93.34        32.61 
TCGA-BP-4165 TCGA-BP-4166 TCGA-BP-4167 TCGA-BP-4169 TCGA-BP-4170 TCGA-BP-4173 
       99.85         0.43        89.36        23.05        77.03        62.24 
TCGA-BP-4174 TCGA-BP-4176 TCGA-BP-4177 TCGA-BP-4325 TCGA-BP-4326 TCGA-BP-4327 
       61.78        64.27        54.90        97.45        53.42         3.58 
TCGA-BP-4329 TCGA-BP-4330 TCGA-BP-4331 TCGA-BP-4332 TCGA-BP-4334 TCGA-BP-4335 
       27.78        62.07        80.68        37.25        21.21        15.16 
TCGA-BP-4337 TCGA-BP-4340 TCGA-BP-4341 TCGA-BP-4343 TCGA-BP-4344 TCGA-BP-4346 
        0.07        18.48        52.24        62.86        54.77        49.08 
TCGA-BP-4347 TCGA-BP-4349 TCGA-BP-4351 TCGA-BP-4352 TCGA-BP-4353 TCGA-BP-4354 
       44.94        12.23        31.89        11.31        12.33        33.99 
TCGA-BP-4355 TCGA-BP-4756 TCGA-BP-4758 TCGA-BP-4759 TCGA-BP-4760 TCGA-BP-4761 
       31.33        12.30        72.59        77.98        77.62         5.98 
TCGA-BP-4762 TCGA-BP-4763 TCGA-BP-4765 TCGA-BP-4766 TCGA-BP-4769 TCGA-BP-4770 
       44.15        41.75        71.80        48.07        61.68        10.82 
TCGA-BP-4771 TCGA-BP-4774 TCGA-BP-4775 TCGA-BP-4776 TCGA-BP-4777 TCGA-BP-4782 
        5.33        61.97        60.59        13.51        56.91        11.64 
TCGA-BP-4784 TCGA-BP-4787 TCGA-BP-4789 TCGA-BP-4790 TCGA-BP-4795 TCGA-BP-4797 
       60.95        15.78        48.95        36.53        20.38        36.39 
TCGA-BP-4798 TCGA-BP-4799 TCGA-BP-4801 TCGA-BP-4803 TCGA-BP-4804 TCGA-BP-4807 
       10.98        37.25        36.95         6.71        47.97         6.94 
TCGA-BP-4959 TCGA-BP-4960 TCGA-BP-4961 TCGA-BP-4962 TCGA-BP-4963 TCGA-BP-4964 
       87.45        71.41        63.62        58.68        60.30        61.22 
TCGA-BP-4965 TCGA-BP-4967 TCGA-BP-4968 TCGA-BP-4969 TCGA-BP-4970 TCGA-BP-4971 
       61.51         6.74        57.40        58.98        14.24        48.89 
TCGA-BP-4972 TCGA-BP-4973 TCGA-BP-4974 TCGA-BP-4975 TCGA-BP-4976 TCGA-BP-4977 
       49.38        45.50         6.90        47.11        53.65        14.93 
TCGA-BP-4981 TCGA-BP-4982 TCGA-BP-4983 TCGA-BP-4985 TCGA-BP-4987 TCGA-BP-4988 
       36.07        33.34        46.45        31.30        36.95        27.22 
TCGA-BP-4989 TCGA-BP-4991 TCGA-BP-4992 TCGA-BP-4993 TCGA-BP-4994 TCGA-BP-4995 
        3.88        46.45        16.47         5.82        43.00        45.07 
TCGA-BP-4998 TCGA-BP-4999 TCGA-BP-5000 TCGA-BP-5001 TCGA-BP-5004 TCGA-BP-5006 
       30.64        41.62        18.51        38.70        37.02        27.62 
TCGA-BP-5007 TCGA-BP-5008 TCGA-BP-5009 TCGA-BP-5010 TCGA-BP-5168 TCGA-BP-5169 
       37.48        35.21        36.23        28.87        48.10         6.35 
TCGA-BP-5170 TCGA-BP-5173 TCGA-BP-5174 TCGA-BP-5176 TCGA-BP-5177 TCGA-BP-5178 
       79.30         1.74        74.20        52.27         9.63        62.86 
TCGA-BP-5180 TCGA-BP-5181 TCGA-BP-5182 TCGA-BP-5183 TCGA-BP-5184 TCGA-BP-5185 
       74.40        49.15        38.30        42.44        37.25        37.22 
TCGA-BP-5186 TCGA-BP-5187 TCGA-BP-5189 TCGA-BP-5190 TCGA-BP-5191 TCGA-BP-5192 
       22.78        13.35        27.02        33.24        31.79        23.47 
TCGA-BP-5194 TCGA-BP-5195 TCGA-BP-5196 TCGA-BP-5198 TCGA-BP-5199 TCGA-BP-5200 
       13.41        24.62        33.47        19.82        44.55        34.95 
TCGA-BP-5201 TCGA-BP-5202 TCGA-CJ-4634 TCGA-CJ-4635 TCGA-CJ-4636 TCGA-CJ-4637 
       31.27         0.95       115.00        46.55        63.25        73.22 
TCGA-CJ-4638 TCGA-CJ-4639 TCGA-CJ-4640 TCGA-CJ-4641 TCGA-CJ-4642 TCGA-CJ-4643 
       14.17       106.16       114.41        54.61       105.37        58.95 
TCGA-CJ-4644 TCGA-CJ-4868 TCGA-CJ-4869 TCGA-CJ-4870 TCGA-CJ-4871 TCGA-CJ-4872 
       11.05        21.24        83.97        49.25        79.66        10.72 
TCGA-CJ-4873 TCGA-CJ-4874 TCGA-CJ-4875 TCGA-CJ-4876 TCGA-CJ-4878 TCGA-CJ-4881 
       74.27        75.06       116.84        64.27        71.87        66.21 
TCGA-CJ-4882 TCGA-CJ-4884 TCGA-CJ-4885 TCGA-CJ-4886 TCGA-CJ-4887 TCGA-CJ-4888 
       61.91        57.83       113.46        64.18        30.64        51.52 
TCGA-CJ-4889 TCGA-CJ-4890 TCGA-CJ-4891 TCGA-CJ-4892 TCGA-CJ-4893 TCGA-CJ-4894 
       63.98       115.69        26.93        50.01        24.66        27.65 
TCGA-CJ-4895 TCGA-CJ-4897 TCGA-CJ-4899 TCGA-CJ-4900 TCGA-CJ-4901 TCGA-CJ-4902 
       39.45       109.84        50.24        56.35        47.67        49.97 
TCGA-CJ-4903 TCGA-CJ-4904 TCGA-CJ-4905 TCGA-CJ-4907 TCGA-CJ-4908 TCGA-CJ-4912 
       51.25       108.56        49.18        49.28        50.33        54.48 
TCGA-CJ-4913 TCGA-CJ-4916 TCGA-CJ-4918 TCGA-CJ-4920 TCGA-CJ-4923 TCGA-CJ-5671 
       38.56        45.14         3.06         4.57        18.81       131.08 
TCGA-CJ-5672 TCGA-CJ-5676 TCGA-CJ-5677 TCGA-CJ-5678 TCGA-CJ-5679 TCGA-CJ-5680 
       72.00       133.71        25.71        18.87        22.32        25.25 
TCGA-CJ-5681 TCGA-CJ-5682 TCGA-CJ-5683 TCGA-CJ-5684 TCGA-CJ-5686 TCGA-CJ-5689 
       18.15       122.83        62.10        73.35        67.00        53.26 
TCGA-CJ-6027 TCGA-CJ-6028 TCGA-CJ-6030 TCGA-CJ-6031 TCGA-CJ-6032 TCGA-CJ-6033 
      118.85        53.42        75.58        62.66       119.64         7.36 
TCGA-CW-5580 TCGA-CW-5581 TCGA-CW-5583 TCGA-CW-5584 TCGA-CW-5585 TCGA-CW-5587 
       64.57        92.02        81.83         5.39        85.78        73.18 
TCGA-CW-5589 TCGA-CW-5591 TCGA-CW-6087 TCGA-CW-6088 TCGA-CW-6090 TCGA-CW-6093 
       78.18        74.66         1.35       105.93        83.90       103.43 
TCGA-CW-6097 TCGA-CZ-4853 TCGA-CZ-4856 TCGA-CZ-4857 TCGA-CZ-4858 TCGA-CZ-4859 
       18.77        25.45         0.59        47.08        69.21        58.75 
TCGA-CZ-4860 TCGA-CZ-4861 TCGA-CZ-4862 TCGA-CZ-4863 TCGA-CZ-4864 TCGA-CZ-4865 
        6.77        14.66       107.54        63.39        93.04         5.46 
TCGA-CZ-5451 TCGA-CZ-5452 TCGA-CZ-5453 TCGA-CZ-5455 TCGA-CZ-5456 TCGA-CZ-5457 
       63.42        58.82        79.53        18.44        79.63        90.54 
TCGA-CZ-5458 TCGA-CZ-5459 TCGA-CZ-5460 TCGA-CZ-5461 TCGA-CZ-5462 TCGA-CZ-5463 
       91.69        55.33        94.45        10.85        10.22        21.76 
TCGA-CZ-5464 TCGA-CZ-5465 TCGA-CZ-5466 TCGA-CZ-5467 TCGA-CZ-5468 TCGA-CZ-5469 
       69.96        84.30        22.52         2.40         1.94        31.10 
TCGA-CZ-5470 TCGA-CZ-5982 TCGA-CZ-5984 TCGA-CZ-5985 TCGA-CZ-5986 TCGA-CZ-5987 
       12.69        80.19        67.96        65.65        12.26        14.63 
TCGA-CZ-5988 TCGA-CZ-5989 TCGA-DV-5565 TCGA-DV-5566 TCGA-DV-5567 TCGA-DV-5568 
       22.78        62.63        13.28        45.96        65.88        12.16 
TCGA-DV-5569 TCGA-DV-5573 TCGA-DV-5574 TCGA-DV-5575 TCGA-DV-5576 TCGA-DV-A4VX 
       11.67        37.15        66.28        56.84        23.90        53.46 
TCGA-DV-A4VZ TCGA-DV-A4W0 TCGA-EU-5904 TCGA-EU-5906 TCGA-EU-5907 TCGA-G6-A5PC 
       12.00        81.21        18.12         6.77         4.18         7.96 
TCGA-G6-A8L6 TCGA-G6-A8L7 TCGA-G6-A8L8 TCGA-GK-A6C7 TCGA-MM-A563 TCGA-MM-A564 
       10.29        70.13        35.87         2.01        19.43        19.96 
TCGA-MM-A84U TCGA-MW-A4EC TCGA-T7-A92I TCGA-2K-A9WE TCGA-2Z-A9J1 TCGA-2Z-A9J2 
       23.01        16.37        11.70         7.04        75.55        59.01 
TCGA-2Z-A9J3 TCGA-2Z-A9J5 TCGA-2Z-A9J6 TCGA-2Z-A9J7 TCGA-2Z-A9J8 TCGA-2Z-A9J9 
       58.22       100.27        56.91         4.57        91.73        75.42 
TCGA-2Z-A9JD TCGA-2Z-A9JE TCGA-2Z-A9JG TCGA-2Z-A9JI TCGA-2Z-A9JJ TCGA-2Z-A9JK 
       34.85        56.81        54.64        51.52        39.88        38.99 
TCGA-2Z-A9JL TCGA-2Z-A9JM TCGA-2Z-A9JN TCGA-2Z-A9JO TCGA-2Z-A9JP TCGA-2Z-A9JQ 
       33.07        30.71        24.33        31.20        29.36        25.58 
TCGA-2Z-A9JR TCGA-2Z-A9JS TCGA-2Z-A9JT TCGA-4A-A93W TCGA-4A-A93X TCGA-4A-A93Y 
        5.29        16.18        22.49         0.13        12.82        11.57 
TCGA-5P-A9JU TCGA-5P-A9JV TCGA-5P-A9JW TCGA-5P-A9JY TCGA-5P-A9JZ TCGA-5P-A9K0 
       12.26        67.17       106.55        49.58        90.21        22.26 
TCGA-5P-A9K2 TCGA-5P-A9K3 TCGA-5P-A9K4 TCGA-5P-A9K6 TCGA-5P-A9K8 TCGA-5P-A9KA 
       78.64        15.48        71.80        62.93        43.04        12.99 
TCGA-5P-A9KC TCGA-5P-A9KE TCGA-5P-A9KH TCGA-A4-7286 TCGA-A4-7287 TCGA-A4-7288 
       12.39        27.09        67.43        18.21        19.63        61.05 
TCGA-A4-7583 TCGA-A4-7584 TCGA-A4-7585 TCGA-A4-7732 TCGA-A4-7734 TCGA-A4-7828 
        0.10        21.37        35.18        19.13         0.89         7.82 
TCGA-A4-7915 TCGA-A4-7996 TCGA-A4-7997 TCGA-A4-8310 TCGA-A4-8311 TCGA-A4-8312 
        0.23        16.64        30.48        25.64        23.97        23.28 
TCGA-A4-8515 TCGA-A4-8516 TCGA-A4-8517 TCGA-A4-8518 TCGA-A4-8630 TCGA-A4-A48D 
       23.31         0.76        19.63        19.73        14.33        12.46 
TCGA-A4-A4ZT TCGA-A4-A57E TCGA-A4-A5DU TCGA-A4-A5XZ TCGA-A4-A5Y0 TCGA-A4-A5Y1 
       16.96         8.48        16.31        15.75         8.28        12.99 
TCGA-A4-A6HP TCGA-AL-3466 TCGA-AL-3467 TCGA-AL-3471 TCGA-AL-3472 TCGA-AL-3473 
       12.46         9.63        70.19        49.32        66.71        62.66 
TCGA-AL-7173 TCGA-AL-A5DJ TCGA-AT-A5NU TCGA-B1-5398 TCGA-B1-7332 TCGA-B1-A47M 
       67.73        49.25         2.20        19.56        37.51        21.67 
TCGA-B1-A47N TCGA-B1-A47O TCGA-B1-A654 TCGA-B1-A655 TCGA-B1-A656 TCGA-B1-A657 
       24.56        16.87        20.25        16.77        20.32        21.07 
TCGA-B3-3925 TCGA-B3-3926 TCGA-B3-4103 TCGA-B3-4104 TCGA-B3-8121 TCGA-B3-A6W5 
       33.83        10.09        30.58        34.49        12.46        10.16 
TCGA-B9-4113 TCGA-B9-4114 TCGA-B9-4115 TCGA-B9-4116 TCGA-B9-4117 TCGA-B9-5155 
       50.50        28.18        26.40        20.61         0.46        15.12 
TCGA-B9-5156 TCGA-B9-7268 TCGA-B9-A44B TCGA-B9-A5W7 TCGA-B9-A5W8 TCGA-B9-A5W9 
       43.99        22.06         2.10        19.23        17.23         0.16 
TCGA-B9-A69E TCGA-B9-A8YH TCGA-B9-A8YI TCGA-BQ-5875 TCGA-BQ-5876 TCGA-BQ-5877 
       14.86        17.49        12.30        86.76        19.27         8.88 
TCGA-BQ-5878 TCGA-BQ-5879 TCGA-BQ-5880 TCGA-BQ-5881 TCGA-BQ-5883 TCGA-BQ-5884 
       63.72        22.92        43.20        47.80        40.83        26.04 
TCGA-BQ-5885 TCGA-BQ-5886 TCGA-BQ-5887 TCGA-BQ-5888 TCGA-BQ-5889 TCGA-BQ-5890 
       30.28        26.04        25.35        13.25        10.82         7.66 
TCGA-BQ-5891 TCGA-BQ-5892 TCGA-BQ-5893 TCGA-BQ-5894 TCGA-BQ-7044 TCGA-BQ-7045 
        0.95        11.97         7.92         2.76       123.62        48.26 
TCGA-BQ-7046 TCGA-BQ-7048 TCGA-BQ-7049 TCGA-BQ-7050 TCGA-BQ-7051 TCGA-BQ-7053 
       96.92        93.34        44.84        61.28        50.40        49.84 
TCGA-BQ-7055 TCGA-BQ-7056 TCGA-BQ-7058 TCGA-BQ-7059 TCGA-BQ-7060 TCGA-BQ-7061 
       26.27        20.12        11.28         7.63         7.04         7.17 
TCGA-BQ-7062 TCGA-DW-5560 TCGA-DW-5561 TCGA-DW-7834 TCGA-DW-7836 TCGA-DW-7837 
        3.81        48.85        13.61       129.86        35.93        37.55 
TCGA-DW-7838 TCGA-DW-7839 TCGA-DW-7840 TCGA-DW-7841 TCGA-DW-7842 TCGA-DW-7963 
       24.46        13.78         3.75        14.63         3.02        40.77 
TCGA-DZ-6131 TCGA-DZ-6132 TCGA-DZ-6133 TCGA-DZ-6134 TCGA-DZ-6135 TCGA-EV-5901 
       79.86        80.88        51.19        61.02        74.60        34.19 
TCGA-EV-5902 TCGA-EV-5903 TCGA-F9-A4JJ TCGA-F9-A7VF TCGA-F9-A97G TCGA-G7-6789 
       19.00        24.89        10.68         2.40         0.43         4.01 
TCGA-G7-6790 TCGA-G7-6792 TCGA-G7-6793 TCGA-G7-6795 TCGA-G7-6796 TCGA-G7-6797 
       51.78        90.90        11.05        39.25        71.44        25.15 
TCGA-G7-7501 TCGA-G7-7502 TCGA-G7-A4TM TCGA-G7-A8LB TCGA-G7-A8LC TCGA-G7-A8LD 
       20.52        25.84         6.38        17.98        23.08        16.90 
TCGA-G7-A8LE TCGA-GL-6846 TCGA-GL-7773 TCGA-GL-7966 TCGA-GL-8500 TCGA-GL-A4EM 
       80.65       194.79        12.92         3.68        27.65         1.05 
TCGA-GL-A59R TCGA-GL-A59T TCGA-GL-A9DC TCGA-GL-A9DD TCGA-GL-A9DE TCGA-HE-A5NF 
       12.43        17.95        12.89        11.21        16.31        84.89 
TCGA-HE-A5NH TCGA-HE-A5NI TCGA-HE-A5NJ TCGA-HE-A5NK TCGA-HE-A5NL TCGA-IA-A40U 
       26.01        11.84        56.75        73.25        25.22        16.80 
TCGA-IA-A40X TCGA-IA-A40Y TCGA-IA-A83S TCGA-IA-A83T TCGA-IA-A83V TCGA-IA-A83W 
       19.99         2.04        85.78        88.24        96.69        67.17 
TCGA-IZ-8195 TCGA-IZ-8196 TCGA-IZ-A6M8 TCGA-IZ-A6M9 TCGA-J7-6720 TCGA-J7-8537 
       22.26        21.34        16.34        12.36        12.76        10.55 
TCGA-KV-A6GD TCGA-KV-A6GE TCGA-KV-A74V TCGA-MH-A55W TCGA-MH-A55Z TCGA-MH-A560 
       18.41        29.10        11.41        34.29        27.78        30.38 
TCGA-MH-A561 TCGA-MH-A562 TCGA-MH-A854 TCGA-MH-A855 TCGA-MH-A856 TCGA-MH-A857 
       27.65        20.25        17.62        12.13        31.13        29.26 
TCGA-O9-A75Z TCGA-P4-A5E6 TCGA-P4-A5E7 TCGA-P4-A5E8 TCGA-P4-A5EA TCGA-P4-A5EB 
       15.48        99.78        87.09        42.94         6.61        99.12 
TCGA-P4-A5ED TCGA-P4-AAVK TCGA-P4-AAVL TCGA-P4-AAVM TCGA-P4-AAVO TCGA-PJ-A5Z8 
       92.58        52.27        16.01        50.60        78.90        19.73 
TCGA-PJ-A5Z9 TCGA-Q2-A5QZ TCGA-SX-A71R TCGA-SX-A71S TCGA-SX-A71U TCGA-SX-A71V 
       17.75        14.07        47.90        49.45        44.61        28.80 
TCGA-SX-A7SL TCGA-SX-A7SM TCGA-SX-A7SN TCGA-SX-A7SO TCGA-SX-A7SP TCGA-SX-A7SQ 
       27.06        11.93        19.00        41.33        16.31        41.62 
TCGA-SX-A7SR TCGA-SX-A7SU TCGA-UN-AAZ9 TCGA-UZ-A9PJ TCGA-UZ-A9PK TCGA-UZ-A9PL 
       26.47        43.76        18.02        26.20       117.40       103.63 
TCGA-UZ-A9PM TCGA-UZ-A9PN TCGA-UZ-A9PO TCGA-UZ-A9PP TCGA-UZ-A9PR TCGA-UZ-A9PS 
      125.29        37.35        62.83        98.96        86.37        71.24 
TCGA-UZ-A9PU TCGA-UZ-A9PV TCGA-UZ-A9PX TCGA-UZ-A9PZ TCGA-UZ-A9Q0 TCGA-UZ-A9Q1 
       30.67        47.47        65.13        21.60       110.73        51.35 
TCGA-V9-A7HT TCGA-WN-A9G9 TCGA-WN-AB4C TCGA-Y8-A894 TCGA-Y8-A895 TCGA-Y8-A896 
       31.73        26.01        39.06        18.64        15.91        18.64 
TCGA-Y8-A897 TCGA-Y8-A898 TCGA-Y8-A8RY TCGA-Y8-A8RZ TCGA-Y8-A8S0 TCGA-Y8-A8S1 
       18.05        15.62        25.28         3.68         6.02        13.28 

  AMP PEAK  7(10P14) MUTATED AMP PEAK  7(10P14) WILD-TYPE 
                        0.99                         0.07 
  AMP PEAK  7(10P14) MUTATED AMP PEAK  7(10P14) WILD-TYPE 
                      141.73                       194.79 
  AMP PEAK  7(10P14) MUTATED AMP PEAK  7(10P14) WILD-TYPE 
                      25.810                       35.065 
[1] "1.0 - 141.7 (25.8)" "0.1 - 194.8 (35.1)"
[1] "hr=" "1.4"
D7V2, continuous
                              vv
clus                           STAGE I STAGE II STAGE III STAGE IV
  AMP PEAK  7(10P14) MUTATED        12        7         6        7
  AMP PEAK  7(10P14) WILD-TYPE     443       97       185       97
D7V3, multiclass
           clus
vv          AMP PEAK  7(10P14) MUTATED AMP PEAK  7(10P14) WILD-TYPE
  STAGE I                           12                          443
  STAGE II                           7                           97
  STAGE III                          6                          185
  STAGE IV                           7                           97
[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                            T1  T2  T3  T4
  AMP PEAK  7(10P14) MUTATED    13   9   8   4
  AMP PEAK  7(10P14) WILD-TYPE 466 118 250  11
D7V4, multiclass
    clus
vv   AMP PEAK  7(10P14) MUTATED AMP PEAK  7(10P14) WILD-TYPE
  T1                         13                          466
  T2                          9                          118
  T3                          8                          250
  T4                          4                           11
[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                            N0  N1  N2
  AMP PEAK  7(10P14) MUTATED    12   5   1
  AMP PEAK  7(10P14) WILD-TYPE 310  39   6
D7V5, multiclass
    clus
vv   AMP PEAK  7(10P14) MUTATED AMP PEAK  7(10P14) WILD-TYPE
  N0                         12                          310
  N1                          5                           39
  N2                          1                            6
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D7V6, binary
                              cls
clus                             0   1
  AMP PEAK  7(10P14) MUTATED    23   5
  AMP PEAK  7(10P14) WILD-TYPE 522  84
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK  7(10P14) MUTATED     23    5
  AMP PEAK  7(10P14) WILD-TYPE  522   84
   clus
vv  AMP PEAK  7(10P14) MUTATED AMP PEAK  7(10P14) WILD-TYPE
  0                         23                          522
  1                          5                           84
[1] 2 2
[1] FALSE
D7V7, binary
                              cls
clus                             0   1
  AMP PEAK  7(10P14) MUTATED    12  22
  AMP PEAK  7(10P14) WILD-TYPE 280 567
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK  7(10P14) MUTATED     12   22
  AMP PEAK  7(10P14) WILD-TYPE  280  567
        clus
vv       AMP PEAK  7(10P14) MUTATED AMP PEAK  7(10P14) WILD-TYPE
  FEMALE                         12                          280
  MALE                           22                          567
[1] 2 2
[1] FALSE
D7V8, binary
                              cls
clus                             0   1
  AMP PEAK  7(10P14) MUTATED    13   0
  AMP PEAK  7(10P14) WILD-TYPE 387   3
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK  7(10P14) MUTATED     13    0
  AMP PEAK  7(10P14) WILD-TYPE  387    3
     clus
vv    AMP PEAK  7(10P14) MUTATED AMP PEAK  7(10P14) WILD-TYPE
  NO                          13                          387
  YES                          0                            3
[1] 2 2
[1] FALSE
D7V9, continuous
                              vv
clus                           KIDNEY CHROMOPHOBE
  AMP PEAK  7(10P14) MUTATED                    4
  AMP PEAK  7(10P14) WILD-TYPE                 62
                              vv
clus                           KIDNEY CLEAR CELL RENAL CARCINOMA
  AMP PEAK  7(10P14) MUTATED                                  20
  AMP PEAK  7(10P14) WILD-TYPE                               508
                              vv
clus                           KIDNEY PAPILLARY RENAL CELL CARCINOMA
  AMP PEAK  7(10P14) MUTATED                                      10
  AMP PEAK  7(10P14) WILD-TYPE                                   277
D7V10, multiclass
                                       clus
vv                                      AMP PEAK  7(10P14) MUTATED
  KIDNEY CHROMOPHOBE                                             4
  KIDNEY CLEAR CELL RENAL CARCINOMA                             20
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                         10
                                       clus
vv                                      AMP PEAK  7(10P14) WILD-TYPE
  KIDNEY CHROMOPHOBE                                              62
  KIDNEY CLEAR CELL RENAL CARCINOMA                              508
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                          277
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D7V11, continuous
D7V12, continuous
[1] "Remove cluster labels:"     "AMP PEAK  7(10P14) MUTATED"
clus
  AMP PEAK  7(10P14) MUTATED AMP PEAK  7(10P14) WILD-TYPE 
                           2                           72 
                  TCGA-KL-8330                   TCGA-KL-8335 
"AMP PEAK  7(10P14) WILD-TYPE" "AMP PEAK  7(10P14) WILD-TYPE" 
                  TCGA-KL-8341                   TCGA-KL-8345 
"AMP PEAK  7(10P14) WILD-TYPE" "AMP PEAK  7(10P14) WILD-TYPE" 
                  TCGA-KM-8639                   TCGA-KO-8408 
"AMP PEAK  7(10P14) WILD-TYPE" "AMP PEAK  7(10P14) WILD-TYPE" 
                  TCGA-KO-8409                   TCGA-A3-A8OV 
"AMP PEAK  7(10P14) WILD-TYPE" "AMP PEAK  7(10P14) WILD-TYPE" 
                  TCGA-A3-A8OW                   TCGA-AK-3445 
"AMP PEAK  7(10P14) WILD-TYPE" "AMP PEAK  7(10P14) WILD-TYPE" 
                  TCGA-AK-3451                   TCGA-B2-A4SR 
"AMP PEAK  7(10P14) WILD-TYPE" "AMP PEAK  7(10P14) WILD-TYPE" 
                  TCGA-B8-5158                   TCGA-B8-5550 
"AMP PEAK  7(10P14) WILD-TYPE" "AMP PEAK  7(10P14) WILD-TYPE" 
                  TCGA-DV-A4W0                   TCGA-G6-A8L7 
"AMP PEAK  7(10P14) WILD-TYPE" "AMP PEAK  7(10P14) WILD-TYPE" 
                  TCGA-MM-A563                   TCGA-MM-A84U 
"AMP PEAK  7(10P14) WILD-TYPE" "AMP PEAK  7(10P14) WILD-TYPE" 
                  TCGA-T7-A92I                   TCGA-2Z-A9J3 
"AMP PEAK  7(10P14) WILD-TYPE" "AMP PEAK  7(10P14) WILD-TYPE" 
                  TCGA-2Z-A9J7                   TCGA-2Z-A9J8 
"AMP PEAK  7(10P14) WILD-TYPE" "AMP PEAK  7(10P14) WILD-TYPE" 
                  TCGA-2Z-A9JD                   TCGA-2Z-A9JI 
"AMP PEAK  7(10P14) WILD-TYPE" "AMP PEAK  7(10P14) WILD-TYPE" 
                  TCGA-2Z-A9JN                   TCGA-2Z-A9JO 
"AMP PEAK  7(10P14) WILD-TYPE" "AMP PEAK  7(10P14) WILD-TYPE" 
                  TCGA-4A-A93W                   TCGA-4A-A93Y 
"AMP PEAK  7(10P14) WILD-TYPE" "AMP PEAK  7(10P14) WILD-TYPE" 
                  TCGA-A4-A48D                   TCGA-A4-A57E 
"AMP PEAK  7(10P14) WILD-TYPE" "AMP PEAK  7(10P14) WILD-TYPE" 
                  TCGA-A4-A5Y0                   TCGA-AL-3472 
"AMP PEAK  7(10P14) WILD-TYPE" "AMP PEAK  7(10P14) WILD-TYPE" 
                  TCGA-AL-7173                   TCGA-B1-A654 
"AMP PEAK  7(10P14) WILD-TYPE" "AMP PEAK  7(10P14) WILD-TYPE" 
                  TCGA-B9-4114                   TCGA-B9-4117 
"AMP PEAK  7(10P14) WILD-TYPE" "AMP PEAK  7(10P14) WILD-TYPE" 
                  TCGA-B9-A69E                   TCGA-DW-5561 
"AMP PEAK  7(10P14) WILD-TYPE" "AMP PEAK  7(10P14) WILD-TYPE" 
                  TCGA-DW-7963                   TCGA-F9-A97G 
"AMP PEAK  7(10P14) WILD-TYPE" "AMP PEAK  7(10P14) WILD-TYPE" 
                  TCGA-G7-6793                   TCGA-G7-6795 
"AMP PEAK  7(10P14) WILD-TYPE" "AMP PEAK  7(10P14) WILD-TYPE" 
                  TCGA-G7-7501                   TCGA-G7-A8LB 
"AMP PEAK  7(10P14) WILD-TYPE" "AMP PEAK  7(10P14) WILD-TYPE" 
                  TCGA-G7-A8LD                   TCGA-G7-A8LE 
"AMP PEAK  7(10P14) WILD-TYPE" "AMP PEAK  7(10P14) WILD-TYPE" 
                  TCGA-GL-7773                   TCGA-GL-A9DD 
"AMP PEAK  7(10P14) WILD-TYPE" "AMP PEAK  7(10P14) WILD-TYPE" 
                  TCGA-HE-A5NI                   TCGA-IA-A40U 
"AMP PEAK  7(10P14) WILD-TYPE" "AMP PEAK  7(10P14) WILD-TYPE" 
                  TCGA-MH-A854                   TCGA-MH-A856 
"AMP PEAK  7(10P14) WILD-TYPE" "AMP PEAK  7(10P14) WILD-TYPE" 
                  TCGA-P4-A5E6                   TCGA-P4-AAVK 
"AMP PEAK  7(10P14) WILD-TYPE" "AMP PEAK  7(10P14) WILD-TYPE" 
                  TCGA-PJ-A5Z9                   TCGA-Q2-A5QZ 
"AMP PEAK  7(10P14) WILD-TYPE" "AMP PEAK  7(10P14) WILD-TYPE" 
                  TCGA-SX-A71S                   TCGA-SX-A71U 
"AMP PEAK  7(10P14) WILD-TYPE" "AMP PEAK  7(10P14) WILD-TYPE" 
                  TCGA-SX-A7SL                   TCGA-SX-A7SM 
"AMP PEAK  7(10P14) WILD-TYPE" "AMP PEAK  7(10P14) WILD-TYPE" 
                  TCGA-SX-A7SR                   TCGA-UZ-A9PM 
"AMP PEAK  7(10P14) WILD-TYPE" "AMP PEAK  7(10P14) WILD-TYPE" 
                  TCGA-UZ-A9PO                   TCGA-UZ-A9PR 
"AMP PEAK  7(10P14) WILD-TYPE" "AMP PEAK  7(10P14) WILD-TYPE" 
                  TCGA-UZ-A9PS                   TCGA-UZ-A9PX 
"AMP PEAK  7(10P14) WILD-TYPE" "AMP PEAK  7(10P14) WILD-TYPE" 
                  TCGA-WN-A9G9                   TCGA-WN-AB4C 
"AMP PEAK  7(10P14) WILD-TYPE" "AMP PEAK  7(10P14) WILD-TYPE" 
                  TCGA-Y8-A894                   TCGA-Y8-A896 
"AMP PEAK  7(10P14) WILD-TYPE" "AMP PEAK  7(10P14) WILD-TYPE" 
                  TCGA-Y8-A8RY                   TCGA-Y8-A8RZ 
"AMP PEAK  7(10P14) WILD-TYPE" "AMP PEAK  7(10P14) WILD-TYPE" 
                              vv
clus                           AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK  7(10P14) MUTATED                                  0     2
  AMP PEAK  7(10P14) WILD-TYPE                                2    13
                              vv
clus                           BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  7(10P14) MUTATED                           3    27
  AMP PEAK  7(10P14) WILD-TYPE                       118   692
D7V13, multiclass
                                  clus
vv                                 AMP PEAK  7(10P14) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                          0
  ASIAN                                                     2
  BLACK OR AFRICAN AMERICAN                                 3
  WHITE                                                    27
                                  clus
vv                                 AMP PEAK  7(10P14) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                            2
  ASIAN                                                      13
  BLACK OR AFRICAN AMERICAN                                 118
  WHITE                                                     692
[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"
D7V14, binary
                              cls
clus                             0   1
  AMP PEAK  7(10P14) MUTATED     1  22
  AMP PEAK  7(10P14) WILD-TYPE  41 599
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK  7(10P14) MUTATED      1   22
  AMP PEAK  7(10P14) WILD-TYPE   41  599
                        clus
vv                       AMP PEAK  7(10P14) MUTATED
  HISPANIC OR LATINO                              1
  NOT HISPANIC OR LATINO                         22
                        clus
vv                       AMP PEAK  7(10P14) WILD-TYPE
  HISPANIC OR LATINO                               41
  NOT HISPANIC OR LATINO                          599
[1] 2 2
[1] FALSE

Clustering(8) Variable = AMP PEAK  8(17Q25.2) MUTATION ANALYSIS
D8V1, survival
                                sevent
clus2                              0   1
  AMP PEAK  8(17Q25.2) MUTATED   191  49
  AMP PEAK  8(17Q25.2) WILD-TYPE 454 179
  AMP PEAK  8(17Q25.2) MUTATED AMP PEAK  8(17Q25.2) WILD-TYPE 
                           240                            633 
  AMP PEAK  8(17Q25.2) MUTATED AMP PEAK  8(17Q25.2) WILD-TYPE 
                            49                            179 
$`AMP PEAK  8(17Q25.2) MUTATED`
TCGA-KL-8339 TCGA-A3-3313 TCGA-A3-3325 TCGA-A3-3363 TCGA-AK-3453 TCGA-B0-4698 
       28.11        24.16        38.47        10.49        83.21         1.38 
TCGA-B0-4707 TCGA-B0-4848 TCGA-B0-5099 TCGA-B0-5102 TCGA-B0-5109 TCGA-B0-5696 
       19.73        29.03        15.95        90.87        19.30        85.78 
TCGA-B4-5835 TCGA-B4-5838 TCGA-B8-4143 TCGA-B8-4621 TCGA-B8-5551 TCGA-BP-4166 
        0.53         5.46        23.31        25.91         0.53         0.43 
TCGA-BP-4176 TCGA-BP-4177 TCGA-BP-4337 TCGA-BP-4756 TCGA-BP-4758 TCGA-BP-4768 
       64.27        54.90         0.07        12.30        72.59        13.15 
TCGA-BP-4781 TCGA-BP-4985 TCGA-BP-5173 TCGA-BP-5176 TCGA-BP-5182 TCGA-BP-5185 
       68.38        31.30         1.74        52.27        38.30        37.22 
TCGA-BP-5200 TCGA-CJ-4873 TCGA-CJ-4882 TCGA-CJ-4901 TCGA-CJ-4907 TCGA-CJ-4912 
       34.95        74.27        61.91        47.67        49.28        54.48 
TCGA-CJ-6027 TCGA-CZ-4860 TCGA-CZ-4866 TCGA-CZ-5468 TCGA-CZ-5469 TCGA-EU-5905 
      118.85         6.77        61.41         1.94        31.10         3.91 
TCGA-G6-A8L7 TCGA-T7-A92I TCGA-2K-A9WE TCGA-2Z-A9J1 TCGA-2Z-A9J2 TCGA-2Z-A9J3 
       70.13        11.70         7.04        75.55        59.01        58.22 
TCGA-2Z-A9J5 TCGA-2Z-A9J6 TCGA-2Z-A9J7 TCGA-2Z-A9JD TCGA-2Z-A9JE TCGA-2Z-A9JI 
      100.27        56.91         4.57        34.85        56.81        51.52 
TCGA-2Z-A9JM TCGA-2Z-A9JP TCGA-2Z-A9JQ TCGA-2Z-A9JR TCGA-2Z-A9JS TCGA-2Z-A9JT 
       30.71        29.36        25.58         5.29        16.18        22.49 
TCGA-4A-A93W TCGA-5P-A9JY TCGA-5P-A9JZ TCGA-5P-A9K0 TCGA-5P-A9K2 TCGA-5P-A9K3 
        0.13        49.58        90.21        22.26        78.64        15.48 
TCGA-5P-A9K4 TCGA-5P-A9K6 TCGA-5P-A9K9 TCGA-5P-A9KE TCGA-A4-7286 TCGA-A4-7288 
       71.80        62.93        19.36        27.09        18.21        61.05 
TCGA-A4-7584 TCGA-A4-7585 TCGA-A4-7732 TCGA-A4-7734 TCGA-A4-7915 TCGA-A4-7996 
       21.37        35.18        19.13         0.89         0.23        16.64 
TCGA-A4-8098 TCGA-A4-8310 TCGA-A4-8311 TCGA-A4-8515 TCGA-A4-8516 TCGA-A4-8517 
       29.46        25.64        23.97        23.31         0.76        19.63 
TCGA-A4-8518 TCGA-A4-8630 TCGA-A4-A4ZT TCGA-A4-A57E TCGA-A4-A5DU TCGA-A4-A5XZ 
       19.73        14.33        16.96         8.48        16.31        15.75 
TCGA-A4-A5Y0 TCGA-A4-A5Y1 TCGA-A4-A6HP TCGA-AL-3466 TCGA-AL-3468 TCGA-AL-3471 
        8.28        12.99        12.46         9.63        76.64        49.32 
TCGA-AL-3472 TCGA-AL-A5DJ TCGA-AT-A5NU TCGA-B1-7332 TCGA-B1-A47M TCGA-B1-A47N 
       66.71        49.25         2.20        37.51        21.67        24.56 
TCGA-B1-A47O TCGA-B1-A654 TCGA-B1-A655 TCGA-B1-A657 TCGA-B3-3925 TCGA-B3-4103 
       16.87        20.25        16.77        21.07        33.83        30.58 
TCGA-B3-4104 TCGA-B3-8121 TCGA-B3-A6W5 TCGA-B9-4113 TCGA-B9-4114 TCGA-B9-4115 
       34.49        12.46        10.16        50.50        28.18        26.40 
TCGA-B9-4117 TCGA-B9-4617 TCGA-B9-5155 TCGA-B9-5156 TCGA-B9-7268 TCGA-B9-A44B 
        0.46         1.15        15.12        43.99        22.06         2.10 
TCGA-B9-A5W7 TCGA-B9-A5W9 TCGA-B9-A8YH TCGA-BQ-5875 TCGA-BQ-5877 TCGA-BQ-5880 
       19.23         0.16        17.49        86.76         8.88        43.20 
TCGA-BQ-5881 TCGA-BQ-5886 TCGA-BQ-5887 TCGA-BQ-5888 TCGA-BQ-5890 TCGA-BQ-5891 
       47.80        26.04        25.35        13.25         7.66         0.95 
TCGA-BQ-5892 TCGA-BQ-5893 TCGA-BQ-7045 TCGA-BQ-7046 TCGA-BQ-7051 TCGA-BQ-7053 
       11.97         7.92        48.26        96.92        50.40        49.84 
TCGA-BQ-7058 TCGA-BQ-7060 TCGA-BQ-7062 TCGA-DW-5560 TCGA-DW-5561 TCGA-DW-7834 
       11.28         7.04         3.81        48.85        13.61       129.86 
TCGA-DW-7836 TCGA-DW-7837 TCGA-DW-7838 TCGA-DW-7839 TCGA-DW-7840 TCGA-DW-7841 
       35.93        37.55        24.46        13.78         3.75        14.63 
TCGA-DW-7842 TCGA-DW-7963 TCGA-DZ-6131 TCGA-DZ-6132 TCGA-DZ-6133 TCGA-DZ-6134 
        3.02        40.77        79.86        80.88        51.19        61.02 
TCGA-EV-5901 TCGA-EV-5903 TCGA-F9-A7Q0 TCGA-F9-A7VF TCGA-F9-A8NY TCGA-G7-6789 
       34.19        24.89        13.08         2.40         1.18         4.01 
TCGA-G7-6790 TCGA-G7-6793 TCGA-G7-6795 TCGA-G7-6796 TCGA-G7-7502 TCGA-G7-A4TM 
       51.78        11.05        39.25        71.44        25.84         6.38 
TCGA-G7-A8LB TCGA-G7-A8LC TCGA-G7-A8LD TCGA-G7-A8LE TCGA-GL-6846 TCGA-GL-7966 
       17.98        23.08        16.90        80.65       194.79         3.68 
TCGA-GL-A4EM TCGA-GL-A59R TCGA-GL-A59T TCGA-GL-A9DC TCGA-GL-A9DD TCGA-HE-A5NF 
        1.05        12.43        17.95        12.89        11.21        84.89 
TCGA-HE-A5NH TCGA-HE-A5NI TCGA-HE-A5NJ TCGA-HE-A5NL TCGA-IA-A40U TCGA-IA-A40Y 
       26.01        11.84        56.75        25.22        16.80         2.04 
TCGA-IA-A83T TCGA-IA-A83V TCGA-IZ-8195 TCGA-IZ-8196 TCGA-IZ-A6M8 TCGA-IZ-A6M9 
       88.24        96.69        22.26        21.34        16.34        12.36 
TCGA-J7-6720 TCGA-J7-8537 TCGA-KV-A6GD TCGA-KV-A6GE TCGA-KV-A74V TCGA-MH-A55W 
       12.76        10.55        18.41        29.10        11.41        34.29 
TCGA-MH-A55Z TCGA-MH-A560 TCGA-MH-A561 TCGA-MH-A562 TCGA-O9-A75Z TCGA-P4-A5E7 
       27.78        30.38        27.65        20.25        15.48        87.09 
TCGA-P4-A5EA TCGA-P4-A5EB TCGA-P4-A5ED TCGA-P4-AAVL TCGA-PJ-A5Z9 TCGA-Q2-A5QZ 
        6.61        99.12        92.58        16.01        17.75        14.07 
TCGA-SX-A71R TCGA-SX-A71S TCGA-SX-A71U TCGA-SX-A71V TCGA-SX-A7SL TCGA-SX-A7SN 
       47.90        49.45        44.61        28.80        27.06        19.00 
TCGA-SX-A7SP TCGA-SX-A7SQ TCGA-SX-A7SR TCGA-SX-A7SS TCGA-SX-A7SU TCGA-UZ-A9PJ 
       16.31        41.62        26.47        53.10        43.76        26.20 
TCGA-UZ-A9PK TCGA-UZ-A9PL TCGA-UZ-A9PM TCGA-UZ-A9PO TCGA-UZ-A9PP TCGA-UZ-A9PR 
      117.40       103.63       125.29        62.83        98.96        86.37 
TCGA-UZ-A9PS TCGA-UZ-A9PU TCGA-UZ-A9PV TCGA-UZ-A9PX TCGA-UZ-A9PZ TCGA-UZ-A9Q0 
       71.24        30.67        47.47        65.13        21.60       110.73 
TCGA-V9-A7HT TCGA-WN-AB4C TCGA-Y8-A895 TCGA-Y8-A898 TCGA-Y8-A8RY TCGA-Y8-A8S0 
       31.73        39.06        15.91        15.62        25.28         6.02 

$`AMP PEAK  8(17Q25.2) WILD-TYPE`
TCGA-KL-8323 TCGA-KL-8324 TCGA-KL-8325 TCGA-KL-8326 TCGA-KL-8327 TCGA-KL-8328 
       38.07       141.73        23.84       109.22       137.06       102.81 
TCGA-KL-8329 TCGA-KL-8330 TCGA-KL-8331 TCGA-KL-8332 TCGA-KL-8333 TCGA-KL-8334 
       90.48       108.62        98.96        84.89        98.33        96.95 
TCGA-KL-8335 TCGA-KL-8336 TCGA-KL-8337 TCGA-KL-8338 TCGA-KL-8340 TCGA-KL-8341 
       92.55        30.25        44.84        86.56        66.54        24.79 
TCGA-KL-8342 TCGA-KL-8343 TCGA-KL-8344 TCGA-KL-8345 TCGA-KL-8346 TCGA-KM-8438 
       73.91        71.41        28.80        54.74        62.37       151.96 
TCGA-KM-8439 TCGA-KM-8440 TCGA-KM-8441 TCGA-KM-8442 TCGA-KM-8443 TCGA-KM-8476 
       23.28        44.91        28.80        47.24        49.97       123.12 
TCGA-KM-8477 TCGA-KM-8639 TCGA-KN-8418 TCGA-KN-8419 TCGA-KN-8421 TCGA-KN-8422 
       51.06        31.33       129.37        23.47        87.91        25.48 
TCGA-KN-8423 TCGA-KN-8424 TCGA-KN-8425 TCGA-KN-8426 TCGA-KN-8427 TCGA-KN-8428 
       25.91        65.19       104.52         3.55         0.99        52.27 
TCGA-KN-8429 TCGA-KN-8431 TCGA-KN-8432 TCGA-KN-8433 TCGA-KN-8434 TCGA-KN-8435 
       87.12        19.33         2.50        11.21        59.08       115.00 
TCGA-KN-8436 TCGA-KN-8437 TCGA-KO-8403 TCGA-KO-8404 TCGA-KO-8405 TCGA-KO-8406 
       42.35       100.87       105.47        10.68       100.47       103.40 
TCGA-KO-8407 TCGA-KO-8408 TCGA-KO-8409 TCGA-KO-8410 TCGA-KO-8411 TCGA-KO-8413 
       92.71        16.67       104.55       103.10       130.13        99.88 
TCGA-KO-8414 TCGA-KO-8415 TCGA-KO-8416 TCGA-KO-8417 TCGA-3Z-A93Z TCGA-6D-AA2E 
      105.60        96.62        90.48        92.55        12.66        11.90 
TCGA-A3-3306 TCGA-A3-3307 TCGA-A3-3308 TCGA-A3-3311 TCGA-A3-3316 TCGA-A3-3317 
       36.82        47.21         0.53        39.16        49.08        49.02 
TCGA-A3-3319 TCGA-A3-3320 TCGA-A3-3322 TCGA-A3-3323 TCGA-A3-3324 TCGA-A3-3326 
       37.15        49.58        48.59        36.36        38.99        37.38 
TCGA-A3-3331 TCGA-A3-3335 TCGA-A3-3336 TCGA-A3-3343 TCGA-A3-3346 TCGA-A3-3347 
       48.82        62.01        34.29        31.07         4.50        52.93 
TCGA-A3-3349 TCGA-A3-3351 TCGA-A3-3352 TCGA-A3-3357 TCGA-A3-3358 TCGA-A3-3359 
       45.53        29.92        18.44        88.37        42.97        82.32 
TCGA-A3-3362 TCGA-A3-3365 TCGA-A3-3367 TCGA-A3-3370 TCGA-A3-3372 TCGA-A3-3373 
       51.25        28.70        74.63        74.76        24.16        53.29 
TCGA-A3-3374 TCGA-A3-3376 TCGA-A3-3378 TCGA-A3-3380 TCGA-A3-3382 TCGA-A3-3383 
       43.20        55.76        20.71        18.64        18.87        28.31 
TCGA-A3-3385 TCGA-A3-3387 TCGA-A3-A6NI TCGA-A3-A6NJ TCGA-A3-A6NL TCGA-A3-A6NN 
       65.52        20.28        33.47        15.39        22.65         0.10 
TCGA-A3-A8CQ TCGA-A3-A8OV TCGA-A3-A8OW TCGA-AK-3425 TCGA-AK-3426 TCGA-AK-3427 
        0.10        11.18        10.62       109.91        29.10       117.80 
TCGA-AK-3428 TCGA-AK-3429 TCGA-AK-3430 TCGA-AK-3431 TCGA-AK-3433 TCGA-AK-3434 
       73.08       109.41        15.78        73.68       112.08        68.61 
TCGA-AK-3436 TCGA-AK-3440 TCGA-AK-3443 TCGA-AK-3444 TCGA-AK-3445 TCGA-AK-3447 
      109.51        94.19        46.78        48.36        78.64        40.01 
TCGA-AK-3450 TCGA-AK-3451 TCGA-AK-3454 TCGA-AK-3455 TCGA-AK-3456 TCGA-AK-3458 
       49.28        94.29        28.73        22.45        37.58        38.40 
TCGA-AK-3460 TCGA-AK-3461 TCGA-AK-3465 TCGA-AS-3777 TCGA-AS-3778 TCGA-B0-4688 
       82.45        72.89        12.13        40.70         1.41         3.32 
TCGA-B0-4690 TCGA-B0-4691 TCGA-B0-4693 TCGA-B0-4694 TCGA-B0-4696 TCGA-B0-4697 
        1.41         4.57         2.53         3.48        28.47        19.00 
TCGA-B0-4699 TCGA-B0-4700 TCGA-B0-4701 TCGA-B0-4703 TCGA-B0-4706 TCGA-B0-4710 
        3.62        65.10         7.82         5.98         2.14        57.70 
TCGA-B0-4712 TCGA-B0-4713 TCGA-B0-4714 TCGA-B0-4718 TCGA-B0-4810 TCGA-B0-4811 
       43.96         6.64         3.25        58.45        15.72        46.59 
TCGA-B0-4813 TCGA-B0-4814 TCGA-B0-4815 TCGA-B0-4816 TCGA-B0-4817 TCGA-B0-4818 
        0.59         5.52        52.21        45.07        33.50        16.77 
TCGA-B0-4819 TCGA-B0-4821 TCGA-B0-4822 TCGA-B0-4823 TCGA-B0-4824 TCGA-B0-4827 
        6.02        40.44        36.53        14.93        54.48        29.10 
TCGA-B0-4828 TCGA-B0-4833 TCGA-B0-4834 TCGA-B0-4836 TCGA-B0-4837 TCGA-B0-4838 
       10.09        78.44        68.71        40.70        45.30        27.42 
TCGA-B0-4839 TCGA-B0-4841 TCGA-B0-4842 TCGA-B0-4843 TCGA-B0-4844 TCGA-B0-4845 
       53.88         6.71        56.68        10.52        10.29        65.29 
TCGA-B0-4846 TCGA-B0-4847 TCGA-B0-4849 TCGA-B0-4852 TCGA-B0-4945 TCGA-B0-5075 
       39.45        26.07         2.27        36.85        70.52        20.94 
TCGA-B0-5077 TCGA-B0-5080 TCGA-B0-5081 TCGA-B0-5084 TCGA-B0-5085 TCGA-B0-5088 
       43.30        11.24        11.90         7.30        25.32        18.51 
TCGA-B0-5092 TCGA-B0-5094 TCGA-B0-5095 TCGA-B0-5096 TCGA-B0-5097 TCGA-B0-5098 
       15.09        10.95         8.05         2.24        21.86        52.08 
TCGA-B0-5100 TCGA-B0-5104 TCGA-B0-5106 TCGA-B0-5107 TCGA-B0-5108 TCGA-B0-5110 
       62.89        90.48        52.54        30.48        58.59        66.05 
TCGA-B0-5113 TCGA-B0-5115 TCGA-B0-5116 TCGA-B0-5117 TCGA-B0-5119 TCGA-B0-5120 
       38.63        52.73        41.88        52.87        51.02        38.43 
TCGA-B0-5121 TCGA-B0-5399 TCGA-B0-5400 TCGA-B0-5402 TCGA-B0-5690 TCGA-B0-5691 
       48.82        46.39        56.98        42.41       111.52       112.80 
TCGA-B0-5692 TCGA-B0-5693 TCGA-B0-5694 TCGA-B0-5695 TCGA-B0-5697 TCGA-B0-5698 
      129.67       133.94        15.78        70.68        86.47       119.38 
TCGA-B0-5699 TCGA-B0-5701 TCGA-B0-5702 TCGA-B0-5703 TCGA-B0-5705 TCGA-B0-5706 
      126.28        80.91        71.41        73.84       149.16       105.37 
TCGA-B0-5709 TCGA-B0-5710 TCGA-B0-5711 TCGA-B0-5712 TCGA-B0-5713 TCGA-B0-5812 
      130.65        79.89       131.15        89.49        91.46       126.05 
TCGA-B2-3923 TCGA-B2-3924 TCGA-B2-4098 TCGA-B2-4099 TCGA-B2-4101 TCGA-B2-4102 
       32.61        35.90         1.68        31.96        21.30        31.30 
TCGA-B2-5633 TCGA-B2-5635 TCGA-B2-5639 TCGA-B2-5641 TCGA-B2-A4SR TCGA-B4-5377 
       31.66        24.82        32.98        21.57        16.67        12.00 
TCGA-B4-5378 TCGA-B4-5832 TCGA-B4-5834 TCGA-B4-5836 TCGA-B4-5843 TCGA-B4-5844 
        5.75         5.10         0.85         4.64         0.36         0.23 
TCGA-B8-4146 TCGA-B8-4148 TCGA-B8-4151 TCGA-B8-4153 TCGA-B8-4154 TCGA-B8-4619 
       16.80        27.16        42.71        25.05        45.37        17.19 
TCGA-B8-4620 TCGA-B8-4622 TCGA-B8-5158 TCGA-B8-5159 TCGA-B8-5162 TCGA-B8-5163 
       25.55        50.14        20.91        23.74         1.18        27.02 
TCGA-B8-5164 TCGA-B8-5165 TCGA-B8-5545 TCGA-B8-5546 TCGA-B8-5549 TCGA-B8-5550 
        0.85        24.23        50.14        16.60         6.38        48.53 
TCGA-B8-5552 TCGA-B8-5553 TCGA-B8-A54D TCGA-B8-A54E TCGA-B8-A54F TCGA-B8-A54G 
       34.39        14.30        27.29        29.88        17.06         1.74 
TCGA-B8-A54H TCGA-B8-A54I TCGA-B8-A54J TCGA-B8-A54K TCGA-B8-A7U6 TCGA-B8-A8YJ 
        8.42         4.93        17.36        15.42        16.27        14.17 
TCGA-BP-4158 TCGA-BP-4159 TCGA-BP-4160 TCGA-BP-4161 TCGA-BP-4162 TCGA-BP-4163 
      111.02        85.51        94.72        90.28       101.06        93.34 
TCGA-BP-4164 TCGA-BP-4165 TCGA-BP-4167 TCGA-BP-4169 TCGA-BP-4170 TCGA-BP-4173 
       32.61        99.85        89.36        23.05        77.03        62.24 
TCGA-BP-4174 TCGA-BP-4325 TCGA-BP-4326 TCGA-BP-4327 TCGA-BP-4329 TCGA-BP-4330 
       61.78        97.45        53.42         3.58        27.78        62.07 
TCGA-BP-4331 TCGA-BP-4332 TCGA-BP-4334 TCGA-BP-4335 TCGA-BP-4338 TCGA-BP-4340 
       80.68        37.25        21.21        15.16        93.99        18.48 
TCGA-BP-4341 TCGA-BP-4342 TCGA-BP-4343 TCGA-BP-4344 TCGA-BP-4346 TCGA-BP-4347 
       52.24        74.17        62.86        54.77        49.08        44.94 
TCGA-BP-4349 TCGA-BP-4351 TCGA-BP-4352 TCGA-BP-4353 TCGA-BP-4354 TCGA-BP-4355 
       12.23        31.89        11.31        12.33        33.99        31.33 
TCGA-BP-4759 TCGA-BP-4760 TCGA-BP-4761 TCGA-BP-4762 TCGA-BP-4763 TCGA-BP-4765 
       77.98        77.62         5.98        44.15        41.75        71.80 
TCGA-BP-4766 TCGA-BP-4769 TCGA-BP-4770 TCGA-BP-4771 TCGA-BP-4774 TCGA-BP-4775 
       48.07        61.68        10.82         5.33        61.97        60.59 
TCGA-BP-4776 TCGA-BP-4777 TCGA-BP-4782 TCGA-BP-4784 TCGA-BP-4787 TCGA-BP-4789 
       13.51        56.91        11.64        60.95        15.78        48.95 
TCGA-BP-4790 TCGA-BP-4795 TCGA-BP-4797 TCGA-BP-4798 TCGA-BP-4799 TCGA-BP-4801 
       36.53        20.38        36.39        10.98        37.25        36.95 
TCGA-BP-4803 TCGA-BP-4804 TCGA-BP-4807 TCGA-BP-4959 TCGA-BP-4960 TCGA-BP-4961 
        6.71        47.97         6.94        87.45        71.41        63.62 
TCGA-BP-4962 TCGA-BP-4963 TCGA-BP-4964 TCGA-BP-4965 TCGA-BP-4967 TCGA-BP-4968 
       58.68        60.30        61.22        61.51         6.74        57.40 
TCGA-BP-4969 TCGA-BP-4970 TCGA-BP-4971 TCGA-BP-4972 TCGA-BP-4973 TCGA-BP-4974 
       58.98        14.24        48.89        49.38        45.50         6.90 
TCGA-BP-4975 TCGA-BP-4976 TCGA-BP-4977 TCGA-BP-4981 TCGA-BP-4982 TCGA-BP-4983 
       47.11        53.65        14.93        36.07        33.34        46.45 
TCGA-BP-4986 TCGA-BP-4987 TCGA-BP-4988 TCGA-BP-4989 TCGA-BP-4991 TCGA-BP-4992 
       25.81        36.95        27.22         3.88        46.45        16.47 
TCGA-BP-4993 TCGA-BP-4994 TCGA-BP-4995 TCGA-BP-4998 TCGA-BP-4999 TCGA-BP-5000 
        5.82        43.00        45.07        30.64        41.62        18.51 
TCGA-BP-5001 TCGA-BP-5004 TCGA-BP-5006 TCGA-BP-5007 TCGA-BP-5008 TCGA-BP-5009 
       38.70        37.02        27.62        37.48        35.21        36.23 
TCGA-BP-5010 TCGA-BP-5168 TCGA-BP-5169 TCGA-BP-5170 TCGA-BP-5174 TCGA-BP-5175 
       28.87        48.10         6.35        79.30        74.20        30.64 
TCGA-BP-5177 TCGA-BP-5178 TCGA-BP-5180 TCGA-BP-5181 TCGA-BP-5183 TCGA-BP-5184 
        9.63        62.86        74.40        49.15        42.44        37.25 
TCGA-BP-5186 TCGA-BP-5187 TCGA-BP-5189 TCGA-BP-5190 TCGA-BP-5191 TCGA-BP-5192 
       22.78        13.35        27.02        33.24        31.79        23.47 
TCGA-BP-5194 TCGA-BP-5195 TCGA-BP-5196 TCGA-BP-5198 TCGA-BP-5199 TCGA-BP-5201 
       13.41        24.62        33.47        19.82        44.55        31.27 
TCGA-BP-5202 TCGA-CJ-4634 TCGA-CJ-4635 TCGA-CJ-4636 TCGA-CJ-4637 TCGA-CJ-4638 
        0.95       115.00        46.55        63.25        73.22        14.17 
TCGA-CJ-4639 TCGA-CJ-4640 TCGA-CJ-4641 TCGA-CJ-4642 TCGA-CJ-4643 TCGA-CJ-4644 
      106.16       114.41        54.61       105.37        58.95        11.05 
TCGA-CJ-4868 TCGA-CJ-4869 TCGA-CJ-4870 TCGA-CJ-4871 TCGA-CJ-4872 TCGA-CJ-4874 
       21.24        83.97        49.25        79.66        10.72        75.06 
TCGA-CJ-4875 TCGA-CJ-4876 TCGA-CJ-4878 TCGA-CJ-4881 TCGA-CJ-4884 TCGA-CJ-4885 
      116.84        64.27        71.87        66.21        57.83       113.46 
TCGA-CJ-4886 TCGA-CJ-4887 TCGA-CJ-4888 TCGA-CJ-4889 TCGA-CJ-4890 TCGA-CJ-4891 
       64.18        30.64        51.52        63.98       115.69        26.93 
TCGA-CJ-4892 TCGA-CJ-4893 TCGA-CJ-4894 TCGA-CJ-4895 TCGA-CJ-4897 TCGA-CJ-4899 
       50.01        24.66        27.65        39.45       109.84        50.24 
TCGA-CJ-4900 TCGA-CJ-4902 TCGA-CJ-4903 TCGA-CJ-4904 TCGA-CJ-4905 TCGA-CJ-4908 
       56.35        49.97        51.25       108.56        49.18        50.33 
TCGA-CJ-4913 TCGA-CJ-4916 TCGA-CJ-4918 TCGA-CJ-4920 TCGA-CJ-4923 TCGA-CJ-5671 
       38.56        45.14         3.06         4.57        18.81       131.08 
TCGA-CJ-5672 TCGA-CJ-5675 TCGA-CJ-5676 TCGA-CJ-5677 TCGA-CJ-5678 TCGA-CJ-5679 
       72.00       129.40       133.71        25.71        18.87        22.32 
TCGA-CJ-5680 TCGA-CJ-5681 TCGA-CJ-5682 TCGA-CJ-5683 TCGA-CJ-5684 TCGA-CJ-5686 
       25.25        18.15       122.83        62.10        73.35        67.00 
TCGA-CJ-5689 TCGA-CJ-6028 TCGA-CJ-6030 TCGA-CJ-6031 TCGA-CJ-6032 TCGA-CJ-6033 
       53.26        53.42        75.58        62.66       119.64         7.36 
TCGA-CW-5580 TCGA-CW-5581 TCGA-CW-5583 TCGA-CW-5584 TCGA-CW-5585 TCGA-CW-5587 
       64.57        92.02        81.83         5.39        85.78        73.18 
TCGA-CW-5588 TCGA-CW-5589 TCGA-CW-5591 TCGA-CW-6087 TCGA-CW-6088 TCGA-CW-6090 
       66.31        78.18        74.66         1.35       105.93        83.90 
TCGA-CW-6093 TCGA-CW-6097 TCGA-CZ-4853 TCGA-CZ-4854 TCGA-CZ-4856 TCGA-CZ-4857 
      103.43        18.77        25.45        46.16         0.59        47.08 
TCGA-CZ-4858 TCGA-CZ-4859 TCGA-CZ-4861 TCGA-CZ-4862 TCGA-CZ-4863 TCGA-CZ-4864 
       69.21        58.75        14.66       107.54        63.39        93.04 
TCGA-CZ-4865 TCGA-CZ-5451 TCGA-CZ-5452 TCGA-CZ-5453 TCGA-CZ-5454 TCGA-CZ-5455 
        5.46        63.42        58.82        79.53        23.74        18.44 
TCGA-CZ-5456 TCGA-CZ-5457 TCGA-CZ-5458 TCGA-CZ-5459 TCGA-CZ-5460 TCGA-CZ-5461 
       79.63        90.54        91.69        55.33        94.45        10.85 
TCGA-CZ-5462 TCGA-CZ-5463 TCGA-CZ-5464 TCGA-CZ-5465 TCGA-CZ-5466 TCGA-CZ-5467 
       10.22        21.76        69.96        84.30        22.52         2.40 
TCGA-CZ-5470 TCGA-CZ-5982 TCGA-CZ-5984 TCGA-CZ-5985 TCGA-CZ-5986 TCGA-CZ-5987 
       12.69        80.19        67.96        65.65        12.26        14.63 
TCGA-CZ-5988 TCGA-CZ-5989 TCGA-DV-5565 TCGA-DV-5566 TCGA-DV-5567 TCGA-DV-5568 
       22.78        62.63        13.28        45.96        65.88        12.16 
TCGA-DV-5569 TCGA-DV-5573 TCGA-DV-5574 TCGA-DV-5575 TCGA-DV-5576 TCGA-DV-A4VX 
       11.67        37.15        66.28        56.84        23.90        53.46 
TCGA-DV-A4VZ TCGA-DV-A4W0 TCGA-EU-5904 TCGA-EU-5906 TCGA-EU-5907 TCGA-G6-A5PC 
       12.00        81.21        18.12         6.77         4.18         7.96 
TCGA-G6-A8L6 TCGA-G6-A8L8 TCGA-GK-A6C7 TCGA-MM-A563 TCGA-MM-A564 TCGA-MM-A84U 
       10.29        35.87         2.01        19.43        19.96        23.01 
TCGA-MW-A4EC TCGA-2Z-A9J8 TCGA-2Z-A9J9 TCGA-2Z-A9JG TCGA-2Z-A9JJ TCGA-2Z-A9JK 
       16.37        91.73        75.42        54.64        39.88        38.99 
TCGA-2Z-A9JL TCGA-2Z-A9JN TCGA-2Z-A9JO TCGA-4A-A93X TCGA-4A-A93Y TCGA-5P-A9JU 
       33.07        24.33        31.20        12.82        11.57        12.26 
TCGA-5P-A9JV TCGA-5P-A9JW TCGA-5P-A9K8 TCGA-5P-A9KA TCGA-5P-A9KC TCGA-5P-A9KH 
       67.17       106.55        43.04        12.99        12.39        67.43 
TCGA-A4-7287 TCGA-A4-7583 TCGA-A4-7828 TCGA-A4-7997 TCGA-A4-8312 TCGA-A4-A48D 
       19.63         0.10         7.82        30.48        23.28        12.46 
TCGA-AL-3467 TCGA-AL-3473 TCGA-AL-7173 TCGA-B1-5398 TCGA-B1-A656 TCGA-B3-3926 
       70.19        62.66        67.73        19.56        20.32        10.09 
TCGA-B9-4116 TCGA-B9-A5W8 TCGA-B9-A69E TCGA-B9-A8YI TCGA-BQ-5876 TCGA-BQ-5878 
       20.61        17.23        14.86        12.30        19.27        63.72 
TCGA-BQ-5879 TCGA-BQ-5882 TCGA-BQ-5883 TCGA-BQ-5884 TCGA-BQ-5885 TCGA-BQ-5889 
       22.92        21.63        40.83        26.04        30.28        10.82 
TCGA-BQ-5894 TCGA-BQ-7044 TCGA-BQ-7048 TCGA-BQ-7049 TCGA-BQ-7050 TCGA-BQ-7055 
        2.76       123.62        93.34        44.84        61.28        26.27 
TCGA-BQ-7056 TCGA-BQ-7059 TCGA-BQ-7061 TCGA-DZ-6135 TCGA-EV-5902 TCGA-F9-A4JJ 
       20.12         7.63         7.17        74.60        19.00        10.68 
TCGA-F9-A97G TCGA-G7-6792 TCGA-G7-6797 TCGA-G7-7501 TCGA-GL-7773 TCGA-GL-8500 
        0.43        90.90        25.15        20.52        12.92        27.65 
TCGA-GL-A9DE TCGA-HE-A5NK TCGA-IA-A40X TCGA-IA-A83S TCGA-IA-A83W TCGA-MH-A854 
       16.31        73.25        19.99        85.78        67.17        17.62 
TCGA-MH-A855 TCGA-MH-A856 TCGA-MH-A857 TCGA-P4-A5E6 TCGA-P4-A5E8 TCGA-P4-AAVK 
       12.13        31.13        29.26        99.78        42.94        52.27 
TCGA-P4-AAVM TCGA-P4-AAVO TCGA-PJ-A5Z8 TCGA-SX-A7SM TCGA-SX-A7SO TCGA-UN-AAZ9 
       50.60        78.90        19.73        11.93        41.33        18.02 
TCGA-UZ-A9PN TCGA-UZ-A9PQ TCGA-UZ-A9Q1 TCGA-WN-A9G9 TCGA-Y8-A894 TCGA-Y8-A896 
       37.35        86.27        51.35        26.01        18.64        18.64 
TCGA-Y8-A897 TCGA-Y8-A8RZ TCGA-Y8-A8S1 
       18.05         3.68        13.28 

  AMP PEAK  8(17Q25.2) MUTATED AMP PEAK  8(17Q25.2) WILD-TYPE 
                          0.07                           0.10 
  AMP PEAK  8(17Q25.2) MUTATED AMP PEAK  8(17Q25.2) WILD-TYPE 
                        194.79                         151.96 
  AMP PEAK  8(17Q25.2) MUTATED AMP PEAK  8(17Q25.2) WILD-TYPE 
                         25.25                          39.45 
[1] "0.1 - 194.8 (25.2)" "0.1 - 152.0 (39.5)"
[1] "hr=" "1"  
D8V2, continuous
                                vv
clus                             STAGE I STAGE II STAGE III STAGE IV
  AMP PEAK  8(17Q25.2) MUTATED       146       22        42       16
  AMP PEAK  8(17Q25.2) WILD-TYPE     309       82       149       88
D8V3, multiclass
           clus
vv          AMP PEAK  8(17Q25.2) MUTATED AMP PEAK  8(17Q25.2) WILD-TYPE
  STAGE I                            146                            309
  STAGE II                            22                             82
  STAGE III                           42                            149
  STAGE IV                            16                             88
[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                              T1  T2  T3  T4
  AMP PEAK  8(17Q25.2) MUTATED   156  31  52   4
  AMP PEAK  8(17Q25.2) WILD-TYPE 323  96 206  11
D8V4, multiclass
    clus
vv   AMP PEAK  8(17Q25.2) MUTATED AMP PEAK  8(17Q25.2) WILD-TYPE
  T1                          156                            323
  T2                           31                             96
  T3                           52                            206
  T4                            4                             11
[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                              N0  N1  N2
  AMP PEAK  8(17Q25.2) MUTATED    47  16   4
  AMP PEAK  8(17Q25.2) WILD-TYPE 275  28   3
D8V5, multiclass
    clus
vv   AMP PEAK  8(17Q25.2) MUTATED AMP PEAK  8(17Q25.2) WILD-TYPE
  N0                           47                            275
  N1                           16                             28
  N2                            4                              3
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D8V6, binary
                                cls
clus                               0   1
  AMP PEAK  8(17Q25.2) MUTATED    93  10
  AMP PEAK  8(17Q25.2) WILD-TYPE 452  79
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  8(17Q25.2) MUTATED     93   10
  AMP PEAK  8(17Q25.2) WILD-TYPE  452   79
   clus
vv  AMP PEAK  8(17Q25.2) MUTATED AMP PEAK  8(17Q25.2) WILD-TYPE
  0                           93                            452
  1                           10                             79
[1] 2 2
[1] FALSE
D8V7, binary
                                cls
clus                               0   1
  AMP PEAK  8(17Q25.2) MUTATED    60 184
  AMP PEAK  8(17Q25.2) WILD-TYPE 232 405
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  8(17Q25.2) MUTATED     60  184
  AMP PEAK  8(17Q25.2) WILD-TYPE  232  405
        clus
vv       AMP PEAK  8(17Q25.2) MUTATED AMP PEAK  8(17Q25.2) WILD-TYPE
  FEMALE                           60                            232
  MALE                            184                            405
[1] 2 2
[1] FALSE
D8V8, binary
                                cls
clus                               0   1
  AMP PEAK  8(17Q25.2) MUTATED   149   1
  AMP PEAK  8(17Q25.2) WILD-TYPE 251   2
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  8(17Q25.2) MUTATED    149    1
  AMP PEAK  8(17Q25.2) WILD-TYPE  251    2
     clus
vv    AMP PEAK  8(17Q25.2) MUTATED AMP PEAK  8(17Q25.2) WILD-TYPE
  NO                           149                            251
  YES                            1                              2
[1] 2 2
[1] FALSE
D8V9, continuous
                                vv
clus                             KIDNEY CHROMOPHOBE
  AMP PEAK  8(17Q25.2) MUTATED                    1
  AMP PEAK  8(17Q25.2) WILD-TYPE                 65
                                vv
clus                             KIDNEY CLEAR CELL RENAL CARCINOMA
  AMP PEAK  8(17Q25.2) MUTATED                                  43
  AMP PEAK  8(17Q25.2) WILD-TYPE                               485
                                vv
clus                             KIDNEY PAPILLARY RENAL CELL CARCINOMA
  AMP PEAK  8(17Q25.2) MUTATED                                     200
  AMP PEAK  8(17Q25.2) WILD-TYPE                                    87
D8V10, multiclass
                                       clus
vv                                      AMP PEAK  8(17Q25.2) MUTATED
  KIDNEY CHROMOPHOBE                                               1
  KIDNEY CLEAR CELL RENAL CARCINOMA                               43
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                          200
                                       clus
vv                                      AMP PEAK  8(17Q25.2) WILD-TYPE
  KIDNEY CHROMOPHOBE                                                65
  KIDNEY CLEAR CELL RENAL CARCINOMA                                485
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                             87
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D8V11, continuous
D8V12, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK  8(17Q25.2) MUTATED                                  2     6
  AMP PEAK  8(17Q25.2) WILD-TYPE                                0     9
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  8(17Q25.2) MUTATED                          41   185
  AMP PEAK  8(17Q25.2) WILD-TYPE                        80   534
D8V13, multiclass
                                  clus
vv                                 AMP PEAK  8(17Q25.2) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            2
  ASIAN                                                       6
  BLACK OR AFRICAN AMERICAN                                  41
  WHITE                                                     185
                                  clus
vv                                 AMP PEAK  8(17Q25.2) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              0
  ASIAN                                                         9
  BLACK OR AFRICAN AMERICAN                                    80
  WHITE                                                       534
[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"
D8V14, binary
                                cls
clus                               0   1
  AMP PEAK  8(17Q25.2) MUTATED     9 196
  AMP PEAK  8(17Q25.2) WILD-TYPE  33 425
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  8(17Q25.2) MUTATED      9  196
  AMP PEAK  8(17Q25.2) WILD-TYPE   33  425
                        clus
vv                       AMP PEAK  8(17Q25.2) MUTATED
  HISPANIC OR LATINO                                9
  NOT HISPANIC OR LATINO                          196
                        clus
vv                       AMP PEAK  8(17Q25.2) WILD-TYPE
  HISPANIC OR LATINO                                 33
  NOT HISPANIC OR LATINO                            425
[1] 2 2
[1] FALSE

Clustering(9) Variable = AMP PEAK  9(19P13.2) MUTATION ANALYSIS
D9V1, survival
                                sevent
clus2                              0   1
  AMP PEAK  9(19P13.2) MUTATED    70  25
  AMP PEAK  9(19P13.2) WILD-TYPE 575 203
  AMP PEAK  9(19P13.2) MUTATED AMP PEAK  9(19P13.2) WILD-TYPE 
                            95                            778 
  AMP PEAK  9(19P13.2) MUTATED AMP PEAK  9(19P13.2) WILD-TYPE 
                            25                            203 
$`AMP PEAK  9(19P13.2) MUTATED`
TCGA-KL-8324 TCGA-KL-8331 TCGA-KL-8339 TCGA-KL-8341 TCGA-KL-8346 TCGA-KM-8438 
      141.73        98.96        28.11        24.79        62.37       151.96 
TCGA-KM-8443 TCGA-KN-8423 TCGA-KN-8425 TCGA-KN-8426 TCGA-KN-8427 TCGA-KN-8428 
       49.97        25.91       104.52         3.55         0.99        52.27 
TCGA-KN-8433 TCGA-KN-8436 TCGA-KO-8408 TCGA-KO-8409 TCGA-KO-8414 TCGA-A3-3325 
       11.21        42.35        16.67       104.55       105.60        38.47 
TCGA-A3-3374 TCGA-A3-3382 TCGA-AK-3433 TCGA-AK-3440 TCGA-AK-3453 TCGA-B0-4690 
       43.20        18.87       112.08        94.19        83.21         1.41 
TCGA-B0-4699 TCGA-B0-4707 TCGA-B0-4710 TCGA-B0-4811 TCGA-B0-4822 TCGA-B0-4844 
        3.62        19.73        57.70        46.59        36.53        10.29 
TCGA-B0-5094 TCGA-B0-5102 TCGA-B4-5832 TCGA-B4-5838 TCGA-B8-4143 TCGA-BP-4166 
       10.95        90.87         5.10         5.46        23.31         0.43 
TCGA-BP-4342 TCGA-BP-4351 TCGA-BP-4768 TCGA-BP-4967 TCGA-BP-4969 TCGA-BP-4994 
       74.17        31.89        13.15         6.74        58.98        43.00 
TCGA-BP-5178 TCGA-BP-5185 TCGA-BP-5200 TCGA-CJ-4635 TCGA-CJ-4871 TCGA-CJ-4873 
       62.86        37.22        34.95        46.55        79.66        74.27 
TCGA-CJ-4897 TCGA-CJ-4907 TCGA-CJ-5671 TCGA-CJ-5676 TCGA-CJ-5682 TCGA-CJ-6028 
      109.84        49.28       131.08       133.71       122.83        53.42 
TCGA-CW-5591 TCGA-CZ-4854 TCGA-CZ-4866 TCGA-CZ-5456 TCGA-CZ-5457 TCGA-CZ-5460 
       74.66        46.16        61.41        79.63        90.54        94.45 
TCGA-CZ-5461 TCGA-CZ-5464 TCGA-CZ-5468 TCGA-CZ-5469 TCGA-CZ-5984 TCGA-EU-5905 
       10.85        69.96         1.94        31.10        67.96         3.91 
TCGA-2Z-A9J3 TCGA-2Z-A9J7 TCGA-2Z-A9JE TCGA-2Z-A9JR TCGA-5P-A9KC TCGA-A4-7732 
       58.22         4.57        56.81         5.29        12.39        19.13 
TCGA-A4-A5DU TCGA-A4-A5XZ TCGA-AL-3472 TCGA-B9-4113 TCGA-B9-4116 TCGA-B9-4617 
       16.31        15.75        66.71        50.50        20.61         1.15 
TCGA-BQ-5885 TCGA-BQ-5891 TCGA-BQ-5892 TCGA-DW-5561 TCGA-DW-7840 TCGA-EV-5901 
       30.28         0.95        11.97        13.61         3.75        34.19 
TCGA-F9-A7Q0 TCGA-G7-6795 TCGA-G7-A4TM TCGA-G7-A8LC TCGA-GL-7966 TCGA-HE-A5NJ 
       13.08        39.25         6.38        23.08         3.68        56.75 
TCGA-IZ-8196 TCGA-P4-A5E7 TCGA-P4-AAVL TCGA-SX-A7SU TCGA-UZ-A9PX 
       21.34        87.09        16.01        43.76        65.13 

$`AMP PEAK  9(19P13.2) WILD-TYPE`
TCGA-KL-8323 TCGA-KL-8325 TCGA-KL-8326 TCGA-KL-8327 TCGA-KL-8328 TCGA-KL-8329 
       38.07        23.84       109.22       137.06       102.81        90.48 
TCGA-KL-8330 TCGA-KL-8332 TCGA-KL-8333 TCGA-KL-8334 TCGA-KL-8335 TCGA-KL-8336 
      108.62        84.89        98.33        96.95        92.55        30.25 
TCGA-KL-8337 TCGA-KL-8338 TCGA-KL-8340 TCGA-KL-8342 TCGA-KL-8343 TCGA-KL-8344 
       44.84        86.56        66.54        73.91        71.41        28.80 
TCGA-KL-8345 TCGA-KM-8439 TCGA-KM-8440 TCGA-KM-8441 TCGA-KM-8442 TCGA-KM-8476 
       54.74        23.28        44.91        28.80        47.24       123.12 
TCGA-KM-8477 TCGA-KM-8639 TCGA-KN-8418 TCGA-KN-8419 TCGA-KN-8421 TCGA-KN-8422 
       51.06        31.33       129.37        23.47        87.91        25.48 
TCGA-KN-8424 TCGA-KN-8429 TCGA-KN-8431 TCGA-KN-8432 TCGA-KN-8434 TCGA-KN-8435 
       65.19        87.12        19.33         2.50        59.08       115.00 
TCGA-KN-8437 TCGA-KO-8403 TCGA-KO-8404 TCGA-KO-8405 TCGA-KO-8406 TCGA-KO-8407 
      100.87       105.47        10.68       100.47       103.40        92.71 
TCGA-KO-8410 TCGA-KO-8411 TCGA-KO-8413 TCGA-KO-8415 TCGA-KO-8416 TCGA-KO-8417 
      103.10       130.13        99.88        96.62        90.48        92.55 
TCGA-3Z-A93Z TCGA-6D-AA2E TCGA-A3-3306 TCGA-A3-3307 TCGA-A3-3308 TCGA-A3-3311 
       12.66        11.90        36.82        47.21         0.53        39.16 
TCGA-A3-3313 TCGA-A3-3316 TCGA-A3-3317 TCGA-A3-3319 TCGA-A3-3320 TCGA-A3-3322 
       24.16        49.08        49.02        37.15        49.58        48.59 
TCGA-A3-3323 TCGA-A3-3324 TCGA-A3-3326 TCGA-A3-3331 TCGA-A3-3335 TCGA-A3-3336 
       36.36        38.99        37.38        48.82        62.01        34.29 
TCGA-A3-3343 TCGA-A3-3346 TCGA-A3-3347 TCGA-A3-3349 TCGA-A3-3351 TCGA-A3-3352 
       31.07         4.50        52.93        45.53        29.92        18.44 
TCGA-A3-3357 TCGA-A3-3358 TCGA-A3-3359 TCGA-A3-3362 TCGA-A3-3363 TCGA-A3-3365 
       88.37        42.97        82.32        51.25        10.49        28.70 
TCGA-A3-3367 TCGA-A3-3370 TCGA-A3-3372 TCGA-A3-3373 TCGA-A3-3376 TCGA-A3-3378 
       74.63        74.76        24.16        53.29        55.76        20.71 
TCGA-A3-3380 TCGA-A3-3383 TCGA-A3-3385 TCGA-A3-3387 TCGA-A3-A6NI TCGA-A3-A6NJ 
       18.64        28.31        65.52        20.28        33.47        15.39 
TCGA-A3-A6NL TCGA-A3-A6NN TCGA-A3-A8CQ TCGA-A3-A8OV TCGA-A3-A8OW TCGA-AK-3425 
       22.65         0.10         0.10        11.18        10.62       109.91 
TCGA-AK-3426 TCGA-AK-3427 TCGA-AK-3428 TCGA-AK-3429 TCGA-AK-3430 TCGA-AK-3431 
       29.10       117.80        73.08       109.41        15.78        73.68 
TCGA-AK-3434 TCGA-AK-3436 TCGA-AK-3443 TCGA-AK-3444 TCGA-AK-3445 TCGA-AK-3447 
       68.61       109.51        46.78        48.36        78.64        40.01 
TCGA-AK-3450 TCGA-AK-3451 TCGA-AK-3454 TCGA-AK-3455 TCGA-AK-3456 TCGA-AK-3458 
       49.28        94.29        28.73        22.45        37.58        38.40 
TCGA-AK-3460 TCGA-AK-3461 TCGA-AK-3465 TCGA-AS-3777 TCGA-AS-3778 TCGA-B0-4688 
       82.45        72.89        12.13        40.70         1.41         3.32 
TCGA-B0-4691 TCGA-B0-4693 TCGA-B0-4694 TCGA-B0-4696 TCGA-B0-4697 TCGA-B0-4698 
        4.57         2.53         3.48        28.47        19.00         1.38 
TCGA-B0-4700 TCGA-B0-4701 TCGA-B0-4703 TCGA-B0-4706 TCGA-B0-4712 TCGA-B0-4713 
       65.10         7.82         5.98         2.14        43.96         6.64 
TCGA-B0-4714 TCGA-B0-4718 TCGA-B0-4810 TCGA-B0-4813 TCGA-B0-4814 TCGA-B0-4815 
        3.25        58.45        15.72         0.59         5.52        52.21 
TCGA-B0-4816 TCGA-B0-4817 TCGA-B0-4818 TCGA-B0-4819 TCGA-B0-4821 TCGA-B0-4823 
       45.07        33.50        16.77         6.02        40.44        14.93 
TCGA-B0-4824 TCGA-B0-4827 TCGA-B0-4828 TCGA-B0-4833 TCGA-B0-4834 TCGA-B0-4836 
       54.48        29.10        10.09        78.44        68.71        40.70 
TCGA-B0-4837 TCGA-B0-4838 TCGA-B0-4839 TCGA-B0-4841 TCGA-B0-4842 TCGA-B0-4843 
       45.30        27.42        53.88         6.71        56.68        10.52 
TCGA-B0-4845 TCGA-B0-4846 TCGA-B0-4847 TCGA-B0-4848 TCGA-B0-4849 TCGA-B0-4852 
       65.29        39.45        26.07        29.03         2.27        36.85 
TCGA-B0-4945 TCGA-B0-5075 TCGA-B0-5077 TCGA-B0-5080 TCGA-B0-5081 TCGA-B0-5084 
       70.52        20.94        43.30        11.24        11.90         7.30 
TCGA-B0-5085 TCGA-B0-5088 TCGA-B0-5092 TCGA-B0-5095 TCGA-B0-5096 TCGA-B0-5097 
       25.32        18.51        15.09         8.05         2.24        21.86 
TCGA-B0-5098 TCGA-B0-5099 TCGA-B0-5100 TCGA-B0-5104 TCGA-B0-5106 TCGA-B0-5107 
       52.08        15.95        62.89        90.48        52.54        30.48 
TCGA-B0-5108 TCGA-B0-5109 TCGA-B0-5110 TCGA-B0-5113 TCGA-B0-5115 TCGA-B0-5116 
       58.59        19.30        66.05        38.63        52.73        41.88 
TCGA-B0-5117 TCGA-B0-5119 TCGA-B0-5120 TCGA-B0-5121 TCGA-B0-5399 TCGA-B0-5400 
       52.87        51.02        38.43        48.82        46.39        56.98 
TCGA-B0-5402 TCGA-B0-5690 TCGA-B0-5691 TCGA-B0-5692 TCGA-B0-5693 TCGA-B0-5694 
       42.41       111.52       112.80       129.67       133.94        15.78 
TCGA-B0-5695 TCGA-B0-5696 TCGA-B0-5697 TCGA-B0-5698 TCGA-B0-5699 TCGA-B0-5701 
       70.68        85.78        86.47       119.38       126.28        80.91 
TCGA-B0-5702 TCGA-B0-5703 TCGA-B0-5705 TCGA-B0-5706 TCGA-B0-5709 TCGA-B0-5710 
       71.41        73.84       149.16       105.37       130.65        79.89 
TCGA-B0-5711 TCGA-B0-5712 TCGA-B0-5713 TCGA-B0-5812 TCGA-B2-3923 TCGA-B2-3924 
      131.15        89.49        91.46       126.05        32.61        35.90 
TCGA-B2-4098 TCGA-B2-4099 TCGA-B2-4101 TCGA-B2-4102 TCGA-B2-5633 TCGA-B2-5635 
        1.68        31.96        21.30        31.30        31.66        24.82 
TCGA-B2-5639 TCGA-B2-5641 TCGA-B2-A4SR TCGA-B4-5377 TCGA-B4-5378 TCGA-B4-5834 
       32.98        21.57        16.67        12.00         5.75         0.85 
TCGA-B4-5835 TCGA-B4-5836 TCGA-B4-5843 TCGA-B4-5844 TCGA-B8-4146 TCGA-B8-4148 
        0.53         4.64         0.36         0.23        16.80        27.16 
TCGA-B8-4151 TCGA-B8-4153 TCGA-B8-4154 TCGA-B8-4619 TCGA-B8-4620 TCGA-B8-4621 
       42.71        25.05        45.37        17.19        25.55        25.91 
TCGA-B8-4622 TCGA-B8-5158 TCGA-B8-5159 TCGA-B8-5162 TCGA-B8-5163 TCGA-B8-5164 
       50.14        20.91        23.74         1.18        27.02         0.85 
TCGA-B8-5165 TCGA-B8-5545 TCGA-B8-5546 TCGA-B8-5549 TCGA-B8-5550 TCGA-B8-5551 
       24.23        50.14        16.60         6.38        48.53         0.53 
TCGA-B8-5552 TCGA-B8-5553 TCGA-B8-A54D TCGA-B8-A54E TCGA-B8-A54F TCGA-B8-A54G 
       34.39        14.30        27.29        29.88        17.06         1.74 
TCGA-B8-A54H TCGA-B8-A54I TCGA-B8-A54J TCGA-B8-A54K TCGA-B8-A7U6 TCGA-B8-A8YJ 
        8.42         4.93        17.36        15.42        16.27        14.17 
TCGA-BP-4158 TCGA-BP-4159 TCGA-BP-4160 TCGA-BP-4161 TCGA-BP-4162 TCGA-BP-4163 
      111.02        85.51        94.72        90.28       101.06        93.34 
TCGA-BP-4164 TCGA-BP-4165 TCGA-BP-4167 TCGA-BP-4169 TCGA-BP-4170 TCGA-BP-4173 
       32.61        99.85        89.36        23.05        77.03        62.24 
TCGA-BP-4174 TCGA-BP-4176 TCGA-BP-4177 TCGA-BP-4325 TCGA-BP-4326 TCGA-BP-4327 
       61.78        64.27        54.90        97.45        53.42         3.58 
TCGA-BP-4329 TCGA-BP-4330 TCGA-BP-4331 TCGA-BP-4332 TCGA-BP-4334 TCGA-BP-4335 
       27.78        62.07        80.68        37.25        21.21        15.16 
TCGA-BP-4337 TCGA-BP-4338 TCGA-BP-4340 TCGA-BP-4341 TCGA-BP-4343 TCGA-BP-4344 
        0.07        93.99        18.48        52.24        62.86        54.77 
TCGA-BP-4346 TCGA-BP-4347 TCGA-BP-4349 TCGA-BP-4352 TCGA-BP-4353 TCGA-BP-4354 
       49.08        44.94        12.23        11.31        12.33        33.99 
TCGA-BP-4355 TCGA-BP-4756 TCGA-BP-4758 TCGA-BP-4759 TCGA-BP-4760 TCGA-BP-4761 
       31.33        12.30        72.59        77.98        77.62         5.98 
TCGA-BP-4762 TCGA-BP-4763 TCGA-BP-4765 TCGA-BP-4766 TCGA-BP-4769 TCGA-BP-4770 
       44.15        41.75        71.80        48.07        61.68        10.82 
TCGA-BP-4771 TCGA-BP-4774 TCGA-BP-4775 TCGA-BP-4776 TCGA-BP-4777 TCGA-BP-4781 
        5.33        61.97        60.59        13.51        56.91        68.38 
TCGA-BP-4782 TCGA-BP-4784 TCGA-BP-4787 TCGA-BP-4789 TCGA-BP-4790 TCGA-BP-4795 
       11.64        60.95        15.78        48.95        36.53        20.38 
TCGA-BP-4797 TCGA-BP-4798 TCGA-BP-4799 TCGA-BP-4801 TCGA-BP-4803 TCGA-BP-4804 
       36.39        10.98        37.25        36.95         6.71        47.97 
TCGA-BP-4807 TCGA-BP-4959 TCGA-BP-4960 TCGA-BP-4961 TCGA-BP-4962 TCGA-BP-4963 
        6.94        87.45        71.41        63.62        58.68        60.30 
TCGA-BP-4964 TCGA-BP-4965 TCGA-BP-4968 TCGA-BP-4970 TCGA-BP-4971 TCGA-BP-4972 
       61.22        61.51        57.40        14.24        48.89        49.38 
TCGA-BP-4973 TCGA-BP-4974 TCGA-BP-4975 TCGA-BP-4976 TCGA-BP-4977 TCGA-BP-4981 
       45.50         6.90        47.11        53.65        14.93        36.07 
TCGA-BP-4982 TCGA-BP-4983 TCGA-BP-4985 TCGA-BP-4986 TCGA-BP-4987 TCGA-BP-4988 
       33.34        46.45        31.30        25.81        36.95        27.22 
TCGA-BP-4989 TCGA-BP-4991 TCGA-BP-4992 TCGA-BP-4993 TCGA-BP-4995 TCGA-BP-4998 
        3.88        46.45        16.47         5.82        45.07        30.64 
TCGA-BP-4999 TCGA-BP-5000 TCGA-BP-5001 TCGA-BP-5004 TCGA-BP-5006 TCGA-BP-5007 
       41.62        18.51        38.70        37.02        27.62        37.48 
TCGA-BP-5008 TCGA-BP-5009 TCGA-BP-5010 TCGA-BP-5168 TCGA-BP-5169 TCGA-BP-5170 
       35.21        36.23        28.87        48.10         6.35        79.30 
TCGA-BP-5173 TCGA-BP-5174 TCGA-BP-5175 TCGA-BP-5176 TCGA-BP-5177 TCGA-BP-5180 
        1.74        74.20        30.64        52.27         9.63        74.40 
TCGA-BP-5181 TCGA-BP-5182 TCGA-BP-5183 TCGA-BP-5184 TCGA-BP-5186 TCGA-BP-5187 
       49.15        38.30        42.44        37.25        22.78        13.35 
TCGA-BP-5189 TCGA-BP-5190 TCGA-BP-5191 TCGA-BP-5192 TCGA-BP-5194 TCGA-BP-5195 
       27.02        33.24        31.79        23.47        13.41        24.62 
TCGA-BP-5196 TCGA-BP-5198 TCGA-BP-5199 TCGA-BP-5201 TCGA-BP-5202 TCGA-CJ-4634 
       33.47        19.82        44.55        31.27         0.95       115.00 
TCGA-CJ-4636 TCGA-CJ-4637 TCGA-CJ-4638 TCGA-CJ-4639 TCGA-CJ-4640 TCGA-CJ-4641 
       63.25        73.22        14.17       106.16       114.41        54.61 
TCGA-CJ-4642 TCGA-CJ-4643 TCGA-CJ-4644 TCGA-CJ-4868 TCGA-CJ-4869 TCGA-CJ-4870 
      105.37        58.95        11.05        21.24        83.97        49.25 
TCGA-CJ-4872 TCGA-CJ-4874 TCGA-CJ-4875 TCGA-CJ-4876 TCGA-CJ-4878 TCGA-CJ-4881 
       10.72        75.06       116.84        64.27        71.87        66.21 
TCGA-CJ-4882 TCGA-CJ-4884 TCGA-CJ-4885 TCGA-CJ-4886 TCGA-CJ-4887 TCGA-CJ-4888 
       61.91        57.83       113.46        64.18        30.64        51.52 
TCGA-CJ-4889 TCGA-CJ-4890 TCGA-CJ-4891 TCGA-CJ-4892 TCGA-CJ-4893 TCGA-CJ-4894 
       63.98       115.69        26.93        50.01        24.66        27.65 
TCGA-CJ-4895 TCGA-CJ-4899 TCGA-CJ-4900 TCGA-CJ-4901 TCGA-CJ-4902 TCGA-CJ-4903 
       39.45        50.24        56.35        47.67        49.97        51.25 
TCGA-CJ-4904 TCGA-CJ-4905 TCGA-CJ-4908 TCGA-CJ-4912 TCGA-CJ-4913 TCGA-CJ-4916 
      108.56        49.18        50.33        54.48        38.56        45.14 
TCGA-CJ-4918 TCGA-CJ-4920 TCGA-CJ-4923 TCGA-CJ-5672 TCGA-CJ-5675 TCGA-CJ-5677 
        3.06         4.57        18.81        72.00       129.40        25.71 
TCGA-CJ-5678 TCGA-CJ-5679 TCGA-CJ-5680 TCGA-CJ-5681 TCGA-CJ-5683 TCGA-CJ-5684 
       18.87        22.32        25.25        18.15        62.10        73.35 
TCGA-CJ-5686 TCGA-CJ-5689 TCGA-CJ-6027 TCGA-CJ-6030 TCGA-CJ-6031 TCGA-CJ-6032 
       67.00        53.26       118.85        75.58        62.66       119.64 
TCGA-CJ-6033 TCGA-CW-5580 TCGA-CW-5581 TCGA-CW-5583 TCGA-CW-5584 TCGA-CW-5585 
        7.36        64.57        92.02        81.83         5.39        85.78 
TCGA-CW-5587 TCGA-CW-5588 TCGA-CW-5589 TCGA-CW-6087 TCGA-CW-6088 TCGA-CW-6090 
       73.18        66.31        78.18         1.35       105.93        83.90 
TCGA-CW-6093 TCGA-CW-6097 TCGA-CZ-4853 TCGA-CZ-4856 TCGA-CZ-4857 TCGA-CZ-4858 
      103.43        18.77        25.45         0.59        47.08        69.21 
TCGA-CZ-4859 TCGA-CZ-4860 TCGA-CZ-4861 TCGA-CZ-4862 TCGA-CZ-4863 TCGA-CZ-4864 
       58.75         6.77        14.66       107.54        63.39        93.04 
TCGA-CZ-4865 TCGA-CZ-5451 TCGA-CZ-5452 TCGA-CZ-5453 TCGA-CZ-5454 TCGA-CZ-5455 
        5.46        63.42        58.82        79.53        23.74        18.44 
TCGA-CZ-5458 TCGA-CZ-5459 TCGA-CZ-5462 TCGA-CZ-5463 TCGA-CZ-5465 TCGA-CZ-5466 
       91.69        55.33        10.22        21.76        84.30        22.52 
TCGA-CZ-5467 TCGA-CZ-5470 TCGA-CZ-5982 TCGA-CZ-5985 TCGA-CZ-5986 TCGA-CZ-5987 
        2.40        12.69        80.19        65.65        12.26        14.63 
TCGA-CZ-5988 TCGA-CZ-5989 TCGA-DV-5565 TCGA-DV-5566 TCGA-DV-5567 TCGA-DV-5568 
       22.78        62.63        13.28        45.96        65.88        12.16 
TCGA-DV-5569 TCGA-DV-5573 TCGA-DV-5574 TCGA-DV-5575 TCGA-DV-5576 TCGA-DV-A4VX 
       11.67        37.15        66.28        56.84        23.90        53.46 
TCGA-DV-A4VZ TCGA-DV-A4W0 TCGA-EU-5904 TCGA-EU-5906 TCGA-EU-5907 TCGA-G6-A5PC 
       12.00        81.21        18.12         6.77         4.18         7.96 
TCGA-G6-A8L6 TCGA-G6-A8L7 TCGA-G6-A8L8 TCGA-GK-A6C7 TCGA-MM-A563 TCGA-MM-A564 
       10.29        70.13        35.87         2.01        19.43        19.96 
TCGA-MM-A84U TCGA-MW-A4EC TCGA-T7-A92I TCGA-2K-A9WE TCGA-2Z-A9J1 TCGA-2Z-A9J2 
       23.01        16.37        11.70         7.04        75.55        59.01 
TCGA-2Z-A9J5 TCGA-2Z-A9J6 TCGA-2Z-A9J8 TCGA-2Z-A9J9 TCGA-2Z-A9JD TCGA-2Z-A9JG 
      100.27        56.91        91.73        75.42        34.85        54.64 
TCGA-2Z-A9JI TCGA-2Z-A9JJ TCGA-2Z-A9JK TCGA-2Z-A9JL TCGA-2Z-A9JM TCGA-2Z-A9JN 
       51.52        39.88        38.99        33.07        30.71        24.33 
TCGA-2Z-A9JO TCGA-2Z-A9JP TCGA-2Z-A9JQ TCGA-2Z-A9JS TCGA-2Z-A9JT TCGA-4A-A93W 
       31.20        29.36        25.58        16.18        22.49         0.13 
TCGA-4A-A93X TCGA-4A-A93Y TCGA-5P-A9JU TCGA-5P-A9JV TCGA-5P-A9JW TCGA-5P-A9JY 
       12.82        11.57        12.26        67.17       106.55        49.58 
TCGA-5P-A9JZ TCGA-5P-A9K0 TCGA-5P-A9K2 TCGA-5P-A9K3 TCGA-5P-A9K4 TCGA-5P-A9K6 
       90.21        22.26        78.64        15.48        71.80        62.93 
TCGA-5P-A9K8 TCGA-5P-A9K9 TCGA-5P-A9KA TCGA-5P-A9KE TCGA-5P-A9KH TCGA-A4-7286 
       43.04        19.36        12.99        27.09        67.43        18.21 
TCGA-A4-7287 TCGA-A4-7288 TCGA-A4-7583 TCGA-A4-7584 TCGA-A4-7585 TCGA-A4-7734 
       19.63        61.05         0.10        21.37        35.18         0.89 
TCGA-A4-7828 TCGA-A4-7915 TCGA-A4-7996 TCGA-A4-7997 TCGA-A4-8098 TCGA-A4-8310 
        7.82         0.23        16.64        30.48        29.46        25.64 
TCGA-A4-8311 TCGA-A4-8312 TCGA-A4-8515 TCGA-A4-8516 TCGA-A4-8517 TCGA-A4-8518 
       23.97        23.28        23.31         0.76        19.63        19.73 
TCGA-A4-8630 TCGA-A4-A48D TCGA-A4-A4ZT TCGA-A4-A57E TCGA-A4-A5Y0 TCGA-A4-A5Y1 
       14.33        12.46        16.96         8.48         8.28        12.99 
TCGA-A4-A6HP TCGA-AL-3466 TCGA-AL-3467 TCGA-AL-3468 TCGA-AL-3471 TCGA-AL-3473 
       12.46         9.63        70.19        76.64        49.32        62.66 
TCGA-AL-7173 TCGA-AL-A5DJ TCGA-AT-A5NU TCGA-B1-5398 TCGA-B1-7332 TCGA-B1-A47M 
       67.73        49.25         2.20        19.56        37.51        21.67 
TCGA-B1-A47N TCGA-B1-A47O TCGA-B1-A654 TCGA-B1-A655 TCGA-B1-A656 TCGA-B1-A657 
       24.56        16.87        20.25        16.77        20.32        21.07 
TCGA-B3-3925 TCGA-B3-3926 TCGA-B3-4103 TCGA-B3-4104 TCGA-B3-8121 TCGA-B3-A6W5 
       33.83        10.09        30.58        34.49        12.46        10.16 
TCGA-B9-4114 TCGA-B9-4115 TCGA-B9-4117 TCGA-B9-5155 TCGA-B9-5156 TCGA-B9-7268 
       28.18        26.40         0.46        15.12        43.99        22.06 
TCGA-B9-A44B TCGA-B9-A5W7 TCGA-B9-A5W8 TCGA-B9-A5W9 TCGA-B9-A69E TCGA-B9-A8YH 
        2.10        19.23        17.23         0.16        14.86        17.49 
TCGA-B9-A8YI TCGA-BQ-5875 TCGA-BQ-5876 TCGA-BQ-5877 TCGA-BQ-5878 TCGA-BQ-5879 
       12.30        86.76        19.27         8.88        63.72        22.92 
TCGA-BQ-5880 TCGA-BQ-5881 TCGA-BQ-5882 TCGA-BQ-5883 TCGA-BQ-5884 TCGA-BQ-5886 
       43.20        47.80        21.63        40.83        26.04        26.04 
TCGA-BQ-5887 TCGA-BQ-5888 TCGA-BQ-5889 TCGA-BQ-5890 TCGA-BQ-5893 TCGA-BQ-5894 
       25.35        13.25        10.82         7.66         7.92         2.76 
TCGA-BQ-7044 TCGA-BQ-7045 TCGA-BQ-7046 TCGA-BQ-7048 TCGA-BQ-7049 TCGA-BQ-7050 
      123.62        48.26        96.92        93.34        44.84        61.28 
TCGA-BQ-7051 TCGA-BQ-7053 TCGA-BQ-7055 TCGA-BQ-7056 TCGA-BQ-7058 TCGA-BQ-7059 
       50.40        49.84        26.27        20.12        11.28         7.63 
TCGA-BQ-7060 TCGA-BQ-7061 TCGA-BQ-7062 TCGA-DW-5560 TCGA-DW-7834 TCGA-DW-7836 
        7.04         7.17         3.81        48.85       129.86        35.93 
TCGA-DW-7837 TCGA-DW-7838 TCGA-DW-7839 TCGA-DW-7841 TCGA-DW-7842 TCGA-DW-7963 
       37.55        24.46        13.78        14.63         3.02        40.77 
TCGA-DZ-6131 TCGA-DZ-6132 TCGA-DZ-6133 TCGA-DZ-6134 TCGA-DZ-6135 TCGA-EV-5902 
       79.86        80.88        51.19        61.02        74.60        19.00 
TCGA-EV-5903 TCGA-F9-A4JJ TCGA-F9-A7VF TCGA-F9-A8NY TCGA-F9-A97G TCGA-G7-6789 
       24.89        10.68         2.40         1.18         0.43         4.01 
TCGA-G7-6790 TCGA-G7-6792 TCGA-G7-6793 TCGA-G7-6796 TCGA-G7-6797 TCGA-G7-7501 
       51.78        90.90        11.05        71.44        25.15        20.52 
TCGA-G7-7502 TCGA-G7-A8LB TCGA-G7-A8LD TCGA-G7-A8LE TCGA-GL-6846 TCGA-GL-7773 
       25.84        17.98        16.90        80.65       194.79        12.92 
TCGA-GL-8500 TCGA-GL-A4EM TCGA-GL-A59R TCGA-GL-A59T TCGA-GL-A9DC TCGA-GL-A9DD 
       27.65         1.05        12.43        17.95        12.89        11.21 
TCGA-GL-A9DE TCGA-HE-A5NF TCGA-HE-A5NH TCGA-HE-A5NI TCGA-HE-A5NK TCGA-HE-A5NL 
       16.31        84.89        26.01        11.84        73.25        25.22 
TCGA-IA-A40U TCGA-IA-A40X TCGA-IA-A40Y TCGA-IA-A83S TCGA-IA-A83T TCGA-IA-A83V 
       16.80        19.99         2.04        85.78        88.24        96.69 
TCGA-IA-A83W TCGA-IZ-8195 TCGA-IZ-A6M8 TCGA-IZ-A6M9 TCGA-J7-6720 TCGA-J7-8537 
       67.17        22.26        16.34        12.36        12.76        10.55 
TCGA-KV-A6GD TCGA-KV-A6GE TCGA-KV-A74V TCGA-MH-A55W TCGA-MH-A55Z TCGA-MH-A560 
       18.41        29.10        11.41        34.29        27.78        30.38 
TCGA-MH-A561 TCGA-MH-A562 TCGA-MH-A854 TCGA-MH-A855 TCGA-MH-A856 TCGA-MH-A857 
       27.65        20.25        17.62        12.13        31.13        29.26 
TCGA-O9-A75Z TCGA-P4-A5E6 TCGA-P4-A5E8 TCGA-P4-A5EA TCGA-P4-A5EB TCGA-P4-A5ED 
       15.48        99.78        42.94         6.61        99.12        92.58 
TCGA-P4-AAVK TCGA-P4-AAVM TCGA-P4-AAVO TCGA-PJ-A5Z8 TCGA-PJ-A5Z9 TCGA-Q2-A5QZ 
       52.27        50.60        78.90        19.73        17.75        14.07 
TCGA-SX-A71R TCGA-SX-A71S TCGA-SX-A71U TCGA-SX-A71V TCGA-SX-A7SL TCGA-SX-A7SM 
       47.90        49.45        44.61        28.80        27.06        11.93 
TCGA-SX-A7SN TCGA-SX-A7SO TCGA-SX-A7SP TCGA-SX-A7SQ TCGA-SX-A7SR TCGA-SX-A7SS 
       19.00        41.33        16.31        41.62        26.47        53.10 
TCGA-UN-AAZ9 TCGA-UZ-A9PJ TCGA-UZ-A9PK TCGA-UZ-A9PL TCGA-UZ-A9PM TCGA-UZ-A9PN 
       18.02        26.20       117.40       103.63       125.29        37.35 
TCGA-UZ-A9PO TCGA-UZ-A9PP TCGA-UZ-A9PQ TCGA-UZ-A9PR TCGA-UZ-A9PS TCGA-UZ-A9PU 
       62.83        98.96        86.27        86.37        71.24        30.67 
TCGA-UZ-A9PV TCGA-UZ-A9PZ TCGA-UZ-A9Q0 TCGA-UZ-A9Q1 TCGA-V9-A7HT TCGA-WN-A9G9 
       47.47        21.60       110.73        51.35        31.73        26.01 
TCGA-WN-AB4C TCGA-Y8-A894 TCGA-Y8-A895 TCGA-Y8-A896 TCGA-Y8-A897 TCGA-Y8-A898 
       39.06        18.64        15.91        18.64        18.05        15.62 
TCGA-Y8-A8RY TCGA-Y8-A8RZ TCGA-Y8-A8S0 TCGA-Y8-A8S1 
       25.28         3.68         6.02        13.28 

  AMP PEAK  9(19P13.2) MUTATED AMP PEAK  9(19P13.2) WILD-TYPE 
                          0.43                           0.07 
  AMP PEAK  9(19P13.2) MUTATED AMP PEAK  9(19P13.2) WILD-TYPE 
                        151.96                         194.79 
  AMP PEAK  9(19P13.2) MUTATED AMP PEAK  9(19P13.2) WILD-TYPE 
                         38.47                          34.14 
[1] "0.4 - 152.0 (38.5)" "0.1 - 194.8 (34.1)"
[1] "hr=" "1"  
D9V2, continuous
                                vv
clus                             STAGE I STAGE II STAGE III STAGE IV
  AMP PEAK  9(19P13.2) MUTATED        35       18        19       20
  AMP PEAK  9(19P13.2) WILD-TYPE     420       86       172       84
D9V3, multiclass
           clus
vv          AMP PEAK  9(19P13.2) MUTATED AMP PEAK  9(19P13.2) WILD-TYPE
  STAGE I                             35                            420
  STAGE II                            18                             86
  STAGE III                           19                            172
  STAGE IV                            20                             84
[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                              T1  T2  T3  T4
  AMP PEAK  9(19P13.2) MUTATED    38  23  34   3
  AMP PEAK  9(19P13.2) WILD-TYPE 441 104 224  12
D9V4, multiclass
    clus
vv   AMP PEAK  9(19P13.2) MUTATED AMP PEAK  9(19P13.2) WILD-TYPE
  T1                           38                            441
  T2                           23                            104
  T3                           34                            224
  T4                            3                             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"
                                vv
clus                              N0  N1  N2
  AMP PEAK  9(19P13.2) MUTATED    37   6   1
  AMP PEAK  9(19P13.2) WILD-TYPE 285  38   6
D9V5, multiclass
    clus
vv   AMP PEAK  9(19P13.2) MUTATED AMP PEAK  9(19P13.2) WILD-TYPE
  N0                           37                            285
  N1                            6                             38
  N2                            1                              6
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D9V6, binary
                                cls
clus                               0   1
  AMP PEAK  9(19P13.2) MUTATED    52  17
  AMP PEAK  9(19P13.2) WILD-TYPE 493  72
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  9(19P13.2) MUTATED     52   17
  AMP PEAK  9(19P13.2) WILD-TYPE  493   72
   clus
vv  AMP PEAK  9(19P13.2) MUTATED AMP PEAK  9(19P13.2) WILD-TYPE
  0                           52                            493
  1                           17                             72
[1] 2 2
[1] FALSE
D9V7, binary
                                cls
clus                               0   1
  AMP PEAK  9(19P13.2) MUTATED    27  71
  AMP PEAK  9(19P13.2) WILD-TYPE 265 518
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  9(19P13.2) MUTATED     27   71
  AMP PEAK  9(19P13.2) WILD-TYPE  265  518
        clus
vv       AMP PEAK  9(19P13.2) MUTATED AMP PEAK  9(19P13.2) WILD-TYPE
  FEMALE                           27                            265
  MALE                             71                            518
[1] 2 2
[1] FALSE
D9V8, binary
                                cls
clus                               0   1
  AMP PEAK  9(19P13.2) MUTATED    44   2
  AMP PEAK  9(19P13.2) WILD-TYPE 356   1
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  9(19P13.2) MUTATED     44    2
  AMP PEAK  9(19P13.2) WILD-TYPE  356    1
     clus
vv    AMP PEAK  9(19P13.2) MUTATED AMP PEAK  9(19P13.2) WILD-TYPE
  NO                            44                            356
  YES                            2                              1
[1] 2 2
[1] FALSE
D9V9, continuous
                                vv
clus                             KIDNEY CHROMOPHOBE
  AMP PEAK  9(19P13.2) MUTATED                   18
  AMP PEAK  9(19P13.2) WILD-TYPE                 48
                                vv
clus                             KIDNEY CLEAR CELL RENAL CARCINOMA
  AMP PEAK  9(19P13.2) MUTATED                                  49
  AMP PEAK  9(19P13.2) WILD-TYPE                               479
                                vv
clus                             KIDNEY PAPILLARY RENAL CELL CARCINOMA
  AMP PEAK  9(19P13.2) MUTATED                                      31
  AMP PEAK  9(19P13.2) WILD-TYPE                                   256
D9V10, multiclass
                                       clus
vv                                      AMP PEAK  9(19P13.2) MUTATED
  KIDNEY CHROMOPHOBE                                              18
  KIDNEY CLEAR CELL RENAL CARCINOMA                               49
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                           31
                                       clus
vv                                      AMP PEAK  9(19P13.2) WILD-TYPE
  KIDNEY CHROMOPHOBE                                                48
  KIDNEY CLEAR CELL RENAL CARCINOMA                                479
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                            256
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D9V11, continuous
D9V12, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK  9(19P13.2) MUTATED                                  0     2
  AMP PEAK  9(19P13.2) WILD-TYPE                                2    13
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  9(19P13.2) MUTATED                           9    84
  AMP PEAK  9(19P13.2) WILD-TYPE                       112   635
D9V13, multiclass
                                  clus
vv                                 AMP PEAK  9(19P13.2) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                       2
  BLACK OR AFRICAN AMERICAN                                   9
  WHITE                                                      84
                                  clus
vv                                 AMP PEAK  9(19P13.2) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              2
  ASIAN                                                        13
  BLACK OR AFRICAN AMERICAN                                   112
  WHITE                                                       635
[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"
D9V14, binary
                                cls
clus                               0   1
  AMP PEAK  9(19P13.2) MUTATED     5  68
  AMP PEAK  9(19P13.2) WILD-TYPE  37 553
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  9(19P13.2) MUTATED      5   68
  AMP PEAK  9(19P13.2) WILD-TYPE   37  553
                        clus
vv                       AMP PEAK  9(19P13.2) MUTATED
  HISPANIC OR LATINO                                5
  NOT HISPANIC OR LATINO                           68
                        clus
vv                       AMP PEAK  9(19P13.2) WILD-TYPE
  HISPANIC OR LATINO                                 37
  NOT HISPANIC OR LATINO                            553
[1] 2 2
[1] FALSE

Clustering(10) Variable = AMP PEAK 10(XP22.2) MUTATION ANALYSIS
D10V1, survival
                               sevent
clus2                             0   1
  AMP PEAK 10(XP22.2) MUTATED    98  24
  AMP PEAK 10(XP22.2) WILD-TYPE 547 204
  AMP PEAK 10(XP22.2) MUTATED AMP PEAK 10(XP22.2) WILD-TYPE 
                          122                           751 
  AMP PEAK 10(XP22.2) MUTATED AMP PEAK 10(XP22.2) WILD-TYPE 
                           24                           204 
$`AMP PEAK 10(XP22.2) MUTATED`
TCGA-KL-8346 TCGA-KN-8419 TCGA-KN-8423 TCGA-KN-8426 TCGA-KN-8433 TCGA-KO-8410 
       62.37        23.47        25.91         3.55        11.21       103.10 
TCGA-KO-8413 TCGA-A3-3346 TCGA-A3-3382 TCGA-AK-3429 TCGA-AK-3436 TCGA-AK-3445 
       99.88         4.50        18.87       109.41       109.51        78.64 
TCGA-AK-3453 TCGA-B0-5109 TCGA-BP-4162 TCGA-BP-4174 TCGA-BP-4337 TCGA-BP-4338 
       83.21        19.30       101.06        61.78         0.07        93.99 
TCGA-BP-4343 TCGA-BP-4346 TCGA-BP-4352 TCGA-BP-4756 TCGA-BP-4770 TCGA-BP-4799 
       62.86        49.08        11.31        12.30        10.82        37.25 
TCGA-BP-4969 TCGA-BP-4989 TCGA-CJ-4642 TCGA-CJ-4644 TCGA-CJ-4885 TCGA-CJ-4899 
       58.98         3.88       105.37        11.05       113.46        50.24 
TCGA-CJ-5681 TCGA-CW-5591 TCGA-CZ-4854 TCGA-CZ-5456 TCGA-CZ-5464 TCGA-CZ-5468 
       18.15        74.66        46.16        79.63        69.96         1.94 
TCGA-DV-A4VX TCGA-EU-5905 TCGA-2Z-A9J1 TCGA-2Z-A9J3 TCGA-2Z-A9J5 TCGA-2Z-A9J6 
       53.46         3.91        75.55        58.22       100.27        56.91 
TCGA-2Z-A9JQ TCGA-2Z-A9JR TCGA-5P-A9JY TCGA-5P-A9K2 TCGA-5P-A9K6 TCGA-A4-8311 
       25.58         5.29        49.58        78.64        62.93        23.97 
TCGA-A4-8515 TCGA-A4-8516 TCGA-A4-8517 TCGA-A4-8630 TCGA-A4-A4ZT TCGA-A4-A5DU 
       23.31         0.76        19.63        14.33        16.96        16.31 
TCGA-A4-A5XZ TCGA-A4-A6HP TCGA-AL-3466 TCGA-AL-3468 TCGA-AL-3471 TCGA-AT-A5NU 
       15.75        12.46         9.63        76.64        49.32         2.20 
TCGA-B1-A47M TCGA-B1-A47N TCGA-B1-A657 TCGA-B3-4103 TCGA-B3-A6W5 TCGA-B9-4113 
       21.67        24.56        21.07        30.58        10.16        50.50 
TCGA-B9-4114 TCGA-B9-4117 TCGA-B9-4617 TCGA-B9-5155 TCGA-B9-5156 TCGA-B9-7268 
       28.18         0.46         1.15        15.12        43.99        22.06 
TCGA-B9-A5W9 TCGA-B9-A8YH TCGA-BQ-5881 TCGA-BQ-5891 TCGA-BQ-5893 TCGA-BQ-7045 
        0.16        17.49        47.80         0.95         7.92        48.26 
TCGA-BQ-7046 TCGA-BQ-7051 TCGA-BQ-7062 TCGA-DW-5561 TCGA-DW-7836 TCGA-DW-7841 
       96.92        50.40         3.81        13.61        35.93        14.63 
TCGA-DW-7963 TCGA-DZ-6133 TCGA-F9-A7VF TCGA-F9-A8NY TCGA-G7-6790 TCGA-G7-6795 
       40.77        51.19         2.40         1.18        51.78        39.25 
TCGA-G7-A4TM TCGA-G7-A8LB TCGA-GL-6846 TCGA-GL-A59T TCGA-HE-A5NF TCGA-HE-A5NI 
        6.38        17.98       194.79        17.95        84.89        11.84 
TCGA-HE-A5NL TCGA-KV-A6GD TCGA-KV-A6GE TCGA-KV-A74V TCGA-MH-A55W TCGA-P4-A5E7 
       25.22        18.41        29.10        11.41        34.29        87.09 
TCGA-P4-A5EB TCGA-P4-AAVK TCGA-P4-AAVL TCGA-PJ-A5Z9 TCGA-SX-A71U TCGA-SX-A71V 
       99.12        52.27        16.01        17.75        44.61        28.80 
TCGA-SX-A7SN TCGA-SX-A7SP TCGA-SX-A7SQ TCGA-SX-A7SR TCGA-SX-A7SS TCGA-UZ-A9PK 
       19.00        16.31        41.62        26.47        53.10       117.40 
TCGA-UZ-A9PO TCGA-UZ-A9PV TCGA-UZ-A9PX TCGA-UZ-A9PZ TCGA-UZ-A9Q0 TCGA-UZ-A9Q1 
       62.83        47.47        65.13        21.60       110.73        51.35 
TCGA-V9-A7HT TCGA-Y8-A895 
       31.73        15.91 

$`AMP PEAK 10(XP22.2) WILD-TYPE`
TCGA-KL-8323 TCGA-KL-8324 TCGA-KL-8325 TCGA-KL-8326 TCGA-KL-8327 TCGA-KL-8328 
       38.07       141.73        23.84       109.22       137.06       102.81 
TCGA-KL-8329 TCGA-KL-8330 TCGA-KL-8331 TCGA-KL-8332 TCGA-KL-8333 TCGA-KL-8334 
       90.48       108.62        98.96        84.89        98.33        96.95 
TCGA-KL-8335 TCGA-KL-8336 TCGA-KL-8337 TCGA-KL-8338 TCGA-KL-8339 TCGA-KL-8340 
       92.55        30.25        44.84        86.56        28.11        66.54 
TCGA-KL-8341 TCGA-KL-8342 TCGA-KL-8343 TCGA-KL-8344 TCGA-KL-8345 TCGA-KM-8438 
       24.79        73.91        71.41        28.80        54.74       151.96 
TCGA-KM-8439 TCGA-KM-8440 TCGA-KM-8441 TCGA-KM-8442 TCGA-KM-8443 TCGA-KM-8476 
       23.28        44.91        28.80        47.24        49.97       123.12 
TCGA-KM-8477 TCGA-KM-8639 TCGA-KN-8418 TCGA-KN-8421 TCGA-KN-8422 TCGA-KN-8424 
       51.06        31.33       129.37        87.91        25.48        65.19 
TCGA-KN-8425 TCGA-KN-8427 TCGA-KN-8428 TCGA-KN-8429 TCGA-KN-8431 TCGA-KN-8432 
      104.52         0.99        52.27        87.12        19.33         2.50 
TCGA-KN-8434 TCGA-KN-8435 TCGA-KN-8436 TCGA-KN-8437 TCGA-KO-8403 TCGA-KO-8404 
       59.08       115.00        42.35       100.87       105.47        10.68 
TCGA-KO-8405 TCGA-KO-8406 TCGA-KO-8407 TCGA-KO-8408 TCGA-KO-8409 TCGA-KO-8411 
      100.47       103.40        92.71        16.67       104.55       130.13 
TCGA-KO-8414 TCGA-KO-8415 TCGA-KO-8416 TCGA-KO-8417 TCGA-3Z-A93Z TCGA-6D-AA2E 
      105.60        96.62        90.48        92.55        12.66        11.90 
TCGA-A3-3306 TCGA-A3-3307 TCGA-A3-3308 TCGA-A3-3311 TCGA-A3-3313 TCGA-A3-3316 
       36.82        47.21         0.53        39.16        24.16        49.08 
TCGA-A3-3317 TCGA-A3-3319 TCGA-A3-3320 TCGA-A3-3322 TCGA-A3-3323 TCGA-A3-3324 
       49.02        37.15        49.58        48.59        36.36        38.99 
TCGA-A3-3325 TCGA-A3-3326 TCGA-A3-3331 TCGA-A3-3335 TCGA-A3-3336 TCGA-A3-3343 
       38.47        37.38        48.82        62.01        34.29        31.07 
TCGA-A3-3347 TCGA-A3-3349 TCGA-A3-3351 TCGA-A3-3352 TCGA-A3-3357 TCGA-A3-3358 
       52.93        45.53        29.92        18.44        88.37        42.97 
TCGA-A3-3359 TCGA-A3-3362 TCGA-A3-3363 TCGA-A3-3365 TCGA-A3-3367 TCGA-A3-3370 
       82.32        51.25        10.49        28.70        74.63        74.76 
TCGA-A3-3372 TCGA-A3-3373 TCGA-A3-3374 TCGA-A3-3376 TCGA-A3-3378 TCGA-A3-3380 
       24.16        53.29        43.20        55.76        20.71        18.64 
TCGA-A3-3383 TCGA-A3-3385 TCGA-A3-3387 TCGA-A3-A6NI TCGA-A3-A6NJ TCGA-A3-A6NL 
       28.31        65.52        20.28        33.47        15.39        22.65 
TCGA-A3-A6NN TCGA-A3-A8CQ TCGA-A3-A8OV TCGA-A3-A8OW TCGA-AK-3425 TCGA-AK-3426 
        0.10         0.10        11.18        10.62       109.91        29.10 
TCGA-AK-3427 TCGA-AK-3428 TCGA-AK-3430 TCGA-AK-3431 TCGA-AK-3433 TCGA-AK-3434 
      117.80        73.08        15.78        73.68       112.08        68.61 
TCGA-AK-3440 TCGA-AK-3443 TCGA-AK-3444 TCGA-AK-3447 TCGA-AK-3450 TCGA-AK-3451 
       94.19        46.78        48.36        40.01        49.28        94.29 
TCGA-AK-3454 TCGA-AK-3455 TCGA-AK-3456 TCGA-AK-3458 TCGA-AK-3460 TCGA-AK-3461 
       28.73        22.45        37.58        38.40        82.45        72.89 
TCGA-AK-3465 TCGA-AS-3777 TCGA-AS-3778 TCGA-B0-4688 TCGA-B0-4690 TCGA-B0-4691 
       12.13        40.70         1.41         3.32         1.41         4.57 
TCGA-B0-4693 TCGA-B0-4694 TCGA-B0-4696 TCGA-B0-4697 TCGA-B0-4698 TCGA-B0-4699 
        2.53         3.48        28.47        19.00         1.38         3.62 
TCGA-B0-4700 TCGA-B0-4701 TCGA-B0-4703 TCGA-B0-4706 TCGA-B0-4707 TCGA-B0-4710 
       65.10         7.82         5.98         2.14        19.73        57.70 
TCGA-B0-4712 TCGA-B0-4713 TCGA-B0-4714 TCGA-B0-4718 TCGA-B0-4810 TCGA-B0-4811 
       43.96         6.64         3.25        58.45        15.72        46.59 
TCGA-B0-4813 TCGA-B0-4814 TCGA-B0-4815 TCGA-B0-4816 TCGA-B0-4817 TCGA-B0-4818 
        0.59         5.52        52.21        45.07        33.50        16.77 
TCGA-B0-4819 TCGA-B0-4821 TCGA-B0-4822 TCGA-B0-4823 TCGA-B0-4824 TCGA-B0-4827 
        6.02        40.44        36.53        14.93        54.48        29.10 
TCGA-B0-4828 TCGA-B0-4833 TCGA-B0-4834 TCGA-B0-4836 TCGA-B0-4837 TCGA-B0-4838 
       10.09        78.44        68.71        40.70        45.30        27.42 
TCGA-B0-4839 TCGA-B0-4841 TCGA-B0-4842 TCGA-B0-4843 TCGA-B0-4844 TCGA-B0-4845 
       53.88         6.71        56.68        10.52        10.29        65.29 
TCGA-B0-4846 TCGA-B0-4847 TCGA-B0-4848 TCGA-B0-4849 TCGA-B0-4852 TCGA-B0-4945 
       39.45        26.07        29.03         2.27        36.85        70.52 
TCGA-B0-5075 TCGA-B0-5077 TCGA-B0-5080 TCGA-B0-5081 TCGA-B0-5084 TCGA-B0-5085 
       20.94        43.30        11.24        11.90         7.30        25.32 
TCGA-B0-5088 TCGA-B0-5092 TCGA-B0-5094 TCGA-B0-5095 TCGA-B0-5096 TCGA-B0-5097 
       18.51        15.09        10.95         8.05         2.24        21.86 
TCGA-B0-5098 TCGA-B0-5099 TCGA-B0-5100 TCGA-B0-5102 TCGA-B0-5104 TCGA-B0-5106 
       52.08        15.95        62.89        90.87        90.48        52.54 
TCGA-B0-5107 TCGA-B0-5108 TCGA-B0-5110 TCGA-B0-5113 TCGA-B0-5115 TCGA-B0-5116 
       30.48        58.59        66.05        38.63        52.73        41.88 
TCGA-B0-5117 TCGA-B0-5119 TCGA-B0-5120 TCGA-B0-5121 TCGA-B0-5399 TCGA-B0-5400 
       52.87        51.02        38.43        48.82        46.39        56.98 
TCGA-B0-5402 TCGA-B0-5690 TCGA-B0-5691 TCGA-B0-5692 TCGA-B0-5693 TCGA-B0-5694 
       42.41       111.52       112.80       129.67       133.94        15.78 
TCGA-B0-5695 TCGA-B0-5696 TCGA-B0-5697 TCGA-B0-5698 TCGA-B0-5699 TCGA-B0-5701 
       70.68        85.78        86.47       119.38       126.28        80.91 
TCGA-B0-5702 TCGA-B0-5703 TCGA-B0-5705 TCGA-B0-5706 TCGA-B0-5709 TCGA-B0-5710 
       71.41        73.84       149.16       105.37       130.65        79.89 
TCGA-B0-5711 TCGA-B0-5712 TCGA-B0-5713 TCGA-B0-5812 TCGA-B2-3923 TCGA-B2-3924 
      131.15        89.49        91.46       126.05        32.61        35.90 
TCGA-B2-4098 TCGA-B2-4099 TCGA-B2-4101 TCGA-B2-4102 TCGA-B2-5633 TCGA-B2-5635 
        1.68        31.96        21.30        31.30        31.66        24.82 
TCGA-B2-5639 TCGA-B2-5641 TCGA-B2-A4SR TCGA-B4-5377 TCGA-B4-5378 TCGA-B4-5832 
       32.98        21.57        16.67        12.00         5.75         5.10 
TCGA-B4-5834 TCGA-B4-5835 TCGA-B4-5836 TCGA-B4-5838 TCGA-B4-5843 TCGA-B4-5844 
        0.85         0.53         4.64         5.46         0.36         0.23 
TCGA-B8-4143 TCGA-B8-4146 TCGA-B8-4148 TCGA-B8-4151 TCGA-B8-4153 TCGA-B8-4154 
       23.31        16.80        27.16        42.71        25.05        45.37 
TCGA-B8-4619 TCGA-B8-4620 TCGA-B8-4621 TCGA-B8-4622 TCGA-B8-5158 TCGA-B8-5159 
       17.19        25.55        25.91        50.14        20.91        23.74 
TCGA-B8-5162 TCGA-B8-5163 TCGA-B8-5164 TCGA-B8-5165 TCGA-B8-5545 TCGA-B8-5546 
        1.18        27.02         0.85        24.23        50.14        16.60 
TCGA-B8-5549 TCGA-B8-5550 TCGA-B8-5551 TCGA-B8-5552 TCGA-B8-5553 TCGA-B8-A54D 
        6.38        48.53         0.53        34.39        14.30        27.29 
TCGA-B8-A54E TCGA-B8-A54F TCGA-B8-A54G TCGA-B8-A54H TCGA-B8-A54I TCGA-B8-A54J 
       29.88        17.06         1.74         8.42         4.93        17.36 
TCGA-B8-A54K TCGA-B8-A7U6 TCGA-B8-A8YJ TCGA-BP-4158 TCGA-BP-4159 TCGA-BP-4160 
       15.42        16.27        14.17       111.02        85.51        94.72 
TCGA-BP-4161 TCGA-BP-4163 TCGA-BP-4164 TCGA-BP-4165 TCGA-BP-4166 TCGA-BP-4167 
       90.28        93.34        32.61        99.85         0.43        89.36 
TCGA-BP-4169 TCGA-BP-4170 TCGA-BP-4173 TCGA-BP-4176 TCGA-BP-4177 TCGA-BP-4325 
       23.05        77.03        62.24        64.27        54.90        97.45 
TCGA-BP-4326 TCGA-BP-4327 TCGA-BP-4329 TCGA-BP-4330 TCGA-BP-4331 TCGA-BP-4332 
       53.42         3.58        27.78        62.07        80.68        37.25 
TCGA-BP-4334 TCGA-BP-4335 TCGA-BP-4340 TCGA-BP-4341 TCGA-BP-4342 TCGA-BP-4344 
       21.21        15.16        18.48        52.24        74.17        54.77 
TCGA-BP-4347 TCGA-BP-4349 TCGA-BP-4351 TCGA-BP-4353 TCGA-BP-4354 TCGA-BP-4355 
       44.94        12.23        31.89        12.33        33.99        31.33 
TCGA-BP-4758 TCGA-BP-4759 TCGA-BP-4760 TCGA-BP-4761 TCGA-BP-4762 TCGA-BP-4763 
       72.59        77.98        77.62         5.98        44.15        41.75 
TCGA-BP-4765 TCGA-BP-4766 TCGA-BP-4768 TCGA-BP-4769 TCGA-BP-4771 TCGA-BP-4774 
       71.80        48.07        13.15        61.68         5.33        61.97 
TCGA-BP-4775 TCGA-BP-4776 TCGA-BP-4777 TCGA-BP-4781 TCGA-BP-4782 TCGA-BP-4784 
       60.59        13.51        56.91        68.38        11.64        60.95 
TCGA-BP-4787 TCGA-BP-4789 TCGA-BP-4790 TCGA-BP-4795 TCGA-BP-4797 TCGA-BP-4798 
       15.78        48.95        36.53        20.38        36.39        10.98 
TCGA-BP-4801 TCGA-BP-4803 TCGA-BP-4804 TCGA-BP-4807 TCGA-BP-4959 TCGA-BP-4960 
       36.95         6.71        47.97         6.94        87.45        71.41 
TCGA-BP-4961 TCGA-BP-4962 TCGA-BP-4963 TCGA-BP-4964 TCGA-BP-4965 TCGA-BP-4967 
       63.62        58.68        60.30        61.22        61.51         6.74 
TCGA-BP-4968 TCGA-BP-4970 TCGA-BP-4971 TCGA-BP-4972 TCGA-BP-4973 TCGA-BP-4974 
       57.40        14.24        48.89        49.38        45.50         6.90 
TCGA-BP-4975 TCGA-BP-4976 TCGA-BP-4977 TCGA-BP-4981 TCGA-BP-4982 TCGA-BP-4983 
       47.11        53.65        14.93        36.07        33.34        46.45 
TCGA-BP-4985 TCGA-BP-4986 TCGA-BP-4987 TCGA-BP-4988 TCGA-BP-4991 TCGA-BP-4992 
       31.30        25.81        36.95        27.22        46.45        16.47 
TCGA-BP-4993 TCGA-BP-4994 TCGA-BP-4995 TCGA-BP-4998 TCGA-BP-4999 TCGA-BP-5000 
        5.82        43.00        45.07        30.64        41.62        18.51 
TCGA-BP-5001 TCGA-BP-5004 TCGA-BP-5006 TCGA-BP-5007 TCGA-BP-5008 TCGA-BP-5009 
       38.70        37.02        27.62        37.48        35.21        36.23 
TCGA-BP-5010 TCGA-BP-5168 TCGA-BP-5169 TCGA-BP-5170 TCGA-BP-5173 TCGA-BP-5174 
       28.87        48.10         6.35        79.30         1.74        74.20 
TCGA-BP-5175 TCGA-BP-5176 TCGA-BP-5177 TCGA-BP-5178 TCGA-BP-5180 TCGA-BP-5181 
       30.64        52.27         9.63        62.86        74.40        49.15 
TCGA-BP-5182 TCGA-BP-5183 TCGA-BP-5184 TCGA-BP-5185 TCGA-BP-5186 TCGA-BP-5187 
       38.30        42.44        37.25        37.22        22.78        13.35 
TCGA-BP-5189 TCGA-BP-5190 TCGA-BP-5191 TCGA-BP-5192 TCGA-BP-5194 TCGA-BP-5195 
       27.02        33.24        31.79        23.47        13.41        24.62 
TCGA-BP-5196 TCGA-BP-5198 TCGA-BP-5199 TCGA-BP-5200 TCGA-BP-5201 TCGA-BP-5202 
       33.47        19.82        44.55        34.95        31.27         0.95 
TCGA-CJ-4634 TCGA-CJ-4635 TCGA-CJ-4636 TCGA-CJ-4637 TCGA-CJ-4638 TCGA-CJ-4639 
      115.00        46.55        63.25        73.22        14.17       106.16 
TCGA-CJ-4640 TCGA-CJ-4641 TCGA-CJ-4643 TCGA-CJ-4868 TCGA-CJ-4869 TCGA-CJ-4870 
      114.41        54.61        58.95        21.24        83.97        49.25 
TCGA-CJ-4871 TCGA-CJ-4872 TCGA-CJ-4873 TCGA-CJ-4874 TCGA-CJ-4875 TCGA-CJ-4876 
       79.66        10.72        74.27        75.06       116.84        64.27 
TCGA-CJ-4878 TCGA-CJ-4881 TCGA-CJ-4882 TCGA-CJ-4884 TCGA-CJ-4886 TCGA-CJ-4887 
       71.87        66.21        61.91        57.83        64.18        30.64 
TCGA-CJ-4888 TCGA-CJ-4889 TCGA-CJ-4890 TCGA-CJ-4891 TCGA-CJ-4892 TCGA-CJ-4893 
       51.52        63.98       115.69        26.93        50.01        24.66 
TCGA-CJ-4894 TCGA-CJ-4895 TCGA-CJ-4897 TCGA-CJ-4900 TCGA-CJ-4901 TCGA-CJ-4902 
       27.65        39.45       109.84        56.35        47.67        49.97 
TCGA-CJ-4903 TCGA-CJ-4904 TCGA-CJ-4905 TCGA-CJ-4907 TCGA-CJ-4908 TCGA-CJ-4912 
       51.25       108.56        49.18        49.28        50.33        54.48 
TCGA-CJ-4913 TCGA-CJ-4916 TCGA-CJ-4918 TCGA-CJ-4920 TCGA-CJ-4923 TCGA-CJ-5671 
       38.56        45.14         3.06         4.57        18.81       131.08 
TCGA-CJ-5672 TCGA-CJ-5675 TCGA-CJ-5676 TCGA-CJ-5677 TCGA-CJ-5678 TCGA-CJ-5679 
       72.00       129.40       133.71        25.71        18.87        22.32 
TCGA-CJ-5680 TCGA-CJ-5682 TCGA-CJ-5683 TCGA-CJ-5684 TCGA-CJ-5686 TCGA-CJ-5689 
       25.25       122.83        62.10        73.35        67.00        53.26 
TCGA-CJ-6027 TCGA-CJ-6028 TCGA-CJ-6030 TCGA-CJ-6031 TCGA-CJ-6032 TCGA-CJ-6033 
      118.85        53.42        75.58        62.66       119.64         7.36 
TCGA-CW-5580 TCGA-CW-5581 TCGA-CW-5583 TCGA-CW-5584 TCGA-CW-5585 TCGA-CW-5587 
       64.57        92.02        81.83         5.39        85.78        73.18 
TCGA-CW-5588 TCGA-CW-5589 TCGA-CW-6087 TCGA-CW-6088 TCGA-CW-6090 TCGA-CW-6093 
       66.31        78.18         1.35       105.93        83.90       103.43 
TCGA-CW-6097 TCGA-CZ-4853 TCGA-CZ-4856 TCGA-CZ-4857 TCGA-CZ-4858 TCGA-CZ-4859 
       18.77        25.45         0.59        47.08        69.21        58.75 
TCGA-CZ-4860 TCGA-CZ-4861 TCGA-CZ-4862 TCGA-CZ-4863 TCGA-CZ-4864 TCGA-CZ-4865 
        6.77        14.66       107.54        63.39        93.04         5.46 
TCGA-CZ-4866 TCGA-CZ-5451 TCGA-CZ-5452 TCGA-CZ-5453 TCGA-CZ-5454 TCGA-CZ-5455 
       61.41        63.42        58.82        79.53        23.74        18.44 
TCGA-CZ-5457 TCGA-CZ-5458 TCGA-CZ-5459 TCGA-CZ-5460 TCGA-CZ-5461 TCGA-CZ-5462 
       90.54        91.69        55.33        94.45        10.85        10.22 
TCGA-CZ-5463 TCGA-CZ-5465 TCGA-CZ-5466 TCGA-CZ-5467 TCGA-CZ-5469 TCGA-CZ-5470 
       21.76        84.30        22.52         2.40        31.10        12.69 
TCGA-CZ-5982 TCGA-CZ-5984 TCGA-CZ-5985 TCGA-CZ-5986 TCGA-CZ-5987 TCGA-CZ-5988 
       80.19        67.96        65.65        12.26        14.63        22.78 
TCGA-CZ-5989 TCGA-DV-5565 TCGA-DV-5566 TCGA-DV-5567 TCGA-DV-5568 TCGA-DV-5569 
       62.63        13.28        45.96        65.88        12.16        11.67 
TCGA-DV-5573 TCGA-DV-5574 TCGA-DV-5575 TCGA-DV-5576 TCGA-DV-A4VZ TCGA-DV-A4W0 
       37.15        66.28        56.84        23.90        12.00        81.21 
TCGA-EU-5904 TCGA-EU-5906 TCGA-EU-5907 TCGA-G6-A5PC TCGA-G6-A8L6 TCGA-G6-A8L7 
       18.12         6.77         4.18         7.96        10.29        70.13 
TCGA-G6-A8L8 TCGA-GK-A6C7 TCGA-MM-A563 TCGA-MM-A564 TCGA-MM-A84U TCGA-MW-A4EC 
       35.87         2.01        19.43        19.96        23.01        16.37 
TCGA-T7-A92I TCGA-2K-A9WE TCGA-2Z-A9J2 TCGA-2Z-A9J7 TCGA-2Z-A9J8 TCGA-2Z-A9J9 
       11.70         7.04        59.01         4.57        91.73        75.42 
TCGA-2Z-A9JD TCGA-2Z-A9JE TCGA-2Z-A9JG TCGA-2Z-A9JI TCGA-2Z-A9JJ TCGA-2Z-A9JK 
       34.85        56.81        54.64        51.52        39.88        38.99 
TCGA-2Z-A9JL TCGA-2Z-A9JM TCGA-2Z-A9JN TCGA-2Z-A9JO TCGA-2Z-A9JP TCGA-2Z-A9JS 
       33.07        30.71        24.33        31.20        29.36        16.18 
TCGA-2Z-A9JT TCGA-4A-A93W TCGA-4A-A93X TCGA-4A-A93Y TCGA-5P-A9JU TCGA-5P-A9JV 
       22.49         0.13        12.82        11.57        12.26        67.17 
TCGA-5P-A9JW TCGA-5P-A9JZ TCGA-5P-A9K0 TCGA-5P-A9K3 TCGA-5P-A9K4 TCGA-5P-A9K8 
      106.55        90.21        22.26        15.48        71.80        43.04 
TCGA-5P-A9K9 TCGA-5P-A9KA TCGA-5P-A9KC TCGA-5P-A9KE TCGA-5P-A9KH TCGA-A4-7286 
       19.36        12.99        12.39        27.09        67.43        18.21 
TCGA-A4-7287 TCGA-A4-7288 TCGA-A4-7583 TCGA-A4-7584 TCGA-A4-7585 TCGA-A4-7732 
       19.63        61.05         0.10        21.37        35.18        19.13 
TCGA-A4-7734 TCGA-A4-7828 TCGA-A4-7915 TCGA-A4-7996 TCGA-A4-7997 TCGA-A4-8098 
        0.89         7.82         0.23        16.64        30.48        29.46 
TCGA-A4-8310 TCGA-A4-8312 TCGA-A4-8518 TCGA-A4-A48D TCGA-A4-A57E TCGA-A4-A5Y0 
       25.64        23.28        19.73        12.46         8.48         8.28 
TCGA-A4-A5Y1 TCGA-AL-3467 TCGA-AL-3472 TCGA-AL-3473 TCGA-AL-7173 TCGA-AL-A5DJ 
       12.99        70.19        66.71        62.66        67.73        49.25 
TCGA-B1-5398 TCGA-B1-7332 TCGA-B1-A47O TCGA-B1-A654 TCGA-B1-A655 TCGA-B1-A656 
       19.56        37.51        16.87        20.25        16.77        20.32 
TCGA-B3-3925 TCGA-B3-3926 TCGA-B3-4104 TCGA-B3-8121 TCGA-B9-4115 TCGA-B9-4116 
       33.83        10.09        34.49        12.46        26.40        20.61 
TCGA-B9-A44B TCGA-B9-A5W7 TCGA-B9-A5W8 TCGA-B9-A69E TCGA-B9-A8YI TCGA-BQ-5875 
        2.10        19.23        17.23        14.86        12.30        86.76 
TCGA-BQ-5876 TCGA-BQ-5877 TCGA-BQ-5878 TCGA-BQ-5879 TCGA-BQ-5880 TCGA-BQ-5882 
       19.27         8.88        63.72        22.92        43.20        21.63 
TCGA-BQ-5883 TCGA-BQ-5884 TCGA-BQ-5885 TCGA-BQ-5886 TCGA-BQ-5887 TCGA-BQ-5888 
       40.83        26.04        30.28        26.04        25.35        13.25 
TCGA-BQ-5889 TCGA-BQ-5890 TCGA-BQ-5892 TCGA-BQ-5894 TCGA-BQ-7044 TCGA-BQ-7048 
       10.82         7.66        11.97         2.76       123.62        93.34 
TCGA-BQ-7049 TCGA-BQ-7050 TCGA-BQ-7053 TCGA-BQ-7055 TCGA-BQ-7056 TCGA-BQ-7058 
       44.84        61.28        49.84        26.27        20.12        11.28 
TCGA-BQ-7059 TCGA-BQ-7060 TCGA-BQ-7061 TCGA-DW-5560 TCGA-DW-7834 TCGA-DW-7837 
        7.63         7.04         7.17        48.85       129.86        37.55 
TCGA-DW-7838 TCGA-DW-7839 TCGA-DW-7840 TCGA-DW-7842 TCGA-DZ-6131 TCGA-DZ-6132 
       24.46        13.78         3.75         3.02        79.86        80.88 
TCGA-DZ-6134 TCGA-DZ-6135 TCGA-EV-5901 TCGA-EV-5902 TCGA-EV-5903 TCGA-F9-A4JJ 
       61.02        74.60        34.19        19.00        24.89        10.68 
TCGA-F9-A7Q0 TCGA-F9-A97G TCGA-G7-6789 TCGA-G7-6792 TCGA-G7-6793 TCGA-G7-6796 
       13.08         0.43         4.01        90.90        11.05        71.44 
TCGA-G7-6797 TCGA-G7-7501 TCGA-G7-7502 TCGA-G7-A8LC TCGA-G7-A8LD TCGA-G7-A8LE 
       25.15        20.52        25.84        23.08        16.90        80.65 
TCGA-GL-7773 TCGA-GL-7966 TCGA-GL-8500 TCGA-GL-A4EM TCGA-GL-A59R TCGA-GL-A9DC 
       12.92         3.68        27.65         1.05        12.43        12.89 
TCGA-GL-A9DD TCGA-GL-A9DE TCGA-HE-A5NH TCGA-HE-A5NJ TCGA-HE-A5NK TCGA-IA-A40U 
       11.21        16.31        26.01        56.75        73.25        16.80 
TCGA-IA-A40X TCGA-IA-A40Y TCGA-IA-A83S TCGA-IA-A83T TCGA-IA-A83V TCGA-IA-A83W 
       19.99         2.04        85.78        88.24        96.69        67.17 
TCGA-IZ-8195 TCGA-IZ-8196 TCGA-IZ-A6M8 TCGA-IZ-A6M9 TCGA-J7-6720 TCGA-J7-8537 
       22.26        21.34        16.34        12.36        12.76        10.55 
TCGA-MH-A55Z TCGA-MH-A560 TCGA-MH-A561 TCGA-MH-A562 TCGA-MH-A854 TCGA-MH-A855 
       27.78        30.38        27.65        20.25        17.62        12.13 
TCGA-MH-A856 TCGA-MH-A857 TCGA-O9-A75Z TCGA-P4-A5E6 TCGA-P4-A5E8 TCGA-P4-A5EA 
       31.13        29.26        15.48        99.78        42.94         6.61 
TCGA-P4-A5ED TCGA-P4-AAVM TCGA-P4-AAVO TCGA-PJ-A5Z8 TCGA-Q2-A5QZ TCGA-SX-A71R 
       92.58        50.60        78.90        19.73        14.07        47.90 
TCGA-SX-A71S TCGA-SX-A7SL TCGA-SX-A7SM TCGA-SX-A7SO TCGA-SX-A7SU TCGA-UN-AAZ9 
       49.45        27.06        11.93        41.33        43.76        18.02 
TCGA-UZ-A9PJ TCGA-UZ-A9PL TCGA-UZ-A9PM TCGA-UZ-A9PN TCGA-UZ-A9PP TCGA-UZ-A9PQ 
       26.20       103.63       125.29        37.35        98.96        86.27 
TCGA-UZ-A9PR TCGA-UZ-A9PS TCGA-UZ-A9PU TCGA-WN-A9G9 TCGA-WN-AB4C TCGA-Y8-A894 
       86.37        71.24        30.67        26.01        39.06        18.64 
TCGA-Y8-A896 TCGA-Y8-A897 TCGA-Y8-A898 TCGA-Y8-A8RY TCGA-Y8-A8RZ TCGA-Y8-A8S0 
       18.64        18.05        15.62        25.28         3.68         6.02 
TCGA-Y8-A8S1 
       13.28 

  AMP PEAK 10(XP22.2) MUTATED AMP PEAK 10(XP22.2) WILD-TYPE 
                         0.07                          0.10 
  AMP PEAK 10(XP22.2) MUTATED AMP PEAK 10(XP22.2) WILD-TYPE 
                       194.79                        151.96 
  AMP PEAK 10(XP22.2) MUTATED AMP PEAK 10(XP22.2) WILD-TYPE 
                        28.49                         35.87 
[1] "0.1 - 194.8 (28.5)" "0.1 - 152.0 (35.9)"
[1] "hr=" "1.3"
D10V2, continuous
                               vv
clus                            STAGE I STAGE II STAGE III STAGE IV
  AMP PEAK 10(XP22.2) MUTATED        72       15        16       16
  AMP PEAK 10(XP22.2) WILD-TYPE     383       89       175       88
D10V3, multiclass
           clus
vv          AMP PEAK 10(XP22.2) MUTATED AMP PEAK 10(XP22.2) WILD-TYPE
  STAGE I                            72                           383
  STAGE II                           15                            89
  STAGE III                          16                           175
  STAGE IV                           16                            88
[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                             T1  T2  T3  T4
  AMP PEAK 10(XP22.2) MUTATED    75  21  27   3
  AMP PEAK 10(XP22.2) WILD-TYPE 404 106 231  12
D10V4, multiclass
    clus
vv   AMP PEAK 10(XP22.2) MUTATED AMP PEAK 10(XP22.2) WILD-TYPE
  T1                          75                           404
  T2                          21                           106
  T3                          27                           231
  T4                           3                            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"
                               vv
clus                             N0  N1  N2
  AMP PEAK 10(XP22.2) MUTATED    36   6   0
  AMP PEAK 10(XP22.2) WILD-TYPE 286  38   7
D10V5, multiclass
    clus
vv   AMP PEAK 10(XP22.2) MUTATED AMP PEAK 10(XP22.2) WILD-TYPE
  N0                          36                           286
  N1                           6                            38
  N2                           0                             7
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D10V6, binary
                               cls
clus                              0   1
  AMP PEAK 10(XP22.2) MUTATED    51  12
  AMP PEAK 10(XP22.2) WILD-TYPE 494  77
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 10(XP22.2) MUTATED     51   12
  AMP PEAK 10(XP22.2) WILD-TYPE  494   77
   clus
vv  AMP PEAK 10(XP22.2) MUTATED AMP PEAK 10(XP22.2) WILD-TYPE
  0                          51                           494
  1                          12                            77
[1] 2 2
[1] FALSE
D10V7, binary
                               cls
clus                              0   1
  AMP PEAK 10(XP22.2) MUTATED    27  99
  AMP PEAK 10(XP22.2) WILD-TYPE 265 490
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 10(XP22.2) MUTATED     27   99
  AMP PEAK 10(XP22.2) WILD-TYPE  265  490
        clus
vv       AMP PEAK 10(XP22.2) MUTATED AMP PEAK 10(XP22.2) WILD-TYPE
  FEMALE                          27                           265
  MALE                            99                           490
[1] 2 2
[1] FALSE
D10V8, binary
                               cls
clus                              0   1
  AMP PEAK 10(XP22.2) MUTATED    74   0
  AMP PEAK 10(XP22.2) WILD-TYPE 326   3
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 10(XP22.2) MUTATED     74    0
  AMP PEAK 10(XP22.2) WILD-TYPE  326    3
     clus
vv    AMP PEAK 10(XP22.2) MUTATED AMP PEAK 10(XP22.2) WILD-TYPE
  NO                           74                           326
  YES                           0                             3
[1] 2 2
[1] FALSE
D10V9, continuous
                               vv
clus                            KIDNEY CHROMOPHOBE
  AMP PEAK 10(XP22.2) MUTATED                    7
  AMP PEAK 10(XP22.2) WILD-TYPE                 59
                               vv
clus                            KIDNEY CLEAR CELL RENAL CARCINOMA
  AMP PEAK 10(XP22.2) MUTATED                                  31
  AMP PEAK 10(XP22.2) WILD-TYPE                               497
                               vv
clus                            KIDNEY PAPILLARY RENAL CELL CARCINOMA
  AMP PEAK 10(XP22.2) MUTATED                                      88
  AMP PEAK 10(XP22.2) WILD-TYPE                                   199
D10V10, multiclass
                                       clus
vv                                      AMP PEAK 10(XP22.2) MUTATED
  KIDNEY CHROMOPHOBE                                              7
  KIDNEY CLEAR CELL RENAL CARCINOMA                              31
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                          88
                                       clus
vv                                      AMP PEAK 10(XP22.2) WILD-TYPE
  KIDNEY CHROMOPHOBE                                               59
  KIDNEY CLEAR CELL RENAL CARCINOMA                               497
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                           199
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D10V11, continuous
D10V12, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK 10(XP22.2) MUTATED                                  1     3
  AMP PEAK 10(XP22.2) WILD-TYPE                                1    12
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 10(XP22.2) MUTATED                          17    99
  AMP PEAK 10(XP22.2) WILD-TYPE                       104   620
D10V13, multiclass
                                  clus
vv                                 AMP PEAK 10(XP22.2) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           1
  ASIAN                                                      3
  BLACK OR AFRICAN AMERICAN                                 17
  WHITE                                                     99
                                  clus
vv                                 AMP PEAK 10(XP22.2) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             1
  ASIAN                                                       12
  BLACK OR AFRICAN AMERICAN                                  104
  WHITE                                                      620
[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"
D10V14, binary
                               cls
clus                              0   1
  AMP PEAK 10(XP22.2) MUTATED     5  94
  AMP PEAK 10(XP22.2) WILD-TYPE  37 527
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 10(XP22.2) MUTATED      5   94
  AMP PEAK 10(XP22.2) WILD-TYPE   37  527
                        clus
vv                       AMP PEAK 10(XP22.2) MUTATED
  HISPANIC OR LATINO                               5
  NOT HISPANIC OR LATINO                          94
                        clus
vv                       AMP PEAK 10(XP22.2) WILD-TYPE
  HISPANIC OR LATINO                                37
  NOT HISPANIC OR LATINO                           527
[1] 2 2
[1] FALSE

Clustering(11) Variable = AMP PEAK 11(XP11.4) MUTATION ANALYSIS
D11V1, survival
                               sevent
clus2                             0   1
  AMP PEAK 11(XP11.4) MUTATED   105  26
  AMP PEAK 11(XP11.4) WILD-TYPE 540 202
  AMP PEAK 11(XP11.4) MUTATED AMP PEAK 11(XP11.4) WILD-TYPE 
                          131                           742 
  AMP PEAK 11(XP11.4) MUTATED AMP PEAK 11(XP11.4) WILD-TYPE 
                           26                           202 
$`AMP PEAK 11(XP11.4) MUTATED`
TCGA-KL-8346 TCGA-KN-8419 TCGA-KN-8423 TCGA-KN-8426 TCGA-KN-8433 TCGA-KO-8410 
       62.37        23.47        25.91         3.55        11.21       103.10 
TCGA-KO-8413 TCGA-A3-3325 TCGA-A3-3382 TCGA-AK-3429 TCGA-AK-3436 TCGA-AK-3445 
       99.88        38.47        18.87       109.41       109.51        78.64 
TCGA-AK-3453 TCGA-B0-4696 TCGA-B0-5109 TCGA-B8-A54I TCGA-BP-4162 TCGA-BP-4174 
       83.21        28.47        19.30         4.93       101.06        61.78 
TCGA-BP-4337 TCGA-BP-4338 TCGA-BP-4352 TCGA-BP-4756 TCGA-BP-4770 TCGA-BP-4799 
        0.07        93.99        11.31        12.30        10.82        37.25 
TCGA-BP-4969 TCGA-BP-4989 TCGA-BP-5178 TCGA-BP-5199 TCGA-CJ-4644 TCGA-CJ-4885 
       58.98         3.88        62.86        44.55        11.05       113.46 
TCGA-CJ-4899 TCGA-CJ-4902 TCGA-CJ-5681 TCGA-CW-5591 TCGA-CZ-4854 TCGA-CZ-5456 
       50.24        49.97        18.15        74.66        46.16        79.63 
TCGA-CZ-5464 TCGA-CZ-5468 TCGA-DV-A4VX TCGA-EU-5905 TCGA-2Z-A9J1 TCGA-2Z-A9J3 
       69.96         1.94        53.46         3.91        75.55        58.22 
TCGA-2Z-A9J5 TCGA-2Z-A9J6 TCGA-2Z-A9JQ TCGA-2Z-A9JR TCGA-2Z-A9JS TCGA-5P-A9JY 
      100.27        56.91        25.58         5.29        16.18        49.58 
TCGA-5P-A9K0 TCGA-5P-A9K2 TCGA-A4-7732 TCGA-A4-8311 TCGA-A4-8515 TCGA-A4-8516 
       22.26        78.64        19.13        23.97        23.31         0.76 
TCGA-A4-8517 TCGA-A4-8630 TCGA-A4-A48D TCGA-A4-A4ZT TCGA-A4-A5DU TCGA-A4-A5XZ 
       19.63        14.33        12.46        16.96        16.31        15.75 
TCGA-A4-A6HP TCGA-AL-3466 TCGA-AL-3468 TCGA-AL-3471 TCGA-AT-A5NU TCGA-B1-A47M 
       12.46         9.63        76.64        49.32         2.20        21.67 
TCGA-B1-A47N TCGA-B1-A657 TCGA-B3-4103 TCGA-B3-A6W5 TCGA-B9-4113 TCGA-B9-4114 
       24.56        21.07        30.58        10.16        50.50        28.18 
TCGA-B9-4117 TCGA-B9-4617 TCGA-B9-5155 TCGA-B9-5156 TCGA-B9-7268 TCGA-B9-A5W9 
        0.46         1.15        15.12        43.99        22.06         0.16 
TCGA-B9-A8YH TCGA-BQ-5881 TCGA-BQ-5891 TCGA-BQ-5893 TCGA-BQ-7045 TCGA-BQ-7046 
       17.49        47.80         0.95         7.92        48.26        96.92 
TCGA-BQ-7051 TCGA-BQ-7062 TCGA-DW-5561 TCGA-DW-7836 TCGA-DW-7841 TCGA-DW-7963 
       50.40         3.81        13.61        35.93        14.63        40.77 
TCGA-DZ-6133 TCGA-F9-A7VF TCGA-F9-A8NY TCGA-G7-6790 TCGA-G7-6795 TCGA-G7-A4TM 
       51.19         2.40         1.18        51.78        39.25         6.38 
TCGA-G7-A8LB TCGA-GL-6846 TCGA-GL-A59T TCGA-HE-A5NF TCGA-HE-A5NI TCGA-HE-A5NJ 
       17.98       194.79        17.95        84.89        11.84        56.75 
TCGA-HE-A5NL TCGA-KV-A6GD TCGA-KV-A6GE TCGA-KV-A74V TCGA-MH-A55W TCGA-MH-A55Z 
       25.22        18.41        29.10        11.41        34.29        27.78 
TCGA-MH-A562 TCGA-P4-A5E7 TCGA-P4-A5EB TCGA-P4-AAVK TCGA-P4-AAVL TCGA-PJ-A5Z9 
       20.25        87.09        99.12        52.27        16.01        17.75 
TCGA-SX-A71U TCGA-SX-A71V TCGA-SX-A7SN TCGA-SX-A7SP TCGA-SX-A7SQ TCGA-SX-A7SR 
       44.61        28.80        19.00        16.31        41.62        26.47 
TCGA-SX-A7SS TCGA-UZ-A9PK TCGA-UZ-A9PO TCGA-UZ-A9PU TCGA-UZ-A9PV TCGA-UZ-A9PX 
       53.10       117.40        62.83        30.67        47.47        65.13 
TCGA-UZ-A9PZ TCGA-UZ-A9Q0 TCGA-UZ-A9Q1 TCGA-V9-A7HT TCGA-Y8-A895 
       21.60       110.73        51.35        31.73        15.91 

$`AMP PEAK 11(XP11.4) WILD-TYPE`
TCGA-KL-8323 TCGA-KL-8324 TCGA-KL-8325 TCGA-KL-8326 TCGA-KL-8327 TCGA-KL-8328 
       38.07       141.73        23.84       109.22       137.06       102.81 
TCGA-KL-8329 TCGA-KL-8330 TCGA-KL-8331 TCGA-KL-8332 TCGA-KL-8333 TCGA-KL-8334 
       90.48       108.62        98.96        84.89        98.33        96.95 
TCGA-KL-8335 TCGA-KL-8336 TCGA-KL-8337 TCGA-KL-8338 TCGA-KL-8339 TCGA-KL-8340 
       92.55        30.25        44.84        86.56        28.11        66.54 
TCGA-KL-8341 TCGA-KL-8342 TCGA-KL-8343 TCGA-KL-8344 TCGA-KL-8345 TCGA-KM-8438 
       24.79        73.91        71.41        28.80        54.74       151.96 
TCGA-KM-8439 TCGA-KM-8440 TCGA-KM-8441 TCGA-KM-8442 TCGA-KM-8443 TCGA-KM-8476 
       23.28        44.91        28.80        47.24        49.97       123.12 
TCGA-KM-8477 TCGA-KM-8639 TCGA-KN-8418 TCGA-KN-8421 TCGA-KN-8422 TCGA-KN-8424 
       51.06        31.33       129.37        87.91        25.48        65.19 
TCGA-KN-8425 TCGA-KN-8427 TCGA-KN-8428 TCGA-KN-8429 TCGA-KN-8431 TCGA-KN-8432 
      104.52         0.99        52.27        87.12        19.33         2.50 
TCGA-KN-8434 TCGA-KN-8435 TCGA-KN-8436 TCGA-KN-8437 TCGA-KO-8403 TCGA-KO-8404 
       59.08       115.00        42.35       100.87       105.47        10.68 
TCGA-KO-8405 TCGA-KO-8406 TCGA-KO-8407 TCGA-KO-8408 TCGA-KO-8409 TCGA-KO-8411 
      100.47       103.40        92.71        16.67       104.55       130.13 
TCGA-KO-8414 TCGA-KO-8415 TCGA-KO-8416 TCGA-KO-8417 TCGA-3Z-A93Z TCGA-6D-AA2E 
      105.60        96.62        90.48        92.55        12.66        11.90 
TCGA-A3-3306 TCGA-A3-3307 TCGA-A3-3308 TCGA-A3-3311 TCGA-A3-3313 TCGA-A3-3316 
       36.82        47.21         0.53        39.16        24.16        49.08 
TCGA-A3-3317 TCGA-A3-3319 TCGA-A3-3320 TCGA-A3-3322 TCGA-A3-3323 TCGA-A3-3324 
       49.02        37.15        49.58        48.59        36.36        38.99 
TCGA-A3-3326 TCGA-A3-3331 TCGA-A3-3335 TCGA-A3-3336 TCGA-A3-3343 TCGA-A3-3346 
       37.38        48.82        62.01        34.29        31.07         4.50 
TCGA-A3-3347 TCGA-A3-3349 TCGA-A3-3351 TCGA-A3-3352 TCGA-A3-3357 TCGA-A3-3358 
       52.93        45.53        29.92        18.44        88.37        42.97 
TCGA-A3-3359 TCGA-A3-3362 TCGA-A3-3363 TCGA-A3-3365 TCGA-A3-3367 TCGA-A3-3370 
       82.32        51.25        10.49        28.70        74.63        74.76 
TCGA-A3-3372 TCGA-A3-3373 TCGA-A3-3374 TCGA-A3-3376 TCGA-A3-3378 TCGA-A3-3380 
       24.16        53.29        43.20        55.76        20.71        18.64 
TCGA-A3-3383 TCGA-A3-3385 TCGA-A3-3387 TCGA-A3-A6NI TCGA-A3-A6NJ TCGA-A3-A6NL 
       28.31        65.52        20.28        33.47        15.39        22.65 
TCGA-A3-A6NN TCGA-A3-A8CQ TCGA-A3-A8OV TCGA-A3-A8OW TCGA-AK-3425 TCGA-AK-3426 
        0.10         0.10        11.18        10.62       109.91        29.10 
TCGA-AK-3427 TCGA-AK-3428 TCGA-AK-3430 TCGA-AK-3431 TCGA-AK-3433 TCGA-AK-3434 
      117.80        73.08        15.78        73.68       112.08        68.61 
TCGA-AK-3440 TCGA-AK-3443 TCGA-AK-3444 TCGA-AK-3447 TCGA-AK-3450 TCGA-AK-3451 
       94.19        46.78        48.36        40.01        49.28        94.29 
TCGA-AK-3454 TCGA-AK-3455 TCGA-AK-3456 TCGA-AK-3458 TCGA-AK-3460 TCGA-AK-3461 
       28.73        22.45        37.58        38.40        82.45        72.89 
TCGA-AK-3465 TCGA-AS-3777 TCGA-AS-3778 TCGA-B0-4688 TCGA-B0-4690 TCGA-B0-4691 
       12.13        40.70         1.41         3.32         1.41         4.57 
TCGA-B0-4693 TCGA-B0-4694 TCGA-B0-4697 TCGA-B0-4698 TCGA-B0-4699 TCGA-B0-4700 
        2.53         3.48        19.00         1.38         3.62        65.10 
TCGA-B0-4701 TCGA-B0-4703 TCGA-B0-4706 TCGA-B0-4707 TCGA-B0-4710 TCGA-B0-4712 
        7.82         5.98         2.14        19.73        57.70        43.96 
TCGA-B0-4713 TCGA-B0-4714 TCGA-B0-4718 TCGA-B0-4810 TCGA-B0-4811 TCGA-B0-4813 
        6.64         3.25        58.45        15.72        46.59         0.59 
TCGA-B0-4814 TCGA-B0-4815 TCGA-B0-4816 TCGA-B0-4817 TCGA-B0-4818 TCGA-B0-4819 
        5.52        52.21        45.07        33.50        16.77         6.02 
TCGA-B0-4821 TCGA-B0-4822 TCGA-B0-4823 TCGA-B0-4824 TCGA-B0-4827 TCGA-B0-4828 
       40.44        36.53        14.93        54.48        29.10        10.09 
TCGA-B0-4833 TCGA-B0-4834 TCGA-B0-4836 TCGA-B0-4837 TCGA-B0-4838 TCGA-B0-4839 
       78.44        68.71        40.70        45.30        27.42        53.88 
TCGA-B0-4841 TCGA-B0-4842 TCGA-B0-4843 TCGA-B0-4844 TCGA-B0-4845 TCGA-B0-4846 
        6.71        56.68        10.52        10.29        65.29        39.45 
TCGA-B0-4847 TCGA-B0-4848 TCGA-B0-4849 TCGA-B0-4852 TCGA-B0-4945 TCGA-B0-5075 
       26.07        29.03         2.27        36.85        70.52        20.94 
TCGA-B0-5077 TCGA-B0-5080 TCGA-B0-5081 TCGA-B0-5084 TCGA-B0-5085 TCGA-B0-5088 
       43.30        11.24        11.90         7.30        25.32        18.51 
TCGA-B0-5092 TCGA-B0-5094 TCGA-B0-5095 TCGA-B0-5096 TCGA-B0-5097 TCGA-B0-5098 
       15.09        10.95         8.05         2.24        21.86        52.08 
TCGA-B0-5099 TCGA-B0-5100 TCGA-B0-5102 TCGA-B0-5104 TCGA-B0-5106 TCGA-B0-5107 
       15.95        62.89        90.87        90.48        52.54        30.48 
TCGA-B0-5108 TCGA-B0-5110 TCGA-B0-5113 TCGA-B0-5115 TCGA-B0-5116 TCGA-B0-5117 
       58.59        66.05        38.63        52.73        41.88        52.87 
TCGA-B0-5119 TCGA-B0-5120 TCGA-B0-5121 TCGA-B0-5399 TCGA-B0-5400 TCGA-B0-5402 
       51.02        38.43        48.82        46.39        56.98        42.41 
TCGA-B0-5690 TCGA-B0-5691 TCGA-B0-5692 TCGA-B0-5693 TCGA-B0-5694 TCGA-B0-5695 
      111.52       112.80       129.67       133.94        15.78        70.68 
TCGA-B0-5696 TCGA-B0-5697 TCGA-B0-5698 TCGA-B0-5699 TCGA-B0-5701 TCGA-B0-5702 
       85.78        86.47       119.38       126.28        80.91        71.41 
TCGA-B0-5703 TCGA-B0-5705 TCGA-B0-5706 TCGA-B0-5709 TCGA-B0-5710 TCGA-B0-5711 
       73.84       149.16       105.37       130.65        79.89       131.15 
TCGA-B0-5712 TCGA-B0-5713 TCGA-B0-5812 TCGA-B2-3923 TCGA-B2-3924 TCGA-B2-4098 
       89.49        91.46       126.05        32.61        35.90         1.68 
TCGA-B2-4099 TCGA-B2-4101 TCGA-B2-4102 TCGA-B2-5633 TCGA-B2-5635 TCGA-B2-5639 
       31.96        21.30        31.30        31.66        24.82        32.98 
TCGA-B2-5641 TCGA-B2-A4SR TCGA-B4-5377 TCGA-B4-5378 TCGA-B4-5832 TCGA-B4-5834 
       21.57        16.67        12.00         5.75         5.10         0.85 
TCGA-B4-5835 TCGA-B4-5836 TCGA-B4-5838 TCGA-B4-5843 TCGA-B4-5844 TCGA-B8-4143 
        0.53         4.64         5.46         0.36         0.23        23.31 
TCGA-B8-4146 TCGA-B8-4148 TCGA-B8-4151 TCGA-B8-4153 TCGA-B8-4154 TCGA-B8-4619 
       16.80        27.16        42.71        25.05        45.37        17.19 
TCGA-B8-4620 TCGA-B8-4621 TCGA-B8-4622 TCGA-B8-5158 TCGA-B8-5159 TCGA-B8-5162 
       25.55        25.91        50.14        20.91        23.74         1.18 
TCGA-B8-5163 TCGA-B8-5164 TCGA-B8-5165 TCGA-B8-5545 TCGA-B8-5546 TCGA-B8-5549 
       27.02         0.85        24.23        50.14        16.60         6.38 
TCGA-B8-5550 TCGA-B8-5551 TCGA-B8-5552 TCGA-B8-5553 TCGA-B8-A54D TCGA-B8-A54E 
       48.53         0.53        34.39        14.30        27.29        29.88 
TCGA-B8-A54F TCGA-B8-A54G TCGA-B8-A54H TCGA-B8-A54J TCGA-B8-A54K TCGA-B8-A7U6 
       17.06         1.74         8.42        17.36        15.42        16.27 
TCGA-B8-A8YJ TCGA-BP-4158 TCGA-BP-4159 TCGA-BP-4160 TCGA-BP-4161 TCGA-BP-4163 
       14.17       111.02        85.51        94.72        90.28        93.34 
TCGA-BP-4164 TCGA-BP-4165 TCGA-BP-4166 TCGA-BP-4167 TCGA-BP-4169 TCGA-BP-4170 
       32.61        99.85         0.43        89.36        23.05        77.03 
TCGA-BP-4173 TCGA-BP-4176 TCGA-BP-4177 TCGA-BP-4325 TCGA-BP-4326 TCGA-BP-4327 
       62.24        64.27        54.90        97.45        53.42         3.58 
TCGA-BP-4329 TCGA-BP-4330 TCGA-BP-4331 TCGA-BP-4332 TCGA-BP-4334 TCGA-BP-4335 
       27.78        62.07        80.68        37.25        21.21        15.16 
TCGA-BP-4340 TCGA-BP-4341 TCGA-BP-4342 TCGA-BP-4343 TCGA-BP-4344 TCGA-BP-4346 
       18.48        52.24        74.17        62.86        54.77        49.08 
TCGA-BP-4347 TCGA-BP-4349 TCGA-BP-4351 TCGA-BP-4353 TCGA-BP-4354 TCGA-BP-4355 
       44.94        12.23        31.89        12.33        33.99        31.33 
TCGA-BP-4758 TCGA-BP-4759 TCGA-BP-4760 TCGA-BP-4761 TCGA-BP-4762 TCGA-BP-4763 
       72.59        77.98        77.62         5.98        44.15        41.75 
TCGA-BP-4765 TCGA-BP-4766 TCGA-BP-4768 TCGA-BP-4769 TCGA-BP-4771 TCGA-BP-4774 
       71.80        48.07        13.15        61.68         5.33        61.97 
TCGA-BP-4775 TCGA-BP-4776 TCGA-BP-4777 TCGA-BP-4781 TCGA-BP-4782 TCGA-BP-4784 
       60.59        13.51        56.91        68.38        11.64        60.95 
TCGA-BP-4787 TCGA-BP-4789 TCGA-BP-4790 TCGA-BP-4795 TCGA-BP-4797 TCGA-BP-4798 
       15.78        48.95        36.53        20.38        36.39        10.98 
TCGA-BP-4801 TCGA-BP-4803 TCGA-BP-4804 TCGA-BP-4807 TCGA-BP-4959 TCGA-BP-4960 
       36.95         6.71        47.97         6.94        87.45        71.41 
TCGA-BP-4961 TCGA-BP-4962 TCGA-BP-4963 TCGA-BP-4964 TCGA-BP-4965 TCGA-BP-4967 
       63.62        58.68        60.30        61.22        61.51         6.74 
TCGA-BP-4968 TCGA-BP-4970 TCGA-BP-4971 TCGA-BP-4972 TCGA-BP-4973 TCGA-BP-4974 
       57.40        14.24        48.89        49.38        45.50         6.90 
TCGA-BP-4975 TCGA-BP-4976 TCGA-BP-4977 TCGA-BP-4981 TCGA-BP-4982 TCGA-BP-4983 
       47.11        53.65        14.93        36.07        33.34        46.45 
TCGA-BP-4985 TCGA-BP-4986 TCGA-BP-4987 TCGA-BP-4988 TCGA-BP-4991 TCGA-BP-4992 
       31.30        25.81        36.95        27.22        46.45        16.47 
TCGA-BP-4993 TCGA-BP-4994 TCGA-BP-4995 TCGA-BP-4998 TCGA-BP-4999 TCGA-BP-5000 
        5.82        43.00        45.07        30.64        41.62        18.51 
TCGA-BP-5001 TCGA-BP-5004 TCGA-BP-5006 TCGA-BP-5007 TCGA-BP-5008 TCGA-BP-5009 
       38.70        37.02        27.62        37.48        35.21        36.23 
TCGA-BP-5010 TCGA-BP-5168 TCGA-BP-5169 TCGA-BP-5170 TCGA-BP-5173 TCGA-BP-5174 
       28.87        48.10         6.35        79.30         1.74        74.20 
TCGA-BP-5175 TCGA-BP-5176 TCGA-BP-5177 TCGA-BP-5180 TCGA-BP-5181 TCGA-BP-5182 
       30.64        52.27         9.63        74.40        49.15        38.30 
TCGA-BP-5183 TCGA-BP-5184 TCGA-BP-5185 TCGA-BP-5186 TCGA-BP-5187 TCGA-BP-5189 
       42.44        37.25        37.22        22.78        13.35        27.02 
TCGA-BP-5190 TCGA-BP-5191 TCGA-BP-5192 TCGA-BP-5194 TCGA-BP-5195 TCGA-BP-5196 
       33.24        31.79        23.47        13.41        24.62        33.47 
TCGA-BP-5198 TCGA-BP-5200 TCGA-BP-5201 TCGA-BP-5202 TCGA-CJ-4634 TCGA-CJ-4635 
       19.82        34.95        31.27         0.95       115.00        46.55 
TCGA-CJ-4636 TCGA-CJ-4637 TCGA-CJ-4638 TCGA-CJ-4639 TCGA-CJ-4640 TCGA-CJ-4641 
       63.25        73.22        14.17       106.16       114.41        54.61 
TCGA-CJ-4642 TCGA-CJ-4643 TCGA-CJ-4868 TCGA-CJ-4869 TCGA-CJ-4870 TCGA-CJ-4871 
      105.37        58.95        21.24        83.97        49.25        79.66 
TCGA-CJ-4872 TCGA-CJ-4873 TCGA-CJ-4874 TCGA-CJ-4875 TCGA-CJ-4876 TCGA-CJ-4878 
       10.72        74.27        75.06       116.84        64.27        71.87 
TCGA-CJ-4881 TCGA-CJ-4882 TCGA-CJ-4884 TCGA-CJ-4886 TCGA-CJ-4887 TCGA-CJ-4888 
       66.21        61.91        57.83        64.18        30.64        51.52 
TCGA-CJ-4889 TCGA-CJ-4890 TCGA-CJ-4891 TCGA-CJ-4892 TCGA-CJ-4893 TCGA-CJ-4894 
       63.98       115.69        26.93        50.01        24.66        27.65 
TCGA-CJ-4895 TCGA-CJ-4897 TCGA-CJ-4900 TCGA-CJ-4901 TCGA-CJ-4903 TCGA-CJ-4904 
       39.45       109.84        56.35        47.67        51.25       108.56 
TCGA-CJ-4905 TCGA-CJ-4907 TCGA-CJ-4908 TCGA-CJ-4912 TCGA-CJ-4913 TCGA-CJ-4916 
       49.18        49.28        50.33        54.48        38.56        45.14 
TCGA-CJ-4918 TCGA-CJ-4920 TCGA-CJ-4923 TCGA-CJ-5671 TCGA-CJ-5672 TCGA-CJ-5675 
        3.06         4.57        18.81       131.08        72.00       129.40 
TCGA-CJ-5676 TCGA-CJ-5677 TCGA-CJ-5678 TCGA-CJ-5679 TCGA-CJ-5680 TCGA-CJ-5682 
      133.71        25.71        18.87        22.32        25.25       122.83 
TCGA-CJ-5683 TCGA-CJ-5684 TCGA-CJ-5686 TCGA-CJ-5689 TCGA-CJ-6027 TCGA-CJ-6028 
       62.10        73.35        67.00        53.26       118.85        53.42 
TCGA-CJ-6030 TCGA-CJ-6031 TCGA-CJ-6032 TCGA-CJ-6033 TCGA-CW-5580 TCGA-CW-5581 
       75.58        62.66       119.64         7.36        64.57        92.02 
TCGA-CW-5583 TCGA-CW-5584 TCGA-CW-5585 TCGA-CW-5587 TCGA-CW-5588 TCGA-CW-5589 
       81.83         5.39        85.78        73.18        66.31        78.18 
TCGA-CW-6087 TCGA-CW-6088 TCGA-CW-6090 TCGA-CW-6093 TCGA-CW-6097 TCGA-CZ-4853 
        1.35       105.93        83.90       103.43        18.77        25.45 
TCGA-CZ-4856 TCGA-CZ-4857 TCGA-CZ-4858 TCGA-CZ-4859 TCGA-CZ-4860 TCGA-CZ-4861 
        0.59        47.08        69.21        58.75         6.77        14.66 
TCGA-CZ-4862 TCGA-CZ-4863 TCGA-CZ-4864 TCGA-CZ-4865 TCGA-CZ-4866 TCGA-CZ-5451 
      107.54        63.39        93.04         5.46        61.41        63.42 
TCGA-CZ-5452 TCGA-CZ-5453 TCGA-CZ-5454 TCGA-CZ-5455 TCGA-CZ-5457 TCGA-CZ-5458 
       58.82        79.53        23.74        18.44        90.54        91.69 
TCGA-CZ-5459 TCGA-CZ-5460 TCGA-CZ-5461 TCGA-CZ-5462 TCGA-CZ-5463 TCGA-CZ-5465 
       55.33        94.45        10.85        10.22        21.76        84.30 
TCGA-CZ-5466 TCGA-CZ-5467 TCGA-CZ-5469 TCGA-CZ-5470 TCGA-CZ-5982 TCGA-CZ-5984 
       22.52         2.40        31.10        12.69        80.19        67.96 
TCGA-CZ-5985 TCGA-CZ-5986 TCGA-CZ-5987 TCGA-CZ-5988 TCGA-CZ-5989 TCGA-DV-5565 
       65.65        12.26        14.63        22.78        62.63        13.28 
TCGA-DV-5566 TCGA-DV-5567 TCGA-DV-5568 TCGA-DV-5569 TCGA-DV-5573 TCGA-DV-5574 
       45.96        65.88        12.16        11.67        37.15        66.28 
TCGA-DV-5575 TCGA-DV-5576 TCGA-DV-A4VZ TCGA-DV-A4W0 TCGA-EU-5904 TCGA-EU-5906 
       56.84        23.90        12.00        81.21        18.12         6.77 
TCGA-EU-5907 TCGA-G6-A5PC TCGA-G6-A8L6 TCGA-G6-A8L7 TCGA-G6-A8L8 TCGA-GK-A6C7 
        4.18         7.96        10.29        70.13        35.87         2.01 
TCGA-MM-A563 TCGA-MM-A564 TCGA-MM-A84U TCGA-MW-A4EC TCGA-T7-A92I TCGA-2K-A9WE 
       19.43        19.96        23.01        16.37        11.70         7.04 
TCGA-2Z-A9J2 TCGA-2Z-A9J7 TCGA-2Z-A9J8 TCGA-2Z-A9J9 TCGA-2Z-A9JD TCGA-2Z-A9JE 
       59.01         4.57        91.73        75.42        34.85        56.81 
TCGA-2Z-A9JG TCGA-2Z-A9JI TCGA-2Z-A9JJ TCGA-2Z-A9JK TCGA-2Z-A9JL TCGA-2Z-A9JM 
       54.64        51.52        39.88        38.99        33.07        30.71 
TCGA-2Z-A9JN TCGA-2Z-A9JO TCGA-2Z-A9JP TCGA-2Z-A9JT TCGA-4A-A93W TCGA-4A-A93X 
       24.33        31.20        29.36        22.49         0.13        12.82 
TCGA-4A-A93Y TCGA-5P-A9JU TCGA-5P-A9JV TCGA-5P-A9JW TCGA-5P-A9JZ TCGA-5P-A9K3 
       11.57        12.26        67.17       106.55        90.21        15.48 
TCGA-5P-A9K4 TCGA-5P-A9K6 TCGA-5P-A9K8 TCGA-5P-A9K9 TCGA-5P-A9KA TCGA-5P-A9KC 
       71.80        62.93        43.04        19.36        12.99        12.39 
TCGA-5P-A9KE TCGA-5P-A9KH TCGA-A4-7286 TCGA-A4-7287 TCGA-A4-7288 TCGA-A4-7583 
       27.09        67.43        18.21        19.63        61.05         0.10 
TCGA-A4-7584 TCGA-A4-7585 TCGA-A4-7734 TCGA-A4-7828 TCGA-A4-7915 TCGA-A4-7996 
       21.37        35.18         0.89         7.82         0.23        16.64 
TCGA-A4-7997 TCGA-A4-8098 TCGA-A4-8310 TCGA-A4-8312 TCGA-A4-8518 TCGA-A4-A57E 
       30.48        29.46        25.64        23.28        19.73         8.48 
TCGA-A4-A5Y0 TCGA-A4-A5Y1 TCGA-AL-3467 TCGA-AL-3472 TCGA-AL-3473 TCGA-AL-7173 
        8.28        12.99        70.19        66.71        62.66        67.73 
TCGA-AL-A5DJ TCGA-B1-5398 TCGA-B1-7332 TCGA-B1-A47O TCGA-B1-A654 TCGA-B1-A655 
       49.25        19.56        37.51        16.87        20.25        16.77 
TCGA-B1-A656 TCGA-B3-3925 TCGA-B3-3926 TCGA-B3-4104 TCGA-B3-8121 TCGA-B9-4115 
       20.32        33.83        10.09        34.49        12.46        26.40 
TCGA-B9-4116 TCGA-B9-A44B TCGA-B9-A5W7 TCGA-B9-A5W8 TCGA-B9-A69E TCGA-B9-A8YI 
       20.61         2.10        19.23        17.23        14.86        12.30 
TCGA-BQ-5875 TCGA-BQ-5876 TCGA-BQ-5877 TCGA-BQ-5878 TCGA-BQ-5879 TCGA-BQ-5880 
       86.76        19.27         8.88        63.72        22.92        43.20 
TCGA-BQ-5882 TCGA-BQ-5883 TCGA-BQ-5884 TCGA-BQ-5885 TCGA-BQ-5886 TCGA-BQ-5887 
       21.63        40.83        26.04        30.28        26.04        25.35 
TCGA-BQ-5888 TCGA-BQ-5889 TCGA-BQ-5890 TCGA-BQ-5892 TCGA-BQ-5894 TCGA-BQ-7044 
       13.25        10.82         7.66        11.97         2.76       123.62 
TCGA-BQ-7048 TCGA-BQ-7049 TCGA-BQ-7050 TCGA-BQ-7053 TCGA-BQ-7055 TCGA-BQ-7056 
       93.34        44.84        61.28        49.84        26.27        20.12 
TCGA-BQ-7058 TCGA-BQ-7059 TCGA-BQ-7060 TCGA-BQ-7061 TCGA-DW-5560 TCGA-DW-7834 
       11.28         7.63         7.04         7.17        48.85       129.86 
TCGA-DW-7837 TCGA-DW-7838 TCGA-DW-7839 TCGA-DW-7840 TCGA-DW-7842 TCGA-DZ-6131 
       37.55        24.46        13.78         3.75         3.02        79.86 
TCGA-DZ-6132 TCGA-DZ-6134 TCGA-DZ-6135 TCGA-EV-5901 TCGA-EV-5902 TCGA-EV-5903 
       80.88        61.02        74.60        34.19        19.00        24.89 
TCGA-F9-A4JJ TCGA-F9-A7Q0 TCGA-F9-A97G TCGA-G7-6789 TCGA-G7-6792 TCGA-G7-6793 
       10.68        13.08         0.43         4.01        90.90        11.05 
TCGA-G7-6796 TCGA-G7-6797 TCGA-G7-7501 TCGA-G7-7502 TCGA-G7-A8LC TCGA-G7-A8LD 
       71.44        25.15        20.52        25.84        23.08        16.90 
TCGA-G7-A8LE TCGA-GL-7773 TCGA-GL-7966 TCGA-GL-8500 TCGA-GL-A4EM TCGA-GL-A59R 
       80.65        12.92         3.68        27.65         1.05        12.43 
TCGA-GL-A9DC TCGA-GL-A9DD TCGA-GL-A9DE TCGA-HE-A5NH TCGA-HE-A5NK TCGA-IA-A40U 
       12.89        11.21        16.31        26.01        73.25        16.80 
TCGA-IA-A40X TCGA-IA-A40Y TCGA-IA-A83S TCGA-IA-A83T TCGA-IA-A83V TCGA-IA-A83W 
       19.99         2.04        85.78        88.24        96.69        67.17 
TCGA-IZ-8195 TCGA-IZ-8196 TCGA-IZ-A6M8 TCGA-IZ-A6M9 TCGA-J7-6720 TCGA-J7-8537 
       22.26        21.34        16.34        12.36        12.76        10.55 
TCGA-MH-A560 TCGA-MH-A561 TCGA-MH-A854 TCGA-MH-A855 TCGA-MH-A856 TCGA-MH-A857 
       30.38        27.65        17.62        12.13        31.13        29.26 
TCGA-O9-A75Z TCGA-P4-A5E6 TCGA-P4-A5E8 TCGA-P4-A5EA TCGA-P4-A5ED TCGA-P4-AAVM 
       15.48        99.78        42.94         6.61        92.58        50.60 
TCGA-P4-AAVO TCGA-PJ-A5Z8 TCGA-Q2-A5QZ TCGA-SX-A71R TCGA-SX-A71S TCGA-SX-A7SL 
       78.90        19.73        14.07        47.90        49.45        27.06 
TCGA-SX-A7SM TCGA-SX-A7SO TCGA-SX-A7SU TCGA-UN-AAZ9 TCGA-UZ-A9PJ TCGA-UZ-A9PL 
       11.93        41.33        43.76        18.02        26.20       103.63 
TCGA-UZ-A9PM TCGA-UZ-A9PN TCGA-UZ-A9PP TCGA-UZ-A9PQ TCGA-UZ-A9PR TCGA-UZ-A9PS 
      125.29        37.35        98.96        86.27        86.37        71.24 
TCGA-WN-A9G9 TCGA-WN-AB4C TCGA-Y8-A894 TCGA-Y8-A896 TCGA-Y8-A897 TCGA-Y8-A898 
       26.01        39.06        18.64        18.64        18.05        15.62 
TCGA-Y8-A8RY TCGA-Y8-A8RZ TCGA-Y8-A8S0 TCGA-Y8-A8S1 
       25.28         3.68         6.02        13.28 

  AMP PEAK 11(XP11.4) MUTATED AMP PEAK 11(XP11.4) WILD-TYPE 
                         0.07                          0.10 
  AMP PEAK 11(XP11.4) MUTATED AMP PEAK 11(XP11.4) WILD-TYPE 
                       194.79                        151.96 
  AMP PEAK 11(XP11.4) MUTATED AMP PEAK 11(XP11.4) WILD-TYPE 
                       27.780                        36.295 
[1] "0.1 - 194.8 (27.8)" "0.1 - 152.0 (36.3)"
[1] "hr=" "1.2"
D11V2, continuous
                               vv
clus                            STAGE I STAGE II STAGE III STAGE IV
  AMP PEAK 11(XP11.4) MUTATED        78       15        15       17
  AMP PEAK 11(XP11.4) WILD-TYPE     377       89       176       87
D11V3, multiclass
           clus
vv          AMP PEAK 11(XP11.4) MUTATED AMP PEAK 11(XP11.4) WILD-TYPE
  STAGE I                            78                           377
  STAGE II                           15                            89
  STAGE III                          15                           176
  STAGE IV                           17                            87
[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                             T1  T2  T3  T4
  AMP PEAK 11(XP11.4) MUTATED    82  22  27   3
  AMP PEAK 11(XP11.4) WILD-TYPE 397 105 231  12
D11V4, multiclass
    clus
vv   AMP PEAK 11(XP11.4) MUTATED AMP PEAK 11(XP11.4) WILD-TYPE
  T1                          82                           397
  T2                          22                           105
  T3                          27                           231
  T4                           3                            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"
                               vv
clus                             N0  N1  N2
  AMP PEAK 11(XP11.4) MUTATED    36   6   0
  AMP PEAK 11(XP11.4) WILD-TYPE 286  38   7
D11V5, multiclass
    clus
vv   AMP PEAK 11(XP11.4) MUTATED AMP PEAK 11(XP11.4) WILD-TYPE
  N0                          36                           286
  N1                           6                            38
  N2                           0                             7
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D11V6, binary
                               cls
clus                              0   1
  AMP PEAK 11(XP11.4) MUTATED    51  13
  AMP PEAK 11(XP11.4) WILD-TYPE 494  76
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 11(XP11.4) MUTATED     51   13
  AMP PEAK 11(XP11.4) WILD-TYPE  494   76
   clus
vv  AMP PEAK 11(XP11.4) MUTATED AMP PEAK 11(XP11.4) WILD-TYPE
  0                          51                           494
  1                          13                            76
[1] 2 2
[1] FALSE
D11V7, binary
                               cls
clus                              0   1
  AMP PEAK 11(XP11.4) MUTATED    26 108
  AMP PEAK 11(XP11.4) WILD-TYPE 266 481
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 11(XP11.4) MUTATED     26  108
  AMP PEAK 11(XP11.4) WILD-TYPE  266  481
        clus
vv       AMP PEAK 11(XP11.4) MUTATED AMP PEAK 11(XP11.4) WILD-TYPE
  FEMALE                          26                           266
  MALE                           108                           481
[1] 2 2
[1] FALSE
D11V8, binary
                               cls
clus                              0   1
  AMP PEAK 11(XP11.4) MUTATED    81   0
  AMP PEAK 11(XP11.4) WILD-TYPE 319   3
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 11(XP11.4) MUTATED     81    0
  AMP PEAK 11(XP11.4) WILD-TYPE  319    3
     clus
vv    AMP PEAK 11(XP11.4) MUTATED AMP PEAK 11(XP11.4) WILD-TYPE
  NO                           81                           319
  YES                           0                             3
[1] 2 2
[1] FALSE
D11V9, continuous
                               vv
clus                            KIDNEY CHROMOPHOBE
  AMP PEAK 11(XP11.4) MUTATED                    7
  AMP PEAK 11(XP11.4) WILD-TYPE                 59
                               vv
clus                            KIDNEY CLEAR CELL RENAL CARCINOMA
  AMP PEAK 11(XP11.4) MUTATED                                  33
  AMP PEAK 11(XP11.4) WILD-TYPE                               495
                               vv
clus                            KIDNEY PAPILLARY RENAL CELL CARCINOMA
  AMP PEAK 11(XP11.4) MUTATED                                      94
  AMP PEAK 11(XP11.4) WILD-TYPE                                   193
D11V10, multiclass
                                       clus
vv                                      AMP PEAK 11(XP11.4) MUTATED
  KIDNEY CHROMOPHOBE                                              7
  KIDNEY CLEAR CELL RENAL CARCINOMA                              33
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                          94
                                       clus
vv                                      AMP PEAK 11(XP11.4) WILD-TYPE
  KIDNEY CHROMOPHOBE                                               59
  KIDNEY CLEAR CELL RENAL CARCINOMA                               495
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                           193
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D11V11, continuous
D11V12, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK 11(XP11.4) MUTATED                                  1     3
  AMP PEAK 11(XP11.4) WILD-TYPE                                1    12
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 11(XP11.4) MUTATED                          22   102
  AMP PEAK 11(XP11.4) WILD-TYPE                        99   617
D11V13, multiclass
                                  clus
vv                                 AMP PEAK 11(XP11.4) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           1
  ASIAN                                                      3
  BLACK OR AFRICAN AMERICAN                                 22
  WHITE                                                    102
                                  clus
vv                                 AMP PEAK 11(XP11.4) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             1
  ASIAN                                                       12
  BLACK OR AFRICAN AMERICAN                                   99
  WHITE                                                      617
[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"
D11V14, binary
                               cls
clus                              0   1
  AMP PEAK 11(XP11.4) MUTATED     5 104
  AMP PEAK 11(XP11.4) WILD-TYPE  37 517
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 11(XP11.4) MUTATED      5  104
  AMP PEAK 11(XP11.4) WILD-TYPE   37  517
                        clus
vv                       AMP PEAK 11(XP11.4) MUTATED
  HISPANIC OR LATINO                               5
  NOT HISPANIC OR LATINO                         104
                        clus
vv                       AMP PEAK 11(XP11.4) WILD-TYPE
  HISPANIC OR LATINO                                37
  NOT HISPANIC OR LATINO                           517
[1] 2 2
[1] FALSE

Clustering(12) Variable = AMP PEAK 12(XQ11.2) MUTATION ANALYSIS
D12V1, survival
                               sevent
clus2                             0   1
  AMP PEAK 12(XQ11.2) MUTATED   109  23
  AMP PEAK 12(XQ11.2) WILD-TYPE 536 205
  AMP PEAK 12(XQ11.2) MUTATED AMP PEAK 12(XQ11.2) WILD-TYPE 
                          132                           741 
  AMP PEAK 12(XQ11.2) MUTATED AMP PEAK 12(XQ11.2) WILD-TYPE 
                           23                           205 
$`AMP PEAK 12(XQ11.2) MUTATED`
TCGA-KL-8346 TCGA-KN-8419 TCGA-KN-8423 TCGA-KN-8426 TCGA-KN-8433 TCGA-KO-8410 
       62.37        23.47        25.91         3.55        11.21       103.10 
TCGA-KO-8413 TCGA-A3-3363 TCGA-AK-3429 TCGA-AK-3436 TCGA-AK-3453 TCGA-B0-4696 
       99.88        10.49       109.41       109.51        83.21        28.47 
TCGA-B0-5109 TCGA-B8-A54I TCGA-BP-4162 TCGA-BP-4174 TCGA-BP-4337 TCGA-BP-4338 
       19.30         4.93       101.06        61.78         0.07        93.99 
TCGA-BP-4352 TCGA-BP-4762 TCGA-BP-4769 TCGA-BP-4774 TCGA-BP-4799 TCGA-BP-4969 
       11.31        44.15        61.68        61.97        37.25        58.98 
TCGA-BP-4989 TCGA-BP-5176 TCGA-CJ-4644 TCGA-CJ-4885 TCGA-CJ-4899 TCGA-CW-5591 
        3.88        52.27        11.05       113.46        50.24        74.66 
TCGA-CZ-4854 TCGA-CZ-5456 TCGA-CZ-5458 TCGA-CZ-5464 TCGA-DV-A4VX TCGA-EU-5905 
       46.16        79.63        91.69        69.96        53.46         3.91 
TCGA-2Z-A9J1 TCGA-2Z-A9J3 TCGA-2Z-A9J5 TCGA-2Z-A9J6 TCGA-2Z-A9JQ TCGA-2Z-A9JR 
       75.55        58.22       100.27        56.91        25.58         5.29 
TCGA-2Z-A9JS TCGA-5P-A9JY TCGA-5P-A9K0 TCGA-5P-A9K2 TCGA-5P-A9K4 TCGA-5P-A9K6 
       16.18        49.58        22.26        78.64        71.80        62.93 
TCGA-A4-7732 TCGA-A4-8311 TCGA-A4-8515 TCGA-A4-8516 TCGA-A4-8517 TCGA-A4-8630 
       19.13        23.97        23.31         0.76        19.63        14.33 
TCGA-A4-A48D TCGA-A4-A4ZT TCGA-A4-A5DU TCGA-A4-A5XZ TCGA-A4-A6HP TCGA-AL-3466 
       12.46        16.96        16.31        15.75        12.46         9.63 
TCGA-AL-3468 TCGA-AL-3471 TCGA-AT-A5NU TCGA-B1-A47M TCGA-B1-A47N TCGA-B1-A657 
       76.64        49.32         2.20        21.67        24.56        21.07 
TCGA-B3-4103 TCGA-B3-A6W5 TCGA-B9-4113 TCGA-B9-4114 TCGA-B9-4117 TCGA-B9-4617 
       30.58        10.16        50.50        28.18         0.46         1.15 
TCGA-B9-5155 TCGA-B9-5156 TCGA-B9-7268 TCGA-B9-A44B TCGA-B9-A5W9 TCGA-B9-A8YH 
       15.12        43.99        22.06         2.10         0.16        17.49 
TCGA-BQ-5881 TCGA-BQ-5887 TCGA-BQ-5891 TCGA-BQ-5893 TCGA-BQ-7045 TCGA-BQ-7046 
       47.80        25.35         0.95         7.92        48.26        96.92 
TCGA-BQ-7051 TCGA-BQ-7062 TCGA-DW-5561 TCGA-DW-7836 TCGA-DW-7841 TCGA-DW-7963 
       50.40         3.81        13.61        35.93        14.63        40.77 
TCGA-DZ-6133 TCGA-F9-A7VF TCGA-F9-A8NY TCGA-G7-6790 TCGA-G7-6795 TCGA-G7-A4TM 
       51.19         2.40         1.18        51.78        39.25         6.38 
TCGA-G7-A8LB TCGA-GL-6846 TCGA-GL-A59T TCGA-HE-A5NF TCGA-HE-A5NI TCGA-HE-A5NJ 
       17.98       194.79        17.95        84.89        11.84        56.75 
TCGA-HE-A5NL TCGA-KV-A6GD TCGA-KV-A6GE TCGA-KV-A74V TCGA-MH-A55W TCGA-MH-A55Z 
       25.22        18.41        29.10        11.41        34.29        27.78 
TCGA-MH-A562 TCGA-P4-A5E7 TCGA-P4-A5EB TCGA-P4-AAVK TCGA-P4-AAVL TCGA-PJ-A5Z9 
       20.25        87.09        99.12        52.27        16.01        17.75 
TCGA-SX-A71U TCGA-SX-A71V TCGA-SX-A7SN TCGA-SX-A7SP TCGA-SX-A7SQ TCGA-SX-A7SR 
       44.61        28.80        19.00        16.31        41.62        26.47 
TCGA-SX-A7SS TCGA-UZ-A9PK TCGA-UZ-A9PO TCGA-UZ-A9PR TCGA-UZ-A9PU TCGA-UZ-A9PV 
       53.10       117.40        62.83        86.37        30.67        47.47 
TCGA-UZ-A9PX TCGA-UZ-A9PZ TCGA-UZ-A9Q0 TCGA-UZ-A9Q1 TCGA-V9-A7HT TCGA-Y8-A895 
       65.13        21.60       110.73        51.35        31.73        15.91 

$`AMP PEAK 12(XQ11.2) WILD-TYPE`
TCGA-KL-8323 TCGA-KL-8324 TCGA-KL-8325 TCGA-KL-8326 TCGA-KL-8327 TCGA-KL-8328 
       38.07       141.73        23.84       109.22       137.06       102.81 
TCGA-KL-8329 TCGA-KL-8330 TCGA-KL-8331 TCGA-KL-8332 TCGA-KL-8333 TCGA-KL-8334 
       90.48       108.62        98.96        84.89        98.33        96.95 
TCGA-KL-8335 TCGA-KL-8336 TCGA-KL-8337 TCGA-KL-8338 TCGA-KL-8339 TCGA-KL-8340 
       92.55        30.25        44.84        86.56        28.11        66.54 
TCGA-KL-8341 TCGA-KL-8342 TCGA-KL-8343 TCGA-KL-8344 TCGA-KL-8345 TCGA-KM-8438 
       24.79        73.91        71.41        28.80        54.74       151.96 
TCGA-KM-8439 TCGA-KM-8440 TCGA-KM-8441 TCGA-KM-8442 TCGA-KM-8443 TCGA-KM-8476 
       23.28        44.91        28.80        47.24        49.97       123.12 
TCGA-KM-8477 TCGA-KM-8639 TCGA-KN-8418 TCGA-KN-8421 TCGA-KN-8422 TCGA-KN-8424 
       51.06        31.33       129.37        87.91        25.48        65.19 
TCGA-KN-8425 TCGA-KN-8427 TCGA-KN-8428 TCGA-KN-8429 TCGA-KN-8431 TCGA-KN-8432 
      104.52         0.99        52.27        87.12        19.33         2.50 
TCGA-KN-8434 TCGA-KN-8435 TCGA-KN-8436 TCGA-KN-8437 TCGA-KO-8403 TCGA-KO-8404 
       59.08       115.00        42.35       100.87       105.47        10.68 
TCGA-KO-8405 TCGA-KO-8406 TCGA-KO-8407 TCGA-KO-8408 TCGA-KO-8409 TCGA-KO-8411 
      100.47       103.40        92.71        16.67       104.55       130.13 
TCGA-KO-8414 TCGA-KO-8415 TCGA-KO-8416 TCGA-KO-8417 TCGA-3Z-A93Z TCGA-6D-AA2E 
      105.60        96.62        90.48        92.55        12.66        11.90 
TCGA-A3-3306 TCGA-A3-3307 TCGA-A3-3308 TCGA-A3-3311 TCGA-A3-3313 TCGA-A3-3316 
       36.82        47.21         0.53        39.16        24.16        49.08 
TCGA-A3-3317 TCGA-A3-3319 TCGA-A3-3320 TCGA-A3-3322 TCGA-A3-3323 TCGA-A3-3324 
       49.02        37.15        49.58        48.59        36.36        38.99 
TCGA-A3-3325 TCGA-A3-3326 TCGA-A3-3331 TCGA-A3-3335 TCGA-A3-3336 TCGA-A3-3343 
       38.47        37.38        48.82        62.01        34.29        31.07 
TCGA-A3-3346 TCGA-A3-3347 TCGA-A3-3349 TCGA-A3-3351 TCGA-A3-3352 TCGA-A3-3357 
        4.50        52.93        45.53        29.92        18.44        88.37 
TCGA-A3-3358 TCGA-A3-3359 TCGA-A3-3362 TCGA-A3-3365 TCGA-A3-3367 TCGA-A3-3370 
       42.97        82.32        51.25        28.70        74.63        74.76 
TCGA-A3-3372 TCGA-A3-3373 TCGA-A3-3374 TCGA-A3-3376 TCGA-A3-3378 TCGA-A3-3380 
       24.16        53.29        43.20        55.76        20.71        18.64 
TCGA-A3-3382 TCGA-A3-3383 TCGA-A3-3385 TCGA-A3-3387 TCGA-A3-A6NI TCGA-A3-A6NJ 
       18.87        28.31        65.52        20.28        33.47        15.39 
TCGA-A3-A6NL TCGA-A3-A6NN TCGA-A3-A8CQ TCGA-A3-A8OV TCGA-A3-A8OW TCGA-AK-3425 
       22.65         0.10         0.10        11.18        10.62       109.91 
TCGA-AK-3426 TCGA-AK-3427 TCGA-AK-3428 TCGA-AK-3430 TCGA-AK-3431 TCGA-AK-3433 
       29.10       117.80        73.08        15.78        73.68       112.08 
TCGA-AK-3434 TCGA-AK-3440 TCGA-AK-3443 TCGA-AK-3444 TCGA-AK-3445 TCGA-AK-3447 
       68.61        94.19        46.78        48.36        78.64        40.01 
TCGA-AK-3450 TCGA-AK-3451 TCGA-AK-3454 TCGA-AK-3455 TCGA-AK-3456 TCGA-AK-3458 
       49.28        94.29        28.73        22.45        37.58        38.40 
TCGA-AK-3460 TCGA-AK-3461 TCGA-AK-3465 TCGA-AS-3777 TCGA-AS-3778 TCGA-B0-4688 
       82.45        72.89        12.13        40.70         1.41         3.32 
TCGA-B0-4690 TCGA-B0-4691 TCGA-B0-4693 TCGA-B0-4694 TCGA-B0-4697 TCGA-B0-4698 
        1.41         4.57         2.53         3.48        19.00         1.38 
TCGA-B0-4699 TCGA-B0-4700 TCGA-B0-4701 TCGA-B0-4703 TCGA-B0-4706 TCGA-B0-4707 
        3.62        65.10         7.82         5.98         2.14        19.73 
TCGA-B0-4710 TCGA-B0-4712 TCGA-B0-4713 TCGA-B0-4714 TCGA-B0-4718 TCGA-B0-4810 
       57.70        43.96         6.64         3.25        58.45        15.72 
TCGA-B0-4811 TCGA-B0-4813 TCGA-B0-4814 TCGA-B0-4815 TCGA-B0-4816 TCGA-B0-4817 
       46.59         0.59         5.52        52.21        45.07        33.50 
TCGA-B0-4818 TCGA-B0-4819 TCGA-B0-4821 TCGA-B0-4822 TCGA-B0-4823 TCGA-B0-4824 
       16.77         6.02        40.44        36.53        14.93        54.48 
TCGA-B0-4827 TCGA-B0-4828 TCGA-B0-4833 TCGA-B0-4834 TCGA-B0-4836 TCGA-B0-4837 
       29.10        10.09        78.44        68.71        40.70        45.30 
TCGA-B0-4838 TCGA-B0-4839 TCGA-B0-4841 TCGA-B0-4842 TCGA-B0-4843 TCGA-B0-4844 
       27.42        53.88         6.71        56.68        10.52        10.29 
TCGA-B0-4845 TCGA-B0-4846 TCGA-B0-4847 TCGA-B0-4848 TCGA-B0-4849 TCGA-B0-4852 
       65.29        39.45        26.07        29.03         2.27        36.85 
TCGA-B0-4945 TCGA-B0-5075 TCGA-B0-5077 TCGA-B0-5080 TCGA-B0-5081 TCGA-B0-5084 
       70.52        20.94        43.30        11.24        11.90         7.30 
TCGA-B0-5085 TCGA-B0-5088 TCGA-B0-5092 TCGA-B0-5094 TCGA-B0-5095 TCGA-B0-5096 
       25.32        18.51        15.09        10.95         8.05         2.24 
TCGA-B0-5097 TCGA-B0-5098 TCGA-B0-5099 TCGA-B0-5100 TCGA-B0-5102 TCGA-B0-5104 
       21.86        52.08        15.95        62.89        90.87        90.48 
TCGA-B0-5106 TCGA-B0-5107 TCGA-B0-5108 TCGA-B0-5110 TCGA-B0-5113 TCGA-B0-5115 
       52.54        30.48        58.59        66.05        38.63        52.73 
TCGA-B0-5116 TCGA-B0-5117 TCGA-B0-5119 TCGA-B0-5120 TCGA-B0-5121 TCGA-B0-5399 
       41.88        52.87        51.02        38.43        48.82        46.39 
TCGA-B0-5400 TCGA-B0-5402 TCGA-B0-5690 TCGA-B0-5691 TCGA-B0-5692 TCGA-B0-5693 
       56.98        42.41       111.52       112.80       129.67       133.94 
TCGA-B0-5694 TCGA-B0-5695 TCGA-B0-5696 TCGA-B0-5697 TCGA-B0-5698 TCGA-B0-5699 
       15.78        70.68        85.78        86.47       119.38       126.28 
TCGA-B0-5701 TCGA-B0-5702 TCGA-B0-5703 TCGA-B0-5705 TCGA-B0-5706 TCGA-B0-5709 
       80.91        71.41        73.84       149.16       105.37       130.65 
TCGA-B0-5710 TCGA-B0-5711 TCGA-B0-5712 TCGA-B0-5713 TCGA-B0-5812 TCGA-B2-3923 
       79.89       131.15        89.49        91.46       126.05        32.61 
TCGA-B2-3924 TCGA-B2-4098 TCGA-B2-4099 TCGA-B2-4101 TCGA-B2-4102 TCGA-B2-5633 
       35.90         1.68        31.96        21.30        31.30        31.66 
TCGA-B2-5635 TCGA-B2-5639 TCGA-B2-5641 TCGA-B2-A4SR TCGA-B4-5377 TCGA-B4-5378 
       24.82        32.98        21.57        16.67        12.00         5.75 
TCGA-B4-5832 TCGA-B4-5834 TCGA-B4-5835 TCGA-B4-5836 TCGA-B4-5838 TCGA-B4-5843 
        5.10         0.85         0.53         4.64         5.46         0.36 
TCGA-B4-5844 TCGA-B8-4143 TCGA-B8-4146 TCGA-B8-4148 TCGA-B8-4151 TCGA-B8-4153 
        0.23        23.31        16.80        27.16        42.71        25.05 
TCGA-B8-4154 TCGA-B8-4619 TCGA-B8-4620 TCGA-B8-4621 TCGA-B8-4622 TCGA-B8-5158 
       45.37        17.19        25.55        25.91        50.14        20.91 
TCGA-B8-5159 TCGA-B8-5162 TCGA-B8-5163 TCGA-B8-5164 TCGA-B8-5165 TCGA-B8-5545 
       23.74         1.18        27.02         0.85        24.23        50.14 
TCGA-B8-5546 TCGA-B8-5549 TCGA-B8-5550 TCGA-B8-5551 TCGA-B8-5552 TCGA-B8-5553 
       16.60         6.38        48.53         0.53        34.39        14.30 
TCGA-B8-A54D TCGA-B8-A54E TCGA-B8-A54F TCGA-B8-A54G TCGA-B8-A54H TCGA-B8-A54J 
       27.29        29.88        17.06         1.74         8.42        17.36 
TCGA-B8-A54K TCGA-B8-A7U6 TCGA-B8-A8YJ TCGA-BP-4158 TCGA-BP-4159 TCGA-BP-4160 
       15.42        16.27        14.17       111.02        85.51        94.72 
TCGA-BP-4161 TCGA-BP-4163 TCGA-BP-4164 TCGA-BP-4165 TCGA-BP-4166 TCGA-BP-4167 
       90.28        93.34        32.61        99.85         0.43        89.36 
TCGA-BP-4169 TCGA-BP-4170 TCGA-BP-4173 TCGA-BP-4176 TCGA-BP-4177 TCGA-BP-4325 
       23.05        77.03        62.24        64.27        54.90        97.45 
TCGA-BP-4326 TCGA-BP-4327 TCGA-BP-4329 TCGA-BP-4330 TCGA-BP-4331 TCGA-BP-4332 
       53.42         3.58        27.78        62.07        80.68        37.25 
TCGA-BP-4334 TCGA-BP-4335 TCGA-BP-4340 TCGA-BP-4341 TCGA-BP-4342 TCGA-BP-4343 
       21.21        15.16        18.48        52.24        74.17        62.86 
TCGA-BP-4344 TCGA-BP-4346 TCGA-BP-4347 TCGA-BP-4349 TCGA-BP-4351 TCGA-BP-4353 
       54.77        49.08        44.94        12.23        31.89        12.33 
TCGA-BP-4354 TCGA-BP-4355 TCGA-BP-4756 TCGA-BP-4758 TCGA-BP-4759 TCGA-BP-4760 
       33.99        31.33        12.30        72.59        77.98        77.62 
TCGA-BP-4761 TCGA-BP-4763 TCGA-BP-4765 TCGA-BP-4766 TCGA-BP-4768 TCGA-BP-4770 
        5.98        41.75        71.80        48.07        13.15        10.82 
TCGA-BP-4771 TCGA-BP-4775 TCGA-BP-4776 TCGA-BP-4777 TCGA-BP-4781 TCGA-BP-4782 
        5.33        60.59        13.51        56.91        68.38        11.64 
TCGA-BP-4784 TCGA-BP-4787 TCGA-BP-4789 TCGA-BP-4790 TCGA-BP-4795 TCGA-BP-4797 
       60.95        15.78        48.95        36.53        20.38        36.39 
TCGA-BP-4798 TCGA-BP-4801 TCGA-BP-4803 TCGA-BP-4804 TCGA-BP-4807 TCGA-BP-4959 
       10.98        36.95         6.71        47.97         6.94        87.45 
TCGA-BP-4960 TCGA-BP-4961 TCGA-BP-4962 TCGA-BP-4963 TCGA-BP-4964 TCGA-BP-4965 
       71.41        63.62        58.68        60.30        61.22        61.51 
TCGA-BP-4967 TCGA-BP-4968 TCGA-BP-4970 TCGA-BP-4971 TCGA-BP-4972 TCGA-BP-4973 
        6.74        57.40        14.24        48.89        49.38        45.50 
TCGA-BP-4974 TCGA-BP-4975 TCGA-BP-4976 TCGA-BP-4977 TCGA-BP-4981 TCGA-BP-4982 
        6.90        47.11        53.65        14.93        36.07        33.34 
TCGA-BP-4983 TCGA-BP-4985 TCGA-BP-4986 TCGA-BP-4987 TCGA-BP-4988 TCGA-BP-4991 
       46.45        31.30        25.81        36.95        27.22        46.45 
TCGA-BP-4992 TCGA-BP-4993 TCGA-BP-4994 TCGA-BP-4995 TCGA-BP-4998 TCGA-BP-4999 
       16.47         5.82        43.00        45.07        30.64        41.62 
TCGA-BP-5000 TCGA-BP-5001 TCGA-BP-5004 TCGA-BP-5006 TCGA-BP-5007 TCGA-BP-5008 
       18.51        38.70        37.02        27.62        37.48        35.21 
TCGA-BP-5009 TCGA-BP-5010 TCGA-BP-5168 TCGA-BP-5169 TCGA-BP-5170 TCGA-BP-5173 
       36.23        28.87        48.10         6.35        79.30         1.74 
TCGA-BP-5174 TCGA-BP-5175 TCGA-BP-5177 TCGA-BP-5178 TCGA-BP-5180 TCGA-BP-5181 
       74.20        30.64         9.63        62.86        74.40        49.15 
TCGA-BP-5182 TCGA-BP-5183 TCGA-BP-5184 TCGA-BP-5185 TCGA-BP-5186 TCGA-BP-5187 
       38.30        42.44        37.25        37.22        22.78        13.35 
TCGA-BP-5189 TCGA-BP-5190 TCGA-BP-5191 TCGA-BP-5192 TCGA-BP-5194 TCGA-BP-5195 
       27.02        33.24        31.79        23.47        13.41        24.62 
TCGA-BP-5196 TCGA-BP-5198 TCGA-BP-5199 TCGA-BP-5200 TCGA-BP-5201 TCGA-BP-5202 
       33.47        19.82        44.55        34.95        31.27         0.95 
TCGA-CJ-4634 TCGA-CJ-4635 TCGA-CJ-4636 TCGA-CJ-4637 TCGA-CJ-4638 TCGA-CJ-4639 
      115.00        46.55        63.25        73.22        14.17       106.16 
TCGA-CJ-4640 TCGA-CJ-4641 TCGA-CJ-4642 TCGA-CJ-4643 TCGA-CJ-4868 TCGA-CJ-4869 
      114.41        54.61       105.37        58.95        21.24        83.97 
TCGA-CJ-4870 TCGA-CJ-4871 TCGA-CJ-4872 TCGA-CJ-4873 TCGA-CJ-4874 TCGA-CJ-4875 
       49.25        79.66        10.72        74.27        75.06       116.84 
TCGA-CJ-4876 TCGA-CJ-4878 TCGA-CJ-4881 TCGA-CJ-4882 TCGA-CJ-4884 TCGA-CJ-4886 
       64.27        71.87        66.21        61.91        57.83        64.18 
TCGA-CJ-4887 TCGA-CJ-4888 TCGA-CJ-4889 TCGA-CJ-4890 TCGA-CJ-4891 TCGA-CJ-4892 
       30.64        51.52        63.98       115.69        26.93        50.01 
TCGA-CJ-4893 TCGA-CJ-4894 TCGA-CJ-4895 TCGA-CJ-4897 TCGA-CJ-4900 TCGA-CJ-4901 
       24.66        27.65        39.45       109.84        56.35        47.67 
TCGA-CJ-4902 TCGA-CJ-4903 TCGA-CJ-4904 TCGA-CJ-4905 TCGA-CJ-4907 TCGA-CJ-4908 
       49.97        51.25       108.56        49.18        49.28        50.33 
TCGA-CJ-4912 TCGA-CJ-4913 TCGA-CJ-4916 TCGA-CJ-4918 TCGA-CJ-4920 TCGA-CJ-4923 
       54.48        38.56        45.14         3.06         4.57        18.81 
TCGA-CJ-5671 TCGA-CJ-5672 TCGA-CJ-5675 TCGA-CJ-5676 TCGA-CJ-5677 TCGA-CJ-5678 
      131.08        72.00       129.40       133.71        25.71        18.87 
TCGA-CJ-5679 TCGA-CJ-5680 TCGA-CJ-5681 TCGA-CJ-5682 TCGA-CJ-5683 TCGA-CJ-5684 
       22.32        25.25        18.15       122.83        62.10        73.35 
TCGA-CJ-5686 TCGA-CJ-5689 TCGA-CJ-6027 TCGA-CJ-6028 TCGA-CJ-6030 TCGA-CJ-6031 
       67.00        53.26       118.85        53.42        75.58        62.66 
TCGA-CJ-6032 TCGA-CJ-6033 TCGA-CW-5580 TCGA-CW-5581 TCGA-CW-5583 TCGA-CW-5584 
      119.64         7.36        64.57        92.02        81.83         5.39 
TCGA-CW-5585 TCGA-CW-5587 TCGA-CW-5588 TCGA-CW-5589 TCGA-CW-6087 TCGA-CW-6088 
       85.78        73.18        66.31        78.18         1.35       105.93 
TCGA-CW-6090 TCGA-CW-6093 TCGA-CW-6097 TCGA-CZ-4853 TCGA-CZ-4856 TCGA-CZ-4857 
       83.90       103.43        18.77        25.45         0.59        47.08 
TCGA-CZ-4858 TCGA-CZ-4859 TCGA-CZ-4860 TCGA-CZ-4861 TCGA-CZ-4862 TCGA-CZ-4863 
       69.21        58.75         6.77        14.66       107.54        63.39 
TCGA-CZ-4864 TCGA-CZ-4865 TCGA-CZ-4866 TCGA-CZ-5451 TCGA-CZ-5452 TCGA-CZ-5453 
       93.04         5.46        61.41        63.42        58.82        79.53 
TCGA-CZ-5454 TCGA-CZ-5455 TCGA-CZ-5457 TCGA-CZ-5459 TCGA-CZ-5460 TCGA-CZ-5461 
       23.74        18.44        90.54        55.33        94.45        10.85 
TCGA-CZ-5462 TCGA-CZ-5463 TCGA-CZ-5465 TCGA-CZ-5466 TCGA-CZ-5467 TCGA-CZ-5468 
       10.22        21.76        84.30        22.52         2.40         1.94 
TCGA-CZ-5469 TCGA-CZ-5470 TCGA-CZ-5982 TCGA-CZ-5984 TCGA-CZ-5985 TCGA-CZ-5986 
       31.10        12.69        80.19        67.96        65.65        12.26 
TCGA-CZ-5987 TCGA-CZ-5988 TCGA-CZ-5989 TCGA-DV-5565 TCGA-DV-5566 TCGA-DV-5567 
       14.63        22.78        62.63        13.28        45.96        65.88 
TCGA-DV-5568 TCGA-DV-5569 TCGA-DV-5573 TCGA-DV-5574 TCGA-DV-5575 TCGA-DV-5576 
       12.16        11.67        37.15        66.28        56.84        23.90 
TCGA-DV-A4VZ TCGA-DV-A4W0 TCGA-EU-5904 TCGA-EU-5906 TCGA-EU-5907 TCGA-G6-A5PC 
       12.00        81.21        18.12         6.77         4.18         7.96 
TCGA-G6-A8L6 TCGA-G6-A8L7 TCGA-G6-A8L8 TCGA-GK-A6C7 TCGA-MM-A563 TCGA-MM-A564 
       10.29        70.13        35.87         2.01        19.43        19.96 
TCGA-MM-A84U TCGA-MW-A4EC TCGA-T7-A92I TCGA-2K-A9WE TCGA-2Z-A9J2 TCGA-2Z-A9J7 
       23.01        16.37        11.70         7.04        59.01         4.57 
TCGA-2Z-A9J8 TCGA-2Z-A9J9 TCGA-2Z-A9JD TCGA-2Z-A9JE TCGA-2Z-A9JG TCGA-2Z-A9JI 
       91.73        75.42        34.85        56.81        54.64        51.52 
TCGA-2Z-A9JJ TCGA-2Z-A9JK TCGA-2Z-A9JL TCGA-2Z-A9JM TCGA-2Z-A9JN TCGA-2Z-A9JO 
       39.88        38.99        33.07        30.71        24.33        31.20 
TCGA-2Z-A9JP TCGA-2Z-A9JT TCGA-4A-A93W TCGA-4A-A93X TCGA-4A-A93Y TCGA-5P-A9JU 
       29.36        22.49         0.13        12.82        11.57        12.26 
TCGA-5P-A9JV TCGA-5P-A9JW TCGA-5P-A9JZ TCGA-5P-A9K3 TCGA-5P-A9K8 TCGA-5P-A9K9 
       67.17       106.55        90.21        15.48        43.04        19.36 
TCGA-5P-A9KA TCGA-5P-A9KC TCGA-5P-A9KE TCGA-5P-A9KH TCGA-A4-7286 TCGA-A4-7287 
       12.99        12.39        27.09        67.43        18.21        19.63 
TCGA-A4-7288 TCGA-A4-7583 TCGA-A4-7584 TCGA-A4-7585 TCGA-A4-7734 TCGA-A4-7828 
       61.05         0.10        21.37        35.18         0.89         7.82 
TCGA-A4-7915 TCGA-A4-7996 TCGA-A4-7997 TCGA-A4-8098 TCGA-A4-8310 TCGA-A4-8312 
        0.23        16.64        30.48        29.46        25.64        23.28 
TCGA-A4-8518 TCGA-A4-A57E TCGA-A4-A5Y0 TCGA-A4-A5Y1 TCGA-AL-3467 TCGA-AL-3472 
       19.73         8.48         8.28        12.99        70.19        66.71 
TCGA-AL-3473 TCGA-AL-7173 TCGA-AL-A5DJ TCGA-B1-5398 TCGA-B1-7332 TCGA-B1-A47O 
       62.66        67.73        49.25        19.56        37.51        16.87 
TCGA-B1-A654 TCGA-B1-A655 TCGA-B1-A656 TCGA-B3-3925 TCGA-B3-3926 TCGA-B3-4104 
       20.25        16.77        20.32        33.83        10.09        34.49 
TCGA-B3-8121 TCGA-B9-4115 TCGA-B9-4116 TCGA-B9-A5W7 TCGA-B9-A5W8 TCGA-B9-A69E 
       12.46        26.40        20.61        19.23        17.23        14.86 
TCGA-B9-A8YI TCGA-BQ-5875 TCGA-BQ-5876 TCGA-BQ-5877 TCGA-BQ-5878 TCGA-BQ-5879 
       12.30        86.76        19.27         8.88        63.72        22.92 
TCGA-BQ-5880 TCGA-BQ-5882 TCGA-BQ-5883 TCGA-BQ-5884 TCGA-BQ-5885 TCGA-BQ-5886 
       43.20        21.63        40.83        26.04        30.28        26.04 
TCGA-BQ-5888 TCGA-BQ-5889 TCGA-BQ-5890 TCGA-BQ-5892 TCGA-BQ-5894 TCGA-BQ-7044 
       13.25        10.82         7.66        11.97         2.76       123.62 
TCGA-BQ-7048 TCGA-BQ-7049 TCGA-BQ-7050 TCGA-BQ-7053 TCGA-BQ-7055 TCGA-BQ-7056 
       93.34        44.84        61.28        49.84        26.27        20.12 
TCGA-BQ-7058 TCGA-BQ-7059 TCGA-BQ-7060 TCGA-BQ-7061 TCGA-DW-5560 TCGA-DW-7834 
       11.28         7.63         7.04         7.17        48.85       129.86 
TCGA-DW-7837 TCGA-DW-7838 TCGA-DW-7839 TCGA-DW-7840 TCGA-DW-7842 TCGA-DZ-6131 
       37.55        24.46        13.78         3.75         3.02        79.86 
TCGA-DZ-6132 TCGA-DZ-6134 TCGA-DZ-6135 TCGA-EV-5901 TCGA-EV-5902 TCGA-EV-5903 
       80.88        61.02        74.60        34.19        19.00        24.89 
TCGA-F9-A4JJ TCGA-F9-A7Q0 TCGA-F9-A97G TCGA-G7-6789 TCGA-G7-6792 TCGA-G7-6793 
       10.68        13.08         0.43         4.01        90.90        11.05 
TCGA-G7-6796 TCGA-G7-6797 TCGA-G7-7501 TCGA-G7-7502 TCGA-G7-A8LC TCGA-G7-A8LD 
       71.44        25.15        20.52        25.84        23.08        16.90 
TCGA-G7-A8LE TCGA-GL-7773 TCGA-GL-7966 TCGA-GL-8500 TCGA-GL-A4EM TCGA-GL-A59R 
       80.65        12.92         3.68        27.65         1.05        12.43 
TCGA-GL-A9DC TCGA-GL-A9DD TCGA-GL-A9DE TCGA-HE-A5NH TCGA-HE-A5NK TCGA-IA-A40U 
       12.89        11.21        16.31        26.01        73.25        16.80 
TCGA-IA-A40X TCGA-IA-A40Y TCGA-IA-A83S TCGA-IA-A83T TCGA-IA-A83V TCGA-IA-A83W 
       19.99         2.04        85.78        88.24        96.69        67.17 
TCGA-IZ-8195 TCGA-IZ-8196 TCGA-IZ-A6M8 TCGA-IZ-A6M9 TCGA-J7-6720 TCGA-J7-8537 
       22.26        21.34        16.34        12.36        12.76        10.55 
TCGA-MH-A560 TCGA-MH-A561 TCGA-MH-A854 TCGA-MH-A855 TCGA-MH-A856 TCGA-MH-A857 
       30.38        27.65        17.62        12.13        31.13        29.26 
TCGA-O9-A75Z TCGA-P4-A5E6 TCGA-P4-A5E8 TCGA-P4-A5EA TCGA-P4-A5ED TCGA-P4-AAVM 
       15.48        99.78        42.94         6.61        92.58        50.60 
TCGA-P4-AAVO TCGA-PJ-A5Z8 TCGA-Q2-A5QZ TCGA-SX-A71R TCGA-SX-A71S TCGA-SX-A7SL 
       78.90        19.73        14.07        47.90        49.45        27.06 
TCGA-SX-A7SM TCGA-SX-A7SO TCGA-SX-A7SU TCGA-UN-AAZ9 TCGA-UZ-A9PJ TCGA-UZ-A9PL 
       11.93        41.33        43.76        18.02        26.20       103.63 
TCGA-UZ-A9PM TCGA-UZ-A9PN TCGA-UZ-A9PP TCGA-UZ-A9PQ TCGA-UZ-A9PS TCGA-WN-A9G9 
      125.29        37.35        98.96        86.27        71.24        26.01 
TCGA-WN-AB4C TCGA-Y8-A894 TCGA-Y8-A896 TCGA-Y8-A897 TCGA-Y8-A898 TCGA-Y8-A8RY 
       39.06        18.64        18.64        18.05        15.62        25.28 
TCGA-Y8-A8RZ TCGA-Y8-A8S0 TCGA-Y8-A8S1 
        3.68         6.02        13.28 

  AMP PEAK 12(XQ11.2) MUTATED AMP PEAK 12(XQ11.2) WILD-TYPE 
                         0.07                          0.10 
  AMP PEAK 12(XQ11.2) MUTATED AMP PEAK 12(XQ11.2) WILD-TYPE 
                       194.79                        151.96 
  AMP PEAK 12(XQ11.2) MUTATED AMP PEAK 12(XQ11.2) WILD-TYPE 
                       28.635                        35.900 
[1] "0.1 - 194.8 (28.6)" "0.1 - 152.0 (35.9)"
[1] "hr=" "1.5"
D12V2, continuous
                               vv
clus                            STAGE I STAGE II STAGE III STAGE IV
  AMP PEAK 12(XQ11.2) MUTATED        80       15        16       13
  AMP PEAK 12(XQ11.2) WILD-TYPE     375       89       175       91
D12V3, multiclass
           clus
vv          AMP PEAK 12(XQ11.2) MUTATED AMP PEAK 12(XQ11.2) WILD-TYPE
  STAGE I                            80                           375
  STAGE II                           15                            89
  STAGE III                          16                           175
  STAGE IV                           13                            91
[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                             T1  T2  T3  T4
  AMP PEAK 12(XQ11.2) MUTATED    86  22  25   2
  AMP PEAK 12(XQ11.2) WILD-TYPE 393 105 233  13
D12V4, multiclass
    clus
vv   AMP PEAK 12(XQ11.2) MUTATED AMP PEAK 12(XQ11.2) WILD-TYPE
  T1                          86                           393
  T2                          22                           105
  T3                          25                           233
  T4                           2                            13
[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                             N0  N1  N2
  AMP PEAK 12(XQ11.2) MUTATED    35   6   0
  AMP PEAK 12(XQ11.2) WILD-TYPE 287  38   7
D12V5, multiclass
    clus
vv   AMP PEAK 12(XQ11.2) MUTATED AMP PEAK 12(XQ11.2) WILD-TYPE
  N0                          35                           287
  N1                           6                            38
  N2                           0                             7
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D12V6, binary
                               cls
clus                              0   1
  AMP PEAK 12(XQ11.2) MUTATED    51  10
  AMP PEAK 12(XQ11.2) WILD-TYPE 494  79
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 12(XQ11.2) MUTATED     51   10
  AMP PEAK 12(XQ11.2) WILD-TYPE  494   79
   clus
vv  AMP PEAK 12(XQ11.2) MUTATED AMP PEAK 12(XQ11.2) WILD-TYPE
  0                          51                           494
  1                          10                            79
[1] 2 2
[1] FALSE
D12V7, binary
                               cls
clus                              0   1
  AMP PEAK 12(XQ11.2) MUTATED    25 110
  AMP PEAK 12(XQ11.2) WILD-TYPE 267 479
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 12(XQ11.2) MUTATED     25  110
  AMP PEAK 12(XQ11.2) WILD-TYPE  267  479
        clus
vv       AMP PEAK 12(XQ11.2) MUTATED AMP PEAK 12(XQ11.2) WILD-TYPE
  FEMALE                          25                           267
  MALE                           110                           479
[1] 2 2
[1] FALSE
D12V8, binary
                               cls
clus                              0   1
  AMP PEAK 12(XQ11.2) MUTATED    83   0
  AMP PEAK 12(XQ11.2) WILD-TYPE 317   3
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 12(XQ11.2) MUTATED     83    0
  AMP PEAK 12(XQ11.2) WILD-TYPE  317    3
     clus
vv    AMP PEAK 12(XQ11.2) MUTATED AMP PEAK 12(XQ11.2) WILD-TYPE
  NO                           83                           317
  YES                           0                             3
[1] 2 2
[1] FALSE
D12V9, continuous
                               vv
clus                            KIDNEY CHROMOPHOBE
  AMP PEAK 12(XQ11.2) MUTATED                    7
  AMP PEAK 12(XQ11.2) WILD-TYPE                 59
                               vv
clus                            KIDNEY CLEAR CELL RENAL CARCINOMA
  AMP PEAK 12(XQ11.2) MUTATED                                  29
  AMP PEAK 12(XQ11.2) WILD-TYPE                               499
                               vv
clus                            KIDNEY PAPILLARY RENAL CELL CARCINOMA
  AMP PEAK 12(XQ11.2) MUTATED                                      99
  AMP PEAK 12(XQ11.2) WILD-TYPE                                   188
D12V10, multiclass
                                       clus
vv                                      AMP PEAK 12(XQ11.2) MUTATED
  KIDNEY CHROMOPHOBE                                              7
  KIDNEY CLEAR CELL RENAL CARCINOMA                              29
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                          99
                                       clus
vv                                      AMP PEAK 12(XQ11.2) WILD-TYPE
  KIDNEY CHROMOPHOBE                                               59
  KIDNEY CLEAR CELL RENAL CARCINOMA                               499
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                           188
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D12V11, continuous
D12V12, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK 12(XQ11.2) MUTATED                                  1     3
  AMP PEAK 12(XQ11.2) WILD-TYPE                                1    12
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 12(XQ11.2) MUTATED                          23   102
  AMP PEAK 12(XQ11.2) WILD-TYPE                        98   617
D12V13, multiclass
                                  clus
vv                                 AMP PEAK 12(XQ11.2) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           1
  ASIAN                                                      3
  BLACK OR AFRICAN AMERICAN                                 23
  WHITE                                                    102
                                  clus
vv                                 AMP PEAK 12(XQ11.2) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             1
  ASIAN                                                       12
  BLACK OR AFRICAN AMERICAN                                   98
  WHITE                                                      617
[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"
D12V14, binary
                               cls
clus                              0   1
  AMP PEAK 12(XQ11.2) MUTATED     5 103
  AMP PEAK 12(XQ11.2) WILD-TYPE  37 518
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 12(XQ11.2) MUTATED      5  103
  AMP PEAK 12(XQ11.2) WILD-TYPE   37  518
                        clus
vv                       AMP PEAK 12(XQ11.2) MUTATED
  HISPANIC OR LATINO                               5
  NOT HISPANIC OR LATINO                         103
                        clus
vv                       AMP PEAK 12(XQ11.2) WILD-TYPE
  HISPANIC OR LATINO                                37
  NOT HISPANIC OR LATINO                           518
[1] 2 2
[1] FALSE

Clustering(13) Variable = AMP PEAK 13(XQ28) MUTATION ANALYSIS
D13V1, survival
                             sevent
clus2                           0   1
  AMP PEAK 13(XQ28) MUTATED   110  24
  AMP PEAK 13(XQ28) WILD-TYPE 535 204
  AMP PEAK 13(XQ28) MUTATED AMP PEAK 13(XQ28) WILD-TYPE 
                        134                         739 
  AMP PEAK 13(XQ28) MUTATED AMP PEAK 13(XQ28) WILD-TYPE 
                         24                         204 
$`AMP PEAK 13(XQ28) MUTATED`
TCGA-KL-8337 TCGA-KL-8346 TCGA-KN-8419 TCGA-KN-8423 TCGA-KN-8426 TCGA-KN-8433 
       44.84        62.37        23.47        25.91         3.55        11.21 
TCGA-KO-8410 TCGA-KO-8413 TCGA-A3-3336 TCGA-A3-3383 TCGA-AK-3428 TCGA-AK-3436 
      103.10        99.88        34.29        28.31        73.08       109.51 
TCGA-AK-3453 TCGA-B0-4688 TCGA-B0-4713 TCGA-B0-4827 TCGA-B0-5080 TCGA-B0-5109 
       83.21         3.32         6.64        29.10        11.24        19.30 
TCGA-B0-5120 TCGA-B0-5705 TCGA-B8-5159 TCGA-B8-A54D TCGA-B8-A54I TCGA-BP-4162 
       38.43       149.16        23.74        27.29         4.93       101.06 
TCGA-BP-4174 TCGA-BP-4337 TCGA-BP-4338 TCGA-BP-4352 TCGA-BP-4799 TCGA-BP-4959 
       61.78         0.07        93.99        11.31        37.25        87.45 
TCGA-BP-4969 TCGA-BP-4989 TCGA-BP-5176 TCGA-CJ-4885 TCGA-CJ-5681 TCGA-CJ-6031 
       58.98         3.88        52.27       113.46        18.15        62.66 
TCGA-CW-5581 TCGA-CW-5591 TCGA-CZ-4854 TCGA-CZ-5456 TCGA-CZ-5458 TCGA-CZ-5461 
       92.02        74.66        46.16        79.63        91.69        10.85 
TCGA-CZ-5464 TCGA-DV-A4VX TCGA-EU-5905 TCGA-MM-A84U TCGA-2Z-A9J1 TCGA-2Z-A9J2 
       69.96        53.46         3.91        23.01        75.55        59.01 
TCGA-2Z-A9J3 TCGA-2Z-A9J5 TCGA-2Z-A9J6 TCGA-2Z-A9JQ TCGA-5P-A9JY TCGA-5P-A9K2 
       58.22       100.27        56.91        25.58        49.58        78.64 
TCGA-5P-A9K4 TCGA-A4-7732 TCGA-A4-8311 TCGA-A4-8630 TCGA-A4-A48D TCGA-A4-A4ZT 
       71.80        19.13        23.97        14.33        12.46        16.96 
TCGA-A4-A5DU TCGA-A4-A5XZ TCGA-AL-3468 TCGA-AL-3471 TCGA-AT-A5NU TCGA-B1-A47M 
       16.31        15.75        76.64        49.32         2.20        21.67 
TCGA-B1-A47N TCGA-B1-A656 TCGA-B1-A657 TCGA-B3-4103 TCGA-B3-A6W5 TCGA-B9-4113 
       24.56        20.32        21.07        30.58        10.16        50.50 
TCGA-B9-4114 TCGA-B9-4116 TCGA-B9-4117 TCGA-B9-4617 TCGA-B9-5155 TCGA-B9-5156 
       28.18        20.61         0.46         1.15        15.12        43.99 
TCGA-B9-7268 TCGA-B9-A44B TCGA-B9-A5W9 TCGA-B9-A8YH TCGA-BQ-5881 TCGA-BQ-5887 
       22.06         2.10         0.16        17.49        47.80        25.35 
TCGA-BQ-5891 TCGA-BQ-5893 TCGA-BQ-7045 TCGA-BQ-7046 TCGA-BQ-7060 TCGA-BQ-7062 
        0.95         7.92        48.26        96.92         7.04         3.81 
TCGA-DW-5561 TCGA-DW-7836 TCGA-DW-7841 TCGA-DW-7842 TCGA-DW-7963 TCGA-DZ-6131 
       13.61        35.93        14.63         3.02        40.77        79.86 
TCGA-DZ-6133 TCGA-F9-A7VF TCGA-F9-A8NY TCGA-F9-A97G TCGA-G7-6790 TCGA-G7-6795 
       51.19         2.40         1.18         0.43        51.78        39.25 
TCGA-G7-A4TM TCGA-G7-A8LB TCGA-GL-6846 TCGA-GL-A59T TCGA-HE-A5NF TCGA-HE-A5NI 
        6.38        17.98       194.79        17.95        84.89        11.84 
TCGA-HE-A5NJ TCGA-HE-A5NL TCGA-KV-A6GD TCGA-KV-A6GE TCGA-KV-A74V TCGA-MH-A55W 
       56.75        25.22        18.41        29.10        11.41        34.29 
TCGA-P4-A5E7 TCGA-P4-A5EB TCGA-P4-AAVL TCGA-PJ-A5Z9 TCGA-SX-A71U TCGA-SX-A71V 
       87.09        99.12        16.01        17.75        44.61        28.80 
TCGA-SX-A7SN TCGA-SX-A7SP TCGA-SX-A7SQ TCGA-SX-A7SR TCGA-SX-A7SS TCGA-UZ-A9PK 
       19.00        16.31        41.62        26.47        53.10       117.40 
TCGA-UZ-A9PO TCGA-UZ-A9PU TCGA-UZ-A9PX TCGA-UZ-A9PZ TCGA-UZ-A9Q0 TCGA-UZ-A9Q1 
       62.83        30.67        65.13        21.60       110.73        51.35 
TCGA-V9-A7HT TCGA-Y8-A895 
       31.73        15.91 

$`AMP PEAK 13(XQ28) WILD-TYPE`
TCGA-KL-8323 TCGA-KL-8324 TCGA-KL-8325 TCGA-KL-8326 TCGA-KL-8327 TCGA-KL-8328 
       38.07       141.73        23.84       109.22       137.06       102.81 
TCGA-KL-8329 TCGA-KL-8330 TCGA-KL-8331 TCGA-KL-8332 TCGA-KL-8333 TCGA-KL-8334 
       90.48       108.62        98.96        84.89        98.33        96.95 
TCGA-KL-8335 TCGA-KL-8336 TCGA-KL-8338 TCGA-KL-8339 TCGA-KL-8340 TCGA-KL-8341 
       92.55        30.25        86.56        28.11        66.54        24.79 
TCGA-KL-8342 TCGA-KL-8343 TCGA-KL-8344 TCGA-KL-8345 TCGA-KM-8438 TCGA-KM-8439 
       73.91        71.41        28.80        54.74       151.96        23.28 
TCGA-KM-8440 TCGA-KM-8441 TCGA-KM-8442 TCGA-KM-8443 TCGA-KM-8476 TCGA-KM-8477 
       44.91        28.80        47.24        49.97       123.12        51.06 
TCGA-KM-8639 TCGA-KN-8418 TCGA-KN-8421 TCGA-KN-8422 TCGA-KN-8424 TCGA-KN-8425 
       31.33       129.37        87.91        25.48        65.19       104.52 
TCGA-KN-8427 TCGA-KN-8428 TCGA-KN-8429 TCGA-KN-8431 TCGA-KN-8432 TCGA-KN-8434 
        0.99        52.27        87.12        19.33         2.50        59.08 
TCGA-KN-8435 TCGA-KN-8436 TCGA-KN-8437 TCGA-KO-8403 TCGA-KO-8404 TCGA-KO-8405 
      115.00        42.35       100.87       105.47        10.68       100.47 
TCGA-KO-8406 TCGA-KO-8407 TCGA-KO-8408 TCGA-KO-8409 TCGA-KO-8411 TCGA-KO-8414 
      103.40        92.71        16.67       104.55       130.13       105.60 
TCGA-KO-8415 TCGA-KO-8416 TCGA-KO-8417 TCGA-3Z-A93Z TCGA-6D-AA2E TCGA-A3-3306 
       96.62        90.48        92.55        12.66        11.90        36.82 
TCGA-A3-3307 TCGA-A3-3308 TCGA-A3-3311 TCGA-A3-3313 TCGA-A3-3316 TCGA-A3-3317 
       47.21         0.53        39.16        24.16        49.08        49.02 
TCGA-A3-3319 TCGA-A3-3320 TCGA-A3-3322 TCGA-A3-3323 TCGA-A3-3324 TCGA-A3-3325 
       37.15        49.58        48.59        36.36        38.99        38.47 
TCGA-A3-3326 TCGA-A3-3331 TCGA-A3-3335 TCGA-A3-3343 TCGA-A3-3346 TCGA-A3-3347 
       37.38        48.82        62.01        31.07         4.50        52.93 
TCGA-A3-3349 TCGA-A3-3351 TCGA-A3-3352 TCGA-A3-3357 TCGA-A3-3358 TCGA-A3-3359 
       45.53        29.92        18.44        88.37        42.97        82.32 
TCGA-A3-3362 TCGA-A3-3363 TCGA-A3-3365 TCGA-A3-3367 TCGA-A3-3370 TCGA-A3-3372 
       51.25        10.49        28.70        74.63        74.76        24.16 
TCGA-A3-3373 TCGA-A3-3374 TCGA-A3-3376 TCGA-A3-3378 TCGA-A3-3380 TCGA-A3-3382 
       53.29        43.20        55.76        20.71        18.64        18.87 
TCGA-A3-3385 TCGA-A3-3387 TCGA-A3-A6NI TCGA-A3-A6NJ TCGA-A3-A6NL TCGA-A3-A6NN 
       65.52        20.28        33.47        15.39        22.65         0.10 
TCGA-A3-A8CQ TCGA-A3-A8OV TCGA-A3-A8OW TCGA-AK-3425 TCGA-AK-3426 TCGA-AK-3427 
        0.10        11.18        10.62       109.91        29.10       117.80 
TCGA-AK-3429 TCGA-AK-3430 TCGA-AK-3431 TCGA-AK-3433 TCGA-AK-3434 TCGA-AK-3440 
      109.41        15.78        73.68       112.08        68.61        94.19 
TCGA-AK-3443 TCGA-AK-3444 TCGA-AK-3445 TCGA-AK-3447 TCGA-AK-3450 TCGA-AK-3451 
       46.78        48.36        78.64        40.01        49.28        94.29 
TCGA-AK-3454 TCGA-AK-3455 TCGA-AK-3456 TCGA-AK-3458 TCGA-AK-3460 TCGA-AK-3461 
       28.73        22.45        37.58        38.40        82.45        72.89 
TCGA-AK-3465 TCGA-AS-3777 TCGA-AS-3778 TCGA-B0-4690 TCGA-B0-4691 TCGA-B0-4693 
       12.13        40.70         1.41         1.41         4.57         2.53 
TCGA-B0-4694 TCGA-B0-4696 TCGA-B0-4697 TCGA-B0-4698 TCGA-B0-4699 TCGA-B0-4700 
        3.48        28.47        19.00         1.38         3.62        65.10 
TCGA-B0-4701 TCGA-B0-4703 TCGA-B0-4706 TCGA-B0-4707 TCGA-B0-4710 TCGA-B0-4712 
        7.82         5.98         2.14        19.73        57.70        43.96 
TCGA-B0-4714 TCGA-B0-4718 TCGA-B0-4810 TCGA-B0-4811 TCGA-B0-4813 TCGA-B0-4814 
        3.25        58.45        15.72        46.59         0.59         5.52 
TCGA-B0-4815 TCGA-B0-4816 TCGA-B0-4817 TCGA-B0-4818 TCGA-B0-4819 TCGA-B0-4821 
       52.21        45.07        33.50        16.77         6.02        40.44 
TCGA-B0-4822 TCGA-B0-4823 TCGA-B0-4824 TCGA-B0-4828 TCGA-B0-4833 TCGA-B0-4834 
       36.53        14.93        54.48        10.09        78.44        68.71 
TCGA-B0-4836 TCGA-B0-4837 TCGA-B0-4838 TCGA-B0-4839 TCGA-B0-4841 TCGA-B0-4842 
       40.70        45.30        27.42        53.88         6.71        56.68 
TCGA-B0-4843 TCGA-B0-4844 TCGA-B0-4845 TCGA-B0-4846 TCGA-B0-4847 TCGA-B0-4848 
       10.52        10.29        65.29        39.45        26.07        29.03 
TCGA-B0-4849 TCGA-B0-4852 TCGA-B0-4945 TCGA-B0-5075 TCGA-B0-5077 TCGA-B0-5081 
        2.27        36.85        70.52        20.94        43.30        11.90 
TCGA-B0-5084 TCGA-B0-5085 TCGA-B0-5088 TCGA-B0-5092 TCGA-B0-5094 TCGA-B0-5095 
        7.30        25.32        18.51        15.09        10.95         8.05 
TCGA-B0-5096 TCGA-B0-5097 TCGA-B0-5098 TCGA-B0-5099 TCGA-B0-5100 TCGA-B0-5102 
        2.24        21.86        52.08        15.95        62.89        90.87 
TCGA-B0-5104 TCGA-B0-5106 TCGA-B0-5107 TCGA-B0-5108 TCGA-B0-5110 TCGA-B0-5113 
       90.48        52.54        30.48        58.59        66.05        38.63 
TCGA-B0-5115 TCGA-B0-5116 TCGA-B0-5117 TCGA-B0-5119 TCGA-B0-5121 TCGA-B0-5399 
       52.73        41.88        52.87        51.02        48.82        46.39 
TCGA-B0-5400 TCGA-B0-5402 TCGA-B0-5690 TCGA-B0-5691 TCGA-B0-5692 TCGA-B0-5693 
       56.98        42.41       111.52       112.80       129.67       133.94 
TCGA-B0-5694 TCGA-B0-5695 TCGA-B0-5696 TCGA-B0-5697 TCGA-B0-5698 TCGA-B0-5699 
       15.78        70.68        85.78        86.47       119.38       126.28 
TCGA-B0-5701 TCGA-B0-5702 TCGA-B0-5703 TCGA-B0-5706 TCGA-B0-5709 TCGA-B0-5710 
       80.91        71.41        73.84       105.37       130.65        79.89 
TCGA-B0-5711 TCGA-B0-5712 TCGA-B0-5713 TCGA-B0-5812 TCGA-B2-3923 TCGA-B2-3924 
      131.15        89.49        91.46       126.05        32.61        35.90 
TCGA-B2-4098 TCGA-B2-4099 TCGA-B2-4101 TCGA-B2-4102 TCGA-B2-5633 TCGA-B2-5635 
        1.68        31.96        21.30        31.30        31.66        24.82 
TCGA-B2-5639 TCGA-B2-5641 TCGA-B2-A4SR TCGA-B4-5377 TCGA-B4-5378 TCGA-B4-5832 
       32.98        21.57        16.67        12.00         5.75         5.10 
TCGA-B4-5834 TCGA-B4-5835 TCGA-B4-5836 TCGA-B4-5838 TCGA-B4-5843 TCGA-B4-5844 
        0.85         0.53         4.64         5.46         0.36         0.23 
TCGA-B8-4143 TCGA-B8-4146 TCGA-B8-4148 TCGA-B8-4151 TCGA-B8-4153 TCGA-B8-4154 
       23.31        16.80        27.16        42.71        25.05        45.37 
TCGA-B8-4619 TCGA-B8-4620 TCGA-B8-4621 TCGA-B8-4622 TCGA-B8-5158 TCGA-B8-5162 
       17.19        25.55        25.91        50.14        20.91         1.18 
TCGA-B8-5163 TCGA-B8-5164 TCGA-B8-5165 TCGA-B8-5545 TCGA-B8-5546 TCGA-B8-5549 
       27.02         0.85        24.23        50.14        16.60         6.38 
TCGA-B8-5550 TCGA-B8-5551 TCGA-B8-5552 TCGA-B8-5553 TCGA-B8-A54E TCGA-B8-A54F 
       48.53         0.53        34.39        14.30        29.88        17.06 
TCGA-B8-A54G TCGA-B8-A54H TCGA-B8-A54J TCGA-B8-A54K TCGA-B8-A7U6 TCGA-B8-A8YJ 
        1.74         8.42        17.36        15.42        16.27        14.17 
TCGA-BP-4158 TCGA-BP-4159 TCGA-BP-4160 TCGA-BP-4161 TCGA-BP-4163 TCGA-BP-4164 
      111.02        85.51        94.72        90.28        93.34        32.61 
TCGA-BP-4165 TCGA-BP-4166 TCGA-BP-4167 TCGA-BP-4169 TCGA-BP-4170 TCGA-BP-4173 
       99.85         0.43        89.36        23.05        77.03        62.24 
TCGA-BP-4176 TCGA-BP-4177 TCGA-BP-4325 TCGA-BP-4326 TCGA-BP-4327 TCGA-BP-4329 
       64.27        54.90        97.45        53.42         3.58        27.78 
TCGA-BP-4330 TCGA-BP-4331 TCGA-BP-4332 TCGA-BP-4334 TCGA-BP-4335 TCGA-BP-4340 
       62.07        80.68        37.25        21.21        15.16        18.48 
TCGA-BP-4341 TCGA-BP-4342 TCGA-BP-4343 TCGA-BP-4344 TCGA-BP-4346 TCGA-BP-4347 
       52.24        74.17        62.86        54.77        49.08        44.94 
TCGA-BP-4349 TCGA-BP-4351 TCGA-BP-4353 TCGA-BP-4354 TCGA-BP-4355 TCGA-BP-4756 
       12.23        31.89        12.33        33.99        31.33        12.30 
TCGA-BP-4758 TCGA-BP-4759 TCGA-BP-4760 TCGA-BP-4761 TCGA-BP-4762 TCGA-BP-4763 
       72.59        77.98        77.62         5.98        44.15        41.75 
TCGA-BP-4765 TCGA-BP-4766 TCGA-BP-4768 TCGA-BP-4769 TCGA-BP-4770 TCGA-BP-4771 
       71.80        48.07        13.15        61.68        10.82         5.33 
TCGA-BP-4774 TCGA-BP-4775 TCGA-BP-4776 TCGA-BP-4777 TCGA-BP-4781 TCGA-BP-4782 
       61.97        60.59        13.51        56.91        68.38        11.64 
TCGA-BP-4784 TCGA-BP-4787 TCGA-BP-4789 TCGA-BP-4790 TCGA-BP-4795 TCGA-BP-4797 
       60.95        15.78        48.95        36.53        20.38        36.39 
TCGA-BP-4798 TCGA-BP-4801 TCGA-BP-4803 TCGA-BP-4804 TCGA-BP-4807 TCGA-BP-4960 
       10.98        36.95         6.71        47.97         6.94        71.41 
TCGA-BP-4961 TCGA-BP-4962 TCGA-BP-4963 TCGA-BP-4964 TCGA-BP-4965 TCGA-BP-4967 
       63.62        58.68        60.30        61.22        61.51         6.74 
TCGA-BP-4968 TCGA-BP-4970 TCGA-BP-4971 TCGA-BP-4972 TCGA-BP-4973 TCGA-BP-4974 
       57.40        14.24        48.89        49.38        45.50         6.90 
TCGA-BP-4975 TCGA-BP-4976 TCGA-BP-4977 TCGA-BP-4981 TCGA-BP-4982 TCGA-BP-4983 
       47.11        53.65        14.93        36.07        33.34        46.45 
TCGA-BP-4985 TCGA-BP-4986 TCGA-BP-4987 TCGA-BP-4988 TCGA-BP-4991 TCGA-BP-4992 
       31.30        25.81        36.95        27.22        46.45        16.47 
TCGA-BP-4993 TCGA-BP-4994 TCGA-BP-4995 TCGA-BP-4998 TCGA-BP-4999 TCGA-BP-5000 
        5.82        43.00        45.07        30.64        41.62        18.51 
TCGA-BP-5001 TCGA-BP-5004 TCGA-BP-5006 TCGA-BP-5007 TCGA-BP-5008 TCGA-BP-5009 
       38.70        37.02        27.62        37.48        35.21        36.23 
TCGA-BP-5010 TCGA-BP-5168 TCGA-BP-5169 TCGA-BP-5170 TCGA-BP-5173 TCGA-BP-5174 
       28.87        48.10         6.35        79.30         1.74        74.20 
TCGA-BP-5175 TCGA-BP-5177 TCGA-BP-5178 TCGA-BP-5180 TCGA-BP-5181 TCGA-BP-5182 
       30.64         9.63        62.86        74.40        49.15        38.30 
TCGA-BP-5183 TCGA-BP-5184 TCGA-BP-5185 TCGA-BP-5186 TCGA-BP-5187 TCGA-BP-5189 
       42.44        37.25        37.22        22.78        13.35        27.02 
TCGA-BP-5190 TCGA-BP-5191 TCGA-BP-5192 TCGA-BP-5194 TCGA-BP-5195 TCGA-BP-5196 
       33.24        31.79        23.47        13.41        24.62        33.47 
TCGA-BP-5198 TCGA-BP-5199 TCGA-BP-5200 TCGA-BP-5201 TCGA-BP-5202 TCGA-CJ-4634 
       19.82        44.55        34.95        31.27         0.95       115.00 
TCGA-CJ-4635 TCGA-CJ-4636 TCGA-CJ-4637 TCGA-CJ-4638 TCGA-CJ-4639 TCGA-CJ-4640 
       46.55        63.25        73.22        14.17       106.16       114.41 
TCGA-CJ-4641 TCGA-CJ-4642 TCGA-CJ-4643 TCGA-CJ-4644 TCGA-CJ-4868 TCGA-CJ-4869 
       54.61       105.37        58.95        11.05        21.24        83.97 
TCGA-CJ-4870 TCGA-CJ-4871 TCGA-CJ-4872 TCGA-CJ-4873 TCGA-CJ-4874 TCGA-CJ-4875 
       49.25        79.66        10.72        74.27        75.06       116.84 
TCGA-CJ-4876 TCGA-CJ-4878 TCGA-CJ-4881 TCGA-CJ-4882 TCGA-CJ-4884 TCGA-CJ-4886 
       64.27        71.87        66.21        61.91        57.83        64.18 
TCGA-CJ-4887 TCGA-CJ-4888 TCGA-CJ-4889 TCGA-CJ-4890 TCGA-CJ-4891 TCGA-CJ-4892 
       30.64        51.52        63.98       115.69        26.93        50.01 
TCGA-CJ-4893 TCGA-CJ-4894 TCGA-CJ-4895 TCGA-CJ-4897 TCGA-CJ-4899 TCGA-CJ-4900 
       24.66        27.65        39.45       109.84        50.24        56.35 
TCGA-CJ-4901 TCGA-CJ-4902 TCGA-CJ-4903 TCGA-CJ-4904 TCGA-CJ-4905 TCGA-CJ-4907 
       47.67        49.97        51.25       108.56        49.18        49.28 
TCGA-CJ-4908 TCGA-CJ-4912 TCGA-CJ-4913 TCGA-CJ-4916 TCGA-CJ-4918 TCGA-CJ-4920 
       50.33        54.48        38.56        45.14         3.06         4.57 
TCGA-CJ-4923 TCGA-CJ-5671 TCGA-CJ-5672 TCGA-CJ-5675 TCGA-CJ-5676 TCGA-CJ-5677 
       18.81       131.08        72.00       129.40       133.71        25.71 
TCGA-CJ-5678 TCGA-CJ-5679 TCGA-CJ-5680 TCGA-CJ-5682 TCGA-CJ-5683 TCGA-CJ-5684 
       18.87        22.32        25.25       122.83        62.10        73.35 
TCGA-CJ-5686 TCGA-CJ-5689 TCGA-CJ-6027 TCGA-CJ-6028 TCGA-CJ-6030 TCGA-CJ-6032 
       67.00        53.26       118.85        53.42        75.58       119.64 
TCGA-CJ-6033 TCGA-CW-5580 TCGA-CW-5583 TCGA-CW-5584 TCGA-CW-5585 TCGA-CW-5587 
        7.36        64.57        81.83         5.39        85.78        73.18 
TCGA-CW-5588 TCGA-CW-5589 TCGA-CW-6087 TCGA-CW-6088 TCGA-CW-6090 TCGA-CW-6093 
       66.31        78.18         1.35       105.93        83.90       103.43 
TCGA-CW-6097 TCGA-CZ-4853 TCGA-CZ-4856 TCGA-CZ-4857 TCGA-CZ-4858 TCGA-CZ-4859 
       18.77        25.45         0.59        47.08        69.21        58.75 
TCGA-CZ-4860 TCGA-CZ-4861 TCGA-CZ-4862 TCGA-CZ-4863 TCGA-CZ-4864 TCGA-CZ-4865 
        6.77        14.66       107.54        63.39        93.04         5.46 
TCGA-CZ-4866 TCGA-CZ-5451 TCGA-CZ-5452 TCGA-CZ-5453 TCGA-CZ-5454 TCGA-CZ-5455 
       61.41        63.42        58.82        79.53        23.74        18.44 
TCGA-CZ-5457 TCGA-CZ-5459 TCGA-CZ-5460 TCGA-CZ-5462 TCGA-CZ-5463 TCGA-CZ-5465 
       90.54        55.33        94.45        10.22        21.76        84.30 
TCGA-CZ-5466 TCGA-CZ-5467 TCGA-CZ-5468 TCGA-CZ-5469 TCGA-CZ-5470 TCGA-CZ-5982 
       22.52         2.40         1.94        31.10        12.69        80.19 
TCGA-CZ-5984 TCGA-CZ-5985 TCGA-CZ-5986 TCGA-CZ-5987 TCGA-CZ-5988 TCGA-CZ-5989 
       67.96        65.65        12.26        14.63        22.78        62.63 
TCGA-DV-5565 TCGA-DV-5566 TCGA-DV-5567 TCGA-DV-5568 TCGA-DV-5569 TCGA-DV-5573 
       13.28        45.96        65.88        12.16        11.67        37.15 
TCGA-DV-5574 TCGA-DV-5575 TCGA-DV-5576 TCGA-DV-A4VZ TCGA-DV-A4W0 TCGA-EU-5904 
       66.28        56.84        23.90        12.00        81.21        18.12 
TCGA-EU-5906 TCGA-EU-5907 TCGA-G6-A5PC TCGA-G6-A8L6 TCGA-G6-A8L7 TCGA-G6-A8L8 
        6.77         4.18         7.96        10.29        70.13        35.87 
TCGA-GK-A6C7 TCGA-MM-A563 TCGA-MM-A564 TCGA-MW-A4EC TCGA-T7-A92I TCGA-2K-A9WE 
        2.01        19.43        19.96        16.37        11.70         7.04 
TCGA-2Z-A9J7 TCGA-2Z-A9J8 TCGA-2Z-A9J9 TCGA-2Z-A9JD TCGA-2Z-A9JE TCGA-2Z-A9JG 
        4.57        91.73        75.42        34.85        56.81        54.64 
TCGA-2Z-A9JI TCGA-2Z-A9JJ TCGA-2Z-A9JK TCGA-2Z-A9JL TCGA-2Z-A9JM TCGA-2Z-A9JN 
       51.52        39.88        38.99        33.07        30.71        24.33 
TCGA-2Z-A9JO TCGA-2Z-A9JP TCGA-2Z-A9JR TCGA-2Z-A9JS TCGA-2Z-A9JT TCGA-4A-A93W 
       31.20        29.36         5.29        16.18        22.49         0.13 
TCGA-4A-A93X TCGA-4A-A93Y TCGA-5P-A9JU TCGA-5P-A9JV TCGA-5P-A9JW TCGA-5P-A9JZ 
       12.82        11.57        12.26        67.17       106.55        90.21 
TCGA-5P-A9K0 TCGA-5P-A9K3 TCGA-5P-A9K6 TCGA-5P-A9K8 TCGA-5P-A9K9 TCGA-5P-A9KA 
       22.26        15.48        62.93        43.04        19.36        12.99 
TCGA-5P-A9KC TCGA-5P-A9KE TCGA-5P-A9KH TCGA-A4-7286 TCGA-A4-7287 TCGA-A4-7288 
       12.39        27.09        67.43        18.21        19.63        61.05 
TCGA-A4-7583 TCGA-A4-7584 TCGA-A4-7585 TCGA-A4-7734 TCGA-A4-7828 TCGA-A4-7915 
        0.10        21.37        35.18         0.89         7.82         0.23 
TCGA-A4-7996 TCGA-A4-7997 TCGA-A4-8098 TCGA-A4-8310 TCGA-A4-8312 TCGA-A4-8515 
       16.64        30.48        29.46        25.64        23.28        23.31 
TCGA-A4-8516 TCGA-A4-8517 TCGA-A4-8518 TCGA-A4-A57E TCGA-A4-A5Y0 TCGA-A4-A5Y1 
        0.76        19.63        19.73         8.48         8.28        12.99 
TCGA-A4-A6HP TCGA-AL-3466 TCGA-AL-3467 TCGA-AL-3472 TCGA-AL-3473 TCGA-AL-7173 
       12.46         9.63        70.19        66.71        62.66        67.73 
TCGA-AL-A5DJ TCGA-B1-5398 TCGA-B1-7332 TCGA-B1-A47O TCGA-B1-A654 TCGA-B1-A655 
       49.25        19.56        37.51        16.87        20.25        16.77 
TCGA-B3-3925 TCGA-B3-3926 TCGA-B3-4104 TCGA-B3-8121 TCGA-B9-4115 TCGA-B9-A5W7 
       33.83        10.09        34.49        12.46        26.40        19.23 
TCGA-B9-A5W8 TCGA-B9-A69E TCGA-B9-A8YI TCGA-BQ-5875 TCGA-BQ-5876 TCGA-BQ-5877 
       17.23        14.86        12.30        86.76        19.27         8.88 
TCGA-BQ-5878 TCGA-BQ-5879 TCGA-BQ-5880 TCGA-BQ-5882 TCGA-BQ-5883 TCGA-BQ-5884 
       63.72        22.92        43.20        21.63        40.83        26.04 
TCGA-BQ-5885 TCGA-BQ-5886 TCGA-BQ-5888 TCGA-BQ-5889 TCGA-BQ-5890 TCGA-BQ-5892 
       30.28        26.04        13.25        10.82         7.66        11.97 
TCGA-BQ-5894 TCGA-BQ-7044 TCGA-BQ-7048 TCGA-BQ-7049 TCGA-BQ-7050 TCGA-BQ-7051 
        2.76       123.62        93.34        44.84        61.28        50.40 
TCGA-BQ-7053 TCGA-BQ-7055 TCGA-BQ-7056 TCGA-BQ-7058 TCGA-BQ-7059 TCGA-BQ-7061 
       49.84        26.27        20.12        11.28         7.63         7.17 
TCGA-DW-5560 TCGA-DW-7834 TCGA-DW-7837 TCGA-DW-7838 TCGA-DW-7839 TCGA-DW-7840 
       48.85       129.86        37.55        24.46        13.78         3.75 
TCGA-DZ-6132 TCGA-DZ-6134 TCGA-DZ-6135 TCGA-EV-5901 TCGA-EV-5902 TCGA-EV-5903 
       80.88        61.02        74.60        34.19        19.00        24.89 
TCGA-F9-A4JJ TCGA-F9-A7Q0 TCGA-G7-6789 TCGA-G7-6792 TCGA-G7-6793 TCGA-G7-6796 
       10.68        13.08         4.01        90.90        11.05        71.44 
TCGA-G7-6797 TCGA-G7-7501 TCGA-G7-7502 TCGA-G7-A8LC TCGA-G7-A8LD TCGA-G7-A8LE 
       25.15        20.52        25.84        23.08        16.90        80.65 
TCGA-GL-7773 TCGA-GL-7966 TCGA-GL-8500 TCGA-GL-A4EM TCGA-GL-A59R TCGA-GL-A9DC 
       12.92         3.68        27.65         1.05        12.43        12.89 
TCGA-GL-A9DD TCGA-GL-A9DE TCGA-HE-A5NH TCGA-HE-A5NK TCGA-IA-A40U TCGA-IA-A40X 
       11.21        16.31        26.01        73.25        16.80        19.99 
TCGA-IA-A40Y TCGA-IA-A83S TCGA-IA-A83T TCGA-IA-A83V TCGA-IA-A83W TCGA-IZ-8195 
        2.04        85.78        88.24        96.69        67.17        22.26 
TCGA-IZ-8196 TCGA-IZ-A6M8 TCGA-IZ-A6M9 TCGA-J7-6720 TCGA-J7-8537 TCGA-MH-A55Z 
       21.34        16.34        12.36        12.76        10.55        27.78 
TCGA-MH-A560 TCGA-MH-A561 TCGA-MH-A562 TCGA-MH-A854 TCGA-MH-A855 TCGA-MH-A856 
       30.38        27.65        20.25        17.62        12.13        31.13 
TCGA-MH-A857 TCGA-O9-A75Z TCGA-P4-A5E6 TCGA-P4-A5E8 TCGA-P4-A5EA TCGA-P4-A5ED 
       29.26        15.48        99.78        42.94         6.61        92.58 
TCGA-P4-AAVK TCGA-P4-AAVM TCGA-P4-AAVO TCGA-PJ-A5Z8 TCGA-Q2-A5QZ TCGA-SX-A71R 
       52.27        50.60        78.90        19.73        14.07        47.90 
TCGA-SX-A71S TCGA-SX-A7SL TCGA-SX-A7SM TCGA-SX-A7SO TCGA-SX-A7SU TCGA-UN-AAZ9 
       49.45        27.06        11.93        41.33        43.76        18.02 
TCGA-UZ-A9PJ TCGA-UZ-A9PL TCGA-UZ-A9PM TCGA-UZ-A9PN TCGA-UZ-A9PP TCGA-UZ-A9PQ 
       26.20       103.63       125.29        37.35        98.96        86.27 
TCGA-UZ-A9PR TCGA-UZ-A9PS TCGA-UZ-A9PV TCGA-WN-A9G9 TCGA-WN-AB4C TCGA-Y8-A894 
       86.37        71.24        47.47        26.01        39.06        18.64 
TCGA-Y8-A896 TCGA-Y8-A897 TCGA-Y8-A898 TCGA-Y8-A8RY TCGA-Y8-A8RZ TCGA-Y8-A8S0 
       18.64        18.05        15.62        25.28         3.68         6.02 
TCGA-Y8-A8S1 
       13.28 

  AMP PEAK 13(XQ28) MUTATED AMP PEAK 13(XQ28) WILD-TYPE 
                       0.07                        0.10 
  AMP PEAK 13(XQ28) MUTATED AMP PEAK 13(XQ28) WILD-TYPE 
                     194.79                      151.96 
  AMP PEAK 13(XQ28) MUTATED AMP PEAK 13(XQ28) WILD-TYPE 
                     28.555                      36.230 
[1] "0.1 - 194.8 (28.6)" "0.1 - 152.0 (36.2)"
[1] "hr=" "1.4"
D13V2, continuous
                             vv
clus                          STAGE I STAGE II STAGE III STAGE IV
  AMP PEAK 13(XQ28) MUTATED        80       13        19       15
  AMP PEAK 13(XQ28) WILD-TYPE     375       91       172       89
D13V3, multiclass
           clus
vv          AMP PEAK 13(XQ28) MUTATED AMP PEAK 13(XQ28) WILD-TYPE
  STAGE I                          80                         375
  STAGE II                         13                          91
  STAGE III                        19                         172
  STAGE IV                         15                          89
[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                           T1  T2  T3  T4
  AMP PEAK 13(XQ28) MUTATED    85  21  28   3
  AMP PEAK 13(XQ28) WILD-TYPE 394 106 230  12
D13V4, multiclass
    clus
vv   AMP PEAK 13(XQ28) MUTATED AMP PEAK 13(XQ28) WILD-TYPE
  T1                        85                         394
  T2                        21                         106
  T3                        28                         230
  T4                         3                          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"
                             vv
clus                           N0  N1  N2
  AMP PEAK 13(XQ28) MUTATED    41   4   0
  AMP PEAK 13(XQ28) WILD-TYPE 281  40   7
D13V5, multiclass
    clus
vv   AMP PEAK 13(XQ28) MUTATED AMP PEAK 13(XQ28) WILD-TYPE
  N0                        41                         281
  N1                         4                          40
  N2                         0                           7
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D13V6, binary
                             cls
clus                            0   1
  AMP PEAK 13(XQ28) MUTATED    58  12
  AMP PEAK 13(XQ28) WILD-TYPE 487  77
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK 13(XQ28) MUTATED     58   12
  AMP PEAK 13(XQ28) WILD-TYPE  487   77
   clus
vv  AMP PEAK 13(XQ28) MUTATED AMP PEAK 13(XQ28) WILD-TYPE
  0                        58                         487
  1                        12                          77
[1] 2 2
[1] FALSE
D13V7, binary
                             cls
clus                            0   1
  AMP PEAK 13(XQ28) MUTATED    32 105
  AMP PEAK 13(XQ28) WILD-TYPE 260 484
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK 13(XQ28) MUTATED     32  105
  AMP PEAK 13(XQ28) WILD-TYPE  260  484
        clus
vv       AMP PEAK 13(XQ28) MUTATED AMP PEAK 13(XQ28) WILD-TYPE
  FEMALE                        32                         260
  MALE                         105                         484
[1] 2 2
[1] FALSE
D13V8, binary
                             cls
clus                            0   1
  AMP PEAK 13(XQ28) MUTATED    78   0
  AMP PEAK 13(XQ28) WILD-TYPE 322   3
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK 13(XQ28) MUTATED     78    0
  AMP PEAK 13(XQ28) WILD-TYPE  322    3
     clus
vv    AMP PEAK 13(XQ28) MUTATED AMP PEAK 13(XQ28) WILD-TYPE
  NO                         78                         322
  YES                         0                           3
[1] 2 2
[1] FALSE
D13V9, continuous
                             vv
clus                          KIDNEY CHROMOPHOBE
  AMP PEAK 13(XQ28) MUTATED                    8
  AMP PEAK 13(XQ28) WILD-TYPE                 58
                             vv
clus                          KIDNEY CLEAR CELL RENAL CARCINOMA
  AMP PEAK 13(XQ28) MUTATED                                  38
  AMP PEAK 13(XQ28) WILD-TYPE                               490
                             vv
clus                          KIDNEY PAPILLARY RENAL CELL CARCINOMA
  AMP PEAK 13(XQ28) MUTATED                                      91
  AMP PEAK 13(XQ28) WILD-TYPE                                   196
D13V10, multiclass
                                       clus
vv                                      AMP PEAK 13(XQ28) MUTATED
  KIDNEY CHROMOPHOBE                                            8
  KIDNEY CLEAR CELL RENAL CARCINOMA                            38
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                        91
                                       clus
vv                                      AMP PEAK 13(XQ28) WILD-TYPE
  KIDNEY CHROMOPHOBE                                             58
  KIDNEY CLEAR CELL RENAL CARCINOMA                             490
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                         196
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D13V11, continuous
D13V12, continuous
                             vv
clus                          AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK 13(XQ28) MUTATED                                  1     2
  AMP PEAK 13(XQ28) WILD-TYPE                                1    13
                             vv
clus                          BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 13(XQ28) MUTATED                          25   103
  AMP PEAK 13(XQ28) WILD-TYPE                        96   616
D13V13, multiclass
                                  clus
vv                                 AMP PEAK 13(XQ28) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                         1
  ASIAN                                                    2
  BLACK OR AFRICAN AMERICAN                               25
  WHITE                                                  103
                                  clus
vv                                 AMP PEAK 13(XQ28) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                           1
  ASIAN                                                     13
  BLACK OR AFRICAN AMERICAN                                 96
  WHITE                                                    616
[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"
D13V14, binary
                             cls
clus                            0   1
  AMP PEAK 13(XQ28) MUTATED     4 107
  AMP PEAK 13(XQ28) WILD-TYPE  38 514
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK 13(XQ28) MUTATED      4  107
  AMP PEAK 13(XQ28) WILD-TYPE   38  514
                        clus
vv                       AMP PEAK 13(XQ28) MUTATED AMP PEAK 13(XQ28) WILD-TYPE
  HISPANIC OR LATINO                             4                          38
  NOT HISPANIC OR LATINO                       107                         514
[1] 2 2
[1] FALSE

Clustering(14) Variable = DEL PEAK  1(1P36.31) MUTATION ANALYSIS
D14V1, survival
                                sevent
clus2                              0   1
  DEL PEAK  1(1P36.31) MUTATED   138  70
  DEL PEAK  1(1P36.31) WILD-TYPE 507 158
  DEL PEAK  1(1P36.31) MUTATED DEL PEAK  1(1P36.31) WILD-TYPE 
                           208                            665 
  DEL PEAK  1(1P36.31) MUTATED DEL PEAK  1(1P36.31) WILD-TYPE 
                            70                            158 
$`DEL PEAK  1(1P36.31) MUTATED`
TCGA-KL-8323 TCGA-KL-8324 TCGA-KL-8325 TCGA-KL-8326 TCGA-KL-8327 TCGA-KL-8328 
       38.07       141.73        23.84       109.22       137.06       102.81 
TCGA-KL-8329 TCGA-KL-8330 TCGA-KL-8331 TCGA-KL-8332 TCGA-KL-8333 TCGA-KL-8334 
       90.48       108.62        98.96        84.89        98.33        96.95 
TCGA-KL-8335 TCGA-KL-8336 TCGA-KL-8337 TCGA-KL-8338 TCGA-KL-8339 TCGA-KL-8340 
       92.55        30.25        44.84        86.56        28.11        66.54 
TCGA-KL-8341 TCGA-KL-8342 TCGA-KL-8343 TCGA-KL-8344 TCGA-KL-8345 TCGA-KL-8346 
       24.79        73.91        71.41        28.80        54.74        62.37 
TCGA-KM-8438 TCGA-KM-8440 TCGA-KM-8442 TCGA-KM-8443 TCGA-KM-8476 TCGA-KN-8418 
      151.96        44.91        47.24        49.97       123.12       129.37 
TCGA-KN-8421 TCGA-KN-8422 TCGA-KN-8424 TCGA-KN-8425 TCGA-KN-8427 TCGA-KN-8429 
       87.91        25.48        65.19       104.52         0.99        87.12 
TCGA-KN-8431 TCGA-KN-8432 TCGA-KN-8434 TCGA-KN-8435 TCGA-KN-8436 TCGA-KO-8403 
       19.33         2.50        59.08       115.00        42.35       105.47 
TCGA-KO-8405 TCGA-KO-8406 TCGA-KO-8407 TCGA-KO-8408 TCGA-KO-8409 TCGA-KO-8411 
      100.47       103.40        92.71        16.67       104.55       130.13 
TCGA-KO-8414 TCGA-KO-8415 TCGA-KO-8416 TCGA-KO-8417 TCGA-A3-3313 TCGA-A3-3316 
      105.60        96.62        90.48        92.55        24.16        49.08 
TCGA-A3-3347 TCGA-A3-3373 TCGA-A3-3374 TCGA-A3-3380 TCGA-AK-3427 TCGA-AK-3433 
       52.93        53.29        43.20        18.64       117.80       112.08 
TCGA-AK-3436 TCGA-AK-3440 TCGA-AK-3447 TCGA-AK-3453 TCGA-AK-3465 TCGA-AS-3777 
      109.51        94.19        40.01        83.21        12.13        40.70 
TCGA-B0-4690 TCGA-B0-4691 TCGA-B0-4698 TCGA-B0-4699 TCGA-B0-4700 TCGA-B0-4718 
        1.41         4.57         1.38         3.62        65.10        58.45 
TCGA-B0-4813 TCGA-B0-4821 TCGA-B0-4822 TCGA-B0-4834 TCGA-B0-4843 TCGA-B0-4845 
        0.59        40.44        36.53        68.71        10.52        65.29 
TCGA-B0-4852 TCGA-B0-4945 TCGA-B0-5084 TCGA-B0-5092 TCGA-B0-5098 TCGA-B0-5102 
       36.85        70.52         7.30        15.09        52.08        90.87 
TCGA-B0-5117 TCGA-B0-5701 TCGA-B0-5703 TCGA-B0-5709 TCGA-B2-3923 TCGA-B2-4098 
       52.87        80.91        73.84       130.65        32.61         1.68 
TCGA-B2-5641 TCGA-B4-5832 TCGA-B4-5835 TCGA-B4-5838 TCGA-B8-4143 TCGA-B8-4619 
       21.57         5.10         0.53         5.46        23.31        17.19 
TCGA-B8-5162 TCGA-B8-5164 TCGA-B8-5549 TCGA-B8-5550 TCGA-B8-5551 TCGA-BP-4176 
        1.18         0.85         6.38        48.53         0.53        64.27 
TCGA-BP-4334 TCGA-BP-4338 TCGA-BP-4340 TCGA-BP-4342 TCGA-BP-4343 TCGA-BP-4352 
       21.21        93.99        18.48        74.17        62.86        11.31 
TCGA-BP-4353 TCGA-BP-4768 TCGA-BP-4771 TCGA-BP-4775 TCGA-BP-4781 TCGA-BP-4965 
       12.33        13.15         5.33        60.59        68.38        61.51 
TCGA-BP-4968 TCGA-BP-4985 TCGA-BP-4986 TCGA-BP-4989 TCGA-BP-4994 TCGA-BP-5004 
       57.40        31.30        25.81         3.88        43.00        37.02 
TCGA-BP-5173 TCGA-BP-5185 TCGA-BP-5201 TCGA-CJ-4635 TCGA-CJ-4637 TCGA-CJ-4640 
        1.74        37.22        31.27        46.55        73.22       114.41 
TCGA-CJ-4641 TCGA-CJ-4869 TCGA-CJ-4876 TCGA-CJ-4894 TCGA-CJ-4897 TCGA-CJ-4901 
       54.61        83.97        64.27        27.65       109.84        47.67 
TCGA-CJ-4903 TCGA-CJ-4907 TCGA-CJ-5678 TCGA-CJ-5679 TCGA-CJ-6027 TCGA-CJ-6030 
       51.25        49.28        18.87        22.32       118.85        75.58 
TCGA-CJ-6033 TCGA-CW-5580 TCGA-CW-5588 TCGA-CW-6090 TCGA-CW-6097 TCGA-CZ-4857 
        7.36        64.57        66.31        83.90        18.77        47.08 
TCGA-CZ-4860 TCGA-CZ-4864 TCGA-CZ-4866 TCGA-CZ-5457 TCGA-CZ-5462 TCGA-CZ-5469 
        6.77        93.04        61.41        90.54        10.22        31.10 
TCGA-EU-5907 TCGA-G6-A8L8 TCGA-GK-A6C7 TCGA-T7-A92I TCGA-2Z-A9J8 TCGA-2Z-A9JG 
        4.18        35.87         2.01        11.70        91.73        54.64 
TCGA-2Z-A9JI TCGA-4A-A93X TCGA-5P-A9JY TCGA-5P-A9K3 TCGA-5P-A9K8 TCGA-5P-A9K9 
       51.52        12.82        49.58        15.48        43.04        19.36 
TCGA-5P-A9KH TCGA-A4-7286 TCGA-A4-7583 TCGA-A4-8098 TCGA-A4-A5XZ TCGA-A4-A5Y1 
       67.43        18.21         0.10        29.46        15.75        12.99 
TCGA-AL-3466 TCGA-AL-A5DJ TCGA-B1-7332 TCGA-B3-3926 TCGA-B9-4116 TCGA-B9-A44B 
        9.63        49.25        37.51        10.09        20.61         2.10 
TCGA-B9-A5W8 TCGA-B9-A69E TCGA-BQ-5875 TCGA-BQ-5877 TCGA-BQ-5879 TCGA-BQ-5882 
       17.23        14.86        86.76         8.88        22.92        21.63 
TCGA-BQ-5885 TCGA-BQ-5888 TCGA-BQ-5890 TCGA-BQ-5894 TCGA-BQ-7044 TCGA-BQ-7055 
       30.28        13.25         7.66         2.76       123.62        26.27 
TCGA-F9-A4JJ TCGA-F9-A7Q0 TCGA-G7-6789 TCGA-G7-6797 TCGA-G7-7501 TCGA-G7-7502 
       10.68        13.08         4.01        25.15        20.52        25.84 
TCGA-G7-A8LC TCGA-G7-A8LD TCGA-GL-7966 TCGA-GL-8500 TCGA-HE-A5NK TCGA-IA-A40Y 
       23.08        16.90         3.68        27.65        73.25         2.04 
TCGA-J7-8537 TCGA-P4-A5EA TCGA-P4-AAVO TCGA-PJ-A5Z8 TCGA-Q2-A5QZ TCGA-UN-AAZ9 
       10.55         6.61        78.90        19.73        14.07        18.02 
TCGA-UZ-A9PN TCGA-UZ-A9PQ TCGA-WN-A9G9 TCGA-Y8-A8RZ 
       37.35        86.27        26.01         3.68 

$`DEL PEAK  1(1P36.31) WILD-TYPE`
TCGA-KM-8439 TCGA-KM-8441 TCGA-KM-8477 TCGA-KM-8639 TCGA-KN-8419 TCGA-KN-8423 
       23.28        28.80        51.06        31.33        23.47        25.91 
TCGA-KN-8426 TCGA-KN-8428 TCGA-KN-8433 TCGA-KN-8437 TCGA-KO-8404 TCGA-KO-8410 
        3.55        52.27        11.21       100.87        10.68       103.10 
TCGA-KO-8413 TCGA-3Z-A93Z TCGA-6D-AA2E TCGA-A3-3306 TCGA-A3-3307 TCGA-A3-3308 
       99.88        12.66        11.90        36.82        47.21         0.53 
TCGA-A3-3311 TCGA-A3-3317 TCGA-A3-3319 TCGA-A3-3320 TCGA-A3-3322 TCGA-A3-3323 
       39.16        49.02        37.15        49.58        48.59        36.36 
TCGA-A3-3324 TCGA-A3-3325 TCGA-A3-3326 TCGA-A3-3331 TCGA-A3-3335 TCGA-A3-3336 
       38.99        38.47        37.38        48.82        62.01        34.29 
TCGA-A3-3343 TCGA-A3-3346 TCGA-A3-3349 TCGA-A3-3351 TCGA-A3-3352 TCGA-A3-3357 
       31.07         4.50        45.53        29.92        18.44        88.37 
TCGA-A3-3358 TCGA-A3-3359 TCGA-A3-3362 TCGA-A3-3363 TCGA-A3-3365 TCGA-A3-3367 
       42.97        82.32        51.25        10.49        28.70        74.63 
TCGA-A3-3370 TCGA-A3-3372 TCGA-A3-3376 TCGA-A3-3378 TCGA-A3-3382 TCGA-A3-3383 
       74.76        24.16        55.76        20.71        18.87        28.31 
TCGA-A3-3385 TCGA-A3-3387 TCGA-A3-A6NI TCGA-A3-A6NJ TCGA-A3-A6NL TCGA-A3-A6NN 
       65.52        20.28        33.47        15.39        22.65         0.10 
TCGA-A3-A8CQ TCGA-A3-A8OV TCGA-A3-A8OW TCGA-AK-3425 TCGA-AK-3426 TCGA-AK-3428 
        0.10        11.18        10.62       109.91        29.10        73.08 
TCGA-AK-3429 TCGA-AK-3430 TCGA-AK-3431 TCGA-AK-3434 TCGA-AK-3443 TCGA-AK-3444 
      109.41        15.78        73.68        68.61        46.78        48.36 
TCGA-AK-3445 TCGA-AK-3450 TCGA-AK-3451 TCGA-AK-3454 TCGA-AK-3455 TCGA-AK-3456 
       78.64        49.28        94.29        28.73        22.45        37.58 
TCGA-AK-3458 TCGA-AK-3460 TCGA-AK-3461 TCGA-AS-3778 TCGA-B0-4688 TCGA-B0-4693 
       38.40        82.45        72.89         1.41         3.32         2.53 
TCGA-B0-4694 TCGA-B0-4696 TCGA-B0-4697 TCGA-B0-4701 TCGA-B0-4703 TCGA-B0-4706 
        3.48        28.47        19.00         7.82         5.98         2.14 
TCGA-B0-4707 TCGA-B0-4710 TCGA-B0-4712 TCGA-B0-4713 TCGA-B0-4714 TCGA-B0-4810 
       19.73        57.70        43.96         6.64         3.25        15.72 
TCGA-B0-4811 TCGA-B0-4814 TCGA-B0-4815 TCGA-B0-4816 TCGA-B0-4817 TCGA-B0-4818 
       46.59         5.52        52.21        45.07        33.50        16.77 
TCGA-B0-4819 TCGA-B0-4823 TCGA-B0-4824 TCGA-B0-4827 TCGA-B0-4828 TCGA-B0-4833 
        6.02        14.93        54.48        29.10        10.09        78.44 
TCGA-B0-4836 TCGA-B0-4837 TCGA-B0-4838 TCGA-B0-4839 TCGA-B0-4841 TCGA-B0-4842 
       40.70        45.30        27.42        53.88         6.71        56.68 
TCGA-B0-4844 TCGA-B0-4846 TCGA-B0-4847 TCGA-B0-4848 TCGA-B0-4849 TCGA-B0-5075 
       10.29        39.45        26.07        29.03         2.27        20.94 
TCGA-B0-5077 TCGA-B0-5080 TCGA-B0-5081 TCGA-B0-5085 TCGA-B0-5088 TCGA-B0-5094 
       43.30        11.24        11.90        25.32        18.51        10.95 
TCGA-B0-5095 TCGA-B0-5096 TCGA-B0-5097 TCGA-B0-5099 TCGA-B0-5100 TCGA-B0-5104 
        8.05         2.24        21.86        15.95        62.89        90.48 
TCGA-B0-5106 TCGA-B0-5107 TCGA-B0-5108 TCGA-B0-5109 TCGA-B0-5110 TCGA-B0-5113 
       52.54        30.48        58.59        19.30        66.05        38.63 
TCGA-B0-5115 TCGA-B0-5116 TCGA-B0-5119 TCGA-B0-5120 TCGA-B0-5121 TCGA-B0-5399 
       52.73        41.88        51.02        38.43        48.82        46.39 
TCGA-B0-5400 TCGA-B0-5402 TCGA-B0-5690 TCGA-B0-5691 TCGA-B0-5692 TCGA-B0-5693 
       56.98        42.41       111.52       112.80       129.67       133.94 
TCGA-B0-5694 TCGA-B0-5695 TCGA-B0-5696 TCGA-B0-5697 TCGA-B0-5698 TCGA-B0-5699 
       15.78        70.68        85.78        86.47       119.38       126.28 
TCGA-B0-5702 TCGA-B0-5705 TCGA-B0-5706 TCGA-B0-5710 TCGA-B0-5711 TCGA-B0-5712 
       71.41       149.16       105.37        79.89       131.15        89.49 
TCGA-B0-5713 TCGA-B0-5812 TCGA-B2-3924 TCGA-B2-4099 TCGA-B2-4101 TCGA-B2-4102 
       91.46       126.05        35.90        31.96        21.30        31.30 
TCGA-B2-5633 TCGA-B2-5635 TCGA-B2-5639 TCGA-B2-A4SR TCGA-B4-5377 TCGA-B4-5378 
       31.66        24.82        32.98        16.67        12.00         5.75 
TCGA-B4-5834 TCGA-B4-5836 TCGA-B4-5843 TCGA-B4-5844 TCGA-B8-4146 TCGA-B8-4148 
        0.85         4.64         0.36         0.23        16.80        27.16 
TCGA-B8-4151 TCGA-B8-4153 TCGA-B8-4154 TCGA-B8-4620 TCGA-B8-4621 TCGA-B8-4622 
       42.71        25.05        45.37        25.55        25.91        50.14 
TCGA-B8-5158 TCGA-B8-5159 TCGA-B8-5163 TCGA-B8-5165 TCGA-B8-5545 TCGA-B8-5546 
       20.91        23.74        27.02        24.23        50.14        16.60 
TCGA-B8-5552 TCGA-B8-5553 TCGA-B8-A54D TCGA-B8-A54E TCGA-B8-A54F TCGA-B8-A54G 
       34.39        14.30        27.29        29.88        17.06         1.74 
TCGA-B8-A54H TCGA-B8-A54I TCGA-B8-A54J TCGA-B8-A54K TCGA-B8-A7U6 TCGA-B8-A8YJ 
        8.42         4.93        17.36        15.42        16.27        14.17 
TCGA-BP-4158 TCGA-BP-4159 TCGA-BP-4160 TCGA-BP-4161 TCGA-BP-4162 TCGA-BP-4163 
      111.02        85.51        94.72        90.28       101.06        93.34 
TCGA-BP-4164 TCGA-BP-4165 TCGA-BP-4166 TCGA-BP-4167 TCGA-BP-4169 TCGA-BP-4170 
       32.61        99.85         0.43        89.36        23.05        77.03 
TCGA-BP-4173 TCGA-BP-4174 TCGA-BP-4177 TCGA-BP-4325 TCGA-BP-4326 TCGA-BP-4327 
       62.24        61.78        54.90        97.45        53.42         3.58 
TCGA-BP-4329 TCGA-BP-4330 TCGA-BP-4331 TCGA-BP-4332 TCGA-BP-4335 TCGA-BP-4337 
       27.78        62.07        80.68        37.25        15.16         0.07 
TCGA-BP-4341 TCGA-BP-4344 TCGA-BP-4346 TCGA-BP-4347 TCGA-BP-4349 TCGA-BP-4351 
       52.24        54.77        49.08        44.94        12.23        31.89 
TCGA-BP-4354 TCGA-BP-4355 TCGA-BP-4756 TCGA-BP-4758 TCGA-BP-4759 TCGA-BP-4760 
       33.99        31.33        12.30        72.59        77.98        77.62 
TCGA-BP-4761 TCGA-BP-4762 TCGA-BP-4763 TCGA-BP-4765 TCGA-BP-4766 TCGA-BP-4769 
        5.98        44.15        41.75        71.80        48.07        61.68 
TCGA-BP-4770 TCGA-BP-4774 TCGA-BP-4776 TCGA-BP-4777 TCGA-BP-4782 TCGA-BP-4784 
       10.82        61.97        13.51        56.91        11.64        60.95 
TCGA-BP-4787 TCGA-BP-4789 TCGA-BP-4790 TCGA-BP-4795 TCGA-BP-4797 TCGA-BP-4798 
       15.78        48.95        36.53        20.38        36.39        10.98 
TCGA-BP-4799 TCGA-BP-4801 TCGA-BP-4803 TCGA-BP-4804 TCGA-BP-4807 TCGA-BP-4959 
       37.25        36.95         6.71        47.97         6.94        87.45 
TCGA-BP-4960 TCGA-BP-4961 TCGA-BP-4962 TCGA-BP-4963 TCGA-BP-4964 TCGA-BP-4967 
       71.41        63.62        58.68        60.30        61.22         6.74 
TCGA-BP-4969 TCGA-BP-4970 TCGA-BP-4971 TCGA-BP-4972 TCGA-BP-4973 TCGA-BP-4974 
       58.98        14.24        48.89        49.38        45.50         6.90 
TCGA-BP-4975 TCGA-BP-4976 TCGA-BP-4977 TCGA-BP-4981 TCGA-BP-4982 TCGA-BP-4983 
       47.11        53.65        14.93        36.07        33.34        46.45 
TCGA-BP-4987 TCGA-BP-4988 TCGA-BP-4991 TCGA-BP-4992 TCGA-BP-4993 TCGA-BP-4995 
       36.95        27.22        46.45        16.47         5.82        45.07 
TCGA-BP-4998 TCGA-BP-4999 TCGA-BP-5000 TCGA-BP-5001 TCGA-BP-5006 TCGA-BP-5007 
       30.64        41.62        18.51        38.70        27.62        37.48 
TCGA-BP-5008 TCGA-BP-5009 TCGA-BP-5010 TCGA-BP-5168 TCGA-BP-5169 TCGA-BP-5170 
       35.21        36.23        28.87        48.10         6.35        79.30 
TCGA-BP-5174 TCGA-BP-5175 TCGA-BP-5176 TCGA-BP-5177 TCGA-BP-5178 TCGA-BP-5180 
       74.20        30.64        52.27         9.63        62.86        74.40 
TCGA-BP-5181 TCGA-BP-5182 TCGA-BP-5183 TCGA-BP-5184 TCGA-BP-5186 TCGA-BP-5187 
       49.15        38.30        42.44        37.25        22.78        13.35 
TCGA-BP-5189 TCGA-BP-5190 TCGA-BP-5191 TCGA-BP-5192 TCGA-BP-5194 TCGA-BP-5195 
       27.02        33.24        31.79        23.47        13.41        24.62 
TCGA-BP-5196 TCGA-BP-5198 TCGA-BP-5199 TCGA-BP-5200 TCGA-BP-5202 TCGA-CJ-4634 
       33.47        19.82        44.55        34.95         0.95       115.00 
TCGA-CJ-4636 TCGA-CJ-4638 TCGA-CJ-4639 TCGA-CJ-4642 TCGA-CJ-4643 TCGA-CJ-4644 
       63.25        14.17       106.16       105.37        58.95        11.05 
TCGA-CJ-4868 TCGA-CJ-4870 TCGA-CJ-4871 TCGA-CJ-4872 TCGA-CJ-4873 TCGA-CJ-4874 
       21.24        49.25        79.66        10.72        74.27        75.06 
TCGA-CJ-4875 TCGA-CJ-4878 TCGA-CJ-4881 TCGA-CJ-4882 TCGA-CJ-4884 TCGA-CJ-4885 
      116.84        71.87        66.21        61.91        57.83       113.46 
TCGA-CJ-4886 TCGA-CJ-4887 TCGA-CJ-4888 TCGA-CJ-4889 TCGA-CJ-4890 TCGA-CJ-4891 
       64.18        30.64        51.52        63.98       115.69        26.93 
TCGA-CJ-4892 TCGA-CJ-4893 TCGA-CJ-4895 TCGA-CJ-4899 TCGA-CJ-4900 TCGA-CJ-4902 
       50.01        24.66        39.45        50.24        56.35        49.97 
TCGA-CJ-4904 TCGA-CJ-4905 TCGA-CJ-4908 TCGA-CJ-4912 TCGA-CJ-4913 TCGA-CJ-4916 
      108.56        49.18        50.33        54.48        38.56        45.14 
TCGA-CJ-4918 TCGA-CJ-4920 TCGA-CJ-4923 TCGA-CJ-5671 TCGA-CJ-5672 TCGA-CJ-5675 
        3.06         4.57        18.81       131.08        72.00       129.40 
TCGA-CJ-5676 TCGA-CJ-5677 TCGA-CJ-5680 TCGA-CJ-5681 TCGA-CJ-5682 TCGA-CJ-5683 
      133.71        25.71        25.25        18.15       122.83        62.10 
TCGA-CJ-5684 TCGA-CJ-5686 TCGA-CJ-5689 TCGA-CJ-6028 TCGA-CJ-6031 TCGA-CJ-6032 
       73.35        67.00        53.26        53.42        62.66       119.64 
TCGA-CW-5581 TCGA-CW-5583 TCGA-CW-5584 TCGA-CW-5585 TCGA-CW-5587 TCGA-CW-5589 
       92.02        81.83         5.39        85.78        73.18        78.18 
TCGA-CW-5591 TCGA-CW-6087 TCGA-CW-6088 TCGA-CW-6093 TCGA-CZ-4853 TCGA-CZ-4854 
       74.66         1.35       105.93       103.43        25.45        46.16 
TCGA-CZ-4856 TCGA-CZ-4858 TCGA-CZ-4859 TCGA-CZ-4861 TCGA-CZ-4862 TCGA-CZ-4863 
        0.59        69.21        58.75        14.66       107.54        63.39 
TCGA-CZ-4865 TCGA-CZ-5451 TCGA-CZ-5452 TCGA-CZ-5453 TCGA-CZ-5454 TCGA-CZ-5455 
        5.46        63.42        58.82        79.53        23.74        18.44 
TCGA-CZ-5456 TCGA-CZ-5458 TCGA-CZ-5459 TCGA-CZ-5460 TCGA-CZ-5461 TCGA-CZ-5463 
       79.63        91.69        55.33        94.45        10.85        21.76 
TCGA-CZ-5464 TCGA-CZ-5465 TCGA-CZ-5466 TCGA-CZ-5467 TCGA-CZ-5468 TCGA-CZ-5470 
       69.96        84.30        22.52         2.40         1.94        12.69 
TCGA-CZ-5982 TCGA-CZ-5984 TCGA-CZ-5985 TCGA-CZ-5986 TCGA-CZ-5987 TCGA-CZ-5988 
       80.19        67.96        65.65        12.26        14.63        22.78 
TCGA-CZ-5989 TCGA-DV-5565 TCGA-DV-5566 TCGA-DV-5567 TCGA-DV-5568 TCGA-DV-5569 
       62.63        13.28        45.96        65.88        12.16        11.67 
TCGA-DV-5573 TCGA-DV-5574 TCGA-DV-5575 TCGA-DV-5576 TCGA-DV-A4VX TCGA-DV-A4VZ 
       37.15        66.28        56.84        23.90        53.46        12.00 
TCGA-DV-A4W0 TCGA-EU-5904 TCGA-EU-5905 TCGA-EU-5906 TCGA-G6-A5PC TCGA-G6-A8L6 
       81.21        18.12         3.91         6.77         7.96        10.29 
TCGA-G6-A8L7 TCGA-MM-A563 TCGA-MM-A564 TCGA-MM-A84U TCGA-MW-A4EC TCGA-2K-A9WE 
       70.13        19.43        19.96        23.01        16.37         7.04 
TCGA-2Z-A9J1 TCGA-2Z-A9J2 TCGA-2Z-A9J3 TCGA-2Z-A9J5 TCGA-2Z-A9J6 TCGA-2Z-A9J7 
       75.55        59.01        58.22       100.27        56.91         4.57 
TCGA-2Z-A9J9 TCGA-2Z-A9JD TCGA-2Z-A9JE TCGA-2Z-A9JJ TCGA-2Z-A9JK TCGA-2Z-A9JL 
       75.42        34.85        56.81        39.88        38.99        33.07 
TCGA-2Z-A9JM TCGA-2Z-A9JN TCGA-2Z-A9JO TCGA-2Z-A9JP TCGA-2Z-A9JQ TCGA-2Z-A9JR 
       30.71        24.33        31.20        29.36        25.58         5.29 
TCGA-2Z-A9JS TCGA-2Z-A9JT TCGA-4A-A93W TCGA-4A-A93Y TCGA-5P-A9JU TCGA-5P-A9JV 
       16.18        22.49         0.13        11.57        12.26        67.17 
TCGA-5P-A9JW TCGA-5P-A9JZ TCGA-5P-A9K0 TCGA-5P-A9K2 TCGA-5P-A9K4 TCGA-5P-A9K6 
      106.55        90.21        22.26        78.64        71.80        62.93 
TCGA-5P-A9KA TCGA-5P-A9KC TCGA-5P-A9KE TCGA-A4-7287 TCGA-A4-7288 TCGA-A4-7584 
       12.99        12.39        27.09        19.63        61.05        21.37 
TCGA-A4-7585 TCGA-A4-7732 TCGA-A4-7734 TCGA-A4-7828 TCGA-A4-7915 TCGA-A4-7996 
       35.18        19.13         0.89         7.82         0.23        16.64 
TCGA-A4-7997 TCGA-A4-8310 TCGA-A4-8311 TCGA-A4-8312 TCGA-A4-8515 TCGA-A4-8516 
       30.48        25.64        23.97        23.28        23.31         0.76 
TCGA-A4-8517 TCGA-A4-8518 TCGA-A4-8630 TCGA-A4-A48D TCGA-A4-A4ZT TCGA-A4-A57E 
       19.63        19.73        14.33        12.46        16.96         8.48 
TCGA-A4-A5DU TCGA-A4-A5Y0 TCGA-A4-A6HP TCGA-AL-3467 TCGA-AL-3468 TCGA-AL-3471 
       16.31         8.28        12.46        70.19        76.64        49.32 
TCGA-AL-3472 TCGA-AL-3473 TCGA-AL-7173 TCGA-AT-A5NU TCGA-B1-5398 TCGA-B1-A47M 
       66.71        62.66        67.73         2.20        19.56        21.67 
TCGA-B1-A47N TCGA-B1-A47O TCGA-B1-A654 TCGA-B1-A655 TCGA-B1-A656 TCGA-B1-A657 
       24.56        16.87        20.25        16.77        20.32        21.07 
TCGA-B3-3925 TCGA-B3-4103 TCGA-B3-4104 TCGA-B3-8121 TCGA-B3-A6W5 TCGA-B9-4113 
       33.83        30.58        34.49        12.46        10.16        50.50 
TCGA-B9-4114 TCGA-B9-4115 TCGA-B9-4117 TCGA-B9-4617 TCGA-B9-5155 TCGA-B9-5156 
       28.18        26.40         0.46         1.15        15.12        43.99 
TCGA-B9-7268 TCGA-B9-A5W7 TCGA-B9-A5W9 TCGA-B9-A8YH TCGA-B9-A8YI TCGA-BQ-5876 
       22.06        19.23         0.16        17.49        12.30        19.27 
TCGA-BQ-5878 TCGA-BQ-5880 TCGA-BQ-5881 TCGA-BQ-5883 TCGA-BQ-5884 TCGA-BQ-5886 
       63.72        43.20        47.80        40.83        26.04        26.04 
TCGA-BQ-5887 TCGA-BQ-5889 TCGA-BQ-5891 TCGA-BQ-5892 TCGA-BQ-5893 TCGA-BQ-7045 
       25.35        10.82         0.95        11.97         7.92        48.26 
TCGA-BQ-7046 TCGA-BQ-7048 TCGA-BQ-7049 TCGA-BQ-7050 TCGA-BQ-7051 TCGA-BQ-7053 
       96.92        93.34        44.84        61.28        50.40        49.84 
TCGA-BQ-7056 TCGA-BQ-7058 TCGA-BQ-7059 TCGA-BQ-7060 TCGA-BQ-7061 TCGA-BQ-7062 
       20.12        11.28         7.63         7.04         7.17         3.81 
TCGA-DW-5560 TCGA-DW-5561 TCGA-DW-7834 TCGA-DW-7836 TCGA-DW-7837 TCGA-DW-7838 
       48.85        13.61       129.86        35.93        37.55        24.46 
TCGA-DW-7839 TCGA-DW-7840 TCGA-DW-7841 TCGA-DW-7842 TCGA-DW-7963 TCGA-DZ-6131 
       13.78         3.75        14.63         3.02        40.77        79.86 
TCGA-DZ-6132 TCGA-DZ-6133 TCGA-DZ-6134 TCGA-DZ-6135 TCGA-EV-5901 TCGA-EV-5902 
       80.88        51.19        61.02        74.60        34.19        19.00 
TCGA-EV-5903 TCGA-F9-A7VF TCGA-F9-A8NY TCGA-F9-A97G TCGA-G7-6790 TCGA-G7-6792 
       24.89         2.40         1.18         0.43        51.78        90.90 
TCGA-G7-6793 TCGA-G7-6795 TCGA-G7-6796 TCGA-G7-A4TM TCGA-G7-A8LB TCGA-G7-A8LE 
       11.05        39.25        71.44         6.38        17.98        80.65 
TCGA-GL-6846 TCGA-GL-7773 TCGA-GL-A4EM TCGA-GL-A59R TCGA-GL-A59T TCGA-GL-A9DC 
      194.79        12.92         1.05        12.43        17.95        12.89 
TCGA-GL-A9DD TCGA-GL-A9DE TCGA-HE-A5NF TCGA-HE-A5NH TCGA-HE-A5NI TCGA-HE-A5NJ 
       11.21        16.31        84.89        26.01        11.84        56.75 
TCGA-HE-A5NL TCGA-IA-A40U TCGA-IA-A40X TCGA-IA-A83S TCGA-IA-A83T TCGA-IA-A83V 
       25.22        16.80        19.99        85.78        88.24        96.69 
TCGA-IA-A83W TCGA-IZ-8195 TCGA-IZ-8196 TCGA-IZ-A6M8 TCGA-IZ-A6M9 TCGA-J7-6720 
       67.17        22.26        21.34        16.34        12.36        12.76 
TCGA-KV-A6GD TCGA-KV-A6GE TCGA-KV-A74V TCGA-MH-A55W TCGA-MH-A55Z TCGA-MH-A560 
       18.41        29.10        11.41        34.29        27.78        30.38 
TCGA-MH-A561 TCGA-MH-A562 TCGA-MH-A854 TCGA-MH-A855 TCGA-MH-A856 TCGA-MH-A857 
       27.65        20.25        17.62        12.13        31.13        29.26 
TCGA-O9-A75Z TCGA-P4-A5E6 TCGA-P4-A5E7 TCGA-P4-A5E8 TCGA-P4-A5EB TCGA-P4-A5ED 
       15.48        99.78        87.09        42.94        99.12        92.58 
TCGA-P4-AAVK TCGA-P4-AAVL TCGA-P4-AAVM TCGA-PJ-A5Z9 TCGA-SX-A71R TCGA-SX-A71S 
       52.27        16.01        50.60        17.75        47.90        49.45 
TCGA-SX-A71U TCGA-SX-A71V TCGA-SX-A7SL TCGA-SX-A7SM TCGA-SX-A7SN TCGA-SX-A7SO 
       44.61        28.80        27.06        11.93        19.00        41.33 
TCGA-SX-A7SP TCGA-SX-A7SQ TCGA-SX-A7SR TCGA-SX-A7SS TCGA-SX-A7SU TCGA-UZ-A9PJ 
       16.31        41.62        26.47        53.10        43.76        26.20 
TCGA-UZ-A9PK TCGA-UZ-A9PL TCGA-UZ-A9PM TCGA-UZ-A9PO TCGA-UZ-A9PP TCGA-UZ-A9PR 
      117.40       103.63       125.29        62.83        98.96        86.37 
TCGA-UZ-A9PS TCGA-UZ-A9PU TCGA-UZ-A9PV TCGA-UZ-A9PX TCGA-UZ-A9PZ TCGA-UZ-A9Q0 
       71.24        30.67        47.47        65.13        21.60       110.73 
TCGA-UZ-A9Q1 TCGA-V9-A7HT TCGA-WN-AB4C TCGA-Y8-A894 TCGA-Y8-A895 TCGA-Y8-A896 
       51.35        31.73        39.06        18.64        15.91        18.64 
TCGA-Y8-A897 TCGA-Y8-A898 TCGA-Y8-A8RY TCGA-Y8-A8S0 TCGA-Y8-A8S1 
       18.05        15.62        25.28         6.02        13.28 

  DEL PEAK  1(1P36.31) MUTATED DEL PEAK  1(1P36.31) WILD-TYPE 
                          0.10                           0.07 
  DEL PEAK  1(1P36.31) MUTATED DEL PEAK  1(1P36.31) WILD-TYPE 
                        151.96                         194.79 
  DEL PEAK  1(1P36.31) MUTATED DEL PEAK  1(1P36.31) WILD-TYPE 
                        40.225                         33.470 
[1] "0.1 - 152.0 (40.2)" "0.1 - 194.8 (33.5)"
[1] "hr=" "1.2"
D14V2, continuous
                                vv
clus                             STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK  1(1P36.31) MUTATED        73       38        59       31
  DEL PEAK  1(1P36.31) WILD-TYPE     382       66       132       73
D14V3, multiclass
           clus
vv          DEL PEAK  1(1P36.31) MUTATED DEL PEAK  1(1P36.31) WILD-TYPE
  STAGE I                             73                            382
  STAGE II                            38                             66
  STAGE III                           59                            132
  STAGE IV                            31                             73
[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                              T1  T2  T3  T4
  DEL PEAK  1(1P36.31) MUTATED    80  47  76   6
  DEL PEAK  1(1P36.31) WILD-TYPE 399  80 182   9
D14V4, multiclass
    clus
vv   DEL PEAK  1(1P36.31) MUTATED DEL PEAK  1(1P36.31) WILD-TYPE
  T1                           80                            399
  T2                           47                             80
  T3                           76                            182
  T4                            6                              9
[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                              N0  N1  N2
  DEL PEAK  1(1P36.31) MUTATED    92  20   4
  DEL PEAK  1(1P36.31) WILD-TYPE 230  24   3
D14V5, multiclass
    clus
vv   DEL PEAK  1(1P36.31) MUTATED DEL PEAK  1(1P36.31) WILD-TYPE
  N0                           92                            230
  N1                           20                             24
  N2                            4                              3
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D14V6, binary
                                cls
clus                               0   1
  DEL PEAK  1(1P36.31) MUTATED   126  24
  DEL PEAK  1(1P36.31) WILD-TYPE 419  65
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  1(1P36.31) MUTATED    126   24
  DEL PEAK  1(1P36.31) WILD-TYPE  419   65
   clus
vv  DEL PEAK  1(1P36.31) MUTATED DEL PEAK  1(1P36.31) WILD-TYPE
  0                          126                            419
  1                           24                             65
[1] 2 2
[1] FALSE
D14V7, binary
                                cls
clus                               0   1
  DEL PEAK  1(1P36.31) MUTATED    75 134
  DEL PEAK  1(1P36.31) WILD-TYPE 217 455
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  1(1P36.31) MUTATED     75  134
  DEL PEAK  1(1P36.31) WILD-TYPE  217  455
        clus
vv       DEL PEAK  1(1P36.31) MUTATED DEL PEAK  1(1P36.31) WILD-TYPE
  FEMALE                           75                            217
  MALE                            134                            455
[1] 2 2
[1] FALSE
D14V8, binary
                                cls
clus                               0   1
  DEL PEAK  1(1P36.31) MUTATED   112   0
  DEL PEAK  1(1P36.31) WILD-TYPE 288   3
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  1(1P36.31) MUTATED    112    0
  DEL PEAK  1(1P36.31) WILD-TYPE  288    3
     clus
vv    DEL PEAK  1(1P36.31) MUTATED DEL PEAK  1(1P36.31) WILD-TYPE
  NO                           112                            288
  YES                            0                              3
[1] 2 2
[1] FALSE
D14V9, continuous
                                vv
clus                             KIDNEY CHROMOPHOBE
  DEL PEAK  1(1P36.31) MUTATED                   53
  DEL PEAK  1(1P36.31) WILD-TYPE                 13
                                vv
clus                             KIDNEY CLEAR CELL RENAL CARCINOMA
  DEL PEAK  1(1P36.31) MUTATED                                 102
  DEL PEAK  1(1P36.31) WILD-TYPE                               426
                                vv
clus                             KIDNEY PAPILLARY RENAL CELL CARCINOMA
  DEL PEAK  1(1P36.31) MUTATED                                      54
  DEL PEAK  1(1P36.31) WILD-TYPE                                   233
D14V10, multiclass
                                       clus
vv                                      DEL PEAK  1(1P36.31) MUTATED
  KIDNEY CHROMOPHOBE                                              53
  KIDNEY CLEAR CELL RENAL CARCINOMA                              102
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                           54
                                       clus
vv                                      DEL PEAK  1(1P36.31) WILD-TYPE
  KIDNEY CHROMOPHOBE                                                13
  KIDNEY CLEAR CELL RENAL CARCINOMA                                426
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                            233
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D14V11, continuous
D14V12, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK  1(1P36.31) MUTATED                                  0     5
  DEL PEAK  1(1P36.31) WILD-TYPE                                2    10
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  1(1P36.31) MUTATED                          25   173
  DEL PEAK  1(1P36.31) WILD-TYPE                        96   546
D14V13, multiclass
                                  clus
vv                                 DEL PEAK  1(1P36.31) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                       5
  BLACK OR AFRICAN AMERICAN                                  25
  WHITE                                                     173
                                  clus
vv                                 DEL PEAK  1(1P36.31) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              2
  ASIAN                                                        10
  BLACK OR AFRICAN AMERICAN                                    96
  WHITE                                                       546
[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"
D14V14, binary
                                cls
clus                               0   1
  DEL PEAK  1(1P36.31) MUTATED    12 135
  DEL PEAK  1(1P36.31) WILD-TYPE  30 486
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  1(1P36.31) MUTATED     12  135
  DEL PEAK  1(1P36.31) WILD-TYPE   30  486
                        clus
vv                       DEL PEAK  1(1P36.31) MUTATED
  HISPANIC OR LATINO                               12
  NOT HISPANIC OR LATINO                          135
                        clus
vv                       DEL PEAK  1(1P36.31) WILD-TYPE
  HISPANIC OR LATINO                                 30
  NOT HISPANIC OR LATINO                            486
[1] 2 2
[1] FALSE

Clustering(15) Variable = DEL PEAK  2(1P31.1) MUTATION ANALYSIS
D15V1, survival
                               sevent
clus2                             0   1
  DEL PEAK  2(1P31.1) MUTATED   119  46
  DEL PEAK  2(1P31.1) WILD-TYPE 526 182
  DEL PEAK  2(1P31.1) MUTATED DEL PEAK  2(1P31.1) WILD-TYPE 
                          165                           708 
  DEL PEAK  2(1P31.1) MUTATED DEL PEAK  2(1P31.1) WILD-TYPE 
                           46                           182 
$`DEL PEAK  2(1P31.1) MUTATED`
TCGA-KL-8323 TCGA-KL-8324 TCGA-KL-8325 TCGA-KL-8326 TCGA-KL-8327 TCGA-KL-8328 
       38.07       141.73        23.84       109.22       137.06       102.81 
TCGA-KL-8329 TCGA-KL-8330 TCGA-KL-8331 TCGA-KL-8332 TCGA-KL-8333 TCGA-KL-8334 
       90.48       108.62        98.96        84.89        98.33        96.95 
TCGA-KL-8335 TCGA-KL-8336 TCGA-KL-8337 TCGA-KL-8338 TCGA-KL-8339 TCGA-KL-8340 
       92.55        30.25        44.84        86.56        28.11        66.54 
TCGA-KL-8341 TCGA-KL-8342 TCGA-KL-8343 TCGA-KL-8344 TCGA-KL-8345 TCGA-KL-8346 
       24.79        73.91        71.41        28.80        54.74        62.37 
TCGA-KM-8438 TCGA-KM-8440 TCGA-KM-8442 TCGA-KM-8443 TCGA-KM-8476 TCGA-KN-8418 
      151.96        44.91        47.24        49.97       123.12       129.37 
TCGA-KN-8421 TCGA-KN-8422 TCGA-KN-8424 TCGA-KN-8425 TCGA-KN-8427 TCGA-KN-8429 
       87.91        25.48        65.19       104.52         0.99        87.12 
TCGA-KN-8431 TCGA-KN-8432 TCGA-KN-8434 TCGA-KN-8435 TCGA-KN-8436 TCGA-KO-8403 
       19.33         2.50        59.08       115.00        42.35       105.47 
TCGA-KO-8405 TCGA-KO-8406 TCGA-KO-8407 TCGA-KO-8408 TCGA-KO-8409 TCGA-KO-8411 
      100.47       103.40        92.71        16.67       104.55       130.13 
TCGA-KO-8414 TCGA-KO-8415 TCGA-KO-8416 TCGA-KO-8417 TCGA-A3-3313 TCGA-A3-3316 
      105.60        96.62        90.48        92.55        24.16        49.08 
TCGA-A3-3319 TCGA-A3-3373 TCGA-A3-3374 TCGA-A3-3380 TCGA-AK-3427 TCGA-AK-3433 
       37.15        53.29        43.20        18.64       117.80       112.08 
TCGA-AK-3436 TCGA-AK-3440 TCGA-AK-3447 TCGA-AK-3465 TCGA-AS-3777 TCGA-B0-4698 
      109.51        94.19        40.01        12.13        40.70         1.38 
TCGA-B0-4699 TCGA-B0-4712 TCGA-B0-4718 TCGA-B0-4814 TCGA-B0-4821 TCGA-B0-4822 
        3.62        43.96        58.45         5.52        40.44        36.53 
TCGA-B0-4834 TCGA-B0-4845 TCGA-B0-4852 TCGA-B0-5084 TCGA-B0-5092 TCGA-B0-5094 
       68.71        65.29        36.85         7.30        15.09        10.95 
TCGA-B0-5098 TCGA-B0-5102 TCGA-B0-5109 TCGA-B0-5117 TCGA-B0-5402 TCGA-B0-5703 
       52.08        90.87        19.30        52.87        42.41        73.84 
TCGA-B2-3923 TCGA-B2-4098 TCGA-B4-5832 TCGA-B4-5835 TCGA-B4-5838 TCGA-B8-4619 
       32.61         1.68         5.10         0.53         5.46        17.19 
TCGA-B8-5549 TCGA-BP-4176 TCGA-BP-4334 TCGA-BP-4340 TCGA-BP-4342 TCGA-BP-4353 
        6.38        64.27        21.21        18.48        74.17        12.33 
TCGA-BP-4768 TCGA-BP-4775 TCGA-BP-4781 TCGA-BP-4968 TCGA-BP-4983 TCGA-BP-4985 
       13.15        60.59        68.38        57.40        46.45        31.30 
TCGA-BP-4986 TCGA-BP-4994 TCGA-BP-5004 TCGA-BP-5173 TCGA-BP-5175 TCGA-BP-5201 
       25.81        43.00        37.02         1.74        30.64        31.27 
TCGA-CJ-4635 TCGA-CJ-4640 TCGA-CJ-4869 TCGA-CJ-4876 TCGA-CJ-4894 TCGA-CJ-4897 
       46.55       114.41        83.97        64.27        27.65       109.84 
TCGA-CJ-4901 TCGA-CJ-4907 TCGA-CJ-5678 TCGA-CJ-5679 TCGA-CW-5588 TCGA-CW-5591 
       47.67        49.28        18.87        22.32        66.31        74.66 
TCGA-CW-6090 TCGA-CZ-4860 TCGA-CZ-4866 TCGA-CZ-5457 TCGA-CZ-5462 TCGA-CZ-5469 
       83.90         6.77        61.41        90.54        10.22        31.10 
TCGA-EU-5907 TCGA-G6-A8L8 TCGA-T7-A92I TCGA-2Z-A9JG TCGA-2Z-A9JI TCGA-4A-A93X 
        4.18        35.87        11.70        54.64        51.52        12.82 
TCGA-5P-A9JY TCGA-5P-A9K3 TCGA-5P-A9K8 TCGA-5P-A9KH TCGA-A4-7286 TCGA-A4-7583 
       49.58        15.48        43.04        67.43        18.21         0.10 
TCGA-A4-8098 TCGA-A4-A5Y1 TCGA-B1-7332 TCGA-B3-3926 TCGA-B9-A5W8 TCGA-B9-A69E 
       29.46        12.99        37.51        10.09        17.23        14.86 
TCGA-BQ-5875 TCGA-BQ-5877 TCGA-BQ-5882 TCGA-BQ-5894 TCGA-BQ-7044 TCGA-BQ-7055 
       86.76         8.88        21.63         2.76       123.62        26.27 
TCGA-F9-A4JJ TCGA-F9-A7Q0 TCGA-G7-6789 TCGA-G7-6797 TCGA-G7-7502 TCGA-G7-A8LC 
       10.68        13.08         4.01        25.15        25.84        23.08 
TCGA-GL-7966 TCGA-GL-8500 TCGA-HE-A5NK TCGA-IA-A40Y TCGA-P4-A5EA TCGA-PJ-A5Z8 
        3.68        27.65        73.25         2.04         6.61        19.73 
TCGA-Q2-A5QZ TCGA-UN-AAZ9 TCGA-UZ-A9PQ 
       14.07        18.02        86.27 

$`DEL PEAK  2(1P31.1) WILD-TYPE`
TCGA-KM-8439 TCGA-KM-8441 TCGA-KM-8477 TCGA-KM-8639 TCGA-KN-8419 TCGA-KN-8423 
       23.28        28.80        51.06        31.33        23.47        25.91 
TCGA-KN-8426 TCGA-KN-8428 TCGA-KN-8433 TCGA-KN-8437 TCGA-KO-8404 TCGA-KO-8410 
        3.55        52.27        11.21       100.87        10.68       103.10 
TCGA-KO-8413 TCGA-3Z-A93Z TCGA-6D-AA2E TCGA-A3-3306 TCGA-A3-3307 TCGA-A3-3308 
       99.88        12.66        11.90        36.82        47.21         0.53 
TCGA-A3-3311 TCGA-A3-3317 TCGA-A3-3320 TCGA-A3-3322 TCGA-A3-3323 TCGA-A3-3324 
       39.16        49.02        49.58        48.59        36.36        38.99 
TCGA-A3-3325 TCGA-A3-3326 TCGA-A3-3331 TCGA-A3-3335 TCGA-A3-3336 TCGA-A3-3343 
       38.47        37.38        48.82        62.01        34.29        31.07 
TCGA-A3-3346 TCGA-A3-3347 TCGA-A3-3349 TCGA-A3-3351 TCGA-A3-3352 TCGA-A3-3357 
        4.50        52.93        45.53        29.92        18.44        88.37 
TCGA-A3-3358 TCGA-A3-3359 TCGA-A3-3362 TCGA-A3-3363 TCGA-A3-3365 TCGA-A3-3367 
       42.97        82.32        51.25        10.49        28.70        74.63 
TCGA-A3-3370 TCGA-A3-3372 TCGA-A3-3376 TCGA-A3-3378 TCGA-A3-3382 TCGA-A3-3383 
       74.76        24.16        55.76        20.71        18.87        28.31 
TCGA-A3-3385 TCGA-A3-3387 TCGA-A3-A6NI TCGA-A3-A6NJ TCGA-A3-A6NL TCGA-A3-A6NN 
       65.52        20.28        33.47        15.39        22.65         0.10 
TCGA-A3-A8CQ TCGA-A3-A8OV TCGA-A3-A8OW TCGA-AK-3425 TCGA-AK-3426 TCGA-AK-3428 
        0.10        11.18        10.62       109.91        29.10        73.08 
TCGA-AK-3429 TCGA-AK-3430 TCGA-AK-3431 TCGA-AK-3434 TCGA-AK-3443 TCGA-AK-3444 
      109.41        15.78        73.68        68.61        46.78        48.36 
TCGA-AK-3445 TCGA-AK-3450 TCGA-AK-3451 TCGA-AK-3453 TCGA-AK-3454 TCGA-AK-3455 
       78.64        49.28        94.29        83.21        28.73        22.45 
TCGA-AK-3456 TCGA-AK-3458 TCGA-AK-3460 TCGA-AK-3461 TCGA-AS-3778 TCGA-B0-4688 
       37.58        38.40        82.45        72.89         1.41         3.32 
TCGA-B0-4690 TCGA-B0-4691 TCGA-B0-4693 TCGA-B0-4694 TCGA-B0-4696 TCGA-B0-4697 
        1.41         4.57         2.53         3.48        28.47        19.00 
TCGA-B0-4700 TCGA-B0-4701 TCGA-B0-4703 TCGA-B0-4706 TCGA-B0-4707 TCGA-B0-4710 
       65.10         7.82         5.98         2.14        19.73        57.70 
TCGA-B0-4713 TCGA-B0-4714 TCGA-B0-4810 TCGA-B0-4811 TCGA-B0-4813 TCGA-B0-4815 
        6.64         3.25        15.72        46.59         0.59        52.21 
TCGA-B0-4816 TCGA-B0-4817 TCGA-B0-4818 TCGA-B0-4819 TCGA-B0-4823 TCGA-B0-4824 
       45.07        33.50        16.77         6.02        14.93        54.48 
TCGA-B0-4827 TCGA-B0-4828 TCGA-B0-4833 TCGA-B0-4836 TCGA-B0-4837 TCGA-B0-4838 
       29.10        10.09        78.44        40.70        45.30        27.42 
TCGA-B0-4839 TCGA-B0-4841 TCGA-B0-4842 TCGA-B0-4843 TCGA-B0-4844 TCGA-B0-4846 
       53.88         6.71        56.68        10.52        10.29        39.45 
TCGA-B0-4847 TCGA-B0-4848 TCGA-B0-4849 TCGA-B0-4945 TCGA-B0-5075 TCGA-B0-5077 
       26.07        29.03         2.27        70.52        20.94        43.30 
TCGA-B0-5080 TCGA-B0-5081 TCGA-B0-5085 TCGA-B0-5088 TCGA-B0-5095 TCGA-B0-5096 
       11.24        11.90        25.32        18.51         8.05         2.24 
TCGA-B0-5097 TCGA-B0-5099 TCGA-B0-5100 TCGA-B0-5104 TCGA-B0-5106 TCGA-B0-5107 
       21.86        15.95        62.89        90.48        52.54        30.48 
TCGA-B0-5108 TCGA-B0-5110 TCGA-B0-5113 TCGA-B0-5115 TCGA-B0-5116 TCGA-B0-5119 
       58.59        66.05        38.63        52.73        41.88        51.02 
TCGA-B0-5120 TCGA-B0-5121 TCGA-B0-5399 TCGA-B0-5400 TCGA-B0-5690 TCGA-B0-5691 
       38.43        48.82        46.39        56.98       111.52       112.80 
TCGA-B0-5692 TCGA-B0-5693 TCGA-B0-5694 TCGA-B0-5695 TCGA-B0-5696 TCGA-B0-5697 
      129.67       133.94        15.78        70.68        85.78        86.47 
TCGA-B0-5698 TCGA-B0-5699 TCGA-B0-5701 TCGA-B0-5702 TCGA-B0-5705 TCGA-B0-5706 
      119.38       126.28        80.91        71.41       149.16       105.37 
TCGA-B0-5709 TCGA-B0-5710 TCGA-B0-5711 TCGA-B0-5712 TCGA-B0-5713 TCGA-B0-5812 
      130.65        79.89       131.15        89.49        91.46       126.05 
TCGA-B2-3924 TCGA-B2-4099 TCGA-B2-4101 TCGA-B2-4102 TCGA-B2-5633 TCGA-B2-5635 
       35.90        31.96        21.30        31.30        31.66        24.82 
TCGA-B2-5639 TCGA-B2-5641 TCGA-B2-A4SR TCGA-B4-5377 TCGA-B4-5378 TCGA-B4-5834 
       32.98        21.57        16.67        12.00         5.75         0.85 
TCGA-B4-5836 TCGA-B4-5843 TCGA-B4-5844 TCGA-B8-4143 TCGA-B8-4146 TCGA-B8-4148 
        4.64         0.36         0.23        23.31        16.80        27.16 
TCGA-B8-4151 TCGA-B8-4153 TCGA-B8-4154 TCGA-B8-4620 TCGA-B8-4621 TCGA-B8-4622 
       42.71        25.05        45.37        25.55        25.91        50.14 
TCGA-B8-5158 TCGA-B8-5159 TCGA-B8-5162 TCGA-B8-5163 TCGA-B8-5164 TCGA-B8-5165 
       20.91        23.74         1.18        27.02         0.85        24.23 
TCGA-B8-5545 TCGA-B8-5546 TCGA-B8-5550 TCGA-B8-5551 TCGA-B8-5552 TCGA-B8-5553 
       50.14        16.60        48.53         0.53        34.39        14.30 
TCGA-B8-A54D TCGA-B8-A54E TCGA-B8-A54F TCGA-B8-A54G TCGA-B8-A54H TCGA-B8-A54I 
       27.29        29.88        17.06         1.74         8.42         4.93 
TCGA-B8-A54J TCGA-B8-A54K TCGA-B8-A7U6 TCGA-B8-A8YJ TCGA-BP-4158 TCGA-BP-4159 
       17.36        15.42        16.27        14.17       111.02        85.51 
TCGA-BP-4160 TCGA-BP-4161 TCGA-BP-4162 TCGA-BP-4163 TCGA-BP-4164 TCGA-BP-4165 
       94.72        90.28       101.06        93.34        32.61        99.85 
TCGA-BP-4166 TCGA-BP-4167 TCGA-BP-4169 TCGA-BP-4170 TCGA-BP-4173 TCGA-BP-4174 
        0.43        89.36        23.05        77.03        62.24        61.78 
TCGA-BP-4177 TCGA-BP-4325 TCGA-BP-4326 TCGA-BP-4327 TCGA-BP-4329 TCGA-BP-4330 
       54.90        97.45        53.42         3.58        27.78        62.07 
TCGA-BP-4331 TCGA-BP-4332 TCGA-BP-4335 TCGA-BP-4337 TCGA-BP-4338 TCGA-BP-4341 
       80.68        37.25        15.16         0.07        93.99        52.24 
TCGA-BP-4343 TCGA-BP-4344 TCGA-BP-4346 TCGA-BP-4347 TCGA-BP-4349 TCGA-BP-4351 
       62.86        54.77        49.08        44.94        12.23        31.89 
TCGA-BP-4352 TCGA-BP-4354 TCGA-BP-4355 TCGA-BP-4756 TCGA-BP-4758 TCGA-BP-4759 
       11.31        33.99        31.33        12.30        72.59        77.98 
TCGA-BP-4760 TCGA-BP-4761 TCGA-BP-4762 TCGA-BP-4763 TCGA-BP-4765 TCGA-BP-4766 
       77.62         5.98        44.15        41.75        71.80        48.07 
TCGA-BP-4769 TCGA-BP-4770 TCGA-BP-4771 TCGA-BP-4774 TCGA-BP-4776 TCGA-BP-4777 
       61.68        10.82         5.33        61.97        13.51        56.91 
TCGA-BP-4782 TCGA-BP-4784 TCGA-BP-4787 TCGA-BP-4789 TCGA-BP-4790 TCGA-BP-4795 
       11.64        60.95        15.78        48.95        36.53        20.38 
TCGA-BP-4797 TCGA-BP-4798 TCGA-BP-4799 TCGA-BP-4801 TCGA-BP-4803 TCGA-BP-4804 
       36.39        10.98        37.25        36.95         6.71        47.97 
TCGA-BP-4807 TCGA-BP-4959 TCGA-BP-4960 TCGA-BP-4961 TCGA-BP-4962 TCGA-BP-4963 
        6.94        87.45        71.41        63.62        58.68        60.30 
TCGA-BP-4964 TCGA-BP-4965 TCGA-BP-4967 TCGA-BP-4969 TCGA-BP-4970 TCGA-BP-4971 
       61.22        61.51         6.74        58.98        14.24        48.89 
TCGA-BP-4972 TCGA-BP-4973 TCGA-BP-4974 TCGA-BP-4975 TCGA-BP-4976 TCGA-BP-4977 
       49.38        45.50         6.90        47.11        53.65        14.93 
TCGA-BP-4981 TCGA-BP-4982 TCGA-BP-4987 TCGA-BP-4988 TCGA-BP-4989 TCGA-BP-4991 
       36.07        33.34        36.95        27.22         3.88        46.45 
TCGA-BP-4992 TCGA-BP-4993 TCGA-BP-4995 TCGA-BP-4998 TCGA-BP-4999 TCGA-BP-5000 
       16.47         5.82        45.07        30.64        41.62        18.51 
TCGA-BP-5001 TCGA-BP-5006 TCGA-BP-5007 TCGA-BP-5008 TCGA-BP-5009 TCGA-BP-5010 
       38.70        27.62        37.48        35.21        36.23        28.87 
TCGA-BP-5168 TCGA-BP-5169 TCGA-BP-5170 TCGA-BP-5174 TCGA-BP-5176 TCGA-BP-5177 
       48.10         6.35        79.30        74.20        52.27         9.63 
TCGA-BP-5178 TCGA-BP-5180 TCGA-BP-5181 TCGA-BP-5182 TCGA-BP-5183 TCGA-BP-5184 
       62.86        74.40        49.15        38.30        42.44        37.25 
TCGA-BP-5185 TCGA-BP-5186 TCGA-BP-5187 TCGA-BP-5189 TCGA-BP-5190 TCGA-BP-5191 
       37.22        22.78        13.35        27.02        33.24        31.79 
TCGA-BP-5192 TCGA-BP-5194 TCGA-BP-5195 TCGA-BP-5196 TCGA-BP-5198 TCGA-BP-5199 
       23.47        13.41        24.62        33.47        19.82        44.55 
TCGA-BP-5200 TCGA-BP-5202 TCGA-CJ-4634 TCGA-CJ-4636 TCGA-CJ-4637 TCGA-CJ-4638 
       34.95         0.95       115.00        63.25        73.22        14.17 
TCGA-CJ-4639 TCGA-CJ-4641 TCGA-CJ-4642 TCGA-CJ-4643 TCGA-CJ-4644 TCGA-CJ-4868 
      106.16        54.61       105.37        58.95        11.05        21.24 
TCGA-CJ-4870 TCGA-CJ-4871 TCGA-CJ-4872 TCGA-CJ-4873 TCGA-CJ-4874 TCGA-CJ-4875 
       49.25        79.66        10.72        74.27        75.06       116.84 
TCGA-CJ-4878 TCGA-CJ-4881 TCGA-CJ-4882 TCGA-CJ-4884 TCGA-CJ-4885 TCGA-CJ-4886 
       71.87        66.21        61.91        57.83       113.46        64.18 
TCGA-CJ-4887 TCGA-CJ-4888 TCGA-CJ-4889 TCGA-CJ-4890 TCGA-CJ-4891 TCGA-CJ-4892 
       30.64        51.52        63.98       115.69        26.93        50.01 
TCGA-CJ-4893 TCGA-CJ-4895 TCGA-CJ-4899 TCGA-CJ-4900 TCGA-CJ-4902 TCGA-CJ-4903 
       24.66        39.45        50.24        56.35        49.97        51.25 
TCGA-CJ-4904 TCGA-CJ-4905 TCGA-CJ-4908 TCGA-CJ-4912 TCGA-CJ-4913 TCGA-CJ-4916 
      108.56        49.18        50.33        54.48        38.56        45.14 
TCGA-CJ-4918 TCGA-CJ-4920 TCGA-CJ-4923 TCGA-CJ-5671 TCGA-CJ-5672 TCGA-CJ-5675 
        3.06         4.57        18.81       131.08        72.00       129.40 
TCGA-CJ-5676 TCGA-CJ-5677 TCGA-CJ-5680 TCGA-CJ-5681 TCGA-CJ-5682 TCGA-CJ-5683 
      133.71        25.71        25.25        18.15       122.83        62.10 
TCGA-CJ-5684 TCGA-CJ-5686 TCGA-CJ-5689 TCGA-CJ-6027 TCGA-CJ-6028 TCGA-CJ-6030 
       73.35        67.00        53.26       118.85        53.42        75.58 
TCGA-CJ-6031 TCGA-CJ-6032 TCGA-CJ-6033 TCGA-CW-5580 TCGA-CW-5581 TCGA-CW-5583 
       62.66       119.64         7.36        64.57        92.02        81.83 
TCGA-CW-5584 TCGA-CW-5585 TCGA-CW-5587 TCGA-CW-5589 TCGA-CW-6087 TCGA-CW-6088 
        5.39        85.78        73.18        78.18         1.35       105.93 
TCGA-CW-6093 TCGA-CW-6097 TCGA-CZ-4853 TCGA-CZ-4854 TCGA-CZ-4856 TCGA-CZ-4857 
      103.43        18.77        25.45        46.16         0.59        47.08 
TCGA-CZ-4858 TCGA-CZ-4859 TCGA-CZ-4861 TCGA-CZ-4862 TCGA-CZ-4863 TCGA-CZ-4864 
       69.21        58.75        14.66       107.54        63.39        93.04 
TCGA-CZ-4865 TCGA-CZ-5451 TCGA-CZ-5452 TCGA-CZ-5453 TCGA-CZ-5454 TCGA-CZ-5455 
        5.46        63.42        58.82        79.53        23.74        18.44 
TCGA-CZ-5456 TCGA-CZ-5458 TCGA-CZ-5459 TCGA-CZ-5460 TCGA-CZ-5461 TCGA-CZ-5463 
       79.63        91.69        55.33        94.45        10.85        21.76 
TCGA-CZ-5464 TCGA-CZ-5465 TCGA-CZ-5466 TCGA-CZ-5467 TCGA-CZ-5468 TCGA-CZ-5470 
       69.96        84.30        22.52         2.40         1.94        12.69 
TCGA-CZ-5982 TCGA-CZ-5984 TCGA-CZ-5985 TCGA-CZ-5986 TCGA-CZ-5987 TCGA-CZ-5988 
       80.19        67.96        65.65        12.26        14.63        22.78 
TCGA-CZ-5989 TCGA-DV-5565 TCGA-DV-5566 TCGA-DV-5567 TCGA-DV-5568 TCGA-DV-5569 
       62.63        13.28        45.96        65.88        12.16        11.67 
TCGA-DV-5573 TCGA-DV-5574 TCGA-DV-5575 TCGA-DV-5576 TCGA-DV-A4VX TCGA-DV-A4VZ 
       37.15        66.28        56.84        23.90        53.46        12.00 
TCGA-DV-A4W0 TCGA-EU-5904 TCGA-EU-5905 TCGA-EU-5906 TCGA-G6-A5PC TCGA-G6-A8L6 
       81.21        18.12         3.91         6.77         7.96        10.29 
TCGA-G6-A8L7 TCGA-GK-A6C7 TCGA-MM-A563 TCGA-MM-A564 TCGA-MM-A84U TCGA-MW-A4EC 
       70.13         2.01        19.43        19.96        23.01        16.37 
TCGA-2K-A9WE TCGA-2Z-A9J1 TCGA-2Z-A9J2 TCGA-2Z-A9J3 TCGA-2Z-A9J5 TCGA-2Z-A9J6 
        7.04        75.55        59.01        58.22       100.27        56.91 
TCGA-2Z-A9J7 TCGA-2Z-A9J8 TCGA-2Z-A9J9 TCGA-2Z-A9JD TCGA-2Z-A9JE TCGA-2Z-A9JJ 
        4.57        91.73        75.42        34.85        56.81        39.88 
TCGA-2Z-A9JK TCGA-2Z-A9JL TCGA-2Z-A9JM TCGA-2Z-A9JN TCGA-2Z-A9JO TCGA-2Z-A9JP 
       38.99        33.07        30.71        24.33        31.20        29.36 
TCGA-2Z-A9JQ TCGA-2Z-A9JR TCGA-2Z-A9JS TCGA-2Z-A9JT TCGA-4A-A93W TCGA-4A-A93Y 
       25.58         5.29        16.18        22.49         0.13        11.57 
TCGA-5P-A9JU TCGA-5P-A9JV TCGA-5P-A9JW TCGA-5P-A9JZ TCGA-5P-A9K0 TCGA-5P-A9K2 
       12.26        67.17       106.55        90.21        22.26        78.64 
TCGA-5P-A9K4 TCGA-5P-A9K6 TCGA-5P-A9K9 TCGA-5P-A9KA TCGA-5P-A9KC TCGA-5P-A9KE 
       71.80        62.93        19.36        12.99        12.39        27.09 
TCGA-A4-7287 TCGA-A4-7288 TCGA-A4-7584 TCGA-A4-7585 TCGA-A4-7732 TCGA-A4-7734 
       19.63        61.05        21.37        35.18        19.13         0.89 
TCGA-A4-7828 TCGA-A4-7915 TCGA-A4-7996 TCGA-A4-7997 TCGA-A4-8310 TCGA-A4-8311 
        7.82         0.23        16.64        30.48        25.64        23.97 
TCGA-A4-8312 TCGA-A4-8515 TCGA-A4-8516 TCGA-A4-8517 TCGA-A4-8518 TCGA-A4-8630 
       23.28        23.31         0.76        19.63        19.73        14.33 
TCGA-A4-A48D TCGA-A4-A4ZT TCGA-A4-A57E TCGA-A4-A5DU TCGA-A4-A5XZ TCGA-A4-A5Y0 
       12.46        16.96         8.48        16.31        15.75         8.28 
TCGA-A4-A6HP TCGA-AL-3466 TCGA-AL-3467 TCGA-AL-3468 TCGA-AL-3471 TCGA-AL-3472 
       12.46         9.63        70.19        76.64        49.32        66.71 
TCGA-AL-3473 TCGA-AL-7173 TCGA-AL-A5DJ TCGA-AT-A5NU TCGA-B1-5398 TCGA-B1-A47M 
       62.66        67.73        49.25         2.20        19.56        21.67 
TCGA-B1-A47N TCGA-B1-A47O TCGA-B1-A654 TCGA-B1-A655 TCGA-B1-A656 TCGA-B1-A657 
       24.56        16.87        20.25        16.77        20.32        21.07 
TCGA-B3-3925 TCGA-B3-4103 TCGA-B3-4104 TCGA-B3-8121 TCGA-B3-A6W5 TCGA-B9-4113 
       33.83        30.58        34.49        12.46        10.16        50.50 
TCGA-B9-4114 TCGA-B9-4115 TCGA-B9-4116 TCGA-B9-4117 TCGA-B9-4617 TCGA-B9-5155 
       28.18        26.40        20.61         0.46         1.15        15.12 
TCGA-B9-5156 TCGA-B9-7268 TCGA-B9-A44B TCGA-B9-A5W7 TCGA-B9-A5W9 TCGA-B9-A8YH 
       43.99        22.06         2.10        19.23         0.16        17.49 
TCGA-B9-A8YI TCGA-BQ-5876 TCGA-BQ-5878 TCGA-BQ-5879 TCGA-BQ-5880 TCGA-BQ-5881 
       12.30        19.27        63.72        22.92        43.20        47.80 
TCGA-BQ-5883 TCGA-BQ-5884 TCGA-BQ-5885 TCGA-BQ-5886 TCGA-BQ-5887 TCGA-BQ-5888 
       40.83        26.04        30.28        26.04        25.35        13.25 
TCGA-BQ-5889 TCGA-BQ-5890 TCGA-BQ-5891 TCGA-BQ-5892 TCGA-BQ-5893 TCGA-BQ-7045 
       10.82         7.66         0.95        11.97         7.92        48.26 
TCGA-BQ-7046 TCGA-BQ-7048 TCGA-BQ-7049 TCGA-BQ-7050 TCGA-BQ-7051 TCGA-BQ-7053 
       96.92        93.34        44.84        61.28        50.40        49.84 
TCGA-BQ-7056 TCGA-BQ-7058 TCGA-BQ-7059 TCGA-BQ-7060 TCGA-BQ-7061 TCGA-BQ-7062 
       20.12        11.28         7.63         7.04         7.17         3.81 
TCGA-DW-5560 TCGA-DW-5561 TCGA-DW-7834 TCGA-DW-7836 TCGA-DW-7837 TCGA-DW-7838 
       48.85        13.61       129.86        35.93        37.55        24.46 
TCGA-DW-7839 TCGA-DW-7840 TCGA-DW-7841 TCGA-DW-7842 TCGA-DW-7963 TCGA-DZ-6131 
       13.78         3.75        14.63         3.02        40.77        79.86 
TCGA-DZ-6132 TCGA-DZ-6133 TCGA-DZ-6134 TCGA-DZ-6135 TCGA-EV-5901 TCGA-EV-5902 
       80.88        51.19        61.02        74.60        34.19        19.00 
TCGA-EV-5903 TCGA-F9-A7VF TCGA-F9-A8NY TCGA-F9-A97G TCGA-G7-6790 TCGA-G7-6792 
       24.89         2.40         1.18         0.43        51.78        90.90 
TCGA-G7-6793 TCGA-G7-6795 TCGA-G7-6796 TCGA-G7-7501 TCGA-G7-A4TM TCGA-G7-A8LB 
       11.05        39.25        71.44        20.52         6.38        17.98 
TCGA-G7-A8LD TCGA-G7-A8LE TCGA-GL-6846 TCGA-GL-7773 TCGA-GL-A4EM TCGA-GL-A59R 
       16.90        80.65       194.79        12.92         1.05        12.43 
TCGA-GL-A59T TCGA-GL-A9DC TCGA-GL-A9DD TCGA-GL-A9DE TCGA-HE-A5NF TCGA-HE-A5NH 
       17.95        12.89        11.21        16.31        84.89        26.01 
TCGA-HE-A5NI TCGA-HE-A5NJ TCGA-HE-A5NL TCGA-IA-A40U TCGA-IA-A40X TCGA-IA-A83S 
       11.84        56.75        25.22        16.80        19.99        85.78 
TCGA-IA-A83T TCGA-IA-A83V TCGA-IA-A83W TCGA-IZ-8195 TCGA-IZ-8196 TCGA-IZ-A6M8 
       88.24        96.69        67.17        22.26        21.34        16.34 
TCGA-IZ-A6M9 TCGA-J7-6720 TCGA-J7-8537 TCGA-KV-A6GD TCGA-KV-A6GE TCGA-KV-A74V 
       12.36        12.76        10.55        18.41        29.10        11.41 
TCGA-MH-A55W TCGA-MH-A55Z TCGA-MH-A560 TCGA-MH-A561 TCGA-MH-A562 TCGA-MH-A854 
       34.29        27.78        30.38        27.65        20.25        17.62 
TCGA-MH-A855 TCGA-MH-A856 TCGA-MH-A857 TCGA-O9-A75Z TCGA-P4-A5E6 TCGA-P4-A5E7 
       12.13        31.13        29.26        15.48        99.78        87.09 
TCGA-P4-A5E8 TCGA-P4-A5EB TCGA-P4-A5ED TCGA-P4-AAVK TCGA-P4-AAVL TCGA-P4-AAVM 
       42.94        99.12        92.58        52.27        16.01        50.60 
TCGA-P4-AAVO TCGA-PJ-A5Z9 TCGA-SX-A71R TCGA-SX-A71S TCGA-SX-A71U TCGA-SX-A71V 
       78.90        17.75        47.90        49.45        44.61        28.80 
TCGA-SX-A7SL TCGA-SX-A7SM TCGA-SX-A7SN TCGA-SX-A7SO TCGA-SX-A7SP TCGA-SX-A7SQ 
       27.06        11.93        19.00        41.33        16.31        41.62 
TCGA-SX-A7SR TCGA-SX-A7SS TCGA-SX-A7SU TCGA-UZ-A9PJ TCGA-UZ-A9PK TCGA-UZ-A9PL 
       26.47        53.10        43.76        26.20       117.40       103.63 
TCGA-UZ-A9PM TCGA-UZ-A9PN TCGA-UZ-A9PO TCGA-UZ-A9PP TCGA-UZ-A9PR TCGA-UZ-A9PS 
      125.29        37.35        62.83        98.96        86.37        71.24 
TCGA-UZ-A9PU TCGA-UZ-A9PV TCGA-UZ-A9PX TCGA-UZ-A9PZ TCGA-UZ-A9Q0 TCGA-UZ-A9Q1 
       30.67        47.47        65.13        21.60       110.73        51.35 
TCGA-V9-A7HT TCGA-WN-A9G9 TCGA-WN-AB4C TCGA-Y8-A894 TCGA-Y8-A895 TCGA-Y8-A896 
       31.73        26.01        39.06        18.64        15.91        18.64 
TCGA-Y8-A897 TCGA-Y8-A898 TCGA-Y8-A8RY TCGA-Y8-A8RZ TCGA-Y8-A8S0 TCGA-Y8-A8S1 
       18.05        15.62        25.28         3.68         6.02        13.28 

  DEL PEAK  2(1P31.1) MUTATED DEL PEAK  2(1P31.1) WILD-TYPE 
                         0.10                          0.07 
  DEL PEAK  2(1P31.1) MUTATED DEL PEAK  2(1P31.1) WILD-TYPE 
                       151.96                        194.79 
  DEL PEAK  2(1P31.1) MUTATED DEL PEAK  2(1P31.1) WILD-TYPE 
                       43.000                        33.025 
[1] "0.1 - 152.0 (43.0)" "0.1 - 194.8 (33.0)"
[1] "hr=" "1.1"
D15V2, continuous
                               vv
clus                            STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK  2(1P31.1) MUTATED        60       34        42       24
  DEL PEAK  2(1P31.1) WILD-TYPE     395       70       149       80
D15V3, multiclass
           clus
vv          DEL PEAK  2(1P31.1) MUTATED DEL PEAK  2(1P31.1) WILD-TYPE
  STAGE I                            60                           395
  STAGE II                           34                            70
  STAGE III                          42                           149
  STAGE IV                           24                            80
[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                             T1  T2  T3  T4
  DEL PEAK  2(1P31.1) MUTATED    66  40  54   6
  DEL PEAK  2(1P31.1) WILD-TYPE 413  87 204   9
D15V4, multiclass
    clus
vv   DEL PEAK  2(1P31.1) MUTATED DEL PEAK  2(1P31.1) WILD-TYPE
  T1                          66                           413
  T2                          40                            87
  T3                          54                           204
  T4                           6                             9
[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                             N0  N1  N2
  DEL PEAK  2(1P31.1) MUTATED    72  15   3
  DEL PEAK  2(1P31.1) WILD-TYPE 250  29   4
D15V5, multiclass
    clus
vv   DEL PEAK  2(1P31.1) MUTATED DEL PEAK  2(1P31.1) WILD-TYPE
  N0                          72                           250
  N1                          15                            29
  N2                           3                             4
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D15V6, binary
                               cls
clus                              0   1
  DEL PEAK  2(1P31.1) MUTATED   104  16
  DEL PEAK  2(1P31.1) WILD-TYPE 441  73
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  2(1P31.1) MUTATED    104   16
  DEL PEAK  2(1P31.1) WILD-TYPE  441   73
   clus
vv  DEL PEAK  2(1P31.1) MUTATED DEL PEAK  2(1P31.1) WILD-TYPE
  0                         104                           441
  1                          16                            73
[1] 2 2
[1] FALSE
D15V7, binary
                               cls
clus                              0   1
  DEL PEAK  2(1P31.1) MUTATED    56 110
  DEL PEAK  2(1P31.1) WILD-TYPE 236 479
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  2(1P31.1) MUTATED     56  110
  DEL PEAK  2(1P31.1) WILD-TYPE  236  479
        clus
vv       DEL PEAK  2(1P31.1) MUTATED DEL PEAK  2(1P31.1) WILD-TYPE
  FEMALE                          56                           236
  MALE                           110                           479
[1] 2 2
[1] FALSE
D15V8, binary
                               cls
clus                              0   1
  DEL PEAK  2(1P31.1) MUTATED    94   0
  DEL PEAK  2(1P31.1) WILD-TYPE 306   3
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  2(1P31.1) MUTATED     94    0
  DEL PEAK  2(1P31.1) WILD-TYPE  306    3
     clus
vv    DEL PEAK  2(1P31.1) MUTATED DEL PEAK  2(1P31.1) WILD-TYPE
  NO                           94                           306
  YES                           0                             3
[1] 2 2
[1] FALSE
D15V9, continuous
                               vv
clus                            KIDNEY CHROMOPHOBE
  DEL PEAK  2(1P31.1) MUTATED                   53
  DEL PEAK  2(1P31.1) WILD-TYPE                 13
                               vv
clus                            KIDNEY CLEAR CELL RENAL CARCINOMA
  DEL PEAK  2(1P31.1) MUTATED                                  77
  DEL PEAK  2(1P31.1) WILD-TYPE                               451
                               vv
clus                            KIDNEY PAPILLARY RENAL CELL CARCINOMA
  DEL PEAK  2(1P31.1) MUTATED                                      36
  DEL PEAK  2(1P31.1) WILD-TYPE                                   251
D15V10, multiclass
                                       clus
vv                                      DEL PEAK  2(1P31.1) MUTATED
  KIDNEY CHROMOPHOBE                                             53
  KIDNEY CLEAR CELL RENAL CARCINOMA                              77
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                          36
                                       clus
vv                                      DEL PEAK  2(1P31.1) WILD-TYPE
  KIDNEY CHROMOPHOBE                                               13
  KIDNEY CLEAR CELL RENAL CARCINOMA                               451
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                           251
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D15V11, continuous
D15V12, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK  2(1P31.1) MUTATED                                  0     5
  DEL PEAK  2(1P31.1) WILD-TYPE                                2    10
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  2(1P31.1) MUTATED                          20   135
  DEL PEAK  2(1P31.1) WILD-TYPE                       101   584
D15V13, multiclass
                                  clus
vv                                 DEL PEAK  2(1P31.1) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                      5
  BLACK OR AFRICAN AMERICAN                                 20
  WHITE                                                    135
                                  clus
vv                                 DEL PEAK  2(1P31.1) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             2
  ASIAN                                                       10
  BLACK OR AFRICAN AMERICAN                                  101
  WHITE                                                      584
[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"
D15V14, binary
                               cls
clus                              0   1
  DEL PEAK  2(1P31.1) MUTATED    11  99
  DEL PEAK  2(1P31.1) WILD-TYPE  31 522
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  2(1P31.1) MUTATED     11   99
  DEL PEAK  2(1P31.1) WILD-TYPE   31  522
                        clus
vv                       DEL PEAK  2(1P31.1) MUTATED
  HISPANIC OR LATINO                              11
  NOT HISPANIC OR LATINO                          99
                        clus
vv                       DEL PEAK  2(1P31.1) WILD-TYPE
  HISPANIC OR LATINO                                31
  NOT HISPANIC OR LATINO                           522
[1] 2 2
[1] FALSE

Clustering(16) Variable = DEL PEAK  3(1Q43) MUTATION ANALYSIS
D16V1, survival
                             sevent
clus2                           0   1
  DEL PEAK  3(1Q43) MUTATED    86  27
  DEL PEAK  3(1Q43) WILD-TYPE 559 201
  DEL PEAK  3(1Q43) MUTATED DEL PEAK  3(1Q43) WILD-TYPE 
                        113                         760 
  DEL PEAK  3(1Q43) MUTATED DEL PEAK  3(1Q43) WILD-TYPE 
                         27                         201 
$`DEL PEAK  3(1Q43) MUTATED`
TCGA-KL-8323 TCGA-KL-8324 TCGA-KL-8325 TCGA-KL-8327 TCGA-KL-8328 TCGA-KL-8329 
       38.07       141.73        23.84       137.06       102.81        90.48 
TCGA-KL-8330 TCGA-KL-8331 TCGA-KL-8332 TCGA-KL-8333 TCGA-KL-8334 TCGA-KL-8335 
      108.62        98.96        84.89        98.33        96.95        92.55 
TCGA-KL-8336 TCGA-KL-8337 TCGA-KL-8338 TCGA-KL-8339 TCGA-KL-8340 TCGA-KL-8341 
       30.25        44.84        86.56        28.11        66.54        24.79 
TCGA-KL-8342 TCGA-KL-8343 TCGA-KL-8344 TCGA-KL-8345 TCGA-KM-8438 TCGA-KM-8440 
       73.91        71.41        28.80        54.74       151.96        44.91 
TCGA-KM-8442 TCGA-KM-8443 TCGA-KM-8476 TCGA-KN-8418 TCGA-KN-8421 TCGA-KN-8422 
       47.24        49.97       123.12       129.37        87.91        25.48 
TCGA-KN-8424 TCGA-KN-8425 TCGA-KN-8428 TCGA-KN-8429 TCGA-KN-8431 TCGA-KN-8434 
       65.19       104.52        52.27        87.12        19.33        59.08 
TCGA-KN-8435 TCGA-KN-8436 TCGA-KO-8403 TCGA-KO-8404 TCGA-KO-8405 TCGA-KO-8406 
      115.00        42.35       105.47        10.68       100.47       103.40 
TCGA-KO-8407 TCGA-KO-8408 TCGA-KO-8409 TCGA-KO-8411 TCGA-KO-8414 TCGA-KO-8415 
       92.71        16.67       104.55       130.13       105.60        96.62 
TCGA-KO-8416 TCGA-KO-8417 TCGA-A3-3370 TCGA-A3-3374 TCGA-A3-3380 TCGA-A3-A8OV 
       90.48        92.55        74.76        43.20        18.64        11.18 
TCGA-AK-3427 TCGA-AK-3433 TCGA-AK-3440 TCGA-AK-3465 TCGA-AS-3777 TCGA-B0-4696 
      117.80       112.08        94.19        12.13        40.70        28.47 
TCGA-B0-4698 TCGA-B0-4699 TCGA-B0-4821 TCGA-B0-4834 TCGA-B0-4845 TCGA-B0-4852 
        1.38         3.62        40.44        68.71        65.29        36.85 
TCGA-B0-5102 TCGA-B0-5117 TCGA-B0-5703 TCGA-B2-3923 TCGA-B4-5838 TCGA-B8-4619 
       90.87        52.87        73.84        32.61         5.46        17.19 
TCGA-B8-5549 TCGA-BP-4329 TCGA-BP-4334 TCGA-BP-4352 TCGA-BP-4353 TCGA-BP-4768 
        6.38        27.78        21.21        11.31        12.33        13.15 
TCGA-BP-4775 TCGA-BP-4968 TCGA-BP-4994 TCGA-CJ-4878 TCGA-CJ-4897 TCGA-CJ-4901 
       60.59        57.40        43.00        71.87       109.84        47.67 
TCGA-CJ-4907 TCGA-CW-5585 TCGA-CW-5588 TCGA-CZ-4860 TCGA-CZ-4866 TCGA-CZ-5457 
       49.28        85.78        66.31         6.77        61.41        90.54 
TCGA-CZ-5469 TCGA-G6-A8L8 TCGA-2Z-A9JG TCGA-4A-A93X TCGA-5P-A9JY TCGA-5P-A9KH 
       31.10        35.87        54.64        12.82        49.58        67.43 
TCGA-A4-7286 TCGA-A4-7583 TCGA-B1-7332 TCGA-B1-A655 TCGA-B3-3926 TCGA-B9-A5W8 
       18.21         0.10        37.51        16.77        10.09        17.23 
TCGA-B9-A5W9 TCGA-BQ-5894 TCGA-F9-A7Q0 TCGA-G7-7502 TCGA-G7-A8LC TCGA-GL-8500 
        0.16         2.76        13.08        25.84        23.08        27.65 
TCGA-HE-A5NK TCGA-P4-A5EA TCGA-P4-AAVL TCGA-PJ-A5Z8 TCGA-UN-AAZ9 
       73.25         6.61        16.01        19.73        18.02 

$`DEL PEAK  3(1Q43) WILD-TYPE`
TCGA-KL-8326 TCGA-KL-8346 TCGA-KM-8439 TCGA-KM-8441 TCGA-KM-8477 TCGA-KM-8639 
      109.22        62.37        23.28        28.80        51.06        31.33 
TCGA-KN-8419 TCGA-KN-8423 TCGA-KN-8426 TCGA-KN-8427 TCGA-KN-8432 TCGA-KN-8433 
       23.47        25.91         3.55         0.99         2.50        11.21 
TCGA-KN-8437 TCGA-KO-8410 TCGA-KO-8413 TCGA-3Z-A93Z TCGA-6D-AA2E TCGA-A3-3306 
      100.87       103.10        99.88        12.66        11.90        36.82 
TCGA-A3-3307 TCGA-A3-3308 TCGA-A3-3311 TCGA-A3-3313 TCGA-A3-3316 TCGA-A3-3317 
       47.21         0.53        39.16        24.16        49.08        49.02 
TCGA-A3-3319 TCGA-A3-3320 TCGA-A3-3322 TCGA-A3-3323 TCGA-A3-3324 TCGA-A3-3325 
       37.15        49.58        48.59        36.36        38.99        38.47 
TCGA-A3-3326 TCGA-A3-3331 TCGA-A3-3335 TCGA-A3-3336 TCGA-A3-3343 TCGA-A3-3346 
       37.38        48.82        62.01        34.29        31.07         4.50 
TCGA-A3-3347 TCGA-A3-3349 TCGA-A3-3351 TCGA-A3-3352 TCGA-A3-3357 TCGA-A3-3358 
       52.93        45.53        29.92        18.44        88.37        42.97 
TCGA-A3-3359 TCGA-A3-3362 TCGA-A3-3363 TCGA-A3-3365 TCGA-A3-3367 TCGA-A3-3372 
       82.32        51.25        10.49        28.70        74.63        24.16 
TCGA-A3-3373 TCGA-A3-3376 TCGA-A3-3378 TCGA-A3-3382 TCGA-A3-3383 TCGA-A3-3385 
       53.29        55.76        20.71        18.87        28.31        65.52 
TCGA-A3-3387 TCGA-A3-A6NI TCGA-A3-A6NJ TCGA-A3-A6NL TCGA-A3-A6NN TCGA-A3-A8CQ 
       20.28        33.47        15.39        22.65         0.10         0.10 
TCGA-A3-A8OW TCGA-AK-3425 TCGA-AK-3426 TCGA-AK-3428 TCGA-AK-3429 TCGA-AK-3430 
       10.62       109.91        29.10        73.08       109.41        15.78 
TCGA-AK-3431 TCGA-AK-3434 TCGA-AK-3436 TCGA-AK-3443 TCGA-AK-3444 TCGA-AK-3445 
       73.68        68.61       109.51        46.78        48.36        78.64 
TCGA-AK-3447 TCGA-AK-3450 TCGA-AK-3451 TCGA-AK-3453 TCGA-AK-3454 TCGA-AK-3455 
       40.01        49.28        94.29        83.21        28.73        22.45 
TCGA-AK-3456 TCGA-AK-3458 TCGA-AK-3460 TCGA-AK-3461 TCGA-AS-3778 TCGA-B0-4688 
       37.58        38.40        82.45        72.89         1.41         3.32 
TCGA-B0-4690 TCGA-B0-4691 TCGA-B0-4693 TCGA-B0-4694 TCGA-B0-4697 TCGA-B0-4700 
        1.41         4.57         2.53         3.48        19.00        65.10 
TCGA-B0-4701 TCGA-B0-4703 TCGA-B0-4706 TCGA-B0-4707 TCGA-B0-4710 TCGA-B0-4712 
        7.82         5.98         2.14        19.73        57.70        43.96 
TCGA-B0-4713 TCGA-B0-4714 TCGA-B0-4718 TCGA-B0-4810 TCGA-B0-4811 TCGA-B0-4813 
        6.64         3.25        58.45        15.72        46.59         0.59 
TCGA-B0-4814 TCGA-B0-4815 TCGA-B0-4816 TCGA-B0-4817 TCGA-B0-4818 TCGA-B0-4819 
        5.52        52.21        45.07        33.50        16.77         6.02 
TCGA-B0-4822 TCGA-B0-4823 TCGA-B0-4824 TCGA-B0-4827 TCGA-B0-4828 TCGA-B0-4833 
       36.53        14.93        54.48        29.10        10.09        78.44 
TCGA-B0-4836 TCGA-B0-4837 TCGA-B0-4838 TCGA-B0-4839 TCGA-B0-4841 TCGA-B0-4842 
       40.70        45.30        27.42        53.88         6.71        56.68 
TCGA-B0-4843 TCGA-B0-4844 TCGA-B0-4846 TCGA-B0-4847 TCGA-B0-4848 TCGA-B0-4849 
       10.52        10.29        39.45        26.07        29.03         2.27 
TCGA-B0-4945 TCGA-B0-5075 TCGA-B0-5077 TCGA-B0-5080 TCGA-B0-5081 TCGA-B0-5084 
       70.52        20.94        43.30        11.24        11.90         7.30 
TCGA-B0-5085 TCGA-B0-5088 TCGA-B0-5092 TCGA-B0-5094 TCGA-B0-5095 TCGA-B0-5096 
       25.32        18.51        15.09        10.95         8.05         2.24 
TCGA-B0-5097 TCGA-B0-5098 TCGA-B0-5099 TCGA-B0-5100 TCGA-B0-5104 TCGA-B0-5106 
       21.86        52.08        15.95        62.89        90.48        52.54 
TCGA-B0-5107 TCGA-B0-5108 TCGA-B0-5109 TCGA-B0-5110 TCGA-B0-5113 TCGA-B0-5115 
       30.48        58.59        19.30        66.05        38.63        52.73 
TCGA-B0-5116 TCGA-B0-5119 TCGA-B0-5120 TCGA-B0-5121 TCGA-B0-5399 TCGA-B0-5400 
       41.88        51.02        38.43        48.82        46.39        56.98 
TCGA-B0-5402 TCGA-B0-5690 TCGA-B0-5691 TCGA-B0-5692 TCGA-B0-5693 TCGA-B0-5694 
       42.41       111.52       112.80       129.67       133.94        15.78 
TCGA-B0-5695 TCGA-B0-5696 TCGA-B0-5697 TCGA-B0-5698 TCGA-B0-5699 TCGA-B0-5701 
       70.68        85.78        86.47       119.38       126.28        80.91 
TCGA-B0-5702 TCGA-B0-5705 TCGA-B0-5706 TCGA-B0-5709 TCGA-B0-5710 TCGA-B0-5711 
       71.41       149.16       105.37       130.65        79.89       131.15 
TCGA-B0-5712 TCGA-B0-5713 TCGA-B0-5812 TCGA-B2-3924 TCGA-B2-4098 TCGA-B2-4099 
       89.49        91.46       126.05        35.90         1.68        31.96 
TCGA-B2-4101 TCGA-B2-4102 TCGA-B2-5633 TCGA-B2-5635 TCGA-B2-5639 TCGA-B2-5641 
       21.30        31.30        31.66        24.82        32.98        21.57 
TCGA-B2-A4SR TCGA-B4-5377 TCGA-B4-5378 TCGA-B4-5832 TCGA-B4-5834 TCGA-B4-5835 
       16.67        12.00         5.75         5.10         0.85         0.53 
TCGA-B4-5836 TCGA-B4-5843 TCGA-B4-5844 TCGA-B8-4143 TCGA-B8-4146 TCGA-B8-4148 
        4.64         0.36         0.23        23.31        16.80        27.16 
TCGA-B8-4151 TCGA-B8-4153 TCGA-B8-4154 TCGA-B8-4620 TCGA-B8-4621 TCGA-B8-4622 
       42.71        25.05        45.37        25.55        25.91        50.14 
TCGA-B8-5158 TCGA-B8-5159 TCGA-B8-5162 TCGA-B8-5163 TCGA-B8-5164 TCGA-B8-5165 
       20.91        23.74         1.18        27.02         0.85        24.23 
TCGA-B8-5545 TCGA-B8-5546 TCGA-B8-5550 TCGA-B8-5551 TCGA-B8-5552 TCGA-B8-5553 
       50.14        16.60        48.53         0.53        34.39        14.30 
TCGA-B8-A54D TCGA-B8-A54E TCGA-B8-A54F TCGA-B8-A54G TCGA-B8-A54H TCGA-B8-A54I 
       27.29        29.88        17.06         1.74         8.42         4.93 
TCGA-B8-A54J TCGA-B8-A54K TCGA-B8-A7U6 TCGA-B8-A8YJ TCGA-BP-4158 TCGA-BP-4159 
       17.36        15.42        16.27        14.17       111.02        85.51 
TCGA-BP-4160 TCGA-BP-4161 TCGA-BP-4162 TCGA-BP-4163 TCGA-BP-4164 TCGA-BP-4165 
       94.72        90.28       101.06        93.34        32.61        99.85 
TCGA-BP-4166 TCGA-BP-4167 TCGA-BP-4169 TCGA-BP-4170 TCGA-BP-4173 TCGA-BP-4174 
        0.43        89.36        23.05        77.03        62.24        61.78 
TCGA-BP-4176 TCGA-BP-4177 TCGA-BP-4325 TCGA-BP-4326 TCGA-BP-4327 TCGA-BP-4330 
       64.27        54.90        97.45        53.42         3.58        62.07 
TCGA-BP-4331 TCGA-BP-4332 TCGA-BP-4335 TCGA-BP-4337 TCGA-BP-4338 TCGA-BP-4340 
       80.68        37.25        15.16         0.07        93.99        18.48 
TCGA-BP-4341 TCGA-BP-4342 TCGA-BP-4343 TCGA-BP-4344 TCGA-BP-4346 TCGA-BP-4347 
       52.24        74.17        62.86        54.77        49.08        44.94 
TCGA-BP-4349 TCGA-BP-4351 TCGA-BP-4354 TCGA-BP-4355 TCGA-BP-4756 TCGA-BP-4758 
       12.23        31.89        33.99        31.33        12.30        72.59 
TCGA-BP-4759 TCGA-BP-4760 TCGA-BP-4761 TCGA-BP-4762 TCGA-BP-4763 TCGA-BP-4765 
       77.98        77.62         5.98        44.15        41.75        71.80 
TCGA-BP-4766 TCGA-BP-4769 TCGA-BP-4770 TCGA-BP-4771 TCGA-BP-4774 TCGA-BP-4776 
       48.07        61.68        10.82         5.33        61.97        13.51 
TCGA-BP-4777 TCGA-BP-4781 TCGA-BP-4782 TCGA-BP-4784 TCGA-BP-4787 TCGA-BP-4789 
       56.91        68.38        11.64        60.95        15.78        48.95 
TCGA-BP-4790 TCGA-BP-4795 TCGA-BP-4797 TCGA-BP-4798 TCGA-BP-4799 TCGA-BP-4801 
       36.53        20.38        36.39        10.98        37.25        36.95 
TCGA-BP-4803 TCGA-BP-4804 TCGA-BP-4807 TCGA-BP-4959 TCGA-BP-4960 TCGA-BP-4961 
        6.71        47.97         6.94        87.45        71.41        63.62 
TCGA-BP-4962 TCGA-BP-4963 TCGA-BP-4964 TCGA-BP-4965 TCGA-BP-4967 TCGA-BP-4969 
       58.68        60.30        61.22        61.51         6.74        58.98 
TCGA-BP-4970 TCGA-BP-4971 TCGA-BP-4972 TCGA-BP-4973 TCGA-BP-4974 TCGA-BP-4975 
       14.24        48.89        49.38        45.50         6.90        47.11 
TCGA-BP-4976 TCGA-BP-4977 TCGA-BP-4981 TCGA-BP-4982 TCGA-BP-4983 TCGA-BP-4985 
       53.65        14.93        36.07        33.34        46.45        31.30 
TCGA-BP-4986 TCGA-BP-4987 TCGA-BP-4988 TCGA-BP-4989 TCGA-BP-4991 TCGA-BP-4992 
       25.81        36.95        27.22         3.88        46.45        16.47 
TCGA-BP-4993 TCGA-BP-4995 TCGA-BP-4998 TCGA-BP-4999 TCGA-BP-5000 TCGA-BP-5001 
        5.82        45.07        30.64        41.62        18.51        38.70 
TCGA-BP-5004 TCGA-BP-5006 TCGA-BP-5007 TCGA-BP-5008 TCGA-BP-5009 TCGA-BP-5010 
       37.02        27.62        37.48        35.21        36.23        28.87 
TCGA-BP-5168 TCGA-BP-5169 TCGA-BP-5170 TCGA-BP-5173 TCGA-BP-5174 TCGA-BP-5175 
       48.10         6.35        79.30         1.74        74.20        30.64 
TCGA-BP-5176 TCGA-BP-5177 TCGA-BP-5178 TCGA-BP-5180 TCGA-BP-5181 TCGA-BP-5182 
       52.27         9.63        62.86        74.40        49.15        38.30 
TCGA-BP-5183 TCGA-BP-5184 TCGA-BP-5185 TCGA-BP-5186 TCGA-BP-5187 TCGA-BP-5189 
       42.44        37.25        37.22        22.78        13.35        27.02 
TCGA-BP-5190 TCGA-BP-5191 TCGA-BP-5192 TCGA-BP-5194 TCGA-BP-5195 TCGA-BP-5196 
       33.24        31.79        23.47        13.41        24.62        33.47 
TCGA-BP-5198 TCGA-BP-5199 TCGA-BP-5200 TCGA-BP-5201 TCGA-BP-5202 TCGA-CJ-4634 
       19.82        44.55        34.95        31.27         0.95       115.00 
TCGA-CJ-4635 TCGA-CJ-4636 TCGA-CJ-4637 TCGA-CJ-4638 TCGA-CJ-4639 TCGA-CJ-4640 
       46.55        63.25        73.22        14.17       106.16       114.41 
TCGA-CJ-4641 TCGA-CJ-4642 TCGA-CJ-4643 TCGA-CJ-4644 TCGA-CJ-4868 TCGA-CJ-4869 
       54.61       105.37        58.95        11.05        21.24        83.97 
TCGA-CJ-4870 TCGA-CJ-4871 TCGA-CJ-4872 TCGA-CJ-4873 TCGA-CJ-4874 TCGA-CJ-4875 
       49.25        79.66        10.72        74.27        75.06       116.84 
TCGA-CJ-4876 TCGA-CJ-4881 TCGA-CJ-4882 TCGA-CJ-4884 TCGA-CJ-4885 TCGA-CJ-4886 
       64.27        66.21        61.91        57.83       113.46        64.18 
TCGA-CJ-4887 TCGA-CJ-4888 TCGA-CJ-4889 TCGA-CJ-4890 TCGA-CJ-4891 TCGA-CJ-4892 
       30.64        51.52        63.98       115.69        26.93        50.01 
TCGA-CJ-4893 TCGA-CJ-4894 TCGA-CJ-4895 TCGA-CJ-4899 TCGA-CJ-4900 TCGA-CJ-4902 
       24.66        27.65        39.45        50.24        56.35        49.97 
TCGA-CJ-4903 TCGA-CJ-4904 TCGA-CJ-4905 TCGA-CJ-4908 TCGA-CJ-4912 TCGA-CJ-4913 
       51.25       108.56        49.18        50.33        54.48        38.56 
TCGA-CJ-4916 TCGA-CJ-4918 TCGA-CJ-4920 TCGA-CJ-4923 TCGA-CJ-5671 TCGA-CJ-5672 
       45.14         3.06         4.57        18.81       131.08        72.00 
TCGA-CJ-5675 TCGA-CJ-5676 TCGA-CJ-5677 TCGA-CJ-5678 TCGA-CJ-5679 TCGA-CJ-5680 
      129.40       133.71        25.71        18.87        22.32        25.25 
TCGA-CJ-5681 TCGA-CJ-5682 TCGA-CJ-5683 TCGA-CJ-5684 TCGA-CJ-5686 TCGA-CJ-5689 
       18.15       122.83        62.10        73.35        67.00        53.26 
TCGA-CJ-6027 TCGA-CJ-6028 TCGA-CJ-6030 TCGA-CJ-6031 TCGA-CJ-6032 TCGA-CJ-6033 
      118.85        53.42        75.58        62.66       119.64         7.36 
TCGA-CW-5580 TCGA-CW-5581 TCGA-CW-5583 TCGA-CW-5584 TCGA-CW-5587 TCGA-CW-5589 
       64.57        92.02        81.83         5.39        73.18        78.18 
TCGA-CW-5591 TCGA-CW-6087 TCGA-CW-6088 TCGA-CW-6090 TCGA-CW-6093 TCGA-CW-6097 
       74.66         1.35       105.93        83.90       103.43        18.77 
TCGA-CZ-4853 TCGA-CZ-4854 TCGA-CZ-4856 TCGA-CZ-4857 TCGA-CZ-4858 TCGA-CZ-4859 
       25.45        46.16         0.59        47.08        69.21        58.75 
TCGA-CZ-4861 TCGA-CZ-4862 TCGA-CZ-4863 TCGA-CZ-4864 TCGA-CZ-4865 TCGA-CZ-5451 
       14.66       107.54        63.39        93.04         5.46        63.42 
TCGA-CZ-5452 TCGA-CZ-5453 TCGA-CZ-5454 TCGA-CZ-5455 TCGA-CZ-5456 TCGA-CZ-5458 
       58.82        79.53        23.74        18.44        79.63        91.69 
TCGA-CZ-5459 TCGA-CZ-5460 TCGA-CZ-5461 TCGA-CZ-5462 TCGA-CZ-5463 TCGA-CZ-5464 
       55.33        94.45        10.85        10.22        21.76        69.96 
TCGA-CZ-5465 TCGA-CZ-5466 TCGA-CZ-5467 TCGA-CZ-5468 TCGA-CZ-5470 TCGA-CZ-5982 
       84.30        22.52         2.40         1.94        12.69        80.19 
TCGA-CZ-5984 TCGA-CZ-5985 TCGA-CZ-5986 TCGA-CZ-5987 TCGA-CZ-5988 TCGA-CZ-5989 
       67.96        65.65        12.26        14.63        22.78        62.63 
TCGA-DV-5565 TCGA-DV-5566 TCGA-DV-5567 TCGA-DV-5568 TCGA-DV-5569 TCGA-DV-5573 
       13.28        45.96        65.88        12.16        11.67        37.15 
TCGA-DV-5574 TCGA-DV-5575 TCGA-DV-5576 TCGA-DV-A4VX TCGA-DV-A4VZ TCGA-DV-A4W0 
       66.28        56.84        23.90        53.46        12.00        81.21 
TCGA-EU-5904 TCGA-EU-5905 TCGA-EU-5906 TCGA-EU-5907 TCGA-G6-A5PC TCGA-G6-A8L6 
       18.12         3.91         6.77         4.18         7.96        10.29 
TCGA-G6-A8L7 TCGA-GK-A6C7 TCGA-MM-A563 TCGA-MM-A564 TCGA-MM-A84U TCGA-MW-A4EC 
       70.13         2.01        19.43        19.96        23.01        16.37 
TCGA-T7-A92I TCGA-2K-A9WE TCGA-2Z-A9J1 TCGA-2Z-A9J2 TCGA-2Z-A9J3 TCGA-2Z-A9J5 
       11.70         7.04        75.55        59.01        58.22       100.27 
TCGA-2Z-A9J6 TCGA-2Z-A9J7 TCGA-2Z-A9J8 TCGA-2Z-A9J9 TCGA-2Z-A9JD TCGA-2Z-A9JE 
       56.91         4.57        91.73        75.42        34.85        56.81 
TCGA-2Z-A9JI TCGA-2Z-A9JJ TCGA-2Z-A9JK TCGA-2Z-A9JL TCGA-2Z-A9JM TCGA-2Z-A9JN 
       51.52        39.88        38.99        33.07        30.71        24.33 
TCGA-2Z-A9JO TCGA-2Z-A9JP TCGA-2Z-A9JQ TCGA-2Z-A9JR TCGA-2Z-A9JS TCGA-2Z-A9JT 
       31.20        29.36        25.58         5.29        16.18        22.49 
TCGA-4A-A93W TCGA-4A-A93Y TCGA-5P-A9JU TCGA-5P-A9JV TCGA-5P-A9JW TCGA-5P-A9JZ 
        0.13        11.57        12.26        67.17       106.55        90.21 
TCGA-5P-A9K0 TCGA-5P-A9K2 TCGA-5P-A9K3 TCGA-5P-A9K4 TCGA-5P-A9K6 TCGA-5P-A9K8 
       22.26        78.64        15.48        71.80        62.93        43.04 
TCGA-5P-A9K9 TCGA-5P-A9KA TCGA-5P-A9KC TCGA-5P-A9KE TCGA-A4-7287 TCGA-A4-7288 
       19.36        12.99        12.39        27.09        19.63        61.05 
TCGA-A4-7584 TCGA-A4-7585 TCGA-A4-7732 TCGA-A4-7734 TCGA-A4-7828 TCGA-A4-7915 
       21.37        35.18        19.13         0.89         7.82         0.23 
TCGA-A4-7996 TCGA-A4-7997 TCGA-A4-8098 TCGA-A4-8310 TCGA-A4-8311 TCGA-A4-8312 
       16.64        30.48        29.46        25.64        23.97        23.28 
TCGA-A4-8515 TCGA-A4-8516 TCGA-A4-8517 TCGA-A4-8518 TCGA-A4-8630 TCGA-A4-A48D 
       23.31         0.76        19.63        19.73        14.33        12.46 
TCGA-A4-A4ZT TCGA-A4-A57E TCGA-A4-A5DU TCGA-A4-A5XZ TCGA-A4-A5Y0 TCGA-A4-A5Y1 
       16.96         8.48        16.31        15.75         8.28        12.99 
TCGA-A4-A6HP TCGA-AL-3466 TCGA-AL-3467 TCGA-AL-3468 TCGA-AL-3471 TCGA-AL-3472 
       12.46         9.63        70.19        76.64        49.32        66.71 
TCGA-AL-3473 TCGA-AL-7173 TCGA-AL-A5DJ TCGA-AT-A5NU TCGA-B1-5398 TCGA-B1-A47M 
       62.66        67.73        49.25         2.20        19.56        21.67 
TCGA-B1-A47N TCGA-B1-A47O TCGA-B1-A654 TCGA-B1-A656 TCGA-B1-A657 TCGA-B3-3925 
       24.56        16.87        20.25        20.32        21.07        33.83 
TCGA-B3-4103 TCGA-B3-4104 TCGA-B3-8121 TCGA-B3-A6W5 TCGA-B9-4113 TCGA-B9-4114 
       30.58        34.49        12.46        10.16        50.50        28.18 
TCGA-B9-4115 TCGA-B9-4116 TCGA-B9-4117 TCGA-B9-4617 TCGA-B9-5155 TCGA-B9-5156 
       26.40        20.61         0.46         1.15        15.12        43.99 
TCGA-B9-7268 TCGA-B9-A44B TCGA-B9-A5W7 TCGA-B9-A69E TCGA-B9-A8YH TCGA-B9-A8YI 
       22.06         2.10        19.23        14.86        17.49        12.30 
TCGA-BQ-5875 TCGA-BQ-5876 TCGA-BQ-5877 TCGA-BQ-5878 TCGA-BQ-5879 TCGA-BQ-5880 
       86.76        19.27         8.88        63.72        22.92        43.20 
TCGA-BQ-5881 TCGA-BQ-5882 TCGA-BQ-5883 TCGA-BQ-5884 TCGA-BQ-5885 TCGA-BQ-5886 
       47.80        21.63        40.83        26.04        30.28        26.04 
TCGA-BQ-5887 TCGA-BQ-5888 TCGA-BQ-5889 TCGA-BQ-5890 TCGA-BQ-5891 TCGA-BQ-5892 
       25.35        13.25        10.82         7.66         0.95        11.97 
TCGA-BQ-5893 TCGA-BQ-7044 TCGA-BQ-7045 TCGA-BQ-7046 TCGA-BQ-7048 TCGA-BQ-7049 
        7.92       123.62        48.26        96.92        93.34        44.84 
TCGA-BQ-7050 TCGA-BQ-7051 TCGA-BQ-7053 TCGA-BQ-7055 TCGA-BQ-7056 TCGA-BQ-7058 
       61.28        50.40        49.84        26.27        20.12        11.28 
TCGA-BQ-7059 TCGA-BQ-7060 TCGA-BQ-7061 TCGA-BQ-7062 TCGA-DW-5560 TCGA-DW-5561 
        7.63         7.04         7.17         3.81        48.85        13.61 
TCGA-DW-7834 TCGA-DW-7836 TCGA-DW-7837 TCGA-DW-7838 TCGA-DW-7839 TCGA-DW-7840 
      129.86        35.93        37.55        24.46        13.78         3.75 
TCGA-DW-7841 TCGA-DW-7842 TCGA-DW-7963 TCGA-DZ-6131 TCGA-DZ-6132 TCGA-DZ-6133 
       14.63         3.02        40.77        79.86        80.88        51.19 
TCGA-DZ-6134 TCGA-DZ-6135 TCGA-EV-5901 TCGA-EV-5902 TCGA-EV-5903 TCGA-F9-A4JJ 
       61.02        74.60        34.19        19.00        24.89        10.68 
TCGA-F9-A7VF TCGA-F9-A8NY TCGA-F9-A97G TCGA-G7-6789 TCGA-G7-6790 TCGA-G7-6792 
        2.40         1.18         0.43         4.01        51.78        90.90 
TCGA-G7-6793 TCGA-G7-6795 TCGA-G7-6796 TCGA-G7-6797 TCGA-G7-7501 TCGA-G7-A4TM 
       11.05        39.25        71.44        25.15        20.52         6.38 
TCGA-G7-A8LB TCGA-G7-A8LD TCGA-G7-A8LE TCGA-GL-6846 TCGA-GL-7773 TCGA-GL-7966 
       17.98        16.90        80.65       194.79        12.92         3.68 
TCGA-GL-A4EM TCGA-GL-A59R TCGA-GL-A59T TCGA-GL-A9DC TCGA-GL-A9DD TCGA-GL-A9DE 
        1.05        12.43        17.95        12.89        11.21        16.31 
TCGA-HE-A5NF TCGA-HE-A5NH TCGA-HE-A5NI TCGA-HE-A5NJ TCGA-HE-A5NL TCGA-IA-A40U 
       84.89        26.01        11.84        56.75        25.22        16.80 
TCGA-IA-A40X TCGA-IA-A40Y TCGA-IA-A83S TCGA-IA-A83T TCGA-IA-A83V TCGA-IA-A83W 
       19.99         2.04        85.78        88.24        96.69        67.17 
TCGA-IZ-8195 TCGA-IZ-8196 TCGA-IZ-A6M8 TCGA-IZ-A6M9 TCGA-J7-6720 TCGA-J7-8537 
       22.26        21.34        16.34        12.36        12.76        10.55 
TCGA-KV-A6GD TCGA-KV-A6GE TCGA-KV-A74V TCGA-MH-A55W TCGA-MH-A55Z TCGA-MH-A560 
       18.41        29.10        11.41        34.29        27.78        30.38 
TCGA-MH-A561 TCGA-MH-A562 TCGA-MH-A854 TCGA-MH-A855 TCGA-MH-A856 TCGA-MH-A857 
       27.65        20.25        17.62        12.13        31.13        29.26 
TCGA-O9-A75Z TCGA-P4-A5E6 TCGA-P4-A5E7 TCGA-P4-A5E8 TCGA-P4-A5EB TCGA-P4-A5ED 
       15.48        99.78        87.09        42.94        99.12        92.58 
TCGA-P4-AAVK TCGA-P4-AAVM TCGA-P4-AAVO TCGA-PJ-A5Z9 TCGA-Q2-A5QZ TCGA-SX-A71R 
       52.27        50.60        78.90        17.75        14.07        47.90 
TCGA-SX-A71S TCGA-SX-A71U TCGA-SX-A71V TCGA-SX-A7SL TCGA-SX-A7SM TCGA-SX-A7SN 
       49.45        44.61        28.80        27.06        11.93        19.00 
TCGA-SX-A7SO TCGA-SX-A7SP TCGA-SX-A7SQ TCGA-SX-A7SR TCGA-SX-A7SS TCGA-SX-A7SU 
       41.33        16.31        41.62        26.47        53.10        43.76 
TCGA-UZ-A9PJ TCGA-UZ-A9PK TCGA-UZ-A9PL TCGA-UZ-A9PM TCGA-UZ-A9PN TCGA-UZ-A9PO 
       26.20       117.40       103.63       125.29        37.35        62.83 
TCGA-UZ-A9PP TCGA-UZ-A9PQ TCGA-UZ-A9PR TCGA-UZ-A9PS TCGA-UZ-A9PU TCGA-UZ-A9PV 
       98.96        86.27        86.37        71.24        30.67        47.47 
TCGA-UZ-A9PX TCGA-UZ-A9PZ TCGA-UZ-A9Q0 TCGA-UZ-A9Q1 TCGA-V9-A7HT TCGA-WN-A9G9 
       65.13        21.60       110.73        51.35        31.73        26.01 
TCGA-WN-AB4C TCGA-Y8-A894 TCGA-Y8-A895 TCGA-Y8-A896 TCGA-Y8-A897 TCGA-Y8-A898 
       39.06        18.64        15.91        18.64        18.05        15.62 
TCGA-Y8-A8RY TCGA-Y8-A8RZ TCGA-Y8-A8S0 TCGA-Y8-A8S1 
       25.28         3.68         6.02        13.28 

  DEL PEAK  3(1Q43) MUTATED DEL PEAK  3(1Q43) WILD-TYPE 
                       0.10                        0.07 
  DEL PEAK  3(1Q43) MUTATED DEL PEAK  3(1Q43) WILD-TYPE 
                     151.96                      194.79 
  DEL PEAK  3(1Q43) MUTATED DEL PEAK  3(1Q43) WILD-TYPE 
                     49.580                      32.285 
[1] "0.1 - 152.0 (49.6)" "0.1 - 194.8 (32.3)"
[1] "hr=" "1.5"
D16V2, continuous
                             vv
clus                          STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK  3(1Q43) MUTATED        46       28        23       13
  DEL PEAK  3(1Q43) WILD-TYPE     409       76       168       91
D16V3, multiclass
           clus
vv          DEL PEAK  3(1Q43) MUTATED DEL PEAK  3(1Q43) WILD-TYPE
  STAGE I                          46                         409
  STAGE II                         28                          76
  STAGE III                        23                         168
  STAGE IV                         13                          91
[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                           T1  T2  T3  T4
  DEL PEAK  3(1Q43) MUTATED    48  29  33   4
  DEL PEAK  3(1Q43) WILD-TYPE 431  98 225  11
D16V4, multiclass
    clus
vv   DEL PEAK  3(1Q43) MUTATED DEL PEAK  3(1Q43) WILD-TYPE
  T1                        48                         431
  T2                        29                          98
  T3                        33                         225
  T4                         4                          11
[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                           N0  N1  N2
  DEL PEAK  3(1Q43) MUTATED    59   6   2
  DEL PEAK  3(1Q43) WILD-TYPE 263  38   5
D16V5, multiclass
    clus
vv   DEL PEAK  3(1Q43) MUTATED DEL PEAK  3(1Q43) WILD-TYPE
  N0                        59                         263
  N1                         6                          38
  N2                         2                           5
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D16V6, binary
                             cls
clus                            0   1
  DEL PEAK  3(1Q43) MUTATED    72   7
  DEL PEAK  3(1Q43) WILD-TYPE 473  82
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK  3(1Q43) MUTATED     72    7
  DEL PEAK  3(1Q43) WILD-TYPE  473   82
   clus
vv  DEL PEAK  3(1Q43) MUTATED DEL PEAK  3(1Q43) WILD-TYPE
  0                        72                         473
  1                         7                          82
[1] 2 2
[1] FALSE
D16V7, binary
                             cls
clus                            0   1
  DEL PEAK  3(1Q43) MUTATED    44  70
  DEL PEAK  3(1Q43) WILD-TYPE 248 519
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK  3(1Q43) MUTATED     44   70
  DEL PEAK  3(1Q43) WILD-TYPE  248  519
        clus
vv       DEL PEAK  3(1Q43) MUTATED DEL PEAK  3(1Q43) WILD-TYPE
  FEMALE                        44                         248
  MALE                          70                         519
[1] 2 2
[1] FALSE
D16V8, binary
                             cls
clus                            0   1
  DEL PEAK  3(1Q43) MUTATED    81   0
  DEL PEAK  3(1Q43) WILD-TYPE 319   3
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK  3(1Q43) MUTATED     81    0
  DEL PEAK  3(1Q43) WILD-TYPE  319    3
     clus
vv    DEL PEAK  3(1Q43) MUTATED DEL PEAK  3(1Q43) WILD-TYPE
  NO                         81                         319
  YES                         0                           3
[1] 2 2
[1] FALSE
D16V9, continuous
                             vv
clus                          KIDNEY CHROMOPHOBE
  DEL PEAK  3(1Q43) MUTATED                   51
  DEL PEAK  3(1Q43) WILD-TYPE                 15
                             vv
clus                          KIDNEY CLEAR CELL RENAL CARCINOMA
  DEL PEAK  3(1Q43) MUTATED                                  42
  DEL PEAK  3(1Q43) WILD-TYPE                               486
                             vv
clus                          KIDNEY PAPILLARY RENAL CELL CARCINOMA
  DEL PEAK  3(1Q43) MUTATED                                      21
  DEL PEAK  3(1Q43) WILD-TYPE                                   266
D16V10, multiclass
                                       clus
vv                                      DEL PEAK  3(1Q43) MUTATED
  KIDNEY CHROMOPHOBE                                           51
  KIDNEY CLEAR CELL RENAL CARCINOMA                            42
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                        21
                                       clus
vv                                      DEL PEAK  3(1Q43) WILD-TYPE
  KIDNEY CHROMOPHOBE                                             15
  KIDNEY CLEAR CELL RENAL CARCINOMA                             486
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                         266
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D16V11, continuous
D16V12, continuous
                             vv
clus                          AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK  3(1Q43) MUTATED                                  0     4
  DEL PEAK  3(1Q43) WILD-TYPE                                2    11
                             vv
clus                          BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  3(1Q43) MUTATED                          11    94
  DEL PEAK  3(1Q43) WILD-TYPE                       110   625
D16V13, multiclass
                                  clus
vv                                 DEL PEAK  3(1Q43) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                         0
  ASIAN                                                    4
  BLACK OR AFRICAN AMERICAN                               11
  WHITE                                                   94
                                  clus
vv                                 DEL PEAK  3(1Q43) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                           2
  ASIAN                                                     11
  BLACK OR AFRICAN AMERICAN                                110
  WHITE                                                    625
[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"
D16V14, binary
                             cls
clus                            0   1
  DEL PEAK  3(1Q43) MUTATED     8  72
  DEL PEAK  3(1Q43) WILD-TYPE  34 549
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK  3(1Q43) MUTATED      8   72
  DEL PEAK  3(1Q43) WILD-TYPE   34  549
                        clus
vv                       DEL PEAK  3(1Q43) MUTATED DEL PEAK  3(1Q43) WILD-TYPE
  HISPANIC OR LATINO                             8                          34
  NOT HISPANIC OR LATINO                        72                         549
[1] 2 2
[1] FALSE

Clustering(17) Variable = DEL PEAK  4(2Q37.3) MUTATION ANALYSIS
D17V1, survival
                               sevent
clus2                             0   1
  DEL PEAK  4(2Q37.3) MUTATED    86  23
  DEL PEAK  4(2Q37.3) WILD-TYPE 559 205
  DEL PEAK  4(2Q37.3) MUTATED DEL PEAK  4(2Q37.3) WILD-TYPE 
                          109                           764 
  DEL PEAK  4(2Q37.3) MUTATED DEL PEAK  4(2Q37.3) WILD-TYPE 
                           23                           205 
$`DEL PEAK  4(2Q37.3) MUTATED`
TCGA-KL-8323 TCGA-KL-8324 TCGA-KL-8325 TCGA-KL-8327 TCGA-KL-8328 TCGA-KL-8329 
       38.07       141.73        23.84       137.06       102.81        90.48 
TCGA-KL-8330 TCGA-KL-8331 TCGA-KL-8332 TCGA-KL-8333 TCGA-KL-8334 TCGA-KL-8335 
      108.62        98.96        84.89        98.33        96.95        92.55 
TCGA-KL-8336 TCGA-KL-8337 TCGA-KL-8338 TCGA-KL-8339 TCGA-KL-8340 TCGA-KL-8341 
       30.25        44.84        86.56        28.11        66.54        24.79 
TCGA-KL-8342 TCGA-KL-8345 TCGA-KM-8438 TCGA-KM-8440 TCGA-KM-8442 TCGA-KM-8443 
       73.91        54.74       151.96        44.91        47.24        49.97 
TCGA-KM-8476 TCGA-KN-8418 TCGA-KN-8424 TCGA-KN-8425 TCGA-KN-8427 TCGA-KN-8428 
      123.12       129.37        65.19       104.52         0.99        52.27 
TCGA-KN-8429 TCGA-KN-8431 TCGA-KN-8432 TCGA-KN-8434 TCGA-KN-8435 TCGA-KN-8436 
       87.12        19.33         2.50        59.08       115.00        42.35 
TCGA-KO-8403 TCGA-KO-8404 TCGA-KO-8405 TCGA-KO-8406 TCGA-KO-8407 TCGA-KO-8408 
      105.47        10.68       100.47       103.40        92.71        16.67 
TCGA-KO-8409 TCGA-KO-8411 TCGA-KO-8414 TCGA-KO-8415 TCGA-KO-8416 TCGA-KO-8417 
      104.55       130.13       105.60        96.62        90.48        92.55 
TCGA-A3-3311 TCGA-A3-3323 TCGA-A3-3336 TCGA-A3-3374 TCGA-AK-3425 TCGA-AK-3433 
       39.16        36.36        34.29        43.20       109.91       112.08 
TCGA-AK-3440 TCGA-AK-3447 TCGA-AK-3465 TCGA-AS-3777 TCGA-B0-4696 TCGA-B0-4699 
       94.19        40.01        12.13        40.70        28.47         3.62 
TCGA-B0-4703 TCGA-B0-4821 TCGA-B0-4841 TCGA-B0-5095 TCGA-B0-5099 TCGA-B0-5116 
        5.98        40.44         6.71         8.05        15.95        41.88 
TCGA-B0-5117 TCGA-B0-5120 TCGA-B2-3923 TCGA-B2-5641 TCGA-B8-4620 TCGA-B8-5549 
       52.87        38.43        32.61        21.57        25.55         6.38 
TCGA-B8-A54F TCGA-B8-A54G TCGA-BP-4166 TCGA-BP-4332 TCGA-BP-4334 TCGA-BP-4761 
       17.06         1.74         0.43        37.25        21.21         5.98 
TCGA-BP-4782 TCGA-BP-4991 TCGA-BP-4994 TCGA-BP-5008 TCGA-BP-5175 TCGA-BP-5177 
       11.64        46.45        43.00        35.21        30.64         9.63 
TCGA-BP-5199 TCGA-CJ-4643 TCGA-CJ-4868 TCGA-CJ-4870 TCGA-CJ-4881 TCGA-CJ-4902 
       44.55        58.95        21.24        49.25        66.21        49.97 
TCGA-CJ-6027 TCGA-CW-6090 TCGA-CZ-4854 TCGA-CZ-5453 TCGA-CZ-5468 TCGA-CZ-5985 
      118.85        83.90        46.16        79.53         1.94        65.65 
TCGA-CZ-5988 TCGA-CZ-5989 TCGA-4A-A93X TCGA-5P-A9KH TCGA-A4-7585 TCGA-A4-A5Y0 
       22.78        62.63        12.82        67.43        35.18         8.28 
TCGA-B3-4104 TCGA-B9-4117 TCGA-B9-A69E TCGA-BQ-5878 TCGA-MH-A855 TCGA-Q2-A5QZ 
       34.49         0.46        14.86        63.72        12.13        14.07 
TCGA-Y8-A8RZ 
        3.68 

$`DEL PEAK  4(2Q37.3) WILD-TYPE`
TCGA-KL-8326 TCGA-KL-8343 TCGA-KL-8344 TCGA-KL-8346 TCGA-KM-8439 TCGA-KM-8441 
      109.22        71.41        28.80        62.37        23.28        28.80 
TCGA-KM-8477 TCGA-KM-8639 TCGA-KN-8419 TCGA-KN-8421 TCGA-KN-8422 TCGA-KN-8423 
       51.06        31.33        23.47        87.91        25.48        25.91 
TCGA-KN-8426 TCGA-KN-8433 TCGA-KN-8437 TCGA-KO-8410 TCGA-KO-8413 TCGA-3Z-A93Z 
        3.55        11.21       100.87       103.10        99.88        12.66 
TCGA-6D-AA2E TCGA-A3-3306 TCGA-A3-3307 TCGA-A3-3308 TCGA-A3-3313 TCGA-A3-3316 
       11.90        36.82        47.21         0.53        24.16        49.08 
TCGA-A3-3317 TCGA-A3-3319 TCGA-A3-3320 TCGA-A3-3322 TCGA-A3-3324 TCGA-A3-3325 
       49.02        37.15        49.58        48.59        38.99        38.47 
TCGA-A3-3326 TCGA-A3-3331 TCGA-A3-3335 TCGA-A3-3343 TCGA-A3-3346 TCGA-A3-3347 
       37.38        48.82        62.01        31.07         4.50        52.93 
TCGA-A3-3349 TCGA-A3-3351 TCGA-A3-3352 TCGA-A3-3357 TCGA-A3-3358 TCGA-A3-3359 
       45.53        29.92        18.44        88.37        42.97        82.32 
TCGA-A3-3362 TCGA-A3-3363 TCGA-A3-3365 TCGA-A3-3367 TCGA-A3-3370 TCGA-A3-3372 
       51.25        10.49        28.70        74.63        74.76        24.16 
TCGA-A3-3373 TCGA-A3-3376 TCGA-A3-3378 TCGA-A3-3380 TCGA-A3-3382 TCGA-A3-3383 
       53.29        55.76        20.71        18.64        18.87        28.31 
TCGA-A3-3385 TCGA-A3-3387 TCGA-A3-A6NI TCGA-A3-A6NJ TCGA-A3-A6NL TCGA-A3-A6NN 
       65.52        20.28        33.47        15.39        22.65         0.10 
TCGA-A3-A8CQ TCGA-A3-A8OV TCGA-A3-A8OW TCGA-AK-3426 TCGA-AK-3427 TCGA-AK-3428 
        0.10        11.18        10.62        29.10       117.80        73.08 
TCGA-AK-3429 TCGA-AK-3430 TCGA-AK-3431 TCGA-AK-3434 TCGA-AK-3436 TCGA-AK-3443 
      109.41        15.78        73.68        68.61       109.51        46.78 
TCGA-AK-3444 TCGA-AK-3445 TCGA-AK-3450 TCGA-AK-3451 TCGA-AK-3453 TCGA-AK-3454 
       48.36        78.64        49.28        94.29        83.21        28.73 
TCGA-AK-3455 TCGA-AK-3456 TCGA-AK-3458 TCGA-AK-3460 TCGA-AK-3461 TCGA-AS-3778 
       22.45        37.58        38.40        82.45        72.89         1.41 
TCGA-B0-4688 TCGA-B0-4690 TCGA-B0-4691 TCGA-B0-4693 TCGA-B0-4694 TCGA-B0-4697 
        3.32         1.41         4.57         2.53         3.48        19.00 
TCGA-B0-4698 TCGA-B0-4700 TCGA-B0-4701 TCGA-B0-4706 TCGA-B0-4707 TCGA-B0-4710 
        1.38        65.10         7.82         2.14        19.73        57.70 
TCGA-B0-4712 TCGA-B0-4713 TCGA-B0-4714 TCGA-B0-4718 TCGA-B0-4810 TCGA-B0-4811 
       43.96         6.64         3.25        58.45        15.72        46.59 
TCGA-B0-4813 TCGA-B0-4814 TCGA-B0-4815 TCGA-B0-4816 TCGA-B0-4817 TCGA-B0-4818 
        0.59         5.52        52.21        45.07        33.50        16.77 
TCGA-B0-4819 TCGA-B0-4822 TCGA-B0-4823 TCGA-B0-4824 TCGA-B0-4827 TCGA-B0-4828 
        6.02        36.53        14.93        54.48        29.10        10.09 
TCGA-B0-4833 TCGA-B0-4834 TCGA-B0-4836 TCGA-B0-4837 TCGA-B0-4838 TCGA-B0-4839 
       78.44        68.71        40.70        45.30        27.42        53.88 
TCGA-B0-4842 TCGA-B0-4843 TCGA-B0-4844 TCGA-B0-4845 TCGA-B0-4846 TCGA-B0-4847 
       56.68        10.52        10.29        65.29        39.45        26.07 
TCGA-B0-4848 TCGA-B0-4849 TCGA-B0-4852 TCGA-B0-4945 TCGA-B0-5075 TCGA-B0-5077 
       29.03         2.27        36.85        70.52        20.94        43.30 
TCGA-B0-5080 TCGA-B0-5081 TCGA-B0-5084 TCGA-B0-5085 TCGA-B0-5088 TCGA-B0-5092 
       11.24        11.90         7.30        25.32        18.51        15.09 
TCGA-B0-5094 TCGA-B0-5096 TCGA-B0-5097 TCGA-B0-5098 TCGA-B0-5100 TCGA-B0-5102 
       10.95         2.24        21.86        52.08        62.89        90.87 
TCGA-B0-5104 TCGA-B0-5106 TCGA-B0-5107 TCGA-B0-5108 TCGA-B0-5109 TCGA-B0-5110 
       90.48        52.54        30.48        58.59        19.30        66.05 
TCGA-B0-5113 TCGA-B0-5115 TCGA-B0-5119 TCGA-B0-5121 TCGA-B0-5399 TCGA-B0-5400 
       38.63        52.73        51.02        48.82        46.39        56.98 
TCGA-B0-5402 TCGA-B0-5690 TCGA-B0-5691 TCGA-B0-5692 TCGA-B0-5693 TCGA-B0-5694 
       42.41       111.52       112.80       129.67       133.94        15.78 
TCGA-B0-5695 TCGA-B0-5696 TCGA-B0-5697 TCGA-B0-5698 TCGA-B0-5699 TCGA-B0-5701 
       70.68        85.78        86.47       119.38       126.28        80.91 
TCGA-B0-5702 TCGA-B0-5703 TCGA-B0-5705 TCGA-B0-5706 TCGA-B0-5709 TCGA-B0-5710 
       71.41        73.84       149.16       105.37       130.65        79.89 
TCGA-B0-5711 TCGA-B0-5712 TCGA-B0-5713 TCGA-B0-5812 TCGA-B2-3924 TCGA-B2-4098 
      131.15        89.49        91.46       126.05        35.90         1.68 
TCGA-B2-4099 TCGA-B2-4101 TCGA-B2-4102 TCGA-B2-5633 TCGA-B2-5635 TCGA-B2-5639 
       31.96        21.30        31.30        31.66        24.82        32.98 
TCGA-B2-A4SR TCGA-B4-5377 TCGA-B4-5378 TCGA-B4-5832 TCGA-B4-5834 TCGA-B4-5835 
       16.67        12.00         5.75         5.10         0.85         0.53 
TCGA-B4-5836 TCGA-B4-5838 TCGA-B4-5843 TCGA-B4-5844 TCGA-B8-4143 TCGA-B8-4146 
        4.64         5.46         0.36         0.23        23.31        16.80 
TCGA-B8-4148 TCGA-B8-4151 TCGA-B8-4153 TCGA-B8-4154 TCGA-B8-4619 TCGA-B8-4621 
       27.16        42.71        25.05        45.37        17.19        25.91 
TCGA-B8-4622 TCGA-B8-5158 TCGA-B8-5159 TCGA-B8-5162 TCGA-B8-5163 TCGA-B8-5164 
       50.14        20.91        23.74         1.18        27.02         0.85 
TCGA-B8-5165 TCGA-B8-5545 TCGA-B8-5546 TCGA-B8-5550 TCGA-B8-5551 TCGA-B8-5552 
       24.23        50.14        16.60        48.53         0.53        34.39 
TCGA-B8-5553 TCGA-B8-A54D TCGA-B8-A54E TCGA-B8-A54H TCGA-B8-A54I TCGA-B8-A54J 
       14.30        27.29        29.88         8.42         4.93        17.36 
TCGA-B8-A54K TCGA-B8-A7U6 TCGA-B8-A8YJ TCGA-BP-4158 TCGA-BP-4159 TCGA-BP-4160 
       15.42        16.27        14.17       111.02        85.51        94.72 
TCGA-BP-4161 TCGA-BP-4162 TCGA-BP-4163 TCGA-BP-4164 TCGA-BP-4165 TCGA-BP-4167 
       90.28       101.06        93.34        32.61        99.85        89.36 
TCGA-BP-4169 TCGA-BP-4170 TCGA-BP-4173 TCGA-BP-4174 TCGA-BP-4176 TCGA-BP-4177 
       23.05        77.03        62.24        61.78        64.27        54.90 
TCGA-BP-4325 TCGA-BP-4326 TCGA-BP-4327 TCGA-BP-4329 TCGA-BP-4330 TCGA-BP-4331 
       97.45        53.42         3.58        27.78        62.07        80.68 
TCGA-BP-4335 TCGA-BP-4337 TCGA-BP-4338 TCGA-BP-4340 TCGA-BP-4341 TCGA-BP-4342 
       15.16         0.07        93.99        18.48        52.24        74.17 
TCGA-BP-4343 TCGA-BP-4344 TCGA-BP-4346 TCGA-BP-4347 TCGA-BP-4349 TCGA-BP-4351 
       62.86        54.77        49.08        44.94        12.23        31.89 
TCGA-BP-4352 TCGA-BP-4353 TCGA-BP-4354 TCGA-BP-4355 TCGA-BP-4756 TCGA-BP-4758 
       11.31        12.33        33.99        31.33        12.30        72.59 
TCGA-BP-4759 TCGA-BP-4760 TCGA-BP-4762 TCGA-BP-4763 TCGA-BP-4765 TCGA-BP-4766 
       77.98        77.62        44.15        41.75        71.80        48.07 
TCGA-BP-4768 TCGA-BP-4769 TCGA-BP-4770 TCGA-BP-4771 TCGA-BP-4774 TCGA-BP-4775 
       13.15        61.68        10.82         5.33        61.97        60.59 
TCGA-BP-4776 TCGA-BP-4777 TCGA-BP-4781 TCGA-BP-4784 TCGA-BP-4787 TCGA-BP-4789 
       13.51        56.91        68.38        60.95        15.78        48.95 
TCGA-BP-4790 TCGA-BP-4795 TCGA-BP-4797 TCGA-BP-4798 TCGA-BP-4799 TCGA-BP-4801 
       36.53        20.38        36.39        10.98        37.25        36.95 
TCGA-BP-4803 TCGA-BP-4804 TCGA-BP-4807 TCGA-BP-4959 TCGA-BP-4960 TCGA-BP-4961 
        6.71        47.97         6.94        87.45        71.41        63.62 
TCGA-BP-4962 TCGA-BP-4963 TCGA-BP-4964 TCGA-BP-4965 TCGA-BP-4967 TCGA-BP-4968 
       58.68        60.30        61.22        61.51         6.74        57.40 
TCGA-BP-4969 TCGA-BP-4970 TCGA-BP-4971 TCGA-BP-4972 TCGA-BP-4973 TCGA-BP-4974 
       58.98        14.24        48.89        49.38        45.50         6.90 
TCGA-BP-4975 TCGA-BP-4976 TCGA-BP-4977 TCGA-BP-4981 TCGA-BP-4982 TCGA-BP-4983 
       47.11        53.65        14.93        36.07        33.34        46.45 
TCGA-BP-4985 TCGA-BP-4986 TCGA-BP-4987 TCGA-BP-4988 TCGA-BP-4989 TCGA-BP-4992 
       31.30        25.81        36.95        27.22         3.88        16.47 
TCGA-BP-4993 TCGA-BP-4995 TCGA-BP-4998 TCGA-BP-4999 TCGA-BP-5000 TCGA-BP-5001 
        5.82        45.07        30.64        41.62        18.51        38.70 
TCGA-BP-5004 TCGA-BP-5006 TCGA-BP-5007 TCGA-BP-5009 TCGA-BP-5010 TCGA-BP-5168 
       37.02        27.62        37.48        36.23        28.87        48.10 
TCGA-BP-5169 TCGA-BP-5170 TCGA-BP-5173 TCGA-BP-5174 TCGA-BP-5176 TCGA-BP-5178 
        6.35        79.30         1.74        74.20        52.27        62.86 
TCGA-BP-5180 TCGA-BP-5181 TCGA-BP-5182 TCGA-BP-5183 TCGA-BP-5184 TCGA-BP-5185 
       74.40        49.15        38.30        42.44        37.25        37.22 
TCGA-BP-5186 TCGA-BP-5187 TCGA-BP-5189 TCGA-BP-5190 TCGA-BP-5191 TCGA-BP-5192 
       22.78        13.35        27.02        33.24        31.79        23.47 
TCGA-BP-5194 TCGA-BP-5195 TCGA-BP-5196 TCGA-BP-5198 TCGA-BP-5200 TCGA-BP-5201 
       13.41        24.62        33.47        19.82        34.95        31.27 
TCGA-BP-5202 TCGA-CJ-4634 TCGA-CJ-4635 TCGA-CJ-4636 TCGA-CJ-4637 TCGA-CJ-4638 
        0.95       115.00        46.55        63.25        73.22        14.17 
TCGA-CJ-4639 TCGA-CJ-4640 TCGA-CJ-4641 TCGA-CJ-4642 TCGA-CJ-4644 TCGA-CJ-4869 
      106.16       114.41        54.61       105.37        11.05        83.97 
TCGA-CJ-4871 TCGA-CJ-4872 TCGA-CJ-4873 TCGA-CJ-4874 TCGA-CJ-4875 TCGA-CJ-4876 
       79.66        10.72        74.27        75.06       116.84        64.27 
TCGA-CJ-4878 TCGA-CJ-4882 TCGA-CJ-4884 TCGA-CJ-4885 TCGA-CJ-4886 TCGA-CJ-4887 
       71.87        61.91        57.83       113.46        64.18        30.64 
TCGA-CJ-4888 TCGA-CJ-4889 TCGA-CJ-4890 TCGA-CJ-4891 TCGA-CJ-4892 TCGA-CJ-4893 
       51.52        63.98       115.69        26.93        50.01        24.66 
TCGA-CJ-4894 TCGA-CJ-4895 TCGA-CJ-4897 TCGA-CJ-4899 TCGA-CJ-4900 TCGA-CJ-4901 
       27.65        39.45       109.84        50.24        56.35        47.67 
TCGA-CJ-4903 TCGA-CJ-4904 TCGA-CJ-4905 TCGA-CJ-4907 TCGA-CJ-4908 TCGA-CJ-4912 
       51.25       108.56        49.18        49.28        50.33        54.48 
TCGA-CJ-4913 TCGA-CJ-4916 TCGA-CJ-4918 TCGA-CJ-4920 TCGA-CJ-4923 TCGA-CJ-5671 
       38.56        45.14         3.06         4.57        18.81       131.08 
TCGA-CJ-5672 TCGA-CJ-5675 TCGA-CJ-5676 TCGA-CJ-5677 TCGA-CJ-5678 TCGA-CJ-5679 
       72.00       129.40       133.71        25.71        18.87        22.32 
TCGA-CJ-5680 TCGA-CJ-5681 TCGA-CJ-5682 TCGA-CJ-5683 TCGA-CJ-5684 TCGA-CJ-5686 
       25.25        18.15       122.83        62.10        73.35        67.00 
TCGA-CJ-5689 TCGA-CJ-6028 TCGA-CJ-6030 TCGA-CJ-6031 TCGA-CJ-6032 TCGA-CJ-6033 
       53.26        53.42        75.58        62.66       119.64         7.36 
TCGA-CW-5580 TCGA-CW-5581 TCGA-CW-5583 TCGA-CW-5584 TCGA-CW-5585 TCGA-CW-5587 
       64.57        92.02        81.83         5.39        85.78        73.18 
TCGA-CW-5588 TCGA-CW-5589 TCGA-CW-5591 TCGA-CW-6087 TCGA-CW-6088 TCGA-CW-6093 
       66.31        78.18        74.66         1.35       105.93       103.43 
TCGA-CW-6097 TCGA-CZ-4853 TCGA-CZ-4856 TCGA-CZ-4857 TCGA-CZ-4858 TCGA-CZ-4859 
       18.77        25.45         0.59        47.08        69.21        58.75 
TCGA-CZ-4860 TCGA-CZ-4861 TCGA-CZ-4862 TCGA-CZ-4863 TCGA-CZ-4864 TCGA-CZ-4865 
        6.77        14.66       107.54        63.39        93.04         5.46 
TCGA-CZ-4866 TCGA-CZ-5451 TCGA-CZ-5452 TCGA-CZ-5454 TCGA-CZ-5455 TCGA-CZ-5456 
       61.41        63.42        58.82        23.74        18.44        79.63 
TCGA-CZ-5457 TCGA-CZ-5458 TCGA-CZ-5459 TCGA-CZ-5460 TCGA-CZ-5461 TCGA-CZ-5462 
       90.54        91.69        55.33        94.45        10.85        10.22 
TCGA-CZ-5463 TCGA-CZ-5464 TCGA-CZ-5465 TCGA-CZ-5466 TCGA-CZ-5467 TCGA-CZ-5469 
       21.76        69.96        84.30        22.52         2.40        31.10 
TCGA-CZ-5470 TCGA-CZ-5982 TCGA-CZ-5984 TCGA-CZ-5986 TCGA-CZ-5987 TCGA-DV-5565 
       12.69        80.19        67.96        12.26        14.63        13.28 
TCGA-DV-5566 TCGA-DV-5567 TCGA-DV-5568 TCGA-DV-5569 TCGA-DV-5573 TCGA-DV-5574 
       45.96        65.88        12.16        11.67        37.15        66.28 
TCGA-DV-5575 TCGA-DV-5576 TCGA-DV-A4VX TCGA-DV-A4VZ TCGA-DV-A4W0 TCGA-EU-5904 
       56.84        23.90        53.46        12.00        81.21        18.12 
TCGA-EU-5905 TCGA-EU-5906 TCGA-EU-5907 TCGA-G6-A5PC TCGA-G6-A8L6 TCGA-G6-A8L7 
        3.91         6.77         4.18         7.96        10.29        70.13 
TCGA-G6-A8L8 TCGA-GK-A6C7 TCGA-MM-A563 TCGA-MM-A564 TCGA-MM-A84U TCGA-MW-A4EC 
       35.87         2.01        19.43        19.96        23.01        16.37 
TCGA-T7-A92I TCGA-2K-A9WE TCGA-2Z-A9J1 TCGA-2Z-A9J2 TCGA-2Z-A9J3 TCGA-2Z-A9J5 
       11.70         7.04        75.55        59.01        58.22       100.27 
TCGA-2Z-A9J6 TCGA-2Z-A9J7 TCGA-2Z-A9J8 TCGA-2Z-A9J9 TCGA-2Z-A9JD TCGA-2Z-A9JE 
       56.91         4.57        91.73        75.42        34.85        56.81 
TCGA-2Z-A9JG TCGA-2Z-A9JI TCGA-2Z-A9JJ TCGA-2Z-A9JK TCGA-2Z-A9JL TCGA-2Z-A9JM 
       54.64        51.52        39.88        38.99        33.07        30.71 
TCGA-2Z-A9JN TCGA-2Z-A9JO TCGA-2Z-A9JP TCGA-2Z-A9JQ TCGA-2Z-A9JR TCGA-2Z-A9JS 
       24.33        31.20        29.36        25.58         5.29        16.18 
TCGA-2Z-A9JT TCGA-4A-A93W TCGA-4A-A93Y TCGA-5P-A9JU TCGA-5P-A9JV TCGA-5P-A9JW 
       22.49         0.13        11.57        12.26        67.17       106.55 
TCGA-5P-A9JY TCGA-5P-A9JZ TCGA-5P-A9K0 TCGA-5P-A9K2 TCGA-5P-A9K3 TCGA-5P-A9K4 
       49.58        90.21        22.26        78.64        15.48        71.80 
TCGA-5P-A9K6 TCGA-5P-A9K8 TCGA-5P-A9K9 TCGA-5P-A9KA TCGA-5P-A9KC TCGA-5P-A9KE 
       62.93        43.04        19.36        12.99        12.39        27.09 
TCGA-A4-7286 TCGA-A4-7287 TCGA-A4-7288 TCGA-A4-7583 TCGA-A4-7584 TCGA-A4-7732 
       18.21        19.63        61.05         0.10        21.37        19.13 
TCGA-A4-7734 TCGA-A4-7828 TCGA-A4-7915 TCGA-A4-7996 TCGA-A4-7997 TCGA-A4-8098 
        0.89         7.82         0.23        16.64        30.48        29.46 
TCGA-A4-8310 TCGA-A4-8311 TCGA-A4-8312 TCGA-A4-8515 TCGA-A4-8516 TCGA-A4-8517 
       25.64        23.97        23.28        23.31         0.76        19.63 
TCGA-A4-8518 TCGA-A4-8630 TCGA-A4-A48D TCGA-A4-A4ZT TCGA-A4-A57E TCGA-A4-A5DU 
       19.73        14.33        12.46        16.96         8.48        16.31 
TCGA-A4-A5XZ TCGA-A4-A5Y1 TCGA-A4-A6HP TCGA-AL-3466 TCGA-AL-3467 TCGA-AL-3468 
       15.75        12.99        12.46         9.63        70.19        76.64 
TCGA-AL-3471 TCGA-AL-3472 TCGA-AL-3473 TCGA-AL-7173 TCGA-AL-A5DJ TCGA-AT-A5NU 
       49.32        66.71        62.66        67.73        49.25         2.20 
TCGA-B1-5398 TCGA-B1-7332 TCGA-B1-A47M TCGA-B1-A47N TCGA-B1-A47O TCGA-B1-A654 
       19.56        37.51        21.67        24.56        16.87        20.25 
TCGA-B1-A655 TCGA-B1-A656 TCGA-B1-A657 TCGA-B3-3925 TCGA-B3-3926 TCGA-B3-4103 
       16.77        20.32        21.07        33.83        10.09        30.58 
TCGA-B3-8121 TCGA-B3-A6W5 TCGA-B9-4113 TCGA-B9-4114 TCGA-B9-4115 TCGA-B9-4116 
       12.46        10.16        50.50        28.18        26.40        20.61 
TCGA-B9-4617 TCGA-B9-5155 TCGA-B9-5156 TCGA-B9-7268 TCGA-B9-A44B TCGA-B9-A5W7 
        1.15        15.12        43.99        22.06         2.10        19.23 
TCGA-B9-A5W8 TCGA-B9-A5W9 TCGA-B9-A8YH TCGA-B9-A8YI TCGA-BQ-5875 TCGA-BQ-5876 
       17.23         0.16        17.49        12.30        86.76        19.27 
TCGA-BQ-5877 TCGA-BQ-5879 TCGA-BQ-5880 TCGA-BQ-5881 TCGA-BQ-5882 TCGA-BQ-5883 
        8.88        22.92        43.20        47.80        21.63        40.83 
TCGA-BQ-5884 TCGA-BQ-5885 TCGA-BQ-5886 TCGA-BQ-5887 TCGA-BQ-5888 TCGA-BQ-5889 
       26.04        30.28        26.04        25.35        13.25        10.82 
TCGA-BQ-5890 TCGA-BQ-5891 TCGA-BQ-5892 TCGA-BQ-5893 TCGA-BQ-5894 TCGA-BQ-7044 
        7.66         0.95        11.97         7.92         2.76       123.62 
TCGA-BQ-7045 TCGA-BQ-7046 TCGA-BQ-7048 TCGA-BQ-7049 TCGA-BQ-7050 TCGA-BQ-7051 
       48.26        96.92        93.34        44.84        61.28        50.40 
TCGA-BQ-7053 TCGA-BQ-7055 TCGA-BQ-7056 TCGA-BQ-7058 TCGA-BQ-7059 TCGA-BQ-7060 
       49.84        26.27        20.12        11.28         7.63         7.04 
TCGA-BQ-7061 TCGA-BQ-7062 TCGA-DW-5560 TCGA-DW-5561 TCGA-DW-7834 TCGA-DW-7836 
        7.17         3.81        48.85        13.61       129.86        35.93 
TCGA-DW-7837 TCGA-DW-7838 TCGA-DW-7839 TCGA-DW-7840 TCGA-DW-7841 TCGA-DW-7842 
       37.55        24.46        13.78         3.75        14.63         3.02 
TCGA-DW-7963 TCGA-DZ-6131 TCGA-DZ-6132 TCGA-DZ-6133 TCGA-DZ-6134 TCGA-DZ-6135 
       40.77        79.86        80.88        51.19        61.02        74.60 
TCGA-EV-5901 TCGA-EV-5902 TCGA-EV-5903 TCGA-F9-A4JJ TCGA-F9-A7Q0 TCGA-F9-A7VF 
       34.19        19.00        24.89        10.68        13.08         2.40 
TCGA-F9-A8NY TCGA-F9-A97G TCGA-G7-6789 TCGA-G7-6790 TCGA-G7-6792 TCGA-G7-6793 
        1.18         0.43         4.01        51.78        90.90        11.05 
TCGA-G7-6795 TCGA-G7-6796 TCGA-G7-6797 TCGA-G7-7501 TCGA-G7-7502 TCGA-G7-A4TM 
       39.25        71.44        25.15        20.52        25.84         6.38 
TCGA-G7-A8LB TCGA-G7-A8LC TCGA-G7-A8LD TCGA-G7-A8LE TCGA-GL-6846 TCGA-GL-7773 
       17.98        23.08        16.90        80.65       194.79        12.92 
TCGA-GL-7966 TCGA-GL-8500 TCGA-GL-A4EM TCGA-GL-A59R TCGA-GL-A59T TCGA-GL-A9DC 
        3.68        27.65         1.05        12.43        17.95        12.89 
TCGA-GL-A9DD TCGA-GL-A9DE TCGA-HE-A5NF TCGA-HE-A5NH TCGA-HE-A5NI TCGA-HE-A5NJ 
       11.21        16.31        84.89        26.01        11.84        56.75 
TCGA-HE-A5NK TCGA-HE-A5NL TCGA-IA-A40U TCGA-IA-A40X TCGA-IA-A40Y TCGA-IA-A83S 
       73.25        25.22        16.80        19.99         2.04        85.78 
TCGA-IA-A83T TCGA-IA-A83V TCGA-IA-A83W TCGA-IZ-8195 TCGA-IZ-8196 TCGA-IZ-A6M8 
       88.24        96.69        67.17        22.26        21.34        16.34 
TCGA-IZ-A6M9 TCGA-J7-6720 TCGA-J7-8537 TCGA-KV-A6GD TCGA-KV-A6GE TCGA-KV-A74V 
       12.36        12.76        10.55        18.41        29.10        11.41 
TCGA-MH-A55W TCGA-MH-A55Z TCGA-MH-A560 TCGA-MH-A561 TCGA-MH-A562 TCGA-MH-A854 
       34.29        27.78        30.38        27.65        20.25        17.62 
TCGA-MH-A856 TCGA-MH-A857 TCGA-O9-A75Z TCGA-P4-A5E6 TCGA-P4-A5E7 TCGA-P4-A5E8 
       31.13        29.26        15.48        99.78        87.09        42.94 
TCGA-P4-A5EA TCGA-P4-A5EB TCGA-P4-A5ED TCGA-P4-AAVK TCGA-P4-AAVL TCGA-P4-AAVM 
        6.61        99.12        92.58        52.27        16.01        50.60 
TCGA-P4-AAVO TCGA-PJ-A5Z8 TCGA-PJ-A5Z9 TCGA-SX-A71R TCGA-SX-A71S TCGA-SX-A71U 
       78.90        19.73        17.75        47.90        49.45        44.61 
TCGA-SX-A71V TCGA-SX-A7SL TCGA-SX-A7SM TCGA-SX-A7SN TCGA-SX-A7SO TCGA-SX-A7SP 
       28.80        27.06        11.93        19.00        41.33        16.31 
TCGA-SX-A7SQ TCGA-SX-A7SR TCGA-SX-A7SS TCGA-SX-A7SU TCGA-UN-AAZ9 TCGA-UZ-A9PJ 
       41.62        26.47        53.10        43.76        18.02        26.20 
TCGA-UZ-A9PK TCGA-UZ-A9PL TCGA-UZ-A9PM TCGA-UZ-A9PN TCGA-UZ-A9PO TCGA-UZ-A9PP 
      117.40       103.63       125.29        37.35        62.83        98.96 
TCGA-UZ-A9PQ TCGA-UZ-A9PR TCGA-UZ-A9PS TCGA-UZ-A9PU TCGA-UZ-A9PV TCGA-UZ-A9PX 
       86.27        86.37        71.24        30.67        47.47        65.13 
TCGA-UZ-A9PZ TCGA-UZ-A9Q0 TCGA-UZ-A9Q1 TCGA-V9-A7HT TCGA-WN-A9G9 TCGA-WN-AB4C 
       21.60       110.73        51.35        31.73        26.01        39.06 
TCGA-Y8-A894 TCGA-Y8-A895 TCGA-Y8-A896 TCGA-Y8-A897 TCGA-Y8-A898 TCGA-Y8-A8RY 
       18.64        15.91        18.64        18.05        15.62        25.28 
TCGA-Y8-A8S0 TCGA-Y8-A8S1 
        6.02        13.28 

  DEL PEAK  4(2Q37.3) MUTATED DEL PEAK  4(2Q37.3) WILD-TYPE 
                         0.43                          0.07 
  DEL PEAK  4(2Q37.3) MUTATED DEL PEAK  4(2Q37.3) WILD-TYPE 
                       151.96                        194.79 
  DEL PEAK  4(2Q37.3) MUTATED DEL PEAK  4(2Q37.3) WILD-TYPE 
                        44.55                         31.84 
[1] "0.4 - 152.0 (44.5)" "0.1 - 194.8 (31.8)"
[1] "hr=" "1.6"
D17V2, continuous
                               vv
clus                            STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK  4(2Q37.3) MUTATED        38       32        28       11
  DEL PEAK  4(2Q37.3) WILD-TYPE     417       72       163       93
D17V3, multiclass
           clus
vv          DEL PEAK  4(2Q37.3) MUTATED DEL PEAK  4(2Q37.3) WILD-TYPE
  STAGE I                            38                           417
  STAGE II                           32                            72
  STAGE III                          28                           163
  STAGE IV                           11                            93
[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                             T1  T2  T3  T4
  DEL PEAK  4(2Q37.3) MUTATED    39  34  35   3
  DEL PEAK  4(2Q37.3) WILD-TYPE 440  93 223  12
D17V4, multiclass
    clus
vv   DEL PEAK  4(2Q37.3) MUTATED DEL PEAK  4(2Q37.3) WILD-TYPE
  T1                          39                           440
  T2                          34                            93
  T3                          35                           223
  T4                           3                            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"
                               vv
clus                             N0  N1  N2
  DEL PEAK  4(2Q37.3) MUTATED    55   6   2
  DEL PEAK  4(2Q37.3) WILD-TYPE 267  38   5
D17V5, multiclass
    clus
vv   DEL PEAK  4(2Q37.3) MUTATED DEL PEAK  4(2Q37.3) WILD-TYPE
  N0                          55                           267
  N1                           6                            38
  N2                           2                             5
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D17V6, binary
                               cls
clus                              0   1
  DEL PEAK  4(2Q37.3) MUTATED    75   6
  DEL PEAK  4(2Q37.3) WILD-TYPE 470  83
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  4(2Q37.3) MUTATED     75    6
  DEL PEAK  4(2Q37.3) WILD-TYPE  470   83
   clus
vv  DEL PEAK  4(2Q37.3) MUTATED DEL PEAK  4(2Q37.3) WILD-TYPE
  0                          75                           470
  1                           6                            83
[1] 2 2
[1] FALSE
D17V7, binary
                               cls
clus                              0   1
  DEL PEAK  4(2Q37.3) MUTATED    40  71
  DEL PEAK  4(2Q37.3) WILD-TYPE 252 518
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  4(2Q37.3) MUTATED     40   71
  DEL PEAK  4(2Q37.3) WILD-TYPE  252  518
        clus
vv       DEL PEAK  4(2Q37.3) MUTATED DEL PEAK  4(2Q37.3) WILD-TYPE
  FEMALE                          40                           252
  MALE                            71                           518
[1] 2 2
[1] FALSE
D17V8, binary
                               cls
clus                              0   1
  DEL PEAK  4(2Q37.3) MUTATED    69   0
  DEL PEAK  4(2Q37.3) WILD-TYPE 331   3
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  4(2Q37.3) MUTATED     69    0
  DEL PEAK  4(2Q37.3) WILD-TYPE  331    3
     clus
vv    DEL PEAK  4(2Q37.3) MUTATED DEL PEAK  4(2Q37.3) WILD-TYPE
  NO                           69                           331
  YES                           0                             3
[1] 2 2
[1] FALSE
D17V9, continuous
                               vv
clus                            KIDNEY CHROMOPHOBE
  DEL PEAK  4(2Q37.3) MUTATED                   49
  DEL PEAK  4(2Q37.3) WILD-TYPE                 17
                               vv
clus                            KIDNEY CLEAR CELL RENAL CARCINOMA
  DEL PEAK  4(2Q37.3) MUTATED                                  50
  DEL PEAK  4(2Q37.3) WILD-TYPE                               478
                               vv
clus                            KIDNEY PAPILLARY RENAL CELL CARCINOMA
  DEL PEAK  4(2Q37.3) MUTATED                                      12
  DEL PEAK  4(2Q37.3) WILD-TYPE                                   275
D17V10, multiclass
                                       clus
vv                                      DEL PEAK  4(2Q37.3) MUTATED
  KIDNEY CHROMOPHOBE                                             49
  KIDNEY CLEAR CELL RENAL CARCINOMA                              50
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                          12
                                       clus
vv                                      DEL PEAK  4(2Q37.3) WILD-TYPE
  KIDNEY CHROMOPHOBE                                               17
  KIDNEY CLEAR CELL RENAL CARCINOMA                               478
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                           275
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D17V11, continuous
D17V12, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK  4(2Q37.3) MUTATED                                  0     3
  DEL PEAK  4(2Q37.3) WILD-TYPE                                2    12
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  4(2Q37.3) MUTATED                          11    93
  DEL PEAK  4(2Q37.3) WILD-TYPE                       110   626
D17V13, multiclass
                                  clus
vv                                 DEL PEAK  4(2Q37.3) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                      3
  BLACK OR AFRICAN AMERICAN                                 11
  WHITE                                                     93
                                  clus
vv                                 DEL PEAK  4(2Q37.3) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             2
  ASIAN                                                       12
  BLACK OR AFRICAN AMERICAN                                  110
  WHITE                                                      626
[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"
D17V14, binary
                               cls
clus                              0   1
  DEL PEAK  4(2Q37.3) MUTATED     4  65
  DEL PEAK  4(2Q37.3) WILD-TYPE  38 556
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  4(2Q37.3) MUTATED      4   65
  DEL PEAK  4(2Q37.3) WILD-TYPE   38  556
                        clus
vv                       DEL PEAK  4(2Q37.3) MUTATED
  HISPANIC OR LATINO                               4
  NOT HISPANIC OR LATINO                          65
                        clus
vv                       DEL PEAK  4(2Q37.3) WILD-TYPE
  HISPANIC OR LATINO                                38
  NOT HISPANIC OR LATINO                           556
[1] 2 2
[1] FALSE

Clustering(18) Variable = DEL PEAK  5(3P26.3) MUTATION ANALYSIS
D18V1, survival
                               sevent
clus2                             0   1
  DEL PEAK  5(3P26.3) MUTATED   329 159
  DEL PEAK  5(3P26.3) WILD-TYPE 316  69
  DEL PEAK  5(3P26.3) MUTATED DEL PEAK  5(3P26.3) WILD-TYPE 
                          488                           385 
  DEL PEAK  5(3P26.3) MUTATED DEL PEAK  5(3P26.3) WILD-TYPE 
                          159                            69 
$`DEL PEAK  5(3P26.3) MUTATED`
TCGA-KL-8324 TCGA-KL-8333 TCGA-KL-8335 TCGA-KN-8421 TCGA-KN-8425 TCGA-KN-8427 
      141.73        98.33        92.55        87.91       104.52         0.99 
TCGA-KN-8432 TCGA-KO-8409 TCGA-KO-8414 TCGA-KO-8415 TCGA-3Z-A93Z TCGA-A3-3306 
        2.50       104.55       105.60        96.62        12.66        36.82 
TCGA-A3-3307 TCGA-A3-3308 TCGA-A3-3311 TCGA-A3-3313 TCGA-A3-3316 TCGA-A3-3317 
       47.21         0.53        39.16        24.16        49.08        49.02 
TCGA-A3-3319 TCGA-A3-3320 TCGA-A3-3322 TCGA-A3-3323 TCGA-A3-3324 TCGA-A3-3325 
       37.15        49.58        48.59        36.36        38.99        38.47 
TCGA-A3-3326 TCGA-A3-3331 TCGA-A3-3335 TCGA-A3-3336 TCGA-A3-3343 TCGA-A3-3346 
       37.38        48.82        62.01        34.29        31.07         4.50 
TCGA-A3-3347 TCGA-A3-3349 TCGA-A3-3351 TCGA-A3-3352 TCGA-A3-3357 TCGA-A3-3358 
       52.93        45.53        29.92        18.44        88.37        42.97 
TCGA-A3-3359 TCGA-A3-3362 TCGA-A3-3365 TCGA-A3-3367 TCGA-A3-3370 TCGA-A3-3372 
       82.32        51.25        28.70        74.63        74.76        24.16 
TCGA-A3-3373 TCGA-A3-3376 TCGA-A3-3378 TCGA-A3-3380 TCGA-A3-3382 TCGA-A3-3383 
       53.29        55.76        20.71        18.64        18.87        28.31 
TCGA-A3-3387 TCGA-A3-A6NI TCGA-A3-A6NJ TCGA-A3-A6NL TCGA-A3-A6NN TCGA-A3-A8CQ 
       20.28        33.47        15.39        22.65         0.10         0.10 
TCGA-A3-A8OV TCGA-A3-A8OW TCGA-AK-3425 TCGA-AK-3426 TCGA-AK-3428 TCGA-AK-3429 
       11.18        10.62       109.91        29.10        73.08       109.41 
TCGA-AK-3430 TCGA-AK-3431 TCGA-AK-3433 TCGA-AK-3434 TCGA-AK-3436 TCGA-AK-3444 
       15.78        73.68       112.08        68.61       109.51        48.36 
TCGA-AK-3445 TCGA-AK-3450 TCGA-AK-3451 TCGA-AK-3454 TCGA-AK-3455 TCGA-AK-3458 
       78.64        49.28        94.29        28.73        22.45        38.40 
TCGA-AK-3460 TCGA-AK-3461 TCGA-AS-3778 TCGA-B0-4690 TCGA-B0-4691 TCGA-B0-4693 
       82.45        72.89         1.41         1.41         4.57         2.53 
TCGA-B0-4694 TCGA-B0-4696 TCGA-B0-4697 TCGA-B0-4701 TCGA-B0-4703 TCGA-B0-4706 
        3.48        28.47        19.00         7.82         5.98         2.14 
TCGA-B0-4707 TCGA-B0-4710 TCGA-B0-4712 TCGA-B0-4713 TCGA-B0-4714 TCGA-B0-4718 
       19.73        57.70        43.96         6.64         3.25        58.45 
TCGA-B0-4810 TCGA-B0-4811 TCGA-B0-4813 TCGA-B0-4814 TCGA-B0-4815 TCGA-B0-4816 
       15.72        46.59         0.59         5.52        52.21        45.07 
TCGA-B0-4817 TCGA-B0-4818 TCGA-B0-4819 TCGA-B0-4821 TCGA-B0-4822 TCGA-B0-4823 
       33.50        16.77         6.02        40.44        36.53        14.93 
TCGA-B0-4824 TCGA-B0-4827 TCGA-B0-4828 TCGA-B0-4833 TCGA-B0-4836 TCGA-B0-4837 
       54.48        29.10        10.09        78.44        40.70        45.30 
TCGA-B0-4838 TCGA-B0-4841 TCGA-B0-4842 TCGA-B0-4843 TCGA-B0-4845 TCGA-B0-4847 
       27.42         6.71        56.68        10.52        65.29        26.07 
TCGA-B0-4848 TCGA-B0-4849 TCGA-B0-4852 TCGA-B0-4945 TCGA-B0-5075 TCGA-B0-5077 
       29.03         2.27        36.85        70.52        20.94        43.30 
TCGA-B0-5081 TCGA-B0-5084 TCGA-B0-5085 TCGA-B0-5088 TCGA-B0-5092 TCGA-B0-5094 
       11.90         7.30        25.32        18.51        15.09        10.95 
TCGA-B0-5095 TCGA-B0-5097 TCGA-B0-5098 TCGA-B0-5099 TCGA-B0-5102 TCGA-B0-5104 
        8.05        21.86        52.08        15.95        90.87        90.48 
TCGA-B0-5107 TCGA-B0-5108 TCGA-B0-5110 TCGA-B0-5113 TCGA-B0-5115 TCGA-B0-5116 
       30.48        58.59        66.05        38.63        52.73        41.88 
TCGA-B0-5119 TCGA-B0-5120 TCGA-B0-5121 TCGA-B0-5399 TCGA-B0-5402 TCGA-B0-5690 
       51.02        38.43        48.82        46.39        42.41       111.52 
TCGA-B0-5691 TCGA-B0-5692 TCGA-B0-5693 TCGA-B0-5694 TCGA-B0-5695 TCGA-B0-5696 
      112.80       129.67       133.94        15.78        70.68        85.78 
TCGA-B0-5697 TCGA-B0-5698 TCGA-B0-5699 TCGA-B0-5701 TCGA-B0-5702 TCGA-B0-5703 
       86.47       119.38       126.28        80.91        71.41        73.84 
TCGA-B0-5705 TCGA-B0-5706 TCGA-B0-5709 TCGA-B0-5710 TCGA-B0-5711 TCGA-B0-5712 
      149.16       105.37       130.65        79.89       131.15        89.49 
TCGA-B0-5713 TCGA-B0-5812 TCGA-B2-3924 TCGA-B2-4099 TCGA-B2-4101 TCGA-B2-4102 
       91.46       126.05        35.90        31.96        21.30        31.30 
TCGA-B2-5633 TCGA-B2-5639 TCGA-B2-5641 TCGA-B2-A4SR TCGA-B4-5377 TCGA-B4-5832 
       31.66        32.98        21.57        16.67        12.00         5.10 
TCGA-B4-5834 TCGA-B4-5835 TCGA-B4-5836 TCGA-B4-5838 TCGA-B4-5843 TCGA-B4-5844 
        0.85         0.53         4.64         5.46         0.36         0.23 
TCGA-B8-4143 TCGA-B8-4146 TCGA-B8-4148 TCGA-B8-4151 TCGA-B8-4153 TCGA-B8-4154 
       23.31        16.80        27.16        42.71        25.05        45.37 
TCGA-B8-4620 TCGA-B8-5158 TCGA-B8-5159 TCGA-B8-5162 TCGA-B8-5163 TCGA-B8-5164 
       25.55        20.91        23.74         1.18        27.02         0.85 
TCGA-B8-5165 TCGA-B8-5549 TCGA-B8-5551 TCGA-B8-5552 TCGA-B8-5553 TCGA-B8-A54D 
       24.23         6.38         0.53        34.39        14.30        27.29 
TCGA-B8-A54F TCGA-B8-A54G TCGA-B8-A54H TCGA-B8-A54I TCGA-B8-A54J TCGA-B8-A7U6 
       17.06         1.74         8.42         4.93        17.36        16.27 
TCGA-BP-4158 TCGA-BP-4159 TCGA-BP-4160 TCGA-BP-4161 TCGA-BP-4162 TCGA-BP-4163 
      111.02        85.51        94.72        90.28       101.06        93.34 
TCGA-BP-4164 TCGA-BP-4166 TCGA-BP-4167 TCGA-BP-4169 TCGA-BP-4170 TCGA-BP-4174 
       32.61         0.43        89.36        23.05        77.03        61.78 
TCGA-BP-4176 TCGA-BP-4325 TCGA-BP-4326 TCGA-BP-4327 TCGA-BP-4329 TCGA-BP-4330 
       64.27        97.45        53.42         3.58        27.78        62.07 
TCGA-BP-4331 TCGA-BP-4332 TCGA-BP-4335 TCGA-BP-4337 TCGA-BP-4338 TCGA-BP-4340 
       80.68        37.25        15.16         0.07        93.99        18.48 
TCGA-BP-4341 TCGA-BP-4342 TCGA-BP-4343 TCGA-BP-4344 TCGA-BP-4346 TCGA-BP-4347 
       52.24        74.17        62.86        54.77        49.08        44.94 
TCGA-BP-4349 TCGA-BP-4351 TCGA-BP-4352 TCGA-BP-4353 TCGA-BP-4354 TCGA-BP-4355 
       12.23        31.89        11.31        12.33        33.99        31.33 
TCGA-BP-4758 TCGA-BP-4759 TCGA-BP-4761 TCGA-BP-4762 TCGA-BP-4763 TCGA-BP-4765 
       72.59        77.98         5.98        44.15        41.75        71.80 
TCGA-BP-4766 TCGA-BP-4768 TCGA-BP-4771 TCGA-BP-4774 TCGA-BP-4775 TCGA-BP-4776 
       48.07        13.15         5.33        61.97        60.59        13.51 
TCGA-BP-4777 TCGA-BP-4781 TCGA-BP-4782 TCGA-BP-4787 TCGA-BP-4789 TCGA-BP-4790 
       56.91        68.38        11.64        15.78        48.95        36.53 
TCGA-BP-4797 TCGA-BP-4798 TCGA-BP-4801 TCGA-BP-4803 TCGA-BP-4807 TCGA-BP-4959 
       36.39        10.98        36.95         6.71         6.94        87.45 
TCGA-BP-4960 TCGA-BP-4961 TCGA-BP-4962 TCGA-BP-4963 TCGA-BP-4964 TCGA-BP-4965 
       71.41        63.62        58.68        60.30        61.22        61.51 
TCGA-BP-4968 TCGA-BP-4969 TCGA-BP-4970 TCGA-BP-4971 TCGA-BP-4972 TCGA-BP-4973 
       57.40        58.98        14.24        48.89        49.38        45.50 
TCGA-BP-4974 TCGA-BP-4975 TCGA-BP-4977 TCGA-BP-4981 TCGA-BP-4982 TCGA-BP-4983 
        6.90        47.11        14.93        36.07        33.34        46.45 
TCGA-BP-4985 TCGA-BP-4986 TCGA-BP-4987 TCGA-BP-4989 TCGA-BP-4991 TCGA-BP-4992 
       31.30        25.81        36.95         3.88        46.45        16.47 
TCGA-BP-4993 TCGA-BP-4995 TCGA-BP-4998 TCGA-BP-4999 TCGA-BP-5000 TCGA-BP-5001 
        5.82        45.07        30.64        41.62        18.51        38.70 
TCGA-BP-5004 TCGA-BP-5006 TCGA-BP-5007 TCGA-BP-5008 TCGA-BP-5009 TCGA-BP-5010 
       37.02        27.62        37.48        35.21        36.23        28.87 
TCGA-BP-5168 TCGA-BP-5169 TCGA-BP-5170 TCGA-BP-5173 TCGA-BP-5174 TCGA-BP-5175 
       48.10         6.35        79.30         1.74        74.20        30.64 
TCGA-BP-5176 TCGA-BP-5177 TCGA-BP-5178 TCGA-BP-5180 TCGA-BP-5181 TCGA-BP-5182 
       52.27         9.63        62.86        74.40        49.15        38.30 
TCGA-BP-5183 TCGA-BP-5184 TCGA-BP-5185 TCGA-BP-5186 TCGA-BP-5187 TCGA-BP-5189 
       42.44        37.25        37.22        22.78        13.35        27.02 
TCGA-BP-5190 TCGA-BP-5192 TCGA-BP-5194 TCGA-BP-5195 TCGA-BP-5196 TCGA-BP-5198 
       33.24        23.47        13.41        24.62        33.47        19.82 
TCGA-BP-5199 TCGA-BP-5200 TCGA-BP-5201 TCGA-BP-5202 TCGA-CJ-4634 TCGA-CJ-4635 
       44.55        34.95        31.27         0.95       115.00        46.55 
TCGA-CJ-4636 TCGA-CJ-4637 TCGA-CJ-4638 TCGA-CJ-4639 TCGA-CJ-4640 TCGA-CJ-4641 
       63.25        73.22        14.17       106.16       114.41        54.61 
TCGA-CJ-4642 TCGA-CJ-4643 TCGA-CJ-4644 TCGA-CJ-4868 TCGA-CJ-4869 TCGA-CJ-4870 
      105.37        58.95        11.05        21.24        83.97        49.25 
TCGA-CJ-4871 TCGA-CJ-4872 TCGA-CJ-4873 TCGA-CJ-4874 TCGA-CJ-4876 TCGA-CJ-4878 
       79.66        10.72        74.27        75.06        64.27        71.87 
TCGA-CJ-4881 TCGA-CJ-4882 TCGA-CJ-4884 TCGA-CJ-4885 TCGA-CJ-4886 TCGA-CJ-4887 
       66.21        61.91        57.83       113.46        64.18        30.64 
TCGA-CJ-4888 TCGA-CJ-4891 TCGA-CJ-4892 TCGA-CJ-4893 TCGA-CJ-4894 TCGA-CJ-4895 
       51.52        26.93        50.01        24.66        27.65        39.45 
TCGA-CJ-4897 TCGA-CJ-4899 TCGA-CJ-4900 TCGA-CJ-4901 TCGA-CJ-4902 TCGA-CJ-4903 
      109.84        50.24        56.35        47.67        49.97        51.25 
TCGA-CJ-4904 TCGA-CJ-4905 TCGA-CJ-4907 TCGA-CJ-4908 TCGA-CJ-4912 TCGA-CJ-4913 
      108.56        49.18        49.28        50.33        54.48        38.56 
TCGA-CJ-4916 TCGA-CJ-4918 TCGA-CJ-4923 TCGA-CJ-5671 TCGA-CJ-5672 TCGA-CJ-5675 
       45.14         3.06        18.81       131.08        72.00       129.40 
TCGA-CJ-5676 TCGA-CJ-5677 TCGA-CJ-5678 TCGA-CJ-5679 TCGA-CJ-5680 TCGA-CJ-5682 
      133.71        25.71        18.87        22.32        25.25       122.83 
TCGA-CJ-5683 TCGA-CJ-5684 TCGA-CJ-5686 TCGA-CJ-5689 TCGA-CJ-6027 TCGA-CJ-6028 
       62.10        73.35        67.00        53.26       118.85        53.42 
TCGA-CJ-6030 TCGA-CJ-6031 TCGA-CJ-6032 TCGA-CJ-6033 TCGA-CW-5580 TCGA-CW-5581 
       75.58        62.66       119.64         7.36        64.57        92.02 
TCGA-CW-5583 TCGA-CW-5584 TCGA-CW-5585 TCGA-CW-5587 TCGA-CW-5588 TCGA-CW-5589 
       81.83         5.39        85.78        73.18        66.31        78.18 
TCGA-CW-5591 TCGA-CW-6088 TCGA-CW-6090 TCGA-CZ-4853 TCGA-CZ-4856 TCGA-CZ-4857 
       74.66       105.93        83.90        25.45         0.59        47.08 
TCGA-CZ-4858 TCGA-CZ-4859 TCGA-CZ-4860 TCGA-CZ-4861 TCGA-CZ-4863 TCGA-CZ-4864 
       69.21        58.75         6.77        14.66        63.39        93.04 
TCGA-CZ-4865 TCGA-CZ-4866 TCGA-CZ-5451 TCGA-CZ-5452 TCGA-CZ-5453 TCGA-CZ-5454 
        5.46        61.41        63.42        58.82        79.53        23.74 
TCGA-CZ-5455 TCGA-CZ-5456 TCGA-CZ-5457 TCGA-CZ-5458 TCGA-CZ-5459 TCGA-CZ-5460 
       18.44        79.63        90.54        91.69        55.33        94.45 
TCGA-CZ-5461 TCGA-CZ-5462 TCGA-CZ-5463 TCGA-CZ-5464 TCGA-CZ-5465 TCGA-CZ-5466 
       10.85        10.22        21.76        69.96        84.30        22.52 
TCGA-CZ-5467 TCGA-CZ-5468 TCGA-CZ-5469 TCGA-CZ-5470 TCGA-CZ-5982 TCGA-CZ-5984 
        2.40         1.94        31.10        12.69        80.19        67.96 
TCGA-CZ-5985 TCGA-CZ-5986 TCGA-CZ-5987 TCGA-CZ-5988 TCGA-CZ-5989 TCGA-DV-5565 
       65.65        12.26        14.63        22.78        62.63        13.28 
TCGA-DV-5566 TCGA-DV-5568 TCGA-DV-5569 TCGA-DV-5573 TCGA-DV-5574 TCGA-DV-5575 
       45.96        12.16        11.67        37.15        66.28        56.84 
TCGA-DV-A4VX TCGA-DV-A4W0 TCGA-EU-5904 TCGA-EU-5906 TCGA-EU-5907 TCGA-G6-A5PC 
       53.46        81.21        18.12         6.77         4.18         7.96 
TCGA-G6-A8L6 TCGA-G6-A8L7 TCGA-G6-A8L8 TCGA-GK-A6C7 TCGA-MM-A563 TCGA-MM-A564 
       10.29        70.13        35.87         2.01        19.43        19.96 
TCGA-MM-A84U TCGA-MW-A4EC TCGA-2Z-A9JG TCGA-2Z-A9JI TCGA-2Z-A9JK TCGA-5P-A9K9 
       23.01        16.37        54.64        51.52        38.99        19.36 
TCGA-A4-A57E TCGA-A4-A5Y1 TCGA-AL-3473 TCGA-B9-A44B TCGA-B9-A69E TCGA-BQ-5877 
        8.48        12.99        62.66         2.10        14.86         8.88 
TCGA-BQ-5882 TCGA-BQ-5892 TCGA-DZ-6131 TCGA-G7-6789 TCGA-G7-7501 TCGA-G7-A8LC 
       21.63        11.97        79.86         4.01        20.52        23.08 
TCGA-GL-7966 TCGA-IA-A40Y TCGA-J7-8537 TCGA-Q2-A5QZ TCGA-SX-A7SU TCGA-UZ-A9PQ 
        3.68         2.04        10.55        14.07        43.76        86.27 
TCGA-WN-A9G9 TCGA-Y8-A8RZ 
       26.01         3.68 

$`DEL PEAK  5(3P26.3) WILD-TYPE`
TCGA-KL-8323 TCGA-KL-8325 TCGA-KL-8326 TCGA-KL-8327 TCGA-KL-8328 TCGA-KL-8329 
       38.07        23.84       109.22       137.06       102.81        90.48 
TCGA-KL-8330 TCGA-KL-8331 TCGA-KL-8332 TCGA-KL-8334 TCGA-KL-8336 TCGA-KL-8337 
      108.62        98.96        84.89        96.95        30.25        44.84 
TCGA-KL-8338 TCGA-KL-8339 TCGA-KL-8340 TCGA-KL-8341 TCGA-KL-8342 TCGA-KL-8343 
       86.56        28.11        66.54        24.79        73.91        71.41 
TCGA-KL-8344 TCGA-KL-8345 TCGA-KL-8346 TCGA-KM-8438 TCGA-KM-8439 TCGA-KM-8440 
       28.80        54.74        62.37       151.96        23.28        44.91 
TCGA-KM-8441 TCGA-KM-8442 TCGA-KM-8443 TCGA-KM-8476 TCGA-KM-8477 TCGA-KM-8639 
       28.80        47.24        49.97       123.12        51.06        31.33 
TCGA-KN-8418 TCGA-KN-8419 TCGA-KN-8422 TCGA-KN-8423 TCGA-KN-8424 TCGA-KN-8426 
      129.37        23.47        25.48        25.91        65.19         3.55 
TCGA-KN-8428 TCGA-KN-8429 TCGA-KN-8431 TCGA-KN-8433 TCGA-KN-8434 TCGA-KN-8435 
       52.27        87.12        19.33        11.21        59.08       115.00 
TCGA-KN-8436 TCGA-KN-8437 TCGA-KO-8403 TCGA-KO-8404 TCGA-KO-8405 TCGA-KO-8406 
       42.35       100.87       105.47        10.68       100.47       103.40 
TCGA-KO-8407 TCGA-KO-8408 TCGA-KO-8410 TCGA-KO-8411 TCGA-KO-8413 TCGA-KO-8416 
       92.71        16.67       103.10       130.13        99.88        90.48 
TCGA-KO-8417 TCGA-6D-AA2E TCGA-A3-3363 TCGA-A3-3374 TCGA-A3-3385 TCGA-AK-3427 
       92.55        11.90        10.49        43.20        65.52       117.80 
TCGA-AK-3440 TCGA-AK-3443 TCGA-AK-3447 TCGA-AK-3453 TCGA-AK-3456 TCGA-AK-3465 
       94.19        46.78        40.01        83.21        37.58        12.13 
TCGA-AS-3777 TCGA-B0-4688 TCGA-B0-4698 TCGA-B0-4699 TCGA-B0-4700 TCGA-B0-4834 
       40.70         3.32         1.38         3.62        65.10        68.71 
TCGA-B0-4839 TCGA-B0-4844 TCGA-B0-4846 TCGA-B0-5080 TCGA-B0-5096 TCGA-B0-5100 
       53.88        10.29        39.45        11.24         2.24        62.89 
TCGA-B0-5106 TCGA-B0-5109 TCGA-B0-5117 TCGA-B0-5400 TCGA-B2-3923 TCGA-B2-4098 
       52.54        19.30        52.87        56.98        32.61         1.68 
TCGA-B2-5635 TCGA-B4-5378 TCGA-B8-4619 TCGA-B8-4621 TCGA-B8-4622 TCGA-B8-5545 
       24.82         5.75        17.19        25.91        50.14        50.14 
TCGA-B8-5546 TCGA-B8-5550 TCGA-B8-A54E TCGA-B8-A54K TCGA-B8-A8YJ TCGA-BP-4165 
       16.60        48.53        29.88        15.42        14.17        99.85 
TCGA-BP-4173 TCGA-BP-4177 TCGA-BP-4334 TCGA-BP-4756 TCGA-BP-4760 TCGA-BP-4769 
       62.24        54.90        21.21        12.30        77.62        61.68 
TCGA-BP-4770 TCGA-BP-4784 TCGA-BP-4795 TCGA-BP-4799 TCGA-BP-4804 TCGA-BP-4967 
       10.82        60.95        20.38        37.25        47.97         6.74 
TCGA-BP-4976 TCGA-BP-4988 TCGA-BP-4994 TCGA-BP-5191 TCGA-CJ-4875 TCGA-CJ-4889 
       53.65        27.22        43.00        31.79       116.84        63.98 
TCGA-CJ-4890 TCGA-CJ-4920 TCGA-CJ-5681 TCGA-CW-6087 TCGA-CW-6093 TCGA-CW-6097 
      115.69         4.57        18.15         1.35       103.43        18.77 
TCGA-CZ-4854 TCGA-CZ-4862 TCGA-DV-5567 TCGA-DV-5576 TCGA-DV-A4VZ TCGA-EU-5905 
       46.16       107.54        65.88        23.90        12.00         3.91 
TCGA-T7-A92I TCGA-2K-A9WE TCGA-2Z-A9J1 TCGA-2Z-A9J2 TCGA-2Z-A9J3 TCGA-2Z-A9J5 
       11.70         7.04        75.55        59.01        58.22       100.27 
TCGA-2Z-A9J6 TCGA-2Z-A9J7 TCGA-2Z-A9J8 TCGA-2Z-A9J9 TCGA-2Z-A9JD TCGA-2Z-A9JE 
       56.91         4.57        91.73        75.42        34.85        56.81 
TCGA-2Z-A9JJ TCGA-2Z-A9JL TCGA-2Z-A9JM TCGA-2Z-A9JN TCGA-2Z-A9JO TCGA-2Z-A9JP 
       39.88        33.07        30.71        24.33        31.20        29.36 
TCGA-2Z-A9JQ TCGA-2Z-A9JR TCGA-2Z-A9JS TCGA-2Z-A9JT TCGA-4A-A93W TCGA-4A-A93X 
       25.58         5.29        16.18        22.49         0.13        12.82 
TCGA-4A-A93Y TCGA-5P-A9JU TCGA-5P-A9JV TCGA-5P-A9JW TCGA-5P-A9JY TCGA-5P-A9JZ 
       11.57        12.26        67.17       106.55        49.58        90.21 
TCGA-5P-A9K0 TCGA-5P-A9K2 TCGA-5P-A9K3 TCGA-5P-A9K4 TCGA-5P-A9K6 TCGA-5P-A9K8 
       22.26        78.64        15.48        71.80        62.93        43.04 
TCGA-5P-A9KA TCGA-5P-A9KC TCGA-5P-A9KE TCGA-5P-A9KH TCGA-A4-7286 TCGA-A4-7287 
       12.99        12.39        27.09        67.43        18.21        19.63 
TCGA-A4-7288 TCGA-A4-7583 TCGA-A4-7584 TCGA-A4-7585 TCGA-A4-7732 TCGA-A4-7734 
       61.05         0.10        21.37        35.18        19.13         0.89 
TCGA-A4-7828 TCGA-A4-7915 TCGA-A4-7996 TCGA-A4-7997 TCGA-A4-8098 TCGA-A4-8310 
        7.82         0.23        16.64        30.48        29.46        25.64 
TCGA-A4-8311 TCGA-A4-8312 TCGA-A4-8515 TCGA-A4-8516 TCGA-A4-8517 TCGA-A4-8518 
       23.97        23.28        23.31         0.76        19.63        19.73 
TCGA-A4-8630 TCGA-A4-A48D TCGA-A4-A4ZT TCGA-A4-A5DU TCGA-A4-A5XZ TCGA-A4-A5Y0 
       14.33        12.46        16.96        16.31        15.75         8.28 
TCGA-A4-A6HP TCGA-AL-3466 TCGA-AL-3467 TCGA-AL-3468 TCGA-AL-3471 TCGA-AL-3472 
       12.46         9.63        70.19        76.64        49.32        66.71 
TCGA-AL-7173 TCGA-AL-A5DJ TCGA-AT-A5NU TCGA-B1-5398 TCGA-B1-7332 TCGA-B1-A47M 
       67.73        49.25         2.20        19.56        37.51        21.67 
TCGA-B1-A47N TCGA-B1-A47O TCGA-B1-A654 TCGA-B1-A655 TCGA-B1-A656 TCGA-B1-A657 
       24.56        16.87        20.25        16.77        20.32        21.07 
TCGA-B3-3925 TCGA-B3-3926 TCGA-B3-4103 TCGA-B3-4104 TCGA-B3-8121 TCGA-B3-A6W5 
       33.83        10.09        30.58        34.49        12.46        10.16 
TCGA-B9-4113 TCGA-B9-4114 TCGA-B9-4115 TCGA-B9-4116 TCGA-B9-4117 TCGA-B9-4617 
       50.50        28.18        26.40        20.61         0.46         1.15 
TCGA-B9-5155 TCGA-B9-5156 TCGA-B9-7268 TCGA-B9-A5W7 TCGA-B9-A5W8 TCGA-B9-A5W9 
       15.12        43.99        22.06        19.23        17.23         0.16 
TCGA-B9-A8YH TCGA-B9-A8YI TCGA-BQ-5875 TCGA-BQ-5876 TCGA-BQ-5878 TCGA-BQ-5879 
       17.49        12.30        86.76        19.27        63.72        22.92 
TCGA-BQ-5880 TCGA-BQ-5881 TCGA-BQ-5883 TCGA-BQ-5884 TCGA-BQ-5885 TCGA-BQ-5886 
       43.20        47.80        40.83        26.04        30.28        26.04 
TCGA-BQ-5887 TCGA-BQ-5888 TCGA-BQ-5889 TCGA-BQ-5890 TCGA-BQ-5891 TCGA-BQ-5893 
       25.35        13.25        10.82         7.66         0.95         7.92 
TCGA-BQ-5894 TCGA-BQ-7044 TCGA-BQ-7045 TCGA-BQ-7046 TCGA-BQ-7048 TCGA-BQ-7049 
        2.76       123.62        48.26        96.92        93.34        44.84 
TCGA-BQ-7050 TCGA-BQ-7051 TCGA-BQ-7053 TCGA-BQ-7055 TCGA-BQ-7056 TCGA-BQ-7058 
       61.28        50.40        49.84        26.27        20.12        11.28 
TCGA-BQ-7059 TCGA-BQ-7060 TCGA-BQ-7061 TCGA-BQ-7062 TCGA-DW-5560 TCGA-DW-5561 
        7.63         7.04         7.17         3.81        48.85        13.61 
TCGA-DW-7834 TCGA-DW-7836 TCGA-DW-7837 TCGA-DW-7838 TCGA-DW-7839 TCGA-DW-7840 
      129.86        35.93        37.55        24.46        13.78         3.75 
TCGA-DW-7841 TCGA-DW-7842 TCGA-DW-7963 TCGA-DZ-6132 TCGA-DZ-6133 TCGA-DZ-6134 
       14.63         3.02        40.77        80.88        51.19        61.02 
TCGA-DZ-6135 TCGA-EV-5901 TCGA-EV-5902 TCGA-EV-5903 TCGA-F9-A4JJ TCGA-F9-A7Q0 
       74.60        34.19        19.00        24.89        10.68        13.08 
TCGA-F9-A7VF TCGA-F9-A8NY TCGA-F9-A97G TCGA-G7-6790 TCGA-G7-6792 TCGA-G7-6793 
        2.40         1.18         0.43        51.78        90.90        11.05 
TCGA-G7-6795 TCGA-G7-6796 TCGA-G7-6797 TCGA-G7-7502 TCGA-G7-A4TM TCGA-G7-A8LB 
       39.25        71.44        25.15        25.84         6.38        17.98 
TCGA-G7-A8LD TCGA-G7-A8LE TCGA-GL-6846 TCGA-GL-7773 TCGA-GL-8500 TCGA-GL-A4EM 
       16.90        80.65       194.79        12.92        27.65         1.05 
TCGA-GL-A59R TCGA-GL-A59T TCGA-GL-A9DC TCGA-GL-A9DD TCGA-GL-A9DE TCGA-HE-A5NF 
       12.43        17.95        12.89        11.21        16.31        84.89 
TCGA-HE-A5NH TCGA-HE-A5NI TCGA-HE-A5NJ TCGA-HE-A5NK TCGA-HE-A5NL TCGA-IA-A40U 
       26.01        11.84        56.75        73.25        25.22        16.80 
TCGA-IA-A40X TCGA-IA-A83S TCGA-IA-A83T TCGA-IA-A83V TCGA-IA-A83W TCGA-IZ-8195 
       19.99        85.78        88.24        96.69        67.17        22.26 
TCGA-IZ-8196 TCGA-IZ-A6M8 TCGA-IZ-A6M9 TCGA-J7-6720 TCGA-KV-A6GD TCGA-KV-A6GE 
       21.34        16.34        12.36        12.76        18.41        29.10 
TCGA-KV-A74V TCGA-MH-A55W TCGA-MH-A55Z TCGA-MH-A560 TCGA-MH-A561 TCGA-MH-A562 
       11.41        34.29        27.78        30.38        27.65        20.25 
TCGA-MH-A854 TCGA-MH-A855 TCGA-MH-A856 TCGA-MH-A857 TCGA-O9-A75Z TCGA-P4-A5E6 
       17.62        12.13        31.13        29.26        15.48        99.78 
TCGA-P4-A5E7 TCGA-P4-A5E8 TCGA-P4-A5EA TCGA-P4-A5EB TCGA-P4-A5ED TCGA-P4-AAVK 
       87.09        42.94         6.61        99.12        92.58        52.27 
TCGA-P4-AAVL TCGA-P4-AAVM TCGA-P4-AAVO TCGA-PJ-A5Z8 TCGA-PJ-A5Z9 TCGA-SX-A71R 
       16.01        50.60        78.90        19.73        17.75        47.90 
TCGA-SX-A71S TCGA-SX-A71U TCGA-SX-A71V TCGA-SX-A7SL TCGA-SX-A7SM TCGA-SX-A7SN 
       49.45        44.61        28.80        27.06        11.93        19.00 
TCGA-SX-A7SO TCGA-SX-A7SP TCGA-SX-A7SQ TCGA-SX-A7SR TCGA-SX-A7SS TCGA-UN-AAZ9 
       41.33        16.31        41.62        26.47        53.10        18.02 
TCGA-UZ-A9PJ TCGA-UZ-A9PK TCGA-UZ-A9PL TCGA-UZ-A9PM TCGA-UZ-A9PN TCGA-UZ-A9PO 
       26.20       117.40       103.63       125.29        37.35        62.83 
TCGA-UZ-A9PP TCGA-UZ-A9PR TCGA-UZ-A9PS TCGA-UZ-A9PU TCGA-UZ-A9PV TCGA-UZ-A9PX 
       98.96        86.37        71.24        30.67        47.47        65.13 
TCGA-UZ-A9PZ TCGA-UZ-A9Q0 TCGA-UZ-A9Q1 TCGA-V9-A7HT TCGA-WN-AB4C TCGA-Y8-A894 
       21.60       110.73        51.35        31.73        39.06        18.64 
TCGA-Y8-A895 TCGA-Y8-A896 TCGA-Y8-A897 TCGA-Y8-A898 TCGA-Y8-A8RY TCGA-Y8-A8S0 
       15.91        18.64        18.05        15.62        25.28         6.02 
TCGA-Y8-A8S1 
       13.28 

  DEL PEAK  5(3P26.3) MUTATED DEL PEAK  5(3P26.3) WILD-TYPE 
                         0.07                          0.10 
  DEL PEAK  5(3P26.3) MUTATED DEL PEAK  5(3P26.3) WILD-TYPE 
                       149.16                        194.79 
  DEL PEAK  5(3P26.3) MUTATED DEL PEAK  5(3P26.3) WILD-TYPE 
                       38.415                        28.800 
[1] "0.1 - 149.2 (38.4)" "0.1 - 194.8 (28.8)"
[1] "hr=" "1.7"
D18V2, continuous
                               vv
clus                            STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK  5(3P26.3) MUTATED       228       57       129       74
  DEL PEAK  5(3P26.3) WILD-TYPE     227       47        62       30
D18V3, multiclass
           clus
vv          DEL PEAK  5(3P26.3) MUTATED DEL PEAK  5(3P26.3) WILD-TYPE
  STAGE I                           228                           227
  STAGE II                           57                            47
  STAGE III                         129                            62
  STAGE IV                           74                            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"
                               vv
clus                             T1  T2  T3  T4
  DEL PEAK  5(3P26.3) MUTATED   234  71 177   7
  DEL PEAK  5(3P26.3) WILD-TYPE 245  56  81   8
D18V4, multiclass
    clus
vv   DEL PEAK  5(3P26.3) MUTATED DEL PEAK  5(3P26.3) WILD-TYPE
  T1                         234                           245
  T2                          71                            56
  T3                         177                            81
  T4                           7                             8
[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                             N0  N1  N2
  DEL PEAK  5(3P26.3) MUTATED   214  22   2
  DEL PEAK  5(3P26.3) WILD-TYPE 108  22   5
D18V5, multiclass
    clus
vv   DEL PEAK  5(3P26.3) MUTATED DEL PEAK  5(3P26.3) WILD-TYPE
  N0                         214                           108
  N1                          22                            22
  N2                           2                             5
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D18V6, binary
                               cls
clus                              0   1
  DEL PEAK  5(3P26.3) MUTATED   374  69
  DEL PEAK  5(3P26.3) WILD-TYPE 171  20
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  5(3P26.3) MUTATED    374   69
  DEL PEAK  5(3P26.3) WILD-TYPE  171   20
   clus
vv  DEL PEAK  5(3P26.3) MUTATED DEL PEAK  5(3P26.3) WILD-TYPE
  0                         374                           171
  1                          69                            20
[1] 2 2
[1] FALSE
D18V7, binary
                               cls
clus                              0   1
  DEL PEAK  5(3P26.3) MUTATED   176 313
  DEL PEAK  5(3P26.3) WILD-TYPE 116 276
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  5(3P26.3) MUTATED    176  313
  DEL PEAK  5(3P26.3) WILD-TYPE  116  276
        clus
vv       DEL PEAK  5(3P26.3) MUTATED DEL PEAK  5(3P26.3) WILD-TYPE
  FEMALE                         176                           116
  MALE                           313                           276
[1] 2 2
[1] FALSE
D18V8, binary
                               cls
clus                              0   1
  DEL PEAK  5(3P26.3) MUTATED   138   2
  DEL PEAK  5(3P26.3) WILD-TYPE 262   1
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  5(3P26.3) MUTATED    138    2
  DEL PEAK  5(3P26.3) WILD-TYPE  262    1
     clus
vv    DEL PEAK  5(3P26.3) MUTATED DEL PEAK  5(3P26.3) WILD-TYPE
  NO                          138                           262
  YES                           2                             1
[1] 2 2
[1] FALSE
D18V9, continuous
                               vv
clus                            KIDNEY CHROMOPHOBE
  DEL PEAK  5(3P26.3) MUTATED                   10
  DEL PEAK  5(3P26.3) WILD-TYPE                 56
                               vv
clus                            KIDNEY CLEAR CELL RENAL CARCINOMA
  DEL PEAK  5(3P26.3) MUTATED                                 455
  DEL PEAK  5(3P26.3) WILD-TYPE                                73
                               vv
clus                            KIDNEY PAPILLARY RENAL CELL CARCINOMA
  DEL PEAK  5(3P26.3) MUTATED                                      24
  DEL PEAK  5(3P26.3) WILD-TYPE                                   263
D18V10, multiclass
                                       clus
vv                                      DEL PEAK  5(3P26.3) MUTATED
  KIDNEY CHROMOPHOBE                                             10
  KIDNEY CLEAR CELL RENAL CARCINOMA                             455
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                          24
                                       clus
vv                                      DEL PEAK  5(3P26.3) WILD-TYPE
  KIDNEY CHROMOPHOBE                                               56
  KIDNEY CLEAR CELL RENAL CARCINOMA                                73
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                           263
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D18V11, continuous
D18V12, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK  5(3P26.3) MUTATED                                  0     7
  DEL PEAK  5(3P26.3) WILD-TYPE                                2     8
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  5(3P26.3) MUTATED                          43   430
  DEL PEAK  5(3P26.3) WILD-TYPE                        78   289
D18V13, multiclass
                                  clus
vv                                 DEL PEAK  5(3P26.3) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                      7
  BLACK OR AFRICAN AMERICAN                                 43
  WHITE                                                    430
                                  clus
vv                                 DEL PEAK  5(3P26.3) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             2
  ASIAN                                                        8
  BLACK OR AFRICAN AMERICAN                                   78
  WHITE                                                      289
[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"
D18V14, binary
                               cls
clus                              0   1
  DEL PEAK  5(3P26.3) MUTATED    26 319
  DEL PEAK  5(3P26.3) WILD-TYPE  16 302
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  5(3P26.3) MUTATED     26  319
  DEL PEAK  5(3P26.3) WILD-TYPE   16  302
                        clus
vv                       DEL PEAK  5(3P26.3) MUTATED
  HISPANIC OR LATINO                              26
  NOT HISPANIC OR LATINO                         319
                        clus
vv                       DEL PEAK  5(3P26.3) WILD-TYPE
  HISPANIC OR LATINO                                16
  NOT HISPANIC OR LATINO                           302
[1] 2 2
[1] FALSE

Clustering(19) Variable = DEL PEAK  6(3P21.2) MUTATION ANALYSIS
D19V1, survival
                               sevent
clus2                             0   1
  DEL PEAK  6(3P21.2) MUTATED   331 171
  DEL PEAK  6(3P21.2) WILD-TYPE 314  57
  DEL PEAK  6(3P21.2) MUTATED DEL PEAK  6(3P21.2) WILD-TYPE 
                          502                           371 
  DEL PEAK  6(3P21.2) MUTATED DEL PEAK  6(3P21.2) WILD-TYPE 
                          171                            57 
$`DEL PEAK  6(3P21.2) MUTATED`
TCGA-KL-8324 TCGA-KL-8333 TCGA-KL-8341 TCGA-KN-8421 TCGA-KN-8425 TCGA-KN-8427 
      141.73        98.33        24.79        87.91       104.52         0.99 
TCGA-KN-8432 TCGA-KN-8436 TCGA-KO-8409 TCGA-KO-8414 TCGA-KO-8415 TCGA-3Z-A93Z 
        2.50        42.35       104.55       105.60        96.62        12.66 
TCGA-A3-3306 TCGA-A3-3307 TCGA-A3-3308 TCGA-A3-3311 TCGA-A3-3313 TCGA-A3-3316 
       36.82        47.21         0.53        39.16        24.16        49.08 
TCGA-A3-3317 TCGA-A3-3319 TCGA-A3-3320 TCGA-A3-3322 TCGA-A3-3323 TCGA-A3-3324 
       49.02        37.15        49.58        48.59        36.36        38.99 
TCGA-A3-3325 TCGA-A3-3326 TCGA-A3-3331 TCGA-A3-3335 TCGA-A3-3336 TCGA-A3-3343 
       38.47        37.38        48.82        62.01        34.29        31.07 
TCGA-A3-3346 TCGA-A3-3347 TCGA-A3-3349 TCGA-A3-3351 TCGA-A3-3352 TCGA-A3-3357 
        4.50        52.93        45.53        29.92        18.44        88.37 
TCGA-A3-3358 TCGA-A3-3359 TCGA-A3-3362 TCGA-A3-3365 TCGA-A3-3367 TCGA-A3-3370 
       42.97        82.32        51.25        28.70        74.63        74.76 
TCGA-A3-3372 TCGA-A3-3373 TCGA-A3-3376 TCGA-A3-3378 TCGA-A3-3380 TCGA-A3-3382 
       24.16        53.29        55.76        20.71        18.64        18.87 
TCGA-A3-3383 TCGA-A3-3387 TCGA-A3-A6NI TCGA-A3-A6NJ TCGA-A3-A6NL TCGA-A3-A6NN 
       28.31        20.28        33.47        15.39        22.65         0.10 
TCGA-A3-A8CQ TCGA-A3-A8OV TCGA-A3-A8OW TCGA-AK-3425 TCGA-AK-3426 TCGA-AK-3428 
        0.10        11.18        10.62       109.91        29.10        73.08 
TCGA-AK-3429 TCGA-AK-3430 TCGA-AK-3431 TCGA-AK-3433 TCGA-AK-3434 TCGA-AK-3436 
      109.41        15.78        73.68       112.08        68.61       109.51 
TCGA-AK-3445 TCGA-AK-3450 TCGA-AK-3451 TCGA-AK-3454 TCGA-AK-3455 TCGA-AK-3458 
       78.64        49.28        94.29        28.73        22.45        38.40 
TCGA-AK-3460 TCGA-AK-3461 TCGA-AS-3778 TCGA-B0-4690 TCGA-B0-4691 TCGA-B0-4693 
       82.45        72.89         1.41         1.41         4.57         2.53 
TCGA-B0-4694 TCGA-B0-4696 TCGA-B0-4697 TCGA-B0-4701 TCGA-B0-4703 TCGA-B0-4706 
        3.48        28.47        19.00         7.82         5.98         2.14 
TCGA-B0-4707 TCGA-B0-4710 TCGA-B0-4712 TCGA-B0-4713 TCGA-B0-4714 TCGA-B0-4718 
       19.73        57.70        43.96         6.64         3.25        58.45 
TCGA-B0-4810 TCGA-B0-4811 TCGA-B0-4813 TCGA-B0-4814 TCGA-B0-4815 TCGA-B0-4816 
       15.72        46.59         0.59         5.52        52.21        45.07 
TCGA-B0-4817 TCGA-B0-4818 TCGA-B0-4819 TCGA-B0-4821 TCGA-B0-4822 TCGA-B0-4823 
       33.50        16.77         6.02        40.44        36.53        14.93 
TCGA-B0-4824 TCGA-B0-4827 TCGA-B0-4828 TCGA-B0-4833 TCGA-B0-4836 TCGA-B0-4837 
       54.48        29.10        10.09        78.44        40.70        45.30 
TCGA-B0-4838 TCGA-B0-4841 TCGA-B0-4842 TCGA-B0-4843 TCGA-B0-4844 TCGA-B0-4845 
       27.42         6.71        56.68        10.52        10.29        65.29 
TCGA-B0-4846 TCGA-B0-4847 TCGA-B0-4848 TCGA-B0-4849 TCGA-B0-4852 TCGA-B0-4945 
       39.45        26.07        29.03         2.27        36.85        70.52 
TCGA-B0-5075 TCGA-B0-5077 TCGA-B0-5081 TCGA-B0-5084 TCGA-B0-5085 TCGA-B0-5088 
       20.94        43.30        11.90         7.30        25.32        18.51 
TCGA-B0-5092 TCGA-B0-5094 TCGA-B0-5095 TCGA-B0-5096 TCGA-B0-5097 TCGA-B0-5098 
       15.09        10.95         8.05         2.24        21.86        52.08 
TCGA-B0-5099 TCGA-B0-5102 TCGA-B0-5104 TCGA-B0-5107 TCGA-B0-5108 TCGA-B0-5110 
       15.95        90.87        90.48        30.48        58.59        66.05 
TCGA-B0-5113 TCGA-B0-5115 TCGA-B0-5116 TCGA-B0-5119 TCGA-B0-5120 TCGA-B0-5121 
       38.63        52.73        41.88        51.02        38.43        48.82 
TCGA-B0-5399 TCGA-B0-5402 TCGA-B0-5690 TCGA-B0-5692 TCGA-B0-5693 TCGA-B0-5694 
       46.39        42.41       111.52       129.67       133.94        15.78 
TCGA-B0-5695 TCGA-B0-5696 TCGA-B0-5697 TCGA-B0-5698 TCGA-B0-5699 TCGA-B0-5701 
       70.68        85.78        86.47       119.38       126.28        80.91 
TCGA-B0-5702 TCGA-B0-5703 TCGA-B0-5705 TCGA-B0-5706 TCGA-B0-5709 TCGA-B0-5710 
       71.41        73.84       149.16       105.37       130.65        79.89 
TCGA-B0-5711 TCGA-B0-5712 TCGA-B0-5713 TCGA-B0-5812 TCGA-B2-3924 TCGA-B2-4099 
      131.15        89.49        91.46       126.05        35.90        31.96 
TCGA-B2-4101 TCGA-B2-4102 TCGA-B2-5633 TCGA-B2-5639 TCGA-B2-5641 TCGA-B2-A4SR 
       21.30        31.30        31.66        32.98        21.57        16.67 
TCGA-B4-5377 TCGA-B4-5832 TCGA-B4-5834 TCGA-B4-5835 TCGA-B4-5836 TCGA-B4-5838 
       12.00         5.10         0.85         0.53         4.64         5.46 
TCGA-B4-5843 TCGA-B4-5844 TCGA-B8-4143 TCGA-B8-4146 TCGA-B8-4148 TCGA-B8-4151 
        0.36         0.23        23.31        16.80        27.16        42.71 
TCGA-B8-4153 TCGA-B8-4154 TCGA-B8-4620 TCGA-B8-4622 TCGA-B8-5158 TCGA-B8-5159 
       25.05        45.37        25.55        50.14        20.91        23.74 
TCGA-B8-5162 TCGA-B8-5163 TCGA-B8-5164 TCGA-B8-5165 TCGA-B8-5549 TCGA-B8-5550 
        1.18        27.02         0.85        24.23         6.38        48.53 
TCGA-B8-5551 TCGA-B8-5552 TCGA-B8-5553 TCGA-B8-A54D TCGA-B8-A54F TCGA-B8-A54G 
        0.53        34.39        14.30        27.29        17.06         1.74 
TCGA-B8-A54H TCGA-B8-A54I TCGA-B8-A54J TCGA-B8-A7U6 TCGA-BP-4158 TCGA-BP-4159 
        8.42         4.93        17.36        16.27       111.02        85.51 
TCGA-BP-4160 TCGA-BP-4161 TCGA-BP-4162 TCGA-BP-4163 TCGA-BP-4164 TCGA-BP-4165 
       94.72        90.28       101.06        93.34        32.61        99.85 
TCGA-BP-4166 TCGA-BP-4167 TCGA-BP-4169 TCGA-BP-4170 TCGA-BP-4174 TCGA-BP-4176 
        0.43        89.36        23.05        77.03        61.78        64.27 
TCGA-BP-4325 TCGA-BP-4326 TCGA-BP-4327 TCGA-BP-4329 TCGA-BP-4330 TCGA-BP-4331 
       97.45        53.42         3.58        27.78        62.07        80.68 
TCGA-BP-4332 TCGA-BP-4334 TCGA-BP-4335 TCGA-BP-4337 TCGA-BP-4338 TCGA-BP-4340 
       37.25        21.21        15.16         0.07        93.99        18.48 
TCGA-BP-4341 TCGA-BP-4342 TCGA-BP-4343 TCGA-BP-4344 TCGA-BP-4346 TCGA-BP-4347 
       52.24        74.17        62.86        54.77        49.08        44.94 
TCGA-BP-4349 TCGA-BP-4351 TCGA-BP-4352 TCGA-BP-4353 TCGA-BP-4354 TCGA-BP-4355 
       12.23        31.89        11.31        12.33        33.99        31.33 
TCGA-BP-4758 TCGA-BP-4759 TCGA-BP-4761 TCGA-BP-4762 TCGA-BP-4763 TCGA-BP-4765 
       72.59        77.98         5.98        44.15        41.75        71.80 
TCGA-BP-4766 TCGA-BP-4768 TCGA-BP-4771 TCGA-BP-4774 TCGA-BP-4775 TCGA-BP-4776 
       48.07        13.15         5.33        61.97        60.59        13.51 
TCGA-BP-4777 TCGA-BP-4781 TCGA-BP-4782 TCGA-BP-4787 TCGA-BP-4789 TCGA-BP-4797 
       56.91        68.38        11.64        15.78        48.95        36.39 
TCGA-BP-4798 TCGA-BP-4801 TCGA-BP-4803 TCGA-BP-4807 TCGA-BP-4959 TCGA-BP-4960 
       10.98        36.95         6.71         6.94        87.45        71.41 
TCGA-BP-4961 TCGA-BP-4962 TCGA-BP-4963 TCGA-BP-4964 TCGA-BP-4965 TCGA-BP-4968 
       63.62        58.68        60.30        61.22        61.51        57.40 
TCGA-BP-4969 TCGA-BP-4970 TCGA-BP-4971 TCGA-BP-4972 TCGA-BP-4973 TCGA-BP-4974 
       58.98        14.24        48.89        49.38        45.50         6.90 
TCGA-BP-4975 TCGA-BP-4977 TCGA-BP-4981 TCGA-BP-4982 TCGA-BP-4983 TCGA-BP-4985 
       47.11        14.93        36.07        33.34        46.45        31.30 
TCGA-BP-4986 TCGA-BP-4987 TCGA-BP-4989 TCGA-BP-4991 TCGA-BP-4992 TCGA-BP-4993 
       25.81        36.95         3.88        46.45        16.47         5.82 
TCGA-BP-4995 TCGA-BP-4998 TCGA-BP-4999 TCGA-BP-5000 TCGA-BP-5001 TCGA-BP-5004 
       45.07        30.64        41.62        18.51        38.70        37.02 
TCGA-BP-5006 TCGA-BP-5007 TCGA-BP-5008 TCGA-BP-5009 TCGA-BP-5010 TCGA-BP-5168 
       27.62        37.48        35.21        36.23        28.87        48.10 
TCGA-BP-5169 TCGA-BP-5170 TCGA-BP-5173 TCGA-BP-5174 TCGA-BP-5175 TCGA-BP-5176 
        6.35        79.30         1.74        74.20        30.64        52.27 
TCGA-BP-5177 TCGA-BP-5178 TCGA-BP-5180 TCGA-BP-5181 TCGA-BP-5182 TCGA-BP-5183 
        9.63        62.86        74.40        49.15        38.30        42.44 
TCGA-BP-5184 TCGA-BP-5185 TCGA-BP-5186 TCGA-BP-5187 TCGA-BP-5189 TCGA-BP-5190 
       37.25        37.22        22.78        13.35        27.02        33.24 
TCGA-BP-5191 TCGA-BP-5192 TCGA-BP-5194 TCGA-BP-5195 TCGA-BP-5196 TCGA-BP-5198 
       31.79        23.47        13.41        24.62        33.47        19.82 
TCGA-BP-5199 TCGA-BP-5200 TCGA-BP-5201 TCGA-BP-5202 TCGA-CJ-4634 TCGA-CJ-4635 
       44.55        34.95        31.27         0.95       115.00        46.55 
TCGA-CJ-4636 TCGA-CJ-4637 TCGA-CJ-4638 TCGA-CJ-4639 TCGA-CJ-4640 TCGA-CJ-4641 
       63.25        73.22        14.17       106.16       114.41        54.61 
TCGA-CJ-4642 TCGA-CJ-4643 TCGA-CJ-4644 TCGA-CJ-4868 TCGA-CJ-4869 TCGA-CJ-4870 
      105.37        58.95        11.05        21.24        83.97        49.25 
TCGA-CJ-4871 TCGA-CJ-4872 TCGA-CJ-4873 TCGA-CJ-4874 TCGA-CJ-4875 TCGA-CJ-4876 
       79.66        10.72        74.27        75.06       116.84        64.27 
TCGA-CJ-4878 TCGA-CJ-4881 TCGA-CJ-4882 TCGA-CJ-4884 TCGA-CJ-4885 TCGA-CJ-4886 
       71.87        66.21        61.91        57.83       113.46        64.18 
TCGA-CJ-4887 TCGA-CJ-4888 TCGA-CJ-4891 TCGA-CJ-4892 TCGA-CJ-4893 TCGA-CJ-4894 
       30.64        51.52        26.93        50.01        24.66        27.65 
TCGA-CJ-4895 TCGA-CJ-4897 TCGA-CJ-4899 TCGA-CJ-4900 TCGA-CJ-4901 TCGA-CJ-4902 
       39.45       109.84        50.24        56.35        47.67        49.97 
TCGA-CJ-4903 TCGA-CJ-4904 TCGA-CJ-4905 TCGA-CJ-4907 TCGA-CJ-4908 TCGA-CJ-4913 
       51.25       108.56        49.18        49.28        50.33        38.56 
TCGA-CJ-4916 TCGA-CJ-4918 TCGA-CJ-4920 TCGA-CJ-4923 TCGA-CJ-5671 TCGA-CJ-5672 
       45.14         3.06         4.57        18.81       131.08        72.00 
TCGA-CJ-5675 TCGA-CJ-5676 TCGA-CJ-5677 TCGA-CJ-5678 TCGA-CJ-5679 TCGA-CJ-5680 
      129.40       133.71        25.71        18.87        22.32        25.25 
TCGA-CJ-5681 TCGA-CJ-5682 TCGA-CJ-5683 TCGA-CJ-5684 TCGA-CJ-5686 TCGA-CJ-5689 
       18.15       122.83        62.10        73.35        67.00        53.26 
TCGA-CJ-6027 TCGA-CJ-6028 TCGA-CJ-6030 TCGA-CJ-6031 TCGA-CJ-6032 TCGA-CJ-6033 
      118.85        53.42        75.58        62.66       119.64         7.36 
TCGA-CW-5580 TCGA-CW-5581 TCGA-CW-5583 TCGA-CW-5584 TCGA-CW-5585 TCGA-CW-5587 
       64.57        92.02        81.83         5.39        85.78        73.18 
TCGA-CW-5588 TCGA-CW-5589 TCGA-CW-5591 TCGA-CW-6088 TCGA-CW-6090 TCGA-CW-6093 
       66.31        78.18        74.66       105.93        83.90       103.43 
TCGA-CW-6097 TCGA-CZ-4853 TCGA-CZ-4854 TCGA-CZ-4856 TCGA-CZ-4857 TCGA-CZ-4858 
       18.77        25.45        46.16         0.59        47.08        69.21 
TCGA-CZ-4859 TCGA-CZ-4860 TCGA-CZ-4861 TCGA-CZ-4863 TCGA-CZ-4864 TCGA-CZ-4865 
       58.75         6.77        14.66        63.39        93.04         5.46 
TCGA-CZ-4866 TCGA-CZ-5451 TCGA-CZ-5452 TCGA-CZ-5453 TCGA-CZ-5454 TCGA-CZ-5455 
       61.41        63.42        58.82        79.53        23.74        18.44 
TCGA-CZ-5456 TCGA-CZ-5457 TCGA-CZ-5458 TCGA-CZ-5459 TCGA-CZ-5460 TCGA-CZ-5461 
       79.63        90.54        91.69        55.33        94.45        10.85 
TCGA-CZ-5462 TCGA-CZ-5463 TCGA-CZ-5464 TCGA-CZ-5465 TCGA-CZ-5466 TCGA-CZ-5467 
       10.22        21.76        69.96        84.30        22.52         2.40 
TCGA-CZ-5468 TCGA-CZ-5469 TCGA-CZ-5470 TCGA-CZ-5982 TCGA-CZ-5984 TCGA-CZ-5985 
        1.94        31.10        12.69        80.19        67.96        65.65 
TCGA-CZ-5986 TCGA-CZ-5987 TCGA-CZ-5988 TCGA-CZ-5989 TCGA-DV-5565 TCGA-DV-5566 
       12.26        14.63        22.78        62.63        13.28        45.96 
TCGA-DV-5568 TCGA-DV-5569 TCGA-DV-5573 TCGA-DV-5574 TCGA-DV-5575 TCGA-DV-A4VX 
       12.16        11.67        37.15        66.28        56.84        53.46 
TCGA-DV-A4W0 TCGA-EU-5904 TCGA-EU-5906 TCGA-EU-5907 TCGA-G6-A5PC TCGA-G6-A8L6 
       81.21        18.12         6.77         4.18         7.96        10.29 
TCGA-G6-A8L7 TCGA-G6-A8L8 TCGA-GK-A6C7 TCGA-MM-A563 TCGA-MM-A564 TCGA-MM-A84U 
       70.13        35.87         2.01        19.43        19.96        23.01 
TCGA-MW-A4EC TCGA-2Z-A9JG TCGA-2Z-A9JI TCGA-2Z-A9JK TCGA-5P-A9K3 TCGA-5P-A9K9 
       16.37        54.64        51.52        38.99        15.48        19.36 
TCGA-A4-A57E TCGA-A4-A5Y1 TCGA-AL-3466 TCGA-AL-3473 TCGA-B9-A44B TCGA-B9-A69E 
        8.48        12.99         9.63        62.66         2.10        14.86 
TCGA-BQ-5877 TCGA-BQ-5882 TCGA-BQ-5890 TCGA-BQ-5892 TCGA-DZ-6131 TCGA-G7-6789 
        8.88        21.63         7.66        11.97        79.86         4.01 
TCGA-G7-7501 TCGA-G7-A8LC TCGA-G7-A8LD TCGA-GL-7966 TCGA-IA-A40Y TCGA-J7-8537 
       20.52        23.08        16.90         3.68         2.04        10.55 
TCGA-Q2-A5QZ TCGA-UZ-A9PQ TCGA-WN-A9G9 TCGA-Y8-A8RZ 
       14.07        86.27        26.01         3.68 

$`DEL PEAK  6(3P21.2) WILD-TYPE`
TCGA-KL-8323 TCGA-KL-8325 TCGA-KL-8326 TCGA-KL-8327 TCGA-KL-8328 TCGA-KL-8329 
       38.07        23.84       109.22       137.06       102.81        90.48 
TCGA-KL-8330 TCGA-KL-8331 TCGA-KL-8332 TCGA-KL-8334 TCGA-KL-8335 TCGA-KL-8336 
      108.62        98.96        84.89        96.95        92.55        30.25 
TCGA-KL-8337 TCGA-KL-8338 TCGA-KL-8339 TCGA-KL-8340 TCGA-KL-8342 TCGA-KL-8343 
       44.84        86.56        28.11        66.54        73.91        71.41 
TCGA-KL-8344 TCGA-KL-8345 TCGA-KL-8346 TCGA-KM-8438 TCGA-KM-8439 TCGA-KM-8440 
       28.80        54.74        62.37       151.96        23.28        44.91 
TCGA-KM-8441 TCGA-KM-8442 TCGA-KM-8443 TCGA-KM-8476 TCGA-KM-8477 TCGA-KM-8639 
       28.80        47.24        49.97       123.12        51.06        31.33 
TCGA-KN-8418 TCGA-KN-8419 TCGA-KN-8422 TCGA-KN-8423 TCGA-KN-8424 TCGA-KN-8426 
      129.37        23.47        25.48        25.91        65.19         3.55 
TCGA-KN-8428 TCGA-KN-8429 TCGA-KN-8431 TCGA-KN-8433 TCGA-KN-8434 TCGA-KN-8435 
       52.27        87.12        19.33        11.21        59.08       115.00 
TCGA-KN-8437 TCGA-KO-8403 TCGA-KO-8404 TCGA-KO-8405 TCGA-KO-8406 TCGA-KO-8407 
      100.87       105.47        10.68       100.47       103.40        92.71 
TCGA-KO-8408 TCGA-KO-8410 TCGA-KO-8411 TCGA-KO-8413 TCGA-KO-8416 TCGA-KO-8417 
       16.67       103.10       130.13        99.88        90.48        92.55 
TCGA-6D-AA2E TCGA-A3-3363 TCGA-A3-3374 TCGA-A3-3385 TCGA-AK-3427 TCGA-AK-3440 
       11.90        10.49        43.20        65.52       117.80        94.19 
TCGA-AK-3443 TCGA-AK-3444 TCGA-AK-3447 TCGA-AK-3453 TCGA-AK-3456 TCGA-AK-3465 
       46.78        48.36        40.01        83.21        37.58        12.13 
TCGA-AS-3777 TCGA-B0-4688 TCGA-B0-4698 TCGA-B0-4699 TCGA-B0-4700 TCGA-B0-4834 
       40.70         3.32         1.38         3.62        65.10        68.71 
TCGA-B0-4839 TCGA-B0-5080 TCGA-B0-5100 TCGA-B0-5106 TCGA-B0-5109 TCGA-B0-5117 
       53.88        11.24        62.89        52.54        19.30        52.87 
TCGA-B0-5400 TCGA-B0-5691 TCGA-B2-3923 TCGA-B2-4098 TCGA-B2-5635 TCGA-B4-5378 
       56.98       112.80        32.61         1.68        24.82         5.75 
TCGA-B8-4619 TCGA-B8-4621 TCGA-B8-5545 TCGA-B8-5546 TCGA-B8-A54E TCGA-B8-A54K 
       17.19        25.91        50.14        16.60        29.88        15.42 
TCGA-B8-A8YJ TCGA-BP-4173 TCGA-BP-4177 TCGA-BP-4756 TCGA-BP-4760 TCGA-BP-4769 
       14.17        62.24        54.90        12.30        77.62        61.68 
TCGA-BP-4770 TCGA-BP-4784 TCGA-BP-4790 TCGA-BP-4795 TCGA-BP-4799 TCGA-BP-4804 
       10.82        60.95        36.53        20.38        37.25        47.97 
TCGA-BP-4967 TCGA-BP-4976 TCGA-BP-4988 TCGA-BP-4994 TCGA-CJ-4889 TCGA-CJ-4890 
        6.74        53.65        27.22        43.00        63.98       115.69 
TCGA-CJ-4912 TCGA-CW-6087 TCGA-CZ-4862 TCGA-DV-5567 TCGA-DV-5576 TCGA-DV-A4VZ 
       54.48         1.35       107.54        65.88        23.90        12.00 
TCGA-EU-5905 TCGA-T7-A92I TCGA-2K-A9WE TCGA-2Z-A9J1 TCGA-2Z-A9J2 TCGA-2Z-A9J3 
        3.91        11.70         7.04        75.55        59.01        58.22 
TCGA-2Z-A9J5 TCGA-2Z-A9J6 TCGA-2Z-A9J7 TCGA-2Z-A9J8 TCGA-2Z-A9J9 TCGA-2Z-A9JD 
      100.27        56.91         4.57        91.73        75.42        34.85 
TCGA-2Z-A9JE TCGA-2Z-A9JJ TCGA-2Z-A9JL TCGA-2Z-A9JM TCGA-2Z-A9JN TCGA-2Z-A9JO 
       56.81        39.88        33.07        30.71        24.33        31.20 
TCGA-2Z-A9JP TCGA-2Z-A9JQ TCGA-2Z-A9JR TCGA-2Z-A9JS TCGA-2Z-A9JT TCGA-4A-A93W 
       29.36        25.58         5.29        16.18        22.49         0.13 
TCGA-4A-A93X TCGA-4A-A93Y TCGA-5P-A9JU TCGA-5P-A9JV TCGA-5P-A9JW TCGA-5P-A9JY 
       12.82        11.57        12.26        67.17       106.55        49.58 
TCGA-5P-A9JZ TCGA-5P-A9K0 TCGA-5P-A9K2 TCGA-5P-A9K4 TCGA-5P-A9K6 TCGA-5P-A9K8 
       90.21        22.26        78.64        71.80        62.93        43.04 
TCGA-5P-A9KA TCGA-5P-A9KC TCGA-5P-A9KE TCGA-5P-A9KH TCGA-A4-7286 TCGA-A4-7287 
       12.99        12.39        27.09        67.43        18.21        19.63 
TCGA-A4-7288 TCGA-A4-7583 TCGA-A4-7584 TCGA-A4-7585 TCGA-A4-7732 TCGA-A4-7734 
       61.05         0.10        21.37        35.18        19.13         0.89 
TCGA-A4-7828 TCGA-A4-7915 TCGA-A4-7996 TCGA-A4-7997 TCGA-A4-8098 TCGA-A4-8310 
        7.82         0.23        16.64        30.48        29.46        25.64 
TCGA-A4-8311 TCGA-A4-8312 TCGA-A4-8515 TCGA-A4-8516 TCGA-A4-8517 TCGA-A4-8518 
       23.97        23.28        23.31         0.76        19.63        19.73 
TCGA-A4-8630 TCGA-A4-A48D TCGA-A4-A4ZT TCGA-A4-A5DU TCGA-A4-A5XZ TCGA-A4-A5Y0 
       14.33        12.46        16.96        16.31        15.75         8.28 
TCGA-A4-A6HP TCGA-AL-3467 TCGA-AL-3468 TCGA-AL-3471 TCGA-AL-3472 TCGA-AL-7173 
       12.46        70.19        76.64        49.32        66.71        67.73 
TCGA-AL-A5DJ TCGA-AT-A5NU TCGA-B1-5398 TCGA-B1-7332 TCGA-B1-A47M TCGA-B1-A47N 
       49.25         2.20        19.56        37.51        21.67        24.56 
TCGA-B1-A47O TCGA-B1-A654 TCGA-B1-A655 TCGA-B1-A656 TCGA-B1-A657 TCGA-B3-3925 
       16.87        20.25        16.77        20.32        21.07        33.83 
TCGA-B3-3926 TCGA-B3-4103 TCGA-B3-4104 TCGA-B3-8121 TCGA-B3-A6W5 TCGA-B9-4113 
       10.09        30.58        34.49        12.46        10.16        50.50 
TCGA-B9-4114 TCGA-B9-4115 TCGA-B9-4116 TCGA-B9-4117 TCGA-B9-4617 TCGA-B9-5155 
       28.18        26.40        20.61         0.46         1.15        15.12 
TCGA-B9-5156 TCGA-B9-7268 TCGA-B9-A5W7 TCGA-B9-A5W8 TCGA-B9-A5W9 TCGA-B9-A8YH 
       43.99        22.06        19.23        17.23         0.16        17.49 
TCGA-B9-A8YI TCGA-BQ-5875 TCGA-BQ-5876 TCGA-BQ-5878 TCGA-BQ-5879 TCGA-BQ-5880 
       12.30        86.76        19.27        63.72        22.92        43.20 
TCGA-BQ-5881 TCGA-BQ-5883 TCGA-BQ-5884 TCGA-BQ-5885 TCGA-BQ-5886 TCGA-BQ-5887 
       47.80        40.83        26.04        30.28        26.04        25.35 
TCGA-BQ-5888 TCGA-BQ-5889 TCGA-BQ-5891 TCGA-BQ-5893 TCGA-BQ-5894 TCGA-BQ-7044 
       13.25        10.82         0.95         7.92         2.76       123.62 
TCGA-BQ-7045 TCGA-BQ-7046 TCGA-BQ-7048 TCGA-BQ-7049 TCGA-BQ-7050 TCGA-BQ-7051 
       48.26        96.92        93.34        44.84        61.28        50.40 
TCGA-BQ-7053 TCGA-BQ-7055 TCGA-BQ-7056 TCGA-BQ-7058 TCGA-BQ-7059 TCGA-BQ-7060 
       49.84        26.27        20.12        11.28         7.63         7.04 
TCGA-BQ-7061 TCGA-BQ-7062 TCGA-DW-5560 TCGA-DW-5561 TCGA-DW-7834 TCGA-DW-7836 
        7.17         3.81        48.85        13.61       129.86        35.93 
TCGA-DW-7837 TCGA-DW-7838 TCGA-DW-7839 TCGA-DW-7840 TCGA-DW-7841 TCGA-DW-7842 
       37.55        24.46        13.78         3.75        14.63         3.02 
TCGA-DW-7963 TCGA-DZ-6132 TCGA-DZ-6133 TCGA-DZ-6134 TCGA-DZ-6135 TCGA-EV-5901 
       40.77        80.88        51.19        61.02        74.60        34.19 
TCGA-EV-5902 TCGA-EV-5903 TCGA-F9-A4JJ TCGA-F9-A7Q0 TCGA-F9-A7VF TCGA-F9-A8NY 
       19.00        24.89        10.68        13.08         2.40         1.18 
TCGA-F9-A97G TCGA-G7-6790 TCGA-G7-6792 TCGA-G7-6793 TCGA-G7-6795 TCGA-G7-6796 
        0.43        51.78        90.90        11.05        39.25        71.44 
TCGA-G7-6797 TCGA-G7-7502 TCGA-G7-A4TM TCGA-G7-A8LB TCGA-G7-A8LE TCGA-GL-6846 
       25.15        25.84         6.38        17.98        80.65       194.79 
TCGA-GL-7773 TCGA-GL-8500 TCGA-GL-A4EM TCGA-GL-A59R TCGA-GL-A59T TCGA-GL-A9DC 
       12.92        27.65         1.05        12.43        17.95        12.89 
TCGA-GL-A9DD TCGA-GL-A9DE TCGA-HE-A5NF TCGA-HE-A5NH TCGA-HE-A5NI TCGA-HE-A5NJ 
       11.21        16.31        84.89        26.01        11.84        56.75 
TCGA-HE-A5NK TCGA-HE-A5NL TCGA-IA-A40U TCGA-IA-A40X TCGA-IA-A83S TCGA-IA-A83T 
       73.25        25.22        16.80        19.99        85.78        88.24 
TCGA-IA-A83V TCGA-IA-A83W TCGA-IZ-8195 TCGA-IZ-8196 TCGA-IZ-A6M8 TCGA-IZ-A6M9 
       96.69        67.17        22.26        21.34        16.34        12.36 
TCGA-J7-6720 TCGA-KV-A6GD TCGA-KV-A6GE TCGA-KV-A74V TCGA-MH-A55W TCGA-MH-A55Z 
       12.76        18.41        29.10        11.41        34.29        27.78 
TCGA-MH-A560 TCGA-MH-A561 TCGA-MH-A562 TCGA-MH-A854 TCGA-MH-A855 TCGA-MH-A856 
       30.38        27.65        20.25        17.62        12.13        31.13 
TCGA-MH-A857 TCGA-O9-A75Z TCGA-P4-A5E6 TCGA-P4-A5E7 TCGA-P4-A5E8 TCGA-P4-A5EA 
       29.26        15.48        99.78        87.09        42.94         6.61 
TCGA-P4-A5EB TCGA-P4-A5ED TCGA-P4-AAVK TCGA-P4-AAVL TCGA-P4-AAVM TCGA-P4-AAVO 
       99.12        92.58        52.27        16.01        50.60        78.90 
TCGA-PJ-A5Z8 TCGA-PJ-A5Z9 TCGA-SX-A71R TCGA-SX-A71S TCGA-SX-A71U TCGA-SX-A71V 
       19.73        17.75        47.90        49.45        44.61        28.80 
TCGA-SX-A7SL TCGA-SX-A7SM TCGA-SX-A7SN TCGA-SX-A7SO TCGA-SX-A7SP TCGA-SX-A7SQ 
       27.06        11.93        19.00        41.33        16.31        41.62 
TCGA-SX-A7SR TCGA-SX-A7SS TCGA-SX-A7SU TCGA-UN-AAZ9 TCGA-UZ-A9PJ TCGA-UZ-A9PK 
       26.47        53.10        43.76        18.02        26.20       117.40 
TCGA-UZ-A9PL TCGA-UZ-A9PM TCGA-UZ-A9PN TCGA-UZ-A9PO TCGA-UZ-A9PP TCGA-UZ-A9PR 
      103.63       125.29        37.35        62.83        98.96        86.37 
TCGA-UZ-A9PS TCGA-UZ-A9PU TCGA-UZ-A9PV TCGA-UZ-A9PX TCGA-UZ-A9PZ TCGA-UZ-A9Q0 
       71.24        30.67        47.47        65.13        21.60       110.73 
TCGA-UZ-A9Q1 TCGA-V9-A7HT TCGA-WN-AB4C TCGA-Y8-A894 TCGA-Y8-A895 TCGA-Y8-A896 
       51.35        31.73        39.06        18.64        15.91        18.64 
TCGA-Y8-A897 TCGA-Y8-A898 TCGA-Y8-A8RY TCGA-Y8-A8S0 TCGA-Y8-A8S1 
       18.05        15.62        25.28         6.02        13.28 

  DEL PEAK  6(3P21.2) MUTATED DEL PEAK  6(3P21.2) WILD-TYPE 
                         0.07                          0.10 
  DEL PEAK  6(3P21.2) MUTATED DEL PEAK  6(3P21.2) WILD-TYPE 
                       149.16                        194.79 
  DEL PEAK  6(3P21.2) MUTATED DEL PEAK  6(3P21.2) WILD-TYPE 
                       37.315                        29.360 
[1] "0.1 - 149.2 (37.3)" "0.1 - 194.8 (29.4)"
[1] "hr=" "2.1"
D19V2, continuous
                               vv
clus                            STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK  6(3P21.2) MUTATED       228       57       135       81
  DEL PEAK  6(3P21.2) WILD-TYPE     227       47        56       23
D19V3, multiclass
           clus
vv          DEL PEAK  6(3P21.2) MUTATED DEL PEAK  6(3P21.2) WILD-TYPE
  STAGE I                           228                           227
  STAGE II                           57                            47
  STAGE III                         135                            56
  STAGE IV                           81                            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"
                               vv
clus                             T1  T2  T3  T4
  DEL PEAK  6(3P21.2) MUTATED   234  72 190   7
  DEL PEAK  6(3P21.2) WILD-TYPE 245  55  68   8
D19V4, multiclass
    clus
vv   DEL PEAK  6(3P21.2) MUTATED DEL PEAK  6(3P21.2) WILD-TYPE
  T1                         234                           245
  T2                          72                            55
  T3                         190                            68
  T4                           7                             8
[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                             N0  N1  N2
  DEL PEAK  6(3P21.2) MUTATED   220  25   3
  DEL PEAK  6(3P21.2) WILD-TYPE 102  19   4
D19V5, multiclass
    clus
vv   DEL PEAK  6(3P21.2) MUTATED DEL PEAK  6(3P21.2) WILD-TYPE
  N0                         220                           102
  N1                          25                            19
  N2                           3                             4
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D19V6, binary
                               cls
clus                              0   1
  DEL PEAK  6(3P21.2) MUTATED   379  75
  DEL PEAK  6(3P21.2) WILD-TYPE 166  14
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  6(3P21.2) MUTATED    379   75
  DEL PEAK  6(3P21.2) WILD-TYPE  166   14
   clus
vv  DEL PEAK  6(3P21.2) MUTATED DEL PEAK  6(3P21.2) WILD-TYPE
  0                         379                           166
  1                          75                            14
[1] 2 2
[1] FALSE
D19V7, binary
                               cls
clus                              0   1
  DEL PEAK  6(3P21.2) MUTATED   178 325
  DEL PEAK  6(3P21.2) WILD-TYPE 114 264
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  6(3P21.2) MUTATED    178  325
  DEL PEAK  6(3P21.2) WILD-TYPE  114  264
        clus
vv       DEL PEAK  6(3P21.2) MUTATED DEL PEAK  6(3P21.2) WILD-TYPE
  FEMALE                         178                           114
  MALE                           325                           264
[1] 2 2
[1] FALSE
D19V8, binary
                               cls
clus                              0   1
  DEL PEAK  6(3P21.2) MUTATED   144   2
  DEL PEAK  6(3P21.2) WILD-TYPE 256   1
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  6(3P21.2) MUTATED    144    2
  DEL PEAK  6(3P21.2) WILD-TYPE  256    1
     clus
vv    DEL PEAK  6(3P21.2) MUTATED DEL PEAK  6(3P21.2) WILD-TYPE
  NO                          144                           256
  YES                           2                             1
[1] 2 2
[1] FALSE
D19V9, continuous
                               vv
clus                            KIDNEY CHROMOPHOBE
  DEL PEAK  6(3P21.2) MUTATED                   11
  DEL PEAK  6(3P21.2) WILD-TYPE                 55
                               vv
clus                            KIDNEY CLEAR CELL RENAL CARCINOMA
  DEL PEAK  6(3P21.2) MUTATED                                 465
  DEL PEAK  6(3P21.2) WILD-TYPE                                63
                               vv
clus                            KIDNEY PAPILLARY RENAL CELL CARCINOMA
  DEL PEAK  6(3P21.2) MUTATED                                      27
  DEL PEAK  6(3P21.2) WILD-TYPE                                   260
D19V10, multiclass
                                       clus
vv                                      DEL PEAK  6(3P21.2) MUTATED
  KIDNEY CHROMOPHOBE                                             11
  KIDNEY CLEAR CELL RENAL CARCINOMA                             465
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                          27
                                       clus
vv                                      DEL PEAK  6(3P21.2) WILD-TYPE
  KIDNEY CHROMOPHOBE                                               55
  KIDNEY CLEAR CELL RENAL CARCINOMA                                63
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                           260
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D19V11, continuous
D19V12, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK  6(3P21.2) MUTATED                                  0     8
  DEL PEAK  6(3P21.2) WILD-TYPE                                2     7
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  6(3P21.2) MUTATED                          43   444
  DEL PEAK  6(3P21.2) WILD-TYPE                        78   275
D19V13, multiclass
                                  clus
vv                                 DEL PEAK  6(3P21.2) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                      8
  BLACK OR AFRICAN AMERICAN                                 43
  WHITE                                                    444
                                  clus
vv                                 DEL PEAK  6(3P21.2) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             2
  ASIAN                                                        7
  BLACK OR AFRICAN AMERICAN                                   78
  WHITE                                                      275
[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"
D19V14, binary
                               cls
clus                              0   1
  DEL PEAK  6(3P21.2) MUTATED    24 333
  DEL PEAK  6(3P21.2) WILD-TYPE  18 288
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  6(3P21.2) MUTATED     24  333
  DEL PEAK  6(3P21.2) WILD-TYPE   18  288
                        clus
vv                       DEL PEAK  6(3P21.2) MUTATED
  HISPANIC OR LATINO                              24
  NOT HISPANIC OR LATINO                         333
                        clus
vv                       DEL PEAK  6(3P21.2) WILD-TYPE
  HISPANIC OR LATINO                                18
  NOT HISPANIC OR LATINO                           288
[1] 2 2
[1] FALSE

Clustering(20) Variable = DEL PEAK  7(3P14.1) MUTATION ANALYSIS
D20V1, survival
                               sevent
clus2                             0   1
  DEL PEAK  7(3P14.1) MUTATED   272 136
  DEL PEAK  7(3P14.1) WILD-TYPE 373  92
  DEL PEAK  7(3P14.1) MUTATED DEL PEAK  7(3P14.1) WILD-TYPE 
                          408                           465 
  DEL PEAK  7(3P14.1) MUTATED DEL PEAK  7(3P14.1) WILD-TYPE 
                          136                            92 
$`DEL PEAK  7(3P14.1) MUTATED`
TCGA-KL-8324 TCGA-KL-8333 TCGA-KL-8341 TCGA-KN-8421 TCGA-KN-8425 TCGA-KN-8427 
      141.73        98.33        24.79        87.91       104.52         0.99 
TCGA-KN-8432 TCGA-KN-8436 TCGA-KO-8409 TCGA-KO-8414 TCGA-KO-8415 TCGA-3Z-A93Z 
        2.50        42.35       104.55       105.60        96.62        12.66 
TCGA-A3-3306 TCGA-A3-3307 TCGA-A3-3311 TCGA-A3-3313 TCGA-A3-3316 TCGA-A3-3317 
       36.82        47.21        39.16        24.16        49.08        49.02 
TCGA-A3-3319 TCGA-A3-3320 TCGA-A3-3322 TCGA-A3-3323 TCGA-A3-3324 TCGA-A3-3325 
       37.15        49.58        48.59        36.36        38.99        38.47 
TCGA-A3-3331 TCGA-A3-3335 TCGA-A3-3336 TCGA-A3-3346 TCGA-A3-3347 TCGA-A3-3351 
       48.82        62.01        34.29         4.50        52.93        29.92 
TCGA-A3-3352 TCGA-A3-3357 TCGA-A3-3358 TCGA-A3-3359 TCGA-A3-3365 TCGA-A3-3367 
       18.44        88.37        42.97        82.32        28.70        74.63 
TCGA-A3-3370 TCGA-A3-3372 TCGA-A3-3373 TCGA-A3-3376 TCGA-A3-3378 TCGA-A3-3380 
       74.76        24.16        53.29        55.76        20.71        18.64 
TCGA-A3-3382 TCGA-A3-3383 TCGA-A3-3387 TCGA-A3-A6NI TCGA-A3-A6NJ TCGA-A3-A6NL 
       18.87        28.31        20.28        33.47        15.39        22.65 
TCGA-A3-A6NN TCGA-A3-A8CQ TCGA-A3-A8OV TCGA-A3-A8OW TCGA-AK-3425 TCGA-AK-3426 
        0.10         0.10        11.18        10.62       109.91        29.10 
TCGA-AK-3429 TCGA-AK-3430 TCGA-AK-3431 TCGA-AK-3433 TCGA-AK-3434 TCGA-AK-3436 
      109.41        15.78        73.68       112.08        68.61       109.51 
TCGA-AK-3445 TCGA-AK-3450 TCGA-AK-3451 TCGA-AK-3454 TCGA-AK-3455 TCGA-AK-3458 
       78.64        49.28        94.29        28.73        22.45        38.40 
TCGA-AK-3460 TCGA-AK-3461 TCGA-AS-3778 TCGA-B0-4690 TCGA-B0-4693 TCGA-B0-4694 
       82.45        72.89         1.41         1.41         2.53         3.48 
TCGA-B0-4696 TCGA-B0-4697 TCGA-B0-4703 TCGA-B0-4706 TCGA-B0-4707 TCGA-B0-4710 
       28.47        19.00         5.98         2.14        19.73        57.70 
TCGA-B0-4712 TCGA-B0-4713 TCGA-B0-4810 TCGA-B0-4811 TCGA-B0-4813 TCGA-B0-4815 
       43.96         6.64        15.72        46.59         0.59        52.21 
TCGA-B0-4816 TCGA-B0-4817 TCGA-B0-4818 TCGA-B0-4821 TCGA-B0-4822 TCGA-B0-4823 
       45.07        33.50        16.77        40.44        36.53        14.93 
TCGA-B0-4824 TCGA-B0-4827 TCGA-B0-4828 TCGA-B0-4833 TCGA-B0-4836 TCGA-B0-4837 
       54.48        29.10        10.09        78.44        40.70        45.30 
TCGA-B0-4838 TCGA-B0-4841 TCGA-B0-4842 TCGA-B0-4843 TCGA-B0-4845 TCGA-B0-4846 
       27.42         6.71        56.68        10.52        65.29        39.45 
TCGA-B0-4847 TCGA-B0-4848 TCGA-B0-4849 TCGA-B0-4945 TCGA-B0-5075 TCGA-B0-5077 
       26.07        29.03         2.27        70.52        20.94        43.30 
TCGA-B0-5084 TCGA-B0-5088 TCGA-B0-5092 TCGA-B0-5094 TCGA-B0-5095 TCGA-B0-5096 
        7.30        18.51        15.09        10.95         8.05         2.24 
TCGA-B0-5097 TCGA-B0-5098 TCGA-B0-5099 TCGA-B0-5102 TCGA-B0-5104 TCGA-B0-5108 
       21.86        52.08        15.95        90.87        90.48        58.59 
TCGA-B0-5110 TCGA-B0-5113 TCGA-B0-5115 TCGA-B0-5116 TCGA-B0-5119 TCGA-B0-5120 
       66.05        38.63        52.73        41.88        51.02        38.43 
TCGA-B0-5399 TCGA-B0-5402 TCGA-B0-5690 TCGA-B0-5692 TCGA-B0-5693 TCGA-B0-5694 
       46.39        42.41       111.52       129.67       133.94        15.78 
TCGA-B0-5696 TCGA-B0-5697 TCGA-B0-5698 TCGA-B0-5699 TCGA-B0-5701 TCGA-B0-5702 
       85.78        86.47       119.38       126.28        80.91        71.41 
TCGA-B0-5703 TCGA-B0-5706 TCGA-B0-5709 TCGA-B0-5710 TCGA-B0-5711 TCGA-B0-5712 
       73.84       105.37       130.65        79.89       131.15        89.49 
TCGA-B0-5713 TCGA-B2-3924 TCGA-B2-4099 TCGA-B2-5633 TCGA-B2-5639 TCGA-B2-5641 
       91.46        35.90        31.96        31.66        32.98        21.57 
TCGA-B2-A4SR TCGA-B4-5377 TCGA-B4-5832 TCGA-B4-5834 TCGA-B4-5835 TCGA-B4-5836 
       16.67        12.00         5.10         0.85         0.53         4.64 
TCGA-B4-5843 TCGA-B4-5844 TCGA-B8-4143 TCGA-B8-4146 TCGA-B8-4148 TCGA-B8-4620 
        0.36         0.23        23.31        16.80        27.16        25.55 
TCGA-B8-4622 TCGA-B8-5159 TCGA-B8-5162 TCGA-B8-5163 TCGA-B8-5164 TCGA-B8-5549 
       50.14        23.74         1.18        27.02         0.85         6.38 
TCGA-B8-5551 TCGA-B8-5552 TCGA-B8-A54D TCGA-B8-A54F TCGA-B8-A54G TCGA-B8-A54H 
        0.53        34.39        27.29        17.06         1.74         8.42 
TCGA-B8-A54I TCGA-B8-A54J TCGA-BP-4158 TCGA-BP-4159 TCGA-BP-4160 TCGA-BP-4163 
        4.93        17.36       111.02        85.51        94.72        93.34 
TCGA-BP-4164 TCGA-BP-4165 TCGA-BP-4166 TCGA-BP-4167 TCGA-BP-4169 TCGA-BP-4170 
       32.61        99.85         0.43        89.36        23.05        77.03 
TCGA-BP-4174 TCGA-BP-4176 TCGA-BP-4325 TCGA-BP-4327 TCGA-BP-4329 TCGA-BP-4331 
       61.78        64.27        97.45         3.58        27.78        80.68 
TCGA-BP-4332 TCGA-BP-4338 TCGA-BP-4340 TCGA-BP-4341 TCGA-BP-4342 TCGA-BP-4343 
       37.25        93.99        18.48        52.24        74.17        62.86 
TCGA-BP-4344 TCGA-BP-4346 TCGA-BP-4347 TCGA-BP-4351 TCGA-BP-4352 TCGA-BP-4353 
       54.77        49.08        44.94        31.89        11.31        12.33 
TCGA-BP-4758 TCGA-BP-4761 TCGA-BP-4763 TCGA-BP-4765 TCGA-BP-4766 TCGA-BP-4768 
       72.59         5.98        41.75        71.80        48.07        13.15 
TCGA-BP-4771 TCGA-BP-4774 TCGA-BP-4776 TCGA-BP-4777 TCGA-BP-4781 TCGA-BP-4782 
        5.33        61.97        13.51        56.91        68.38        11.64 
TCGA-BP-4789 TCGA-BP-4797 TCGA-BP-4798 TCGA-BP-4801 TCGA-BP-4803 TCGA-BP-4807 
       48.95        36.39        10.98        36.95         6.71         6.94 
TCGA-BP-4959 TCGA-BP-4960 TCGA-BP-4961 TCGA-BP-4962 TCGA-BP-4963 TCGA-BP-4965 
       87.45        71.41        63.62        58.68        60.30        61.51 
TCGA-BP-4971 TCGA-BP-4974 TCGA-BP-4975 TCGA-BP-4977 TCGA-BP-4982 TCGA-BP-4983 
       48.89         6.90        47.11        14.93        33.34        46.45 
TCGA-BP-4985 TCGA-BP-4986 TCGA-BP-4987 TCGA-BP-4989 TCGA-BP-4991 TCGA-BP-4992 
       31.30        25.81        36.95         3.88        46.45        16.47 
TCGA-BP-4993 TCGA-BP-4995 TCGA-BP-4998 TCGA-BP-4999 TCGA-BP-5000 TCGA-BP-5004 
        5.82        45.07        30.64        41.62        18.51        37.02 
TCGA-BP-5006 TCGA-BP-5008 TCGA-BP-5010 TCGA-BP-5168 TCGA-BP-5169 TCGA-BP-5173 
       27.62        35.21        28.87        48.10         6.35         1.74 
TCGA-BP-5174 TCGA-BP-5176 TCGA-BP-5178 TCGA-BP-5180 TCGA-BP-5181 TCGA-BP-5182 
       74.20        52.27        62.86        74.40        49.15        38.30 
TCGA-BP-5183 TCGA-BP-5184 TCGA-BP-5185 TCGA-BP-5187 TCGA-BP-5189 TCGA-BP-5190 
       42.44        37.25        37.22        13.35        27.02        33.24 
TCGA-BP-5191 TCGA-BP-5192 TCGA-BP-5194 TCGA-BP-5195 TCGA-BP-5196 TCGA-BP-5198 
       31.79        23.47        13.41        24.62        33.47        19.82 
TCGA-BP-5199 TCGA-BP-5200 TCGA-BP-5201 TCGA-CJ-4634 TCGA-CJ-4635 TCGA-CJ-4636 
       44.55        34.95        31.27       115.00        46.55        63.25 
TCGA-CJ-4637 TCGA-CJ-4640 TCGA-CJ-4641 TCGA-CJ-4642 TCGA-CJ-4643 TCGA-CJ-4644 
       73.22       114.41        54.61       105.37        58.95        11.05 
TCGA-CJ-4868 TCGA-CJ-4869 TCGA-CJ-4870 TCGA-CJ-4871 TCGA-CJ-4873 TCGA-CJ-4874 
       21.24        83.97        49.25        79.66        74.27        75.06 
TCGA-CJ-4876 TCGA-CJ-4878 TCGA-CJ-4881 TCGA-CJ-4882 TCGA-CJ-4886 TCGA-CJ-4887 
       64.27        71.87        66.21        61.91        64.18        30.64 
TCGA-CJ-4888 TCGA-CJ-4891 TCGA-CJ-4892 TCGA-CJ-4893 TCGA-CJ-4894 TCGA-CJ-4895 
       51.52        26.93        50.01        24.66        27.65        39.45 
TCGA-CJ-4899 TCGA-CJ-4900 TCGA-CJ-4901 TCGA-CJ-4902 TCGA-CJ-4903 TCGA-CJ-4904 
       50.24        56.35        47.67        49.97        51.25       108.56 
TCGA-CJ-4908 TCGA-CJ-4916 TCGA-CJ-5671 TCGA-CJ-5672 TCGA-CJ-5675 TCGA-CJ-5676 
       50.33        45.14       131.08        72.00       129.40       133.71 
TCGA-CJ-5677 TCGA-CJ-5678 TCGA-CJ-5679 TCGA-CJ-5682 TCGA-CJ-5683 TCGA-CJ-5684 
       25.71        18.87        22.32       122.83        62.10        73.35 
TCGA-CJ-5689 TCGA-CJ-6027 TCGA-CJ-6028 TCGA-CJ-6030 TCGA-CJ-6032 TCGA-CJ-6033 
       53.26       118.85        53.42        75.58       119.64         7.36 
TCGA-CW-5580 TCGA-CW-5583 TCGA-CW-5584 TCGA-CW-5587 TCGA-CW-5588 TCGA-CW-5589 
       64.57        81.83         5.39        73.18        66.31        78.18 
TCGA-CW-5591 TCGA-CW-6088 TCGA-CW-6090 TCGA-CW-6097 TCGA-CZ-4853 TCGA-CZ-4854 
       74.66       105.93        83.90        18.77        25.45        46.16 
TCGA-CZ-4856 TCGA-CZ-4857 TCGA-CZ-4858 TCGA-CZ-4859 TCGA-CZ-4860 TCGA-CZ-4863 
        0.59        47.08        69.21        58.75         6.77        63.39 
TCGA-CZ-4864 TCGA-CZ-4865 TCGA-CZ-5451 TCGA-CZ-5452 TCGA-CZ-5453 TCGA-CZ-5455 
       93.04         5.46        63.42        58.82        79.53        18.44 
TCGA-CZ-5457 TCGA-CZ-5458 TCGA-CZ-5459 TCGA-CZ-5460 TCGA-CZ-5461 TCGA-CZ-5462 
       90.54        91.69        55.33        94.45        10.85        10.22 
TCGA-CZ-5463 TCGA-CZ-5464 TCGA-CZ-5465 TCGA-CZ-5466 TCGA-CZ-5468 TCGA-CZ-5469 
       21.76        69.96        84.30        22.52         1.94        31.10 
TCGA-CZ-5982 TCGA-CZ-5984 TCGA-CZ-5985 TCGA-CZ-5986 TCGA-CZ-5987 TCGA-CZ-5988 
       80.19        67.96        65.65        12.26        14.63        22.78 
TCGA-CZ-5989 TCGA-DV-5565 TCGA-DV-5566 TCGA-DV-5568 TCGA-DV-5573 TCGA-DV-5574 
       62.63        13.28        45.96        12.16        37.15        66.28 
TCGA-DV-5575 TCGA-DV-A4VX TCGA-DV-A4W0 TCGA-EU-5906 TCGA-EU-5907 TCGA-G6-A8L6 
       56.84        53.46        81.21         6.77         4.18        10.29 
TCGA-G6-A8L8 TCGA-GK-A6C7 TCGA-MM-A563 TCGA-MM-A564 TCGA-MM-A84U TCGA-MW-A4EC 
       35.87         2.01        19.43        19.96        23.01        16.37 
TCGA-2Z-A9JG TCGA-2Z-A9JI TCGA-2Z-A9JK TCGA-5P-A9K9 TCGA-A4-A57E TCGA-A4-A5Y1 
       54.64        51.52        38.99        19.36         8.48        12.99 
TCGA-AL-3473 TCGA-B9-A44B TCGA-B9-A69E TCGA-BQ-5877 TCGA-BQ-5882 TCGA-BQ-5890 
       62.66         2.10        14.86         8.88        21.63         7.66 
TCGA-BQ-5892 TCGA-DZ-6131 TCGA-G7-6789 TCGA-G7-A8LC TCGA-G7-A8LD TCGA-GL-7966 
       11.97        79.86         4.01        23.08        16.90         3.68 
TCGA-IA-A40Y TCGA-J7-8537 TCGA-Q2-A5QZ TCGA-UZ-A9PQ TCGA-WN-A9G9 TCGA-Y8-A8RZ 
        2.04        10.55        14.07        86.27        26.01         3.68 

$`DEL PEAK  7(3P14.1) WILD-TYPE`
TCGA-KL-8323 TCGA-KL-8325 TCGA-KL-8326 TCGA-KL-8327 TCGA-KL-8328 TCGA-KL-8329 
       38.07        23.84       109.22       137.06       102.81        90.48 
TCGA-KL-8330 TCGA-KL-8331 TCGA-KL-8332 TCGA-KL-8334 TCGA-KL-8335 TCGA-KL-8336 
      108.62        98.96        84.89        96.95        92.55        30.25 
TCGA-KL-8337 TCGA-KL-8338 TCGA-KL-8339 TCGA-KL-8340 TCGA-KL-8342 TCGA-KL-8343 
       44.84        86.56        28.11        66.54        73.91        71.41 
TCGA-KL-8344 TCGA-KL-8345 TCGA-KL-8346 TCGA-KM-8438 TCGA-KM-8439 TCGA-KM-8440 
       28.80        54.74        62.37       151.96        23.28        44.91 
TCGA-KM-8441 TCGA-KM-8442 TCGA-KM-8443 TCGA-KM-8476 TCGA-KM-8477 TCGA-KM-8639 
       28.80        47.24        49.97       123.12        51.06        31.33 
TCGA-KN-8418 TCGA-KN-8419 TCGA-KN-8422 TCGA-KN-8423 TCGA-KN-8424 TCGA-KN-8426 
      129.37        23.47        25.48        25.91        65.19         3.55 
TCGA-KN-8428 TCGA-KN-8429 TCGA-KN-8431 TCGA-KN-8433 TCGA-KN-8434 TCGA-KN-8435 
       52.27        87.12        19.33        11.21        59.08       115.00 
TCGA-KN-8437 TCGA-KO-8403 TCGA-KO-8404 TCGA-KO-8405 TCGA-KO-8406 TCGA-KO-8407 
      100.87       105.47        10.68       100.47       103.40        92.71 
TCGA-KO-8408 TCGA-KO-8410 TCGA-KO-8411 TCGA-KO-8413 TCGA-KO-8416 TCGA-KO-8417 
       16.67       103.10       130.13        99.88        90.48        92.55 
TCGA-6D-AA2E TCGA-A3-3308 TCGA-A3-3326 TCGA-A3-3343 TCGA-A3-3349 TCGA-A3-3362 
       11.90         0.53        37.38        31.07        45.53        51.25 
TCGA-A3-3363 TCGA-A3-3374 TCGA-A3-3385 TCGA-AK-3427 TCGA-AK-3428 TCGA-AK-3440 
       10.49        43.20        65.52       117.80        73.08        94.19 
TCGA-AK-3443 TCGA-AK-3444 TCGA-AK-3447 TCGA-AK-3453 TCGA-AK-3456 TCGA-AK-3465 
       46.78        48.36        40.01        83.21        37.58        12.13 
TCGA-AS-3777 TCGA-B0-4688 TCGA-B0-4691 TCGA-B0-4698 TCGA-B0-4699 TCGA-B0-4700 
       40.70         3.32         4.57         1.38         3.62        65.10 
TCGA-B0-4701 TCGA-B0-4714 TCGA-B0-4718 TCGA-B0-4814 TCGA-B0-4819 TCGA-B0-4834 
        7.82         3.25        58.45         5.52         6.02        68.71 
TCGA-B0-4839 TCGA-B0-4844 TCGA-B0-4852 TCGA-B0-5080 TCGA-B0-5081 TCGA-B0-5085 
       53.88        10.29        36.85        11.24        11.90        25.32 
TCGA-B0-5100 TCGA-B0-5106 TCGA-B0-5107 TCGA-B0-5109 TCGA-B0-5117 TCGA-B0-5121 
       62.89        52.54        30.48        19.30        52.87        48.82 
TCGA-B0-5400 TCGA-B0-5691 TCGA-B0-5695 TCGA-B0-5705 TCGA-B0-5812 TCGA-B2-3923 
       56.98       112.80        70.68       149.16       126.05        32.61 
TCGA-B2-4098 TCGA-B2-4101 TCGA-B2-4102 TCGA-B2-5635 TCGA-B4-5378 TCGA-B4-5838 
        1.68        21.30        31.30        24.82         5.75         5.46 
TCGA-B8-4151 TCGA-B8-4153 TCGA-B8-4154 TCGA-B8-4619 TCGA-B8-4621 TCGA-B8-5158 
       42.71        25.05        45.37        17.19        25.91        20.91 
TCGA-B8-5165 TCGA-B8-5545 TCGA-B8-5546 TCGA-B8-5550 TCGA-B8-5553 TCGA-B8-A54E 
       24.23        50.14        16.60        48.53        14.30        29.88 
TCGA-B8-A54K TCGA-B8-A7U6 TCGA-B8-A8YJ TCGA-BP-4161 TCGA-BP-4162 TCGA-BP-4173 
       15.42        16.27        14.17        90.28       101.06        62.24 
TCGA-BP-4177 TCGA-BP-4326 TCGA-BP-4330 TCGA-BP-4334 TCGA-BP-4335 TCGA-BP-4337 
       54.90        53.42        62.07        21.21        15.16         0.07 
TCGA-BP-4349 TCGA-BP-4354 TCGA-BP-4355 TCGA-BP-4756 TCGA-BP-4759 TCGA-BP-4760 
       12.23        33.99        31.33        12.30        77.98        77.62 
TCGA-BP-4762 TCGA-BP-4769 TCGA-BP-4770 TCGA-BP-4775 TCGA-BP-4784 TCGA-BP-4787 
       44.15        61.68        10.82        60.59        60.95        15.78 
TCGA-BP-4790 TCGA-BP-4795 TCGA-BP-4799 TCGA-BP-4804 TCGA-BP-4964 TCGA-BP-4967 
       36.53        20.38        37.25        47.97        61.22         6.74 
TCGA-BP-4968 TCGA-BP-4969 TCGA-BP-4970 TCGA-BP-4972 TCGA-BP-4973 TCGA-BP-4976 
       57.40        58.98        14.24        49.38        45.50        53.65 
TCGA-BP-4981 TCGA-BP-4988 TCGA-BP-4994 TCGA-BP-5001 TCGA-BP-5007 TCGA-BP-5009 
       36.07        27.22        43.00        38.70        37.48        36.23 
TCGA-BP-5170 TCGA-BP-5175 TCGA-BP-5177 TCGA-BP-5186 TCGA-BP-5202 TCGA-CJ-4638 
       79.30        30.64         9.63        22.78         0.95        14.17 
TCGA-CJ-4639 TCGA-CJ-4872 TCGA-CJ-4875 TCGA-CJ-4884 TCGA-CJ-4885 TCGA-CJ-4889 
      106.16        10.72       116.84        57.83       113.46        63.98 
TCGA-CJ-4890 TCGA-CJ-4897 TCGA-CJ-4905 TCGA-CJ-4907 TCGA-CJ-4912 TCGA-CJ-4913 
      115.69       109.84        49.18        49.28        54.48        38.56 
TCGA-CJ-4918 TCGA-CJ-4920 TCGA-CJ-4923 TCGA-CJ-5680 TCGA-CJ-5681 TCGA-CJ-5686 
        3.06         4.57        18.81        25.25        18.15        67.00 
TCGA-CJ-6031 TCGA-CW-5581 TCGA-CW-5585 TCGA-CW-6087 TCGA-CW-6093 TCGA-CZ-4861 
       62.66        92.02        85.78         1.35       103.43        14.66 
TCGA-CZ-4862 TCGA-CZ-4866 TCGA-CZ-5454 TCGA-CZ-5456 TCGA-CZ-5467 TCGA-CZ-5470 
      107.54        61.41        23.74        79.63         2.40        12.69 
TCGA-DV-5567 TCGA-DV-5569 TCGA-DV-5576 TCGA-DV-A4VZ TCGA-EU-5904 TCGA-EU-5905 
       65.88        11.67        23.90        12.00        18.12         3.91 
TCGA-G6-A5PC TCGA-G6-A8L7 TCGA-T7-A92I TCGA-2K-A9WE TCGA-2Z-A9J1 TCGA-2Z-A9J2 
        7.96        70.13        11.70         7.04        75.55        59.01 
TCGA-2Z-A9J3 TCGA-2Z-A9J5 TCGA-2Z-A9J6 TCGA-2Z-A9J7 TCGA-2Z-A9J8 TCGA-2Z-A9J9 
       58.22       100.27        56.91         4.57        91.73        75.42 
TCGA-2Z-A9JD TCGA-2Z-A9JE TCGA-2Z-A9JJ TCGA-2Z-A9JL TCGA-2Z-A9JM TCGA-2Z-A9JN 
       34.85        56.81        39.88        33.07        30.71        24.33 
TCGA-2Z-A9JO TCGA-2Z-A9JP TCGA-2Z-A9JQ TCGA-2Z-A9JR TCGA-2Z-A9JS TCGA-2Z-A9JT 
       31.20        29.36        25.58         5.29        16.18        22.49 
TCGA-4A-A93W TCGA-4A-A93X TCGA-4A-A93Y TCGA-5P-A9JU TCGA-5P-A9JV TCGA-5P-A9JW 
        0.13        12.82        11.57        12.26        67.17       106.55 
TCGA-5P-A9JY TCGA-5P-A9JZ TCGA-5P-A9K0 TCGA-5P-A9K2 TCGA-5P-A9K3 TCGA-5P-A9K4 
       49.58        90.21        22.26        78.64        15.48        71.80 
TCGA-5P-A9K6 TCGA-5P-A9K8 TCGA-5P-A9KA TCGA-5P-A9KC TCGA-5P-A9KE TCGA-5P-A9KH 
       62.93        43.04        12.99        12.39        27.09        67.43 
TCGA-A4-7286 TCGA-A4-7287 TCGA-A4-7288 TCGA-A4-7583 TCGA-A4-7584 TCGA-A4-7585 
       18.21        19.63        61.05         0.10        21.37        35.18 
TCGA-A4-7732 TCGA-A4-7734 TCGA-A4-7828 TCGA-A4-7915 TCGA-A4-7996 TCGA-A4-7997 
       19.13         0.89         7.82         0.23        16.64        30.48 
TCGA-A4-8098 TCGA-A4-8310 TCGA-A4-8311 TCGA-A4-8312 TCGA-A4-8515 TCGA-A4-8516 
       29.46        25.64        23.97        23.28        23.31         0.76 
TCGA-A4-8517 TCGA-A4-8518 TCGA-A4-8630 TCGA-A4-A48D TCGA-A4-A4ZT TCGA-A4-A5DU 
       19.63        19.73        14.33        12.46        16.96        16.31 
TCGA-A4-A5XZ TCGA-A4-A5Y0 TCGA-A4-A6HP TCGA-AL-3466 TCGA-AL-3467 TCGA-AL-3468 
       15.75         8.28        12.46         9.63        70.19        76.64 
TCGA-AL-3471 TCGA-AL-3472 TCGA-AL-7173 TCGA-AL-A5DJ TCGA-AT-A5NU TCGA-B1-5398 
       49.32        66.71        67.73        49.25         2.20        19.56 
TCGA-B1-7332 TCGA-B1-A47M TCGA-B1-A47N TCGA-B1-A47O TCGA-B1-A654 TCGA-B1-A655 
       37.51        21.67        24.56        16.87        20.25        16.77 
TCGA-B1-A656 TCGA-B1-A657 TCGA-B3-3925 TCGA-B3-3926 TCGA-B3-4103 TCGA-B3-4104 
       20.32        21.07        33.83        10.09        30.58        34.49 
TCGA-B3-8121 TCGA-B3-A6W5 TCGA-B9-4113 TCGA-B9-4114 TCGA-B9-4115 TCGA-B9-4116 
       12.46        10.16        50.50        28.18        26.40        20.61 
TCGA-B9-4117 TCGA-B9-4617 TCGA-B9-5155 TCGA-B9-5156 TCGA-B9-7268 TCGA-B9-A5W7 
        0.46         1.15        15.12        43.99        22.06        19.23 
TCGA-B9-A5W8 TCGA-B9-A5W9 TCGA-B9-A8YH TCGA-B9-A8YI TCGA-BQ-5875 TCGA-BQ-5876 
       17.23         0.16        17.49        12.30        86.76        19.27 
TCGA-BQ-5878 TCGA-BQ-5879 TCGA-BQ-5880 TCGA-BQ-5881 TCGA-BQ-5883 TCGA-BQ-5884 
       63.72        22.92        43.20        47.80        40.83        26.04 
TCGA-BQ-5885 TCGA-BQ-5886 TCGA-BQ-5887 TCGA-BQ-5888 TCGA-BQ-5889 TCGA-BQ-5891 
       30.28        26.04        25.35        13.25        10.82         0.95 
TCGA-BQ-5893 TCGA-BQ-5894 TCGA-BQ-7044 TCGA-BQ-7045 TCGA-BQ-7046 TCGA-BQ-7048 
        7.92         2.76       123.62        48.26        96.92        93.34 
TCGA-BQ-7049 TCGA-BQ-7050 TCGA-BQ-7051 TCGA-BQ-7053 TCGA-BQ-7055 TCGA-BQ-7056 
       44.84        61.28        50.40        49.84        26.27        20.12 
TCGA-BQ-7058 TCGA-BQ-7059 TCGA-BQ-7060 TCGA-BQ-7061 TCGA-BQ-7062 TCGA-DW-5560 
       11.28         7.63         7.04         7.17         3.81        48.85 
TCGA-DW-5561 TCGA-DW-7834 TCGA-DW-7836 TCGA-DW-7837 TCGA-DW-7838 TCGA-DW-7839 
       13.61       129.86        35.93        37.55        24.46        13.78 
TCGA-DW-7840 TCGA-DW-7841 TCGA-DW-7842 TCGA-DW-7963 TCGA-DZ-6132 TCGA-DZ-6133 
        3.75        14.63         3.02        40.77        80.88        51.19 
TCGA-DZ-6134 TCGA-DZ-6135 TCGA-EV-5901 TCGA-EV-5902 TCGA-EV-5903 TCGA-F9-A4JJ 
       61.02        74.60        34.19        19.00        24.89        10.68 
TCGA-F9-A7Q0 TCGA-F9-A7VF TCGA-F9-A8NY TCGA-F9-A97G TCGA-G7-6790 TCGA-G7-6792 
       13.08         2.40         1.18         0.43        51.78        90.90 
TCGA-G7-6793 TCGA-G7-6795 TCGA-G7-6796 TCGA-G7-6797 TCGA-G7-7501 TCGA-G7-7502 
       11.05        39.25        71.44        25.15        20.52        25.84 
TCGA-G7-A4TM TCGA-G7-A8LB TCGA-G7-A8LE TCGA-GL-6846 TCGA-GL-7773 TCGA-GL-8500 
        6.38        17.98        80.65       194.79        12.92        27.65 
TCGA-GL-A4EM TCGA-GL-A59R TCGA-GL-A59T TCGA-GL-A9DC TCGA-GL-A9DD TCGA-GL-A9DE 
        1.05        12.43        17.95        12.89        11.21        16.31 
TCGA-HE-A5NF TCGA-HE-A5NH TCGA-HE-A5NI TCGA-HE-A5NJ TCGA-HE-A5NK TCGA-HE-A5NL 
       84.89        26.01        11.84        56.75        73.25        25.22 
TCGA-IA-A40U TCGA-IA-A40X TCGA-IA-A83S TCGA-IA-A83T TCGA-IA-A83V TCGA-IA-A83W 
       16.80        19.99        85.78        88.24        96.69        67.17 
TCGA-IZ-8195 TCGA-IZ-8196 TCGA-IZ-A6M8 TCGA-IZ-A6M9 TCGA-J7-6720 TCGA-KV-A6GD 
       22.26        21.34        16.34        12.36        12.76        18.41 
TCGA-KV-A6GE TCGA-KV-A74V TCGA-MH-A55W TCGA-MH-A55Z TCGA-MH-A560 TCGA-MH-A561 
       29.10        11.41        34.29        27.78        30.38        27.65 
TCGA-MH-A562 TCGA-MH-A854 TCGA-MH-A855 TCGA-MH-A856 TCGA-MH-A857 TCGA-O9-A75Z 
       20.25        17.62        12.13        31.13        29.26        15.48 
TCGA-P4-A5E6 TCGA-P4-A5E7 TCGA-P4-A5E8 TCGA-P4-A5EA TCGA-P4-A5EB TCGA-P4-A5ED 
       99.78        87.09        42.94         6.61        99.12        92.58 
TCGA-P4-AAVK TCGA-P4-AAVL TCGA-P4-AAVM TCGA-P4-AAVO TCGA-PJ-A5Z8 TCGA-PJ-A5Z9 
       52.27        16.01        50.60        78.90        19.73        17.75 
TCGA-SX-A71R TCGA-SX-A71S TCGA-SX-A71U TCGA-SX-A71V TCGA-SX-A7SL TCGA-SX-A7SM 
       47.90        49.45        44.61        28.80        27.06        11.93 
TCGA-SX-A7SN TCGA-SX-A7SO TCGA-SX-A7SP TCGA-SX-A7SQ TCGA-SX-A7SR TCGA-SX-A7SS 
       19.00        41.33        16.31        41.62        26.47        53.10 
TCGA-SX-A7SU TCGA-UN-AAZ9 TCGA-UZ-A9PJ TCGA-UZ-A9PK TCGA-UZ-A9PL TCGA-UZ-A9PM 
       43.76        18.02        26.20       117.40       103.63       125.29 
TCGA-UZ-A9PN TCGA-UZ-A9PO TCGA-UZ-A9PP TCGA-UZ-A9PR TCGA-UZ-A9PS TCGA-UZ-A9PU 
       37.35        62.83        98.96        86.37        71.24        30.67 
TCGA-UZ-A9PV TCGA-UZ-A9PX TCGA-UZ-A9PZ TCGA-UZ-A9Q0 TCGA-UZ-A9Q1 TCGA-V9-A7HT 
       47.47        65.13        21.60       110.73        51.35        31.73 
TCGA-WN-AB4C TCGA-Y8-A894 TCGA-Y8-A895 TCGA-Y8-A896 TCGA-Y8-A897 TCGA-Y8-A898 
       39.06        18.64        15.91        18.64        18.05        15.62 
TCGA-Y8-A8RY TCGA-Y8-A8S0 TCGA-Y8-A8S1 
       25.28         6.02        13.28 

  DEL PEAK  7(3P14.1) MUTATED DEL PEAK  7(3P14.1) WILD-TYPE 
                         0.10                          0.07 
  DEL PEAK  7(3P14.1) MUTATED DEL PEAK  7(3P14.1) WILD-TYPE 
                       141.73                        194.79 
  DEL PEAK  7(3P14.1) MUTATED DEL PEAK  7(3P14.1) WILD-TYPE 
                        38.55                         30.38 
[1] "0.1 - 141.7 (38.5)" "0.1 - 194.8 (30.4)"
[1] "hr=" "1.6"
D20V2, continuous
                               vv
clus                            STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK  7(3P14.1) MUTATED       188       49       111       59
  DEL PEAK  7(3P14.1) WILD-TYPE     267       55        80       45
D20V3, multiclass
           clus
vv          DEL PEAK  7(3P14.1) MUTATED DEL PEAK  7(3P14.1) WILD-TYPE
  STAGE I                           188                           267
  STAGE II                           49                            55
  STAGE III                         111                            80
  STAGE IV                           59                            45
[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                             T1  T2  T3  T4
  DEL PEAK  7(3P14.1) MUTATED   192  60 151   5
  DEL PEAK  7(3P14.1) WILD-TYPE 287  67 107  10
D20V4, multiclass
    clus
vv   DEL PEAK  7(3P14.1) MUTATED DEL PEAK  7(3P14.1) WILD-TYPE
  T1                         192                           287
  T2                          60                            67
  T3                         151                           107
  T4                           5                            10
[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                             N0  N1  N2
  DEL PEAK  7(3P14.1) MUTATED   179  18   3
  DEL PEAK  7(3P14.1) WILD-TYPE 143  26   4
D20V5, multiclass
    clus
vv   DEL PEAK  7(3P14.1) MUTATED DEL PEAK  7(3P14.1) WILD-TYPE
  N0                         179                           143
  N1                          18                            26
  N2                           3                             4
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D20V6, binary
                               cls
clus                              0   1
  DEL PEAK  7(3P14.1) MUTATED   310  54
  DEL PEAK  7(3P14.1) WILD-TYPE 235  35
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  7(3P14.1) MUTATED    310   54
  DEL PEAK  7(3P14.1) WILD-TYPE  235   35
   clus
vv  DEL PEAK  7(3P14.1) MUTATED DEL PEAK  7(3P14.1) WILD-TYPE
  0                         310                           235
  1                          54                            35
[1] 2 2
[1] FALSE
D20V7, binary
                               cls
clus                              0   1
  DEL PEAK  7(3P14.1) MUTATED   127 281
  DEL PEAK  7(3P14.1) WILD-TYPE 165 308
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  7(3P14.1) MUTATED    127  281
  DEL PEAK  7(3P14.1) WILD-TYPE  165  308
        clus
vv       DEL PEAK  7(3P14.1) MUTATED DEL PEAK  7(3P14.1) WILD-TYPE
  FEMALE                         127                           165
  MALE                           281                           308
[1] 2 2
[1] FALSE
D20V8, binary
                               cls
clus                              0   1
  DEL PEAK  7(3P14.1) MUTATED   122   2
  DEL PEAK  7(3P14.1) WILD-TYPE 278   1
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  7(3P14.1) MUTATED    122    2
  DEL PEAK  7(3P14.1) WILD-TYPE  278    1
     clus
vv    DEL PEAK  7(3P14.1) MUTATED DEL PEAK  7(3P14.1) WILD-TYPE
  NO                          122                           278
  YES                           2                             1
[1] 2 2
[1] FALSE
D20V9, continuous
                               vv
clus                            KIDNEY CHROMOPHOBE
  DEL PEAK  7(3P14.1) MUTATED                   11
  DEL PEAK  7(3P14.1) WILD-TYPE                 55
                               vv
clus                            KIDNEY CLEAR CELL RENAL CARCINOMA
  DEL PEAK  7(3P14.1) MUTATED                                 373
  DEL PEAK  7(3P14.1) WILD-TYPE                               155
                               vv
clus                            KIDNEY PAPILLARY RENAL CELL CARCINOMA
  DEL PEAK  7(3P14.1) MUTATED                                      24
  DEL PEAK  7(3P14.1) WILD-TYPE                                   263
D20V10, multiclass
                                       clus
vv                                      DEL PEAK  7(3P14.1) MUTATED
  KIDNEY CHROMOPHOBE                                             11
  KIDNEY CLEAR CELL RENAL CARCINOMA                             373
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                          24
                                       clus
vv                                      DEL PEAK  7(3P14.1) WILD-TYPE
  KIDNEY CHROMOPHOBE                                               55
  KIDNEY CLEAR CELL RENAL CARCINOMA                               155
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                           263
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D20V11, continuous
D20V12, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK  7(3P14.1) MUTATED                                  0     7
  DEL PEAK  7(3P14.1) WILD-TYPE                                2     8
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  7(3P14.1) MUTATED                          37   357
  DEL PEAK  7(3P14.1) WILD-TYPE                        84   362
D20V13, multiclass
                                  clus
vv                                 DEL PEAK  7(3P14.1) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                      7
  BLACK OR AFRICAN AMERICAN                                 37
  WHITE                                                    357
                                  clus
vv                                 DEL PEAK  7(3P14.1) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             2
  ASIAN                                                        8
  BLACK OR AFRICAN AMERICAN                                   84
  WHITE                                                      362
[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"
D20V14, binary
                               cls
clus                              0   1
  DEL PEAK  7(3P14.1) MUTATED    20 271
  DEL PEAK  7(3P14.1) WILD-TYPE  22 350
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  7(3P14.1) MUTATED     20  271
  DEL PEAK  7(3P14.1) WILD-TYPE   22  350
                        clus
vv                       DEL PEAK  7(3P14.1) MUTATED
  HISPANIC OR LATINO                              20
  NOT HISPANIC OR LATINO                         271
                        clus
vv                       DEL PEAK  7(3P14.1) WILD-TYPE
  HISPANIC OR LATINO                                22
  NOT HISPANIC OR LATINO                           350
[1] 2 2
[1] FALSE

Clustering(21) Variable = DEL PEAK  8(3P12.2) MUTATION ANALYSIS
D21V1, survival
                               sevent
clus2                             0   1
  DEL PEAK  8(3P12.2) MUTATED   219 117
  DEL PEAK  8(3P12.2) WILD-TYPE 426 111
  DEL PEAK  8(3P12.2) MUTATED DEL PEAK  8(3P12.2) WILD-TYPE 
                          336                           537 
  DEL PEAK  8(3P12.2) MUTATED DEL PEAK  8(3P12.2) WILD-TYPE 
                          117                           111 
$`DEL PEAK  8(3P12.2) MUTATED`
TCGA-KL-8324 TCGA-KL-8333 TCGA-KL-8341 TCGA-KN-8421 TCGA-KN-8425 TCGA-KN-8427 
      141.73        98.33        24.79        87.91       104.52         0.99 
TCGA-KN-8432 TCGA-KN-8436 TCGA-KO-8409 TCGA-KO-8414 TCGA-KO-8415 TCGA-3Z-A93Z 
        2.50        42.35       104.55       105.60        96.62        12.66 
TCGA-A3-3306 TCGA-A3-3311 TCGA-A3-3313 TCGA-A3-3317 TCGA-A3-3319 TCGA-A3-3320 
       36.82        39.16        24.16        49.02        37.15        49.58 
TCGA-A3-3322 TCGA-A3-3323 TCGA-A3-3324 TCGA-A3-3325 TCGA-A3-3331 TCGA-A3-3335 
       48.59        36.36        38.99        38.47        48.82        62.01 
TCGA-A3-3346 TCGA-A3-3347 TCGA-A3-3352 TCGA-A3-3357 TCGA-A3-3358 TCGA-A3-3359 
        4.50        52.93        18.44        88.37        42.97        82.32 
TCGA-A3-3365 TCGA-A3-3367 TCGA-A3-3370 TCGA-A3-3372 TCGA-A3-3373 TCGA-A3-3378 
       28.70        74.63        74.76        24.16        53.29        20.71 
TCGA-A3-3380 TCGA-A3-3382 TCGA-A3-3383 TCGA-A3-3387 TCGA-A3-A6NJ TCGA-A3-A6NL 
       18.64        18.87        28.31        20.28        15.39        22.65 
TCGA-A3-A6NN TCGA-A3-A8CQ TCGA-A3-A8OV TCGA-A3-A8OW TCGA-AK-3425 TCGA-AK-3429 
        0.10         0.10        11.18        10.62       109.91       109.41 
TCGA-AK-3430 TCGA-AK-3431 TCGA-AK-3433 TCGA-AK-3434 TCGA-AK-3436 TCGA-AK-3445 
       15.78        73.68       112.08        68.61       109.51        78.64 
TCGA-AK-3450 TCGA-AK-3451 TCGA-AK-3454 TCGA-AK-3458 TCGA-AK-3460 TCGA-AK-3461 
       49.28        94.29        28.73        38.40        82.45        72.89 
TCGA-AS-3778 TCGA-B0-4690 TCGA-B0-4693 TCGA-B0-4694 TCGA-B0-4696 TCGA-B0-4703 
        1.41         1.41         2.53         3.48        28.47         5.98 
TCGA-B0-4706 TCGA-B0-4707 TCGA-B0-4712 TCGA-B0-4713 TCGA-B0-4810 TCGA-B0-4811 
        2.14        19.73        43.96         6.64        15.72        46.59 
TCGA-B0-4813 TCGA-B0-4815 TCGA-B0-4817 TCGA-B0-4821 TCGA-B0-4822 TCGA-B0-4823 
        0.59        52.21        33.50        40.44        36.53        14.93 
TCGA-B0-4824 TCGA-B0-4827 TCGA-B0-4828 TCGA-B0-4833 TCGA-B0-4836 TCGA-B0-4837 
       54.48        29.10        10.09        78.44        40.70        45.30 
TCGA-B0-4838 TCGA-B0-4841 TCGA-B0-4842 TCGA-B0-4843 TCGA-B0-4845 TCGA-B0-4846 
       27.42         6.71        56.68        10.52        65.29        39.45 
TCGA-B0-4848 TCGA-B0-4849 TCGA-B0-4945 TCGA-B0-5077 TCGA-B0-5084 TCGA-B0-5092 
       29.03         2.27        70.52        43.30         7.30        15.09 
TCGA-B0-5094 TCGA-B0-5095 TCGA-B0-5098 TCGA-B0-5099 TCGA-B0-5102 TCGA-B0-5108 
       10.95         8.05        52.08        15.95        90.87        58.59 
TCGA-B0-5113 TCGA-B0-5115 TCGA-B0-5116 TCGA-B0-5119 TCGA-B0-5120 TCGA-B0-5399 
       38.63        52.73        41.88        51.02        38.43        46.39 
TCGA-B0-5402 TCGA-B0-5692 TCGA-B0-5693 TCGA-B0-5694 TCGA-B0-5697 TCGA-B0-5699 
       42.41       129.67       133.94        15.78        86.47       126.28 
TCGA-B0-5703 TCGA-B0-5706 TCGA-B0-5709 TCGA-B0-5710 TCGA-B0-5712 TCGA-B2-3924 
       73.84       105.37       130.65        79.89        89.49        35.90 
TCGA-B2-5633 TCGA-B2-5639 TCGA-B2-5641 TCGA-B2-A4SR TCGA-B4-5377 TCGA-B4-5832 
       31.66        32.98        21.57        16.67        12.00         5.10 
TCGA-B4-5834 TCGA-B8-4148 TCGA-B8-4620 TCGA-B8-5162 TCGA-B8-5163 TCGA-B8-5164 
        0.85        27.16        25.55         1.18        27.02         0.85 
TCGA-B8-5549 TCGA-B8-5551 TCGA-B8-5552 TCGA-B8-A54D TCGA-B8-A54F TCGA-B8-A54G 
        6.38         0.53        34.39        27.29        17.06         1.74 
TCGA-B8-A54H TCGA-B8-A54I TCGA-BP-4158 TCGA-BP-4160 TCGA-BP-4164 TCGA-BP-4166 
        8.42         4.93       111.02        94.72        32.61         0.43 
TCGA-BP-4169 TCGA-BP-4170 TCGA-BP-4174 TCGA-BP-4176 TCGA-BP-4325 TCGA-BP-4327 
       23.05        77.03        61.78        64.27        97.45         3.58 
TCGA-BP-4329 TCGA-BP-4331 TCGA-BP-4332 TCGA-BP-4338 TCGA-BP-4340 TCGA-BP-4342 
       27.78        80.68        37.25        93.99        18.48        74.17 
TCGA-BP-4343 TCGA-BP-4344 TCGA-BP-4346 TCGA-BP-4347 TCGA-BP-4351 TCGA-BP-4352 
       62.86        54.77        49.08        44.94        31.89        11.31 
TCGA-BP-4353 TCGA-BP-4758 TCGA-BP-4761 TCGA-BP-4763 TCGA-BP-4766 TCGA-BP-4768 
       12.33        72.59         5.98        41.75        48.07        13.15 
TCGA-BP-4771 TCGA-BP-4774 TCGA-BP-4777 TCGA-BP-4781 TCGA-BP-4789 TCGA-BP-4798 
        5.33        61.97        56.91        68.38        48.95        10.98 
TCGA-BP-4801 TCGA-BP-4803 TCGA-BP-4807 TCGA-BP-4959 TCGA-BP-4960 TCGA-BP-4961 
       36.95         6.71         6.94        87.45        71.41        63.62 
TCGA-BP-4962 TCGA-BP-4963 TCGA-BP-4971 TCGA-BP-4974 TCGA-BP-4975 TCGA-BP-4985 
       58.68        60.30        48.89         6.90        47.11        31.30 
TCGA-BP-4986 TCGA-BP-4987 TCGA-BP-4989 TCGA-BP-4991 TCGA-BP-4992 TCGA-BP-4993 
       25.81        36.95         3.88        46.45        16.47         5.82 
TCGA-BP-4995 TCGA-BP-4998 TCGA-BP-4999 TCGA-BP-5000 TCGA-BP-5004 TCGA-BP-5006 
       45.07        30.64        41.62        18.51        37.02        27.62 
TCGA-BP-5008 TCGA-BP-5010 TCGA-BP-5168 TCGA-BP-5173 TCGA-BP-5174 TCGA-BP-5176 
       35.21        28.87        48.10         1.74        74.20        52.27 
TCGA-BP-5178 TCGA-BP-5180 TCGA-BP-5181 TCGA-BP-5182 TCGA-BP-5183 TCGA-BP-5184 
       62.86        74.40        49.15        38.30        42.44        37.25 
TCGA-BP-5185 TCGA-BP-5187 TCGA-BP-5189 TCGA-BP-5190 TCGA-BP-5191 TCGA-BP-5195 
       37.22        13.35        27.02        33.24        31.79        24.62 
TCGA-BP-5198 TCGA-BP-5199 TCGA-BP-5200 TCGA-BP-5201 TCGA-CJ-4634 TCGA-CJ-4635 
       19.82        44.55        34.95        31.27       115.00        46.55 
TCGA-CJ-4636 TCGA-CJ-4640 TCGA-CJ-4641 TCGA-CJ-4642 TCGA-CJ-4643 TCGA-CJ-4644 
       63.25       114.41        54.61       105.37        58.95        11.05 
TCGA-CJ-4868 TCGA-CJ-4869 TCGA-CJ-4870 TCGA-CJ-4873 TCGA-CJ-4876 TCGA-CJ-4881 
       21.24        83.97        49.25        74.27        64.27        66.21 
TCGA-CJ-4882 TCGA-CJ-4886 TCGA-CJ-4887 TCGA-CJ-4888 TCGA-CJ-4891 TCGA-CJ-4892 
       61.91        64.18        30.64        51.52        26.93        50.01 
TCGA-CJ-4893 TCGA-CJ-4894 TCGA-CJ-4895 TCGA-CJ-4899 TCGA-CJ-4900 TCGA-CJ-4901 
       24.66        27.65        39.45        50.24        56.35        47.67 
TCGA-CJ-4902 TCGA-CJ-4903 TCGA-CJ-4904 TCGA-CJ-5671 TCGA-CJ-5672 TCGA-CJ-5677 
       49.97        51.25       108.56       131.08        72.00        25.71 
TCGA-CJ-5679 TCGA-CJ-5681 TCGA-CJ-5682 TCGA-CJ-5683 TCGA-CJ-5689 TCGA-CJ-6027 
       22.32        18.15       122.83        62.10        53.26       118.85 
TCGA-CJ-6028 TCGA-CJ-6030 TCGA-CJ-6032 TCGA-CJ-6033 TCGA-CW-5580 TCGA-CW-5583 
       53.42        75.58       119.64         7.36        64.57        81.83 
TCGA-CW-5584 TCGA-CW-5587 TCGA-CW-5589 TCGA-CW-5591 TCGA-CW-6088 TCGA-CW-6090 
        5.39        73.18        78.18        74.66       105.93        83.90 
TCGA-CW-6097 TCGA-CZ-4854 TCGA-CZ-4856 TCGA-CZ-4858 TCGA-CZ-4859 TCGA-CZ-4863 
       18.77        46.16         0.59        69.21        58.75        63.39 
TCGA-CZ-4864 TCGA-CZ-4865 TCGA-CZ-5451 TCGA-CZ-5452 TCGA-CZ-5453 TCGA-CZ-5457 
       93.04         5.46        63.42        58.82        79.53        90.54 
TCGA-CZ-5458 TCGA-CZ-5459 TCGA-CZ-5461 TCGA-CZ-5462 TCGA-CZ-5463 TCGA-CZ-5464 
       91.69        55.33        10.85        10.22        21.76        69.96 
TCGA-CZ-5465 TCGA-CZ-5466 TCGA-CZ-5468 TCGA-CZ-5469 TCGA-CZ-5982 TCGA-CZ-5984 
       84.30        22.52         1.94        31.10        80.19        67.96 
TCGA-CZ-5985 TCGA-CZ-5986 TCGA-CZ-5987 TCGA-CZ-5988 TCGA-CZ-5989 TCGA-DV-5565 
       65.65        12.26        14.63        22.78        62.63        13.28 
TCGA-DV-5566 TCGA-DV-5568 TCGA-DV-5569 TCGA-DV-5573 TCGA-DV-5574 TCGA-DV-5575 
       45.96        12.16        11.67        37.15        66.28        56.84 
TCGA-DV-A4VX TCGA-DV-A4W0 TCGA-EU-5906 TCGA-EU-5907 TCGA-G6-A8L6 TCGA-G6-A8L8 
       53.46        81.21         6.77         4.18        10.29        35.87 
TCGA-GK-A6C7 TCGA-MM-A563 TCGA-MM-A564 TCGA-MW-A4EC TCGA-2Z-A9JG TCGA-2Z-A9JI 
        2.01        19.43        19.96        16.37        54.64        51.52 
TCGA-2Z-A9JK TCGA-5P-A9K9 TCGA-A4-A57E TCGA-A4-A5Y1 TCGA-AL-3473 TCGA-B9-A44B 
       38.99        19.36         8.48        12.99        62.66         2.10 
TCGA-BQ-5877 TCGA-BQ-5882 TCGA-BQ-5890 TCGA-BQ-5892 TCGA-G7-6789 TCGA-G7-A8LC 
        8.88        21.63         7.66        11.97         4.01        23.08 
TCGA-GL-7966 TCGA-IA-A40Y TCGA-J7-8537 TCGA-Q2-A5QZ TCGA-UZ-A9PQ TCGA-Y8-A8RZ 
        3.68         2.04        10.55        14.07        86.27         3.68 

$`DEL PEAK  8(3P12.2) WILD-TYPE`
TCGA-KL-8323 TCGA-KL-8325 TCGA-KL-8326 TCGA-KL-8327 TCGA-KL-8328 TCGA-KL-8329 
       38.07        23.84       109.22       137.06       102.81        90.48 
TCGA-KL-8330 TCGA-KL-8331 TCGA-KL-8332 TCGA-KL-8334 TCGA-KL-8335 TCGA-KL-8336 
      108.62        98.96        84.89        96.95        92.55        30.25 
TCGA-KL-8337 TCGA-KL-8338 TCGA-KL-8339 TCGA-KL-8340 TCGA-KL-8342 TCGA-KL-8343 
       44.84        86.56        28.11        66.54        73.91        71.41 
TCGA-KL-8344 TCGA-KL-8345 TCGA-KL-8346 TCGA-KM-8438 TCGA-KM-8439 TCGA-KM-8440 
       28.80        54.74        62.37       151.96        23.28        44.91 
TCGA-KM-8441 TCGA-KM-8442 TCGA-KM-8443 TCGA-KM-8476 TCGA-KM-8477 TCGA-KM-8639 
       28.80        47.24        49.97       123.12        51.06        31.33 
TCGA-KN-8418 TCGA-KN-8419 TCGA-KN-8422 TCGA-KN-8423 TCGA-KN-8424 TCGA-KN-8426 
      129.37        23.47        25.48        25.91        65.19         3.55 
TCGA-KN-8428 TCGA-KN-8429 TCGA-KN-8431 TCGA-KN-8433 TCGA-KN-8434 TCGA-KN-8435 
       52.27        87.12        19.33        11.21        59.08       115.00 
TCGA-KN-8437 TCGA-KO-8403 TCGA-KO-8404 TCGA-KO-8405 TCGA-KO-8406 TCGA-KO-8407 
      100.87       105.47        10.68       100.47       103.40        92.71 
TCGA-KO-8408 TCGA-KO-8410 TCGA-KO-8411 TCGA-KO-8413 TCGA-KO-8416 TCGA-KO-8417 
       16.67       103.10       130.13        99.88        90.48        92.55 
TCGA-6D-AA2E TCGA-A3-3307 TCGA-A3-3308 TCGA-A3-3316 TCGA-A3-3326 TCGA-A3-3336 
       11.90        47.21         0.53        49.08        37.38        34.29 
TCGA-A3-3343 TCGA-A3-3349 TCGA-A3-3351 TCGA-A3-3362 TCGA-A3-3363 TCGA-A3-3374 
       31.07        45.53        29.92        51.25        10.49        43.20 
TCGA-A3-3376 TCGA-A3-3385 TCGA-A3-A6NI TCGA-AK-3426 TCGA-AK-3427 TCGA-AK-3428 
       55.76        65.52        33.47        29.10       117.80        73.08 
TCGA-AK-3440 TCGA-AK-3443 TCGA-AK-3444 TCGA-AK-3447 TCGA-AK-3453 TCGA-AK-3455 
       94.19        46.78        48.36        40.01        83.21        22.45 
TCGA-AK-3456 TCGA-AK-3465 TCGA-AS-3777 TCGA-B0-4688 TCGA-B0-4691 TCGA-B0-4697 
       37.58        12.13        40.70         3.32         4.57        19.00 
TCGA-B0-4698 TCGA-B0-4699 TCGA-B0-4700 TCGA-B0-4701 TCGA-B0-4710 TCGA-B0-4714 
        1.38         3.62        65.10         7.82        57.70         3.25 
TCGA-B0-4718 TCGA-B0-4814 TCGA-B0-4816 TCGA-B0-4818 TCGA-B0-4819 TCGA-B0-4834 
       58.45         5.52        45.07        16.77         6.02        68.71 
TCGA-B0-4839 TCGA-B0-4844 TCGA-B0-4847 TCGA-B0-4852 TCGA-B0-5075 TCGA-B0-5080 
       53.88        10.29        26.07        36.85        20.94        11.24 
TCGA-B0-5081 TCGA-B0-5085 TCGA-B0-5088 TCGA-B0-5096 TCGA-B0-5097 TCGA-B0-5100 
       11.90        25.32        18.51         2.24        21.86        62.89 
TCGA-B0-5104 TCGA-B0-5106 TCGA-B0-5107 TCGA-B0-5109 TCGA-B0-5110 TCGA-B0-5117 
       90.48        52.54        30.48        19.30        66.05        52.87 
TCGA-B0-5121 TCGA-B0-5400 TCGA-B0-5690 TCGA-B0-5691 TCGA-B0-5695 TCGA-B0-5696 
       48.82        56.98       111.52       112.80        70.68        85.78 
TCGA-B0-5698 TCGA-B0-5701 TCGA-B0-5702 TCGA-B0-5705 TCGA-B0-5711 TCGA-B0-5713 
      119.38        80.91        71.41       149.16       131.15        91.46 
TCGA-B0-5812 TCGA-B2-3923 TCGA-B2-4098 TCGA-B2-4099 TCGA-B2-4101 TCGA-B2-4102 
      126.05        32.61         1.68        31.96        21.30        31.30 
TCGA-B2-5635 TCGA-B4-5378 TCGA-B4-5835 TCGA-B4-5836 TCGA-B4-5838 TCGA-B4-5843 
       24.82         5.75         0.53         4.64         5.46         0.36 
TCGA-B4-5844 TCGA-B8-4143 TCGA-B8-4146 TCGA-B8-4151 TCGA-B8-4153 TCGA-B8-4154 
        0.23        23.31        16.80        42.71        25.05        45.37 
TCGA-B8-4619 TCGA-B8-4621 TCGA-B8-4622 TCGA-B8-5158 TCGA-B8-5159 TCGA-B8-5165 
       17.19        25.91        50.14        20.91        23.74        24.23 
TCGA-B8-5545 TCGA-B8-5546 TCGA-B8-5550 TCGA-B8-5553 TCGA-B8-A54E TCGA-B8-A54J 
       50.14        16.60        48.53        14.30        29.88        17.36 
TCGA-B8-A54K TCGA-B8-A7U6 TCGA-B8-A8YJ TCGA-BP-4159 TCGA-BP-4161 TCGA-BP-4162 
       15.42        16.27        14.17        85.51        90.28       101.06 
TCGA-BP-4163 TCGA-BP-4165 TCGA-BP-4167 TCGA-BP-4173 TCGA-BP-4177 TCGA-BP-4326 
       93.34        99.85        89.36        62.24        54.90        53.42 
TCGA-BP-4330 TCGA-BP-4334 TCGA-BP-4335 TCGA-BP-4337 TCGA-BP-4341 TCGA-BP-4349 
       62.07        21.21        15.16         0.07        52.24        12.23 
TCGA-BP-4354 TCGA-BP-4355 TCGA-BP-4756 TCGA-BP-4759 TCGA-BP-4760 TCGA-BP-4762 
       33.99        31.33        12.30        77.98        77.62        44.15 
TCGA-BP-4765 TCGA-BP-4769 TCGA-BP-4770 TCGA-BP-4775 TCGA-BP-4776 TCGA-BP-4782 
       71.80        61.68        10.82        60.59        13.51        11.64 
TCGA-BP-4784 TCGA-BP-4787 TCGA-BP-4790 TCGA-BP-4795 TCGA-BP-4797 TCGA-BP-4799 
       60.95        15.78        36.53        20.38        36.39        37.25 
TCGA-BP-4804 TCGA-BP-4964 TCGA-BP-4965 TCGA-BP-4967 TCGA-BP-4968 TCGA-BP-4969 
       47.97        61.22        61.51         6.74        57.40        58.98 
TCGA-BP-4970 TCGA-BP-4972 TCGA-BP-4973 TCGA-BP-4976 TCGA-BP-4977 TCGA-BP-4981 
       14.24        49.38        45.50        53.65        14.93        36.07 
TCGA-BP-4982 TCGA-BP-4983 TCGA-BP-4988 TCGA-BP-4994 TCGA-BP-5001 TCGA-BP-5007 
       33.34        46.45        27.22        43.00        38.70        37.48 
TCGA-BP-5009 TCGA-BP-5169 TCGA-BP-5170 TCGA-BP-5175 TCGA-BP-5177 TCGA-BP-5186 
       36.23         6.35        79.30        30.64         9.63        22.78 
TCGA-BP-5192 TCGA-BP-5194 TCGA-BP-5196 TCGA-BP-5202 TCGA-CJ-4637 TCGA-CJ-4638 
       23.47        13.41        33.47         0.95        73.22        14.17 
TCGA-CJ-4639 TCGA-CJ-4871 TCGA-CJ-4872 TCGA-CJ-4874 TCGA-CJ-4875 TCGA-CJ-4878 
      106.16        79.66        10.72        75.06       116.84        71.87 
TCGA-CJ-4884 TCGA-CJ-4885 TCGA-CJ-4889 TCGA-CJ-4890 TCGA-CJ-4897 TCGA-CJ-4905 
       57.83       113.46        63.98       115.69       109.84        49.18 
TCGA-CJ-4907 TCGA-CJ-4908 TCGA-CJ-4912 TCGA-CJ-4913 TCGA-CJ-4916 TCGA-CJ-4918 
       49.28        50.33        54.48        38.56        45.14         3.06 
TCGA-CJ-4920 TCGA-CJ-4923 TCGA-CJ-5675 TCGA-CJ-5676 TCGA-CJ-5678 TCGA-CJ-5680 
        4.57        18.81       129.40       133.71        18.87        25.25 
TCGA-CJ-5684 TCGA-CJ-5686 TCGA-CJ-6031 TCGA-CW-5581 TCGA-CW-5585 TCGA-CW-5588 
       73.35        67.00        62.66        92.02        85.78        66.31 
TCGA-CW-6087 TCGA-CW-6093 TCGA-CZ-4853 TCGA-CZ-4857 TCGA-CZ-4860 TCGA-CZ-4861 
        1.35       103.43        25.45        47.08         6.77        14.66 
TCGA-CZ-4862 TCGA-CZ-4866 TCGA-CZ-5454 TCGA-CZ-5455 TCGA-CZ-5456 TCGA-CZ-5460 
      107.54        61.41        23.74        18.44        79.63        94.45 
TCGA-CZ-5467 TCGA-CZ-5470 TCGA-DV-5567 TCGA-DV-5576 TCGA-DV-A4VZ TCGA-EU-5904 
        2.40        12.69        65.88        23.90        12.00        18.12 
TCGA-EU-5905 TCGA-G6-A5PC TCGA-G6-A8L7 TCGA-MM-A84U TCGA-T7-A92I TCGA-2K-A9WE 
        3.91         7.96        70.13        23.01        11.70         7.04 
TCGA-2Z-A9J1 TCGA-2Z-A9J2 TCGA-2Z-A9J3 TCGA-2Z-A9J5 TCGA-2Z-A9J6 TCGA-2Z-A9J7 
       75.55        59.01        58.22       100.27        56.91         4.57 
TCGA-2Z-A9J8 TCGA-2Z-A9J9 TCGA-2Z-A9JD TCGA-2Z-A9JE TCGA-2Z-A9JJ TCGA-2Z-A9JL 
       91.73        75.42        34.85        56.81        39.88        33.07 
TCGA-2Z-A9JM TCGA-2Z-A9JN TCGA-2Z-A9JO TCGA-2Z-A9JP TCGA-2Z-A9JQ TCGA-2Z-A9JR 
       30.71        24.33        31.20        29.36        25.58         5.29 
TCGA-2Z-A9JS TCGA-2Z-A9JT TCGA-4A-A93W TCGA-4A-A93X TCGA-4A-A93Y TCGA-5P-A9JU 
       16.18        22.49         0.13        12.82        11.57        12.26 
TCGA-5P-A9JV TCGA-5P-A9JW TCGA-5P-A9JY TCGA-5P-A9JZ TCGA-5P-A9K0 TCGA-5P-A9K2 
       67.17       106.55        49.58        90.21        22.26        78.64 
TCGA-5P-A9K3 TCGA-5P-A9K4 TCGA-5P-A9K6 TCGA-5P-A9K8 TCGA-5P-A9KA TCGA-5P-A9KC 
       15.48        71.80        62.93        43.04        12.99        12.39 
TCGA-5P-A9KE TCGA-5P-A9KH TCGA-A4-7286 TCGA-A4-7287 TCGA-A4-7288 TCGA-A4-7583 
       27.09        67.43        18.21        19.63        61.05         0.10 
TCGA-A4-7584 TCGA-A4-7585 TCGA-A4-7732 TCGA-A4-7734 TCGA-A4-7828 TCGA-A4-7915 
       21.37        35.18        19.13         0.89         7.82         0.23 
TCGA-A4-7996 TCGA-A4-7997 TCGA-A4-8098 TCGA-A4-8310 TCGA-A4-8311 TCGA-A4-8312 
       16.64        30.48        29.46        25.64        23.97        23.28 
TCGA-A4-8515 TCGA-A4-8516 TCGA-A4-8517 TCGA-A4-8518 TCGA-A4-8630 TCGA-A4-A48D 
       23.31         0.76        19.63        19.73        14.33        12.46 
TCGA-A4-A4ZT TCGA-A4-A5DU TCGA-A4-A5XZ TCGA-A4-A5Y0 TCGA-A4-A6HP TCGA-AL-3466 
       16.96        16.31        15.75         8.28        12.46         9.63 
TCGA-AL-3467 TCGA-AL-3468 TCGA-AL-3471 TCGA-AL-3472 TCGA-AL-7173 TCGA-AL-A5DJ 
       70.19        76.64        49.32        66.71        67.73        49.25 
TCGA-AT-A5NU TCGA-B1-5398 TCGA-B1-7332 TCGA-B1-A47M TCGA-B1-A47N TCGA-B1-A47O 
        2.20        19.56        37.51        21.67        24.56        16.87 
TCGA-B1-A654 TCGA-B1-A655 TCGA-B1-A656 TCGA-B1-A657 TCGA-B3-3925 TCGA-B3-3926 
       20.25        16.77        20.32        21.07        33.83        10.09 
TCGA-B3-4103 TCGA-B3-4104 TCGA-B3-8121 TCGA-B3-A6W5 TCGA-B9-4113 TCGA-B9-4114 
       30.58        34.49        12.46        10.16        50.50        28.18 
TCGA-B9-4115 TCGA-B9-4116 TCGA-B9-4117 TCGA-B9-4617 TCGA-B9-5155 TCGA-B9-5156 
       26.40        20.61         0.46         1.15        15.12        43.99 
TCGA-B9-7268 TCGA-B9-A5W7 TCGA-B9-A5W8 TCGA-B9-A5W9 TCGA-B9-A69E TCGA-B9-A8YH 
       22.06        19.23        17.23         0.16        14.86        17.49 
TCGA-B9-A8YI TCGA-BQ-5875 TCGA-BQ-5876 TCGA-BQ-5878 TCGA-BQ-5879 TCGA-BQ-5880 
       12.30        86.76        19.27        63.72        22.92        43.20 
TCGA-BQ-5881 TCGA-BQ-5883 TCGA-BQ-5884 TCGA-BQ-5885 TCGA-BQ-5886 TCGA-BQ-5887 
       47.80        40.83        26.04        30.28        26.04        25.35 
TCGA-BQ-5888 TCGA-BQ-5889 TCGA-BQ-5891 TCGA-BQ-5893 TCGA-BQ-5894 TCGA-BQ-7044 
       13.25        10.82         0.95         7.92         2.76       123.62 
TCGA-BQ-7045 TCGA-BQ-7046 TCGA-BQ-7048 TCGA-BQ-7049 TCGA-BQ-7050 TCGA-BQ-7051 
       48.26        96.92        93.34        44.84        61.28        50.40 
TCGA-BQ-7053 TCGA-BQ-7055 TCGA-BQ-7056 TCGA-BQ-7058 TCGA-BQ-7059 TCGA-BQ-7060 
       49.84        26.27        20.12        11.28         7.63         7.04 
TCGA-BQ-7061 TCGA-BQ-7062 TCGA-DW-5560 TCGA-DW-5561 TCGA-DW-7834 TCGA-DW-7836 
        7.17         3.81        48.85        13.61       129.86        35.93 
TCGA-DW-7837 TCGA-DW-7838 TCGA-DW-7839 TCGA-DW-7840 TCGA-DW-7841 TCGA-DW-7842 
       37.55        24.46        13.78         3.75        14.63         3.02 
TCGA-DW-7963 TCGA-DZ-6131 TCGA-DZ-6132 TCGA-DZ-6133 TCGA-DZ-6134 TCGA-DZ-6135 
       40.77        79.86        80.88        51.19        61.02        74.60 
TCGA-EV-5901 TCGA-EV-5902 TCGA-EV-5903 TCGA-F9-A4JJ TCGA-F9-A7Q0 TCGA-F9-A7VF 
       34.19        19.00        24.89        10.68        13.08         2.40 
TCGA-F9-A8NY TCGA-F9-A97G TCGA-G7-6790 TCGA-G7-6792 TCGA-G7-6793 TCGA-G7-6795 
        1.18         0.43        51.78        90.90        11.05        39.25 
TCGA-G7-6796 TCGA-G7-6797 TCGA-G7-7501 TCGA-G7-7502 TCGA-G7-A4TM TCGA-G7-A8LB 
       71.44        25.15        20.52        25.84         6.38        17.98 
TCGA-G7-A8LD TCGA-G7-A8LE TCGA-GL-6846 TCGA-GL-7773 TCGA-GL-8500 TCGA-GL-A4EM 
       16.90        80.65       194.79        12.92        27.65         1.05 
TCGA-GL-A59R TCGA-GL-A59T TCGA-GL-A9DC TCGA-GL-A9DD TCGA-GL-A9DE TCGA-HE-A5NF 
       12.43        17.95        12.89        11.21        16.31        84.89 
TCGA-HE-A5NH TCGA-HE-A5NI TCGA-HE-A5NJ TCGA-HE-A5NK TCGA-HE-A5NL TCGA-IA-A40U 
       26.01        11.84        56.75        73.25        25.22        16.80 
TCGA-IA-A40X TCGA-IA-A83S TCGA-IA-A83T TCGA-IA-A83V TCGA-IA-A83W TCGA-IZ-8195 
       19.99        85.78        88.24        96.69        67.17        22.26 
TCGA-IZ-8196 TCGA-IZ-A6M8 TCGA-IZ-A6M9 TCGA-J7-6720 TCGA-KV-A6GD TCGA-KV-A6GE 
       21.34        16.34        12.36        12.76        18.41        29.10 
TCGA-KV-A74V TCGA-MH-A55W TCGA-MH-A55Z TCGA-MH-A560 TCGA-MH-A561 TCGA-MH-A562 
       11.41        34.29        27.78        30.38        27.65        20.25 
TCGA-MH-A854 TCGA-MH-A855 TCGA-MH-A856 TCGA-MH-A857 TCGA-O9-A75Z TCGA-P4-A5E6 
       17.62        12.13        31.13        29.26        15.48        99.78 
TCGA-P4-A5E7 TCGA-P4-A5E8 TCGA-P4-A5EA TCGA-P4-A5EB TCGA-P4-A5ED TCGA-P4-AAVK 
       87.09        42.94         6.61        99.12        92.58        52.27 
TCGA-P4-AAVL TCGA-P4-AAVM TCGA-P4-AAVO TCGA-PJ-A5Z8 TCGA-PJ-A5Z9 TCGA-SX-A71R 
       16.01        50.60        78.90        19.73        17.75        47.90 
TCGA-SX-A71S TCGA-SX-A71U TCGA-SX-A71V TCGA-SX-A7SL TCGA-SX-A7SM TCGA-SX-A7SN 
       49.45        44.61        28.80        27.06        11.93        19.00 
TCGA-SX-A7SO TCGA-SX-A7SP TCGA-SX-A7SQ TCGA-SX-A7SR TCGA-SX-A7SS TCGA-SX-A7SU 
       41.33        16.31        41.62        26.47        53.10        43.76 
TCGA-UN-AAZ9 TCGA-UZ-A9PJ TCGA-UZ-A9PK TCGA-UZ-A9PL TCGA-UZ-A9PM TCGA-UZ-A9PN 
       18.02        26.20       117.40       103.63       125.29        37.35 
TCGA-UZ-A9PO TCGA-UZ-A9PP TCGA-UZ-A9PR TCGA-UZ-A9PS TCGA-UZ-A9PU TCGA-UZ-A9PV 
       62.83        98.96        86.37        71.24        30.67        47.47 
TCGA-UZ-A9PX TCGA-UZ-A9PZ TCGA-UZ-A9Q0 TCGA-UZ-A9Q1 TCGA-V9-A7HT TCGA-WN-A9G9 
       65.13        21.60       110.73        51.35        31.73        26.01 
TCGA-WN-AB4C TCGA-Y8-A894 TCGA-Y8-A895 TCGA-Y8-A896 TCGA-Y8-A897 TCGA-Y8-A898 
       39.06        18.64        15.91        18.64        18.05        15.62 
TCGA-Y8-A8RY TCGA-Y8-A8S0 TCGA-Y8-A8S1 
       25.28         6.02        13.28 

  DEL PEAK  8(3P12.2) MUTATED DEL PEAK  8(3P12.2) WILD-TYPE 
                         0.10                          0.07 
  DEL PEAK  8(3P12.2) MUTATED DEL PEAK  8(3P12.2) WILD-TYPE 
                       141.73                        194.79 
  DEL PEAK  8(3P12.2) MUTATED DEL PEAK  8(3P12.2) WILD-TYPE 
                        38.55                         30.71 
[1] "0.1 - 141.7 (38.5)" "0.1 - 194.8 (30.7)"
[1] "hr=" "1.6"
D21V2, continuous
                               vv
clus                            STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK  8(3P12.2) MUTATED       156       42        88       49
  DEL PEAK  8(3P12.2) WILD-TYPE     299       62       103       55
D21V3, multiclass
           clus
vv          DEL PEAK  8(3P12.2) MUTATED DEL PEAK  8(3P12.2) WILD-TYPE
  STAGE I                           156                           299
  STAGE II                           42                            62
  STAGE III                          88                           103
  STAGE IV                           49                            55
[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                             T1  T2  T3  T4
  DEL PEAK  8(3P12.2) MUTATED   160  51 121   4
  DEL PEAK  8(3P12.2) WILD-TYPE 319  76 137  11
D21V4, multiclass
    clus
vv   DEL PEAK  8(3P12.2) MUTATED DEL PEAK  8(3P12.2) WILD-TYPE
  T1                         160                           319
  T2                          51                            76
  T3                         121                           137
  T4                           4                            11
[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                             N0  N1  N2
  DEL PEAK  8(3P12.2) MUTATED   148  15   3
  DEL PEAK  8(3P12.2) WILD-TYPE 174  29   4
D21V5, multiclass
    clus
vv   DEL PEAK  8(3P12.2) MUTATED DEL PEAK  8(3P12.2) WILD-TYPE
  N0                         148                           174
  N1                          15                            29
  N2                           3                             4
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D21V6, binary
                               cls
clus                              0   1
  DEL PEAK  8(3P12.2) MUTATED   255  44
  DEL PEAK  8(3P12.2) WILD-TYPE 290  45
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  8(3P12.2) MUTATED    255   44
  DEL PEAK  8(3P12.2) WILD-TYPE  290   45
   clus
vv  DEL PEAK  8(3P12.2) MUTATED DEL PEAK  8(3P12.2) WILD-TYPE
  0                         255                           290
  1                          44                            45
[1] 2 2
[1] FALSE
D21V7, binary
                               cls
clus                              0   1
  DEL PEAK  8(3P12.2) MUTATED   101 235
  DEL PEAK  8(3P12.2) WILD-TYPE 191 354
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  8(3P12.2) MUTATED    101  235
  DEL PEAK  8(3P12.2) WILD-TYPE  191  354
        clus
vv       DEL PEAK  8(3P12.2) MUTATED DEL PEAK  8(3P12.2) WILD-TYPE
  FEMALE                         101                           191
  MALE                           235                           354
[1] 2 2
[1] FALSE
D21V8, binary
                               cls
clus                              0   1
  DEL PEAK  8(3P12.2) MUTATED    96   2
  DEL PEAK  8(3P12.2) WILD-TYPE 304   1
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  8(3P12.2) MUTATED     96    2
  DEL PEAK  8(3P12.2) WILD-TYPE  304    1
     clus
vv    DEL PEAK  8(3P12.2) MUTATED DEL PEAK  8(3P12.2) WILD-TYPE
  NO                           96                           304
  YES                           2                             1
[1] 2 2
[1] FALSE
D21V9, continuous
                               vv
clus                            KIDNEY CHROMOPHOBE
  DEL PEAK  8(3P12.2) MUTATED                   11
  DEL PEAK  8(3P12.2) WILD-TYPE                 55
                               vv
clus                            KIDNEY CLEAR CELL RENAL CARCINOMA
  DEL PEAK  8(3P12.2) MUTATED                                 305
  DEL PEAK  8(3P12.2) WILD-TYPE                               223
                               vv
clus                            KIDNEY PAPILLARY RENAL CELL CARCINOMA
  DEL PEAK  8(3P12.2) MUTATED                                      20
  DEL PEAK  8(3P12.2) WILD-TYPE                                   267
D21V10, multiclass
                                       clus
vv                                      DEL PEAK  8(3P12.2) MUTATED
  KIDNEY CHROMOPHOBE                                             11
  KIDNEY CLEAR CELL RENAL CARCINOMA                             305
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                          20
                                       clus
vv                                      DEL PEAK  8(3P12.2) WILD-TYPE
  KIDNEY CHROMOPHOBE                                               55
  KIDNEY CLEAR CELL RENAL CARCINOMA                               223
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                           267
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D21V11, continuous
D21V12, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK  8(3P12.2) MUTATED                                  0     6
  DEL PEAK  8(3P12.2) WILD-TYPE                                2     9
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  8(3P12.2) MUTATED                          31   293
  DEL PEAK  8(3P12.2) WILD-TYPE                        90   426
D21V13, multiclass
                                  clus
vv                                 DEL PEAK  8(3P12.2) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                      6
  BLACK OR AFRICAN AMERICAN                                 31
  WHITE                                                    293
                                  clus
vv                                 DEL PEAK  8(3P12.2) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             2
  ASIAN                                                        9
  BLACK OR AFRICAN AMERICAN                                   90
  WHITE                                                      426
[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"
D21V14, binary
                               cls
clus                              0   1
  DEL PEAK  8(3P12.2) MUTATED    14 226
  DEL PEAK  8(3P12.2) WILD-TYPE  28 395
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  8(3P12.2) MUTATED     14  226
  DEL PEAK  8(3P12.2) WILD-TYPE   28  395
                        clus
vv                       DEL PEAK  8(3P12.2) MUTATED
  HISPANIC OR LATINO                              14
  NOT HISPANIC OR LATINO                         226
                        clus
vv                       DEL PEAK  8(3P12.2) WILD-TYPE
  HISPANIC OR LATINO                                28
  NOT HISPANIC OR LATINO                           395
[1] 2 2
[1] FALSE

Clustering(22) Variable = DEL PEAK  9(4Q34.3) MUTATION ANALYSIS
D22V1, survival
                               sevent
clus2                             0   1
  DEL PEAK  9(4Q34.3) MUTATED    57  55
  DEL PEAK  9(4Q34.3) WILD-TYPE 588 173
  DEL PEAK  9(4Q34.3) MUTATED DEL PEAK  9(4Q34.3) WILD-TYPE 
                          112                           761 
  DEL PEAK  9(4Q34.3) MUTATED DEL PEAK  9(4Q34.3) WILD-TYPE 
                           55                           173 
$`DEL PEAK  9(4Q34.3) MUTATED`
TCGA-KN-8427 TCGA-KN-8428 TCGA-KO-8408 TCGA-A3-3316 TCGA-A3-3320 TCGA-A3-3346 
        0.99        52.27        16.67        49.08        49.58         4.50 
TCGA-A3-3352 TCGA-A3-3367 TCGA-A3-3380 TCGA-AK-3436 TCGA-AK-3458 TCGA-B0-4688 
       18.44        74.63        18.64       109.51        38.40         3.32 
TCGA-B0-4690 TCGA-B0-4698 TCGA-B0-4707 TCGA-B0-4710 TCGA-B0-4712 TCGA-B0-4811 
        1.41         1.38        19.73        57.70        43.96        46.59 
TCGA-B0-4813 TCGA-B0-4814 TCGA-B0-4815 TCGA-B0-4821 TCGA-B0-4822 TCGA-B0-4828 
        0.59         5.52        52.21        40.44        36.53        10.09 
TCGA-B0-4836 TCGA-B0-4844 TCGA-B0-4845 TCGA-B0-4852 TCGA-B0-5084 TCGA-B0-5095 
       40.70        10.29        65.29        36.85         7.30         8.05 
TCGA-B0-5098 TCGA-B0-5113 TCGA-B0-5116 TCGA-B0-5691 TCGA-B0-5699 TCGA-B0-5701 
       52.08        38.63        41.88       112.80       126.28        80.91 
TCGA-B0-5709 TCGA-B4-5838 TCGA-B8-4143 TCGA-B8-4146 TCGA-B8-5158 TCGA-B8-5162 
      130.65         5.46        23.31        16.80        20.91         1.18 
TCGA-B8-5549 TCGA-BP-4161 TCGA-BP-4164 TCGA-BP-4343 TCGA-BP-4351 TCGA-BP-4353 
        6.38        90.28        32.61        62.86        31.89        12.33 
TCGA-BP-4768 TCGA-BP-4770 TCGA-BP-4787 TCGA-BP-4985 TCGA-BP-5173 TCGA-BP-5183 
       13.15        10.82        15.78        31.30         1.74        42.44 
TCGA-BP-5196 TCGA-BP-5198 TCGA-CJ-4636 TCGA-CJ-4643 TCGA-CJ-4644 TCGA-CJ-4870 
       33.47        19.82        63.25        58.95        11.05        49.25 
TCGA-CJ-4881 TCGA-CJ-4897 TCGA-CJ-4903 TCGA-CJ-4907 TCGA-CJ-5676 TCGA-CJ-5677 
       66.21       109.84        51.25        49.28       133.71        25.71 
TCGA-CJ-5679 TCGA-CJ-6028 TCGA-CW-5580 TCGA-CW-5588 TCGA-CW-6090 TCGA-CW-6097 
       22.32        53.42        64.57        66.31        83.90        18.77 
TCGA-CZ-4857 TCGA-CZ-4858 TCGA-CZ-4860 TCGA-CZ-4866 TCGA-CZ-5457 TCGA-CZ-5461 
       47.08        69.21         6.77        61.41        90.54        10.85 
TCGA-CZ-5465 TCGA-CZ-5469 TCGA-EU-5907 TCGA-2Z-A9JI TCGA-4A-A93X TCGA-5P-A9K3 
       84.30        31.10         4.18        51.52        12.82        15.48 
TCGA-5P-A9K9 TCGA-A4-7287 TCGA-A4-8098 TCGA-A4-A57E TCGA-A4-A5Y1 TCGA-AL-A5DJ 
       19.36        19.63        29.46         8.48        12.99        49.25 
TCGA-B1-7332 TCGA-B3-3926 TCGA-B3-4104 TCGA-BQ-5876 TCGA-BQ-5882 TCGA-BQ-5890 
       37.51        10.09        34.49        19.27        21.63         7.66 
TCGA-BQ-5894 TCGA-DZ-6131 TCGA-F9-A4JJ TCGA-F9-A7Q0 TCGA-F9-A97G TCGA-G7-7501 
        2.76        79.86        10.68        13.08         0.43        20.52 
TCGA-GL-7966 TCGA-HE-A5NK TCGA-IA-A40Y TCGA-J7-8537 TCGA-P4-A5E8 TCGA-P4-A5EA 
        3.68        73.25         2.04        10.55        42.94         6.61 
TCGA-P4-AAVK TCGA-Q2-A5QZ TCGA-SX-A7SS TCGA-UN-AAZ9 
       52.27        14.07        53.10        18.02 

$`DEL PEAK  9(4Q34.3) WILD-TYPE`
TCGA-KL-8323 TCGA-KL-8324 TCGA-KL-8325 TCGA-KL-8326 TCGA-KL-8327 TCGA-KL-8328 
       38.07       141.73        23.84       109.22       137.06       102.81 
TCGA-KL-8329 TCGA-KL-8330 TCGA-KL-8331 TCGA-KL-8332 TCGA-KL-8333 TCGA-KL-8334 
       90.48       108.62        98.96        84.89        98.33        96.95 
TCGA-KL-8335 TCGA-KL-8336 TCGA-KL-8337 TCGA-KL-8338 TCGA-KL-8339 TCGA-KL-8340 
       92.55        30.25        44.84        86.56        28.11        66.54 
TCGA-KL-8341 TCGA-KL-8342 TCGA-KL-8343 TCGA-KL-8344 TCGA-KL-8345 TCGA-KL-8346 
       24.79        73.91        71.41        28.80        54.74        62.37 
TCGA-KM-8438 TCGA-KM-8439 TCGA-KM-8440 TCGA-KM-8441 TCGA-KM-8442 TCGA-KM-8443 
      151.96        23.28        44.91        28.80        47.24        49.97 
TCGA-KM-8476 TCGA-KM-8477 TCGA-KM-8639 TCGA-KN-8418 TCGA-KN-8419 TCGA-KN-8421 
      123.12        51.06        31.33       129.37        23.47        87.91 
TCGA-KN-8422 TCGA-KN-8423 TCGA-KN-8424 TCGA-KN-8425 TCGA-KN-8426 TCGA-KN-8429 
       25.48        25.91        65.19       104.52         3.55        87.12 
TCGA-KN-8431 TCGA-KN-8432 TCGA-KN-8433 TCGA-KN-8434 TCGA-KN-8435 TCGA-KN-8436 
       19.33         2.50        11.21        59.08       115.00        42.35 
TCGA-KN-8437 TCGA-KO-8403 TCGA-KO-8404 TCGA-KO-8405 TCGA-KO-8406 TCGA-KO-8407 
      100.87       105.47        10.68       100.47       103.40        92.71 
TCGA-KO-8409 TCGA-KO-8410 TCGA-KO-8411 TCGA-KO-8413 TCGA-KO-8414 TCGA-KO-8415 
      104.55       103.10       130.13        99.88       105.60        96.62 
TCGA-KO-8416 TCGA-KO-8417 TCGA-3Z-A93Z TCGA-6D-AA2E TCGA-A3-3306 TCGA-A3-3307 
       90.48        92.55        12.66        11.90        36.82        47.21 
TCGA-A3-3308 TCGA-A3-3311 TCGA-A3-3313 TCGA-A3-3317 TCGA-A3-3319 TCGA-A3-3322 
        0.53        39.16        24.16        49.02        37.15        48.59 
TCGA-A3-3323 TCGA-A3-3324 TCGA-A3-3325 TCGA-A3-3326 TCGA-A3-3331 TCGA-A3-3335 
       36.36        38.99        38.47        37.38        48.82        62.01 
TCGA-A3-3336 TCGA-A3-3343 TCGA-A3-3347 TCGA-A3-3349 TCGA-A3-3351 TCGA-A3-3357 
       34.29        31.07        52.93        45.53        29.92        88.37 
TCGA-A3-3358 TCGA-A3-3359 TCGA-A3-3362 TCGA-A3-3363 TCGA-A3-3365 TCGA-A3-3370 
       42.97        82.32        51.25        10.49        28.70        74.76 
TCGA-A3-3372 TCGA-A3-3373 TCGA-A3-3374 TCGA-A3-3376 TCGA-A3-3378 TCGA-A3-3382 
       24.16        53.29        43.20        55.76        20.71        18.87 
TCGA-A3-3383 TCGA-A3-3385 TCGA-A3-3387 TCGA-A3-A6NI TCGA-A3-A6NJ TCGA-A3-A6NL 
       28.31        65.52        20.28        33.47        15.39        22.65 
TCGA-A3-A6NN TCGA-A3-A8CQ TCGA-A3-A8OV TCGA-A3-A8OW TCGA-AK-3425 TCGA-AK-3426 
        0.10         0.10        11.18        10.62       109.91        29.10 
TCGA-AK-3427 TCGA-AK-3428 TCGA-AK-3429 TCGA-AK-3430 TCGA-AK-3431 TCGA-AK-3433 
      117.80        73.08       109.41        15.78        73.68       112.08 
TCGA-AK-3434 TCGA-AK-3440 TCGA-AK-3443 TCGA-AK-3444 TCGA-AK-3445 TCGA-AK-3447 
       68.61        94.19        46.78        48.36        78.64        40.01 
TCGA-AK-3450 TCGA-AK-3451 TCGA-AK-3453 TCGA-AK-3454 TCGA-AK-3455 TCGA-AK-3456 
       49.28        94.29        83.21        28.73        22.45        37.58 
TCGA-AK-3460 TCGA-AK-3461 TCGA-AK-3465 TCGA-AS-3777 TCGA-AS-3778 TCGA-B0-4691 
       82.45        72.89        12.13        40.70         1.41         4.57 
TCGA-B0-4693 TCGA-B0-4694 TCGA-B0-4696 TCGA-B0-4697 TCGA-B0-4699 TCGA-B0-4700 
        2.53         3.48        28.47        19.00         3.62        65.10 
TCGA-B0-4701 TCGA-B0-4703 TCGA-B0-4706 TCGA-B0-4713 TCGA-B0-4714 TCGA-B0-4718 
        7.82         5.98         2.14         6.64         3.25        58.45 
TCGA-B0-4810 TCGA-B0-4816 TCGA-B0-4817 TCGA-B0-4818 TCGA-B0-4819 TCGA-B0-4823 
       15.72        45.07        33.50        16.77         6.02        14.93 
TCGA-B0-4824 TCGA-B0-4827 TCGA-B0-4833 TCGA-B0-4834 TCGA-B0-4837 TCGA-B0-4838 
       54.48        29.10        78.44        68.71        45.30        27.42 
TCGA-B0-4839 TCGA-B0-4841 TCGA-B0-4842 TCGA-B0-4843 TCGA-B0-4846 TCGA-B0-4847 
       53.88         6.71        56.68        10.52        39.45        26.07 
TCGA-B0-4848 TCGA-B0-4849 TCGA-B0-4945 TCGA-B0-5075 TCGA-B0-5077 TCGA-B0-5080 
       29.03         2.27        70.52        20.94        43.30        11.24 
TCGA-B0-5081 TCGA-B0-5085 TCGA-B0-5088 TCGA-B0-5092 TCGA-B0-5094 TCGA-B0-5096 
       11.90        25.32        18.51        15.09        10.95         2.24 
TCGA-B0-5097 TCGA-B0-5099 TCGA-B0-5100 TCGA-B0-5102 TCGA-B0-5104 TCGA-B0-5106 
       21.86        15.95        62.89        90.87        90.48        52.54 
TCGA-B0-5107 TCGA-B0-5108 TCGA-B0-5109 TCGA-B0-5110 TCGA-B0-5115 TCGA-B0-5117 
       30.48        58.59        19.30        66.05        52.73        52.87 
TCGA-B0-5119 TCGA-B0-5120 TCGA-B0-5121 TCGA-B0-5399 TCGA-B0-5400 TCGA-B0-5402 
       51.02        38.43        48.82        46.39        56.98        42.41 
TCGA-B0-5690 TCGA-B0-5692 TCGA-B0-5693 TCGA-B0-5694 TCGA-B0-5695 TCGA-B0-5696 
      111.52       129.67       133.94        15.78        70.68        85.78 
TCGA-B0-5697 TCGA-B0-5698 TCGA-B0-5702 TCGA-B0-5703 TCGA-B0-5705 TCGA-B0-5706 
       86.47       119.38        71.41        73.84       149.16       105.37 
TCGA-B0-5710 TCGA-B0-5711 TCGA-B0-5712 TCGA-B0-5713 TCGA-B0-5812 TCGA-B2-3923 
       79.89       131.15        89.49        91.46       126.05        32.61 
TCGA-B2-3924 TCGA-B2-4098 TCGA-B2-4099 TCGA-B2-4101 TCGA-B2-4102 TCGA-B2-5633 
       35.90         1.68        31.96        21.30        31.30        31.66 
TCGA-B2-5635 TCGA-B2-5639 TCGA-B2-5641 TCGA-B2-A4SR TCGA-B4-5377 TCGA-B4-5378 
       24.82        32.98        21.57        16.67        12.00         5.75 
TCGA-B4-5832 TCGA-B4-5834 TCGA-B4-5835 TCGA-B4-5836 TCGA-B4-5843 TCGA-B4-5844 
        5.10         0.85         0.53         4.64         0.36         0.23 
TCGA-B8-4148 TCGA-B8-4151 TCGA-B8-4153 TCGA-B8-4154 TCGA-B8-4619 TCGA-B8-4620 
       27.16        42.71        25.05        45.37        17.19        25.55 
TCGA-B8-4621 TCGA-B8-4622 TCGA-B8-5159 TCGA-B8-5163 TCGA-B8-5164 TCGA-B8-5165 
       25.91        50.14        23.74        27.02         0.85        24.23 
TCGA-B8-5545 TCGA-B8-5546 TCGA-B8-5550 TCGA-B8-5551 TCGA-B8-5552 TCGA-B8-5553 
       50.14        16.60        48.53         0.53        34.39        14.30 
TCGA-B8-A54D TCGA-B8-A54E TCGA-B8-A54F TCGA-B8-A54G TCGA-B8-A54H TCGA-B8-A54I 
       27.29        29.88        17.06         1.74         8.42         4.93 
TCGA-B8-A54J TCGA-B8-A54K TCGA-B8-A7U6 TCGA-B8-A8YJ TCGA-BP-4158 TCGA-BP-4159 
       17.36        15.42        16.27        14.17       111.02        85.51 
TCGA-BP-4160 TCGA-BP-4162 TCGA-BP-4163 TCGA-BP-4165 TCGA-BP-4166 TCGA-BP-4167 
       94.72       101.06        93.34        99.85         0.43        89.36 
TCGA-BP-4169 TCGA-BP-4170 TCGA-BP-4173 TCGA-BP-4174 TCGA-BP-4176 TCGA-BP-4177 
       23.05        77.03        62.24        61.78        64.27        54.90 
TCGA-BP-4325 TCGA-BP-4326 TCGA-BP-4327 TCGA-BP-4329 TCGA-BP-4330 TCGA-BP-4331 
       97.45        53.42         3.58        27.78        62.07        80.68 
TCGA-BP-4332 TCGA-BP-4334 TCGA-BP-4335 TCGA-BP-4337 TCGA-BP-4338 TCGA-BP-4340 
       37.25        21.21        15.16         0.07        93.99        18.48 
TCGA-BP-4341 TCGA-BP-4342 TCGA-BP-4344 TCGA-BP-4346 TCGA-BP-4347 TCGA-BP-4349 
       52.24        74.17        54.77        49.08        44.94        12.23 
TCGA-BP-4352 TCGA-BP-4354 TCGA-BP-4355 TCGA-BP-4756 TCGA-BP-4758 TCGA-BP-4759 
       11.31        33.99        31.33        12.30        72.59        77.98 
TCGA-BP-4760 TCGA-BP-4761 TCGA-BP-4762 TCGA-BP-4763 TCGA-BP-4765 TCGA-BP-4766 
       77.62         5.98        44.15        41.75        71.80        48.07 
TCGA-BP-4769 TCGA-BP-4771 TCGA-BP-4774 TCGA-BP-4775 TCGA-BP-4776 TCGA-BP-4777 
       61.68         5.33        61.97        60.59        13.51        56.91 
TCGA-BP-4781 TCGA-BP-4782 TCGA-BP-4784 TCGA-BP-4789 TCGA-BP-4790 TCGA-BP-4795 
       68.38        11.64        60.95        48.95        36.53        20.38 
TCGA-BP-4797 TCGA-BP-4798 TCGA-BP-4799 TCGA-BP-4801 TCGA-BP-4803 TCGA-BP-4804 
       36.39        10.98        37.25        36.95         6.71        47.97 
TCGA-BP-4807 TCGA-BP-4959 TCGA-BP-4960 TCGA-BP-4961 TCGA-BP-4962 TCGA-BP-4963 
        6.94        87.45        71.41        63.62        58.68        60.30 
TCGA-BP-4964 TCGA-BP-4965 TCGA-BP-4967 TCGA-BP-4968 TCGA-BP-4969 TCGA-BP-4970 
       61.22        61.51         6.74        57.40        58.98        14.24 
TCGA-BP-4971 TCGA-BP-4972 TCGA-BP-4973 TCGA-BP-4974 TCGA-BP-4975 TCGA-BP-4976 
       48.89        49.38        45.50         6.90        47.11        53.65 
TCGA-BP-4977 TCGA-BP-4981 TCGA-BP-4982 TCGA-BP-4983 TCGA-BP-4986 TCGA-BP-4987 
       14.93        36.07        33.34        46.45        25.81        36.95 
TCGA-BP-4988 TCGA-BP-4989 TCGA-BP-4991 TCGA-BP-4992 TCGA-BP-4993 TCGA-BP-4994 
       27.22         3.88        46.45        16.47         5.82        43.00 
TCGA-BP-4995 TCGA-BP-4998 TCGA-BP-4999 TCGA-BP-5000 TCGA-BP-5001 TCGA-BP-5004 
       45.07        30.64        41.62        18.51        38.70        37.02 
TCGA-BP-5006 TCGA-BP-5007 TCGA-BP-5008 TCGA-BP-5009 TCGA-BP-5010 TCGA-BP-5168 
       27.62        37.48        35.21        36.23        28.87        48.10 
TCGA-BP-5169 TCGA-BP-5170 TCGA-BP-5174 TCGA-BP-5175 TCGA-BP-5176 TCGA-BP-5177 
        6.35        79.30        74.20        30.64        52.27         9.63 
TCGA-BP-5178 TCGA-BP-5180 TCGA-BP-5181 TCGA-BP-5182 TCGA-BP-5184 TCGA-BP-5185 
       62.86        74.40        49.15        38.30        37.25        37.22 
TCGA-BP-5186 TCGA-BP-5187 TCGA-BP-5189 TCGA-BP-5190 TCGA-BP-5191 TCGA-BP-5192 
       22.78        13.35        27.02        33.24        31.79        23.47 
TCGA-BP-5194 TCGA-BP-5195 TCGA-BP-5199 TCGA-BP-5200 TCGA-BP-5201 TCGA-BP-5202 
       13.41        24.62        44.55        34.95        31.27         0.95 
TCGA-CJ-4634 TCGA-CJ-4635 TCGA-CJ-4637 TCGA-CJ-4638 TCGA-CJ-4639 TCGA-CJ-4640 
      115.00        46.55        73.22        14.17       106.16       114.41 
TCGA-CJ-4641 TCGA-CJ-4642 TCGA-CJ-4868 TCGA-CJ-4869 TCGA-CJ-4871 TCGA-CJ-4872 
       54.61       105.37        21.24        83.97        79.66        10.72 
TCGA-CJ-4873 TCGA-CJ-4874 TCGA-CJ-4875 TCGA-CJ-4876 TCGA-CJ-4878 TCGA-CJ-4882 
       74.27        75.06       116.84        64.27        71.87        61.91 
TCGA-CJ-4884 TCGA-CJ-4885 TCGA-CJ-4886 TCGA-CJ-4887 TCGA-CJ-4888 TCGA-CJ-4889 
       57.83       113.46        64.18        30.64        51.52        63.98 
TCGA-CJ-4890 TCGA-CJ-4891 TCGA-CJ-4892 TCGA-CJ-4893 TCGA-CJ-4894 TCGA-CJ-4895 
      115.69        26.93        50.01        24.66        27.65        39.45 
TCGA-CJ-4899 TCGA-CJ-4900 TCGA-CJ-4901 TCGA-CJ-4902 TCGA-CJ-4904 TCGA-CJ-4905 
       50.24        56.35        47.67        49.97       108.56        49.18 
TCGA-CJ-4908 TCGA-CJ-4912 TCGA-CJ-4913 TCGA-CJ-4916 TCGA-CJ-4918 TCGA-CJ-4920 
       50.33        54.48        38.56        45.14         3.06         4.57 
TCGA-CJ-4923 TCGA-CJ-5671 TCGA-CJ-5672 TCGA-CJ-5675 TCGA-CJ-5678 TCGA-CJ-5680 
       18.81       131.08        72.00       129.40        18.87        25.25 
TCGA-CJ-5681 TCGA-CJ-5682 TCGA-CJ-5683 TCGA-CJ-5684 TCGA-CJ-5686 TCGA-CJ-5689 
       18.15       122.83        62.10        73.35        67.00        53.26 
TCGA-CJ-6027 TCGA-CJ-6030 TCGA-CJ-6031 TCGA-CJ-6032 TCGA-CJ-6033 TCGA-CW-5581 
      118.85        75.58        62.66       119.64         7.36        92.02 
TCGA-CW-5583 TCGA-CW-5584 TCGA-CW-5585 TCGA-CW-5587 TCGA-CW-5589 TCGA-CW-5591 
       81.83         5.39        85.78        73.18        78.18        74.66 
TCGA-CW-6087 TCGA-CW-6088 TCGA-CW-6093 TCGA-CZ-4853 TCGA-CZ-4854 TCGA-CZ-4856 
        1.35       105.93       103.43        25.45        46.16         0.59 
TCGA-CZ-4859 TCGA-CZ-4861 TCGA-CZ-4862 TCGA-CZ-4863 TCGA-CZ-4864 TCGA-CZ-4865 
       58.75        14.66       107.54        63.39        93.04         5.46 
TCGA-CZ-5451 TCGA-CZ-5452 TCGA-CZ-5453 TCGA-CZ-5454 TCGA-CZ-5455 TCGA-CZ-5456 
       63.42        58.82        79.53        23.74        18.44        79.63 
TCGA-CZ-5458 TCGA-CZ-5459 TCGA-CZ-5460 TCGA-CZ-5462 TCGA-CZ-5463 TCGA-CZ-5464 
       91.69        55.33        94.45        10.22        21.76        69.96 
TCGA-CZ-5466 TCGA-CZ-5467 TCGA-CZ-5468 TCGA-CZ-5470 TCGA-CZ-5982 TCGA-CZ-5984 
       22.52         2.40         1.94        12.69        80.19        67.96 
TCGA-CZ-5985 TCGA-CZ-5986 TCGA-CZ-5987 TCGA-CZ-5988 TCGA-CZ-5989 TCGA-DV-5565 
       65.65        12.26        14.63        22.78        62.63        13.28 
TCGA-DV-5566 TCGA-DV-5567 TCGA-DV-5568 TCGA-DV-5569 TCGA-DV-5573 TCGA-DV-5574 
       45.96        65.88        12.16        11.67        37.15        66.28 
TCGA-DV-5575 TCGA-DV-5576 TCGA-DV-A4VX TCGA-DV-A4VZ TCGA-DV-A4W0 TCGA-EU-5904 
       56.84        23.90        53.46        12.00        81.21        18.12 
TCGA-EU-5905 TCGA-EU-5906 TCGA-G6-A5PC TCGA-G6-A8L6 TCGA-G6-A8L7 TCGA-G6-A8L8 
        3.91         6.77         7.96        10.29        70.13        35.87 
TCGA-GK-A6C7 TCGA-MM-A563 TCGA-MM-A564 TCGA-MM-A84U TCGA-MW-A4EC TCGA-T7-A92I 
        2.01        19.43        19.96        23.01        16.37        11.70 
TCGA-2K-A9WE TCGA-2Z-A9J1 TCGA-2Z-A9J2 TCGA-2Z-A9J3 TCGA-2Z-A9J5 TCGA-2Z-A9J6 
        7.04        75.55        59.01        58.22       100.27        56.91 
TCGA-2Z-A9J7 TCGA-2Z-A9J8 TCGA-2Z-A9J9 TCGA-2Z-A9JD TCGA-2Z-A9JE TCGA-2Z-A9JG 
        4.57        91.73        75.42        34.85        56.81        54.64 
TCGA-2Z-A9JJ TCGA-2Z-A9JK TCGA-2Z-A9JL TCGA-2Z-A9JM TCGA-2Z-A9JN TCGA-2Z-A9JO 
       39.88        38.99        33.07        30.71        24.33        31.20 
TCGA-2Z-A9JP TCGA-2Z-A9JQ TCGA-2Z-A9JR TCGA-2Z-A9JS TCGA-2Z-A9JT TCGA-4A-A93W 
       29.36        25.58         5.29        16.18        22.49         0.13 
TCGA-4A-A93Y TCGA-5P-A9JU TCGA-5P-A9JV TCGA-5P-A9JW TCGA-5P-A9JY TCGA-5P-A9JZ 
       11.57        12.26        67.17       106.55        49.58        90.21 
TCGA-5P-A9K0 TCGA-5P-A9K2 TCGA-5P-A9K4 TCGA-5P-A9K6 TCGA-5P-A9K8 TCGA-5P-A9KA 
       22.26        78.64        71.80        62.93        43.04        12.99 
TCGA-5P-A9KC TCGA-5P-A9KE TCGA-5P-A9KH TCGA-A4-7286 TCGA-A4-7288 TCGA-A4-7583 
       12.39        27.09        67.43        18.21        61.05         0.10 
TCGA-A4-7584 TCGA-A4-7585 TCGA-A4-7732 TCGA-A4-7734 TCGA-A4-7828 TCGA-A4-7915 
       21.37        35.18        19.13         0.89         7.82         0.23 
TCGA-A4-7996 TCGA-A4-7997 TCGA-A4-8310 TCGA-A4-8311 TCGA-A4-8312 TCGA-A4-8515 
       16.64        30.48        25.64        23.97        23.28        23.31 
TCGA-A4-8516 TCGA-A4-8517 TCGA-A4-8518 TCGA-A4-8630 TCGA-A4-A48D TCGA-A4-A4ZT 
        0.76        19.63        19.73        14.33        12.46        16.96 
TCGA-A4-A5DU TCGA-A4-A5XZ TCGA-A4-A5Y0 TCGA-A4-A6HP TCGA-AL-3466 TCGA-AL-3467 
       16.31        15.75         8.28        12.46         9.63        70.19 
TCGA-AL-3468 TCGA-AL-3471 TCGA-AL-3472 TCGA-AL-3473 TCGA-AL-7173 TCGA-AT-A5NU 
       76.64        49.32        66.71        62.66        67.73         2.20 
TCGA-B1-5398 TCGA-B1-A47M TCGA-B1-A47N TCGA-B1-A47O TCGA-B1-A654 TCGA-B1-A655 
       19.56        21.67        24.56        16.87        20.25        16.77 
TCGA-B1-A656 TCGA-B1-A657 TCGA-B3-3925 TCGA-B3-4103 TCGA-B3-8121 TCGA-B3-A6W5 
       20.32        21.07        33.83        30.58        12.46        10.16 
TCGA-B9-4113 TCGA-B9-4114 TCGA-B9-4115 TCGA-B9-4116 TCGA-B9-4117 TCGA-B9-4617 
       50.50        28.18        26.40        20.61         0.46         1.15 
TCGA-B9-5155 TCGA-B9-5156 TCGA-B9-7268 TCGA-B9-A44B TCGA-B9-A5W7 TCGA-B9-A5W8 
       15.12        43.99        22.06         2.10        19.23        17.23 
TCGA-B9-A5W9 TCGA-B9-A69E TCGA-B9-A8YH TCGA-B9-A8YI TCGA-BQ-5875 TCGA-BQ-5877 
        0.16        14.86        17.49        12.30        86.76         8.88 
TCGA-BQ-5878 TCGA-BQ-5879 TCGA-BQ-5880 TCGA-BQ-5881 TCGA-BQ-5883 TCGA-BQ-5884 
       63.72        22.92        43.20        47.80        40.83        26.04 
TCGA-BQ-5885 TCGA-BQ-5886 TCGA-BQ-5887 TCGA-BQ-5888 TCGA-BQ-5889 TCGA-BQ-5891 
       30.28        26.04        25.35        13.25        10.82         0.95 
TCGA-BQ-5892 TCGA-BQ-5893 TCGA-BQ-7044 TCGA-BQ-7045 TCGA-BQ-7046 TCGA-BQ-7048 
       11.97         7.92       123.62        48.26        96.92        93.34 
TCGA-BQ-7049 TCGA-BQ-7050 TCGA-BQ-7051 TCGA-BQ-7053 TCGA-BQ-7055 TCGA-BQ-7056 
       44.84        61.28        50.40        49.84        26.27        20.12 
TCGA-BQ-7058 TCGA-BQ-7059 TCGA-BQ-7060 TCGA-BQ-7061 TCGA-BQ-7062 TCGA-DW-5560 
       11.28         7.63         7.04         7.17         3.81        48.85 
TCGA-DW-5561 TCGA-DW-7834 TCGA-DW-7836 TCGA-DW-7837 TCGA-DW-7838 TCGA-DW-7839 
       13.61       129.86        35.93        37.55        24.46        13.78 
TCGA-DW-7840 TCGA-DW-7841 TCGA-DW-7842 TCGA-DW-7963 TCGA-DZ-6132 TCGA-DZ-6133 
        3.75        14.63         3.02        40.77        80.88        51.19 
TCGA-DZ-6134 TCGA-DZ-6135 TCGA-EV-5901 TCGA-EV-5902 TCGA-EV-5903 TCGA-F9-A7VF 
       61.02        74.60        34.19        19.00        24.89         2.40 
TCGA-F9-A8NY TCGA-G7-6789 TCGA-G7-6790 TCGA-G7-6792 TCGA-G7-6793 TCGA-G7-6795 
        1.18         4.01        51.78        90.90        11.05        39.25 
TCGA-G7-6796 TCGA-G7-6797 TCGA-G7-7502 TCGA-G7-A4TM TCGA-G7-A8LB TCGA-G7-A8LC 
       71.44        25.15        25.84         6.38        17.98        23.08 
TCGA-G7-A8LD TCGA-G7-A8LE TCGA-GL-6846 TCGA-GL-7773 TCGA-GL-8500 TCGA-GL-A4EM 
       16.90        80.65       194.79        12.92        27.65         1.05 
TCGA-GL-A59R TCGA-GL-A59T TCGA-GL-A9DC TCGA-GL-A9DD TCGA-GL-A9DE TCGA-HE-A5NF 
       12.43        17.95        12.89        11.21        16.31        84.89 
TCGA-HE-A5NH TCGA-HE-A5NI TCGA-HE-A5NJ TCGA-HE-A5NL TCGA-IA-A40U TCGA-IA-A40X 
       26.01        11.84        56.75        25.22        16.80        19.99 
TCGA-IA-A83S TCGA-IA-A83T TCGA-IA-A83V TCGA-IA-A83W TCGA-IZ-8195 TCGA-IZ-8196 
       85.78        88.24        96.69        67.17        22.26        21.34 
TCGA-IZ-A6M8 TCGA-IZ-A6M9 TCGA-J7-6720 TCGA-KV-A6GD TCGA-KV-A6GE TCGA-KV-A74V 
       16.34        12.36        12.76        18.41        29.10        11.41 
TCGA-MH-A55W TCGA-MH-A55Z TCGA-MH-A560 TCGA-MH-A561 TCGA-MH-A562 TCGA-MH-A854 
       34.29        27.78        30.38        27.65        20.25        17.62 
TCGA-MH-A855 TCGA-MH-A856 TCGA-MH-A857 TCGA-O9-A75Z TCGA-P4-A5E6 TCGA-P4-A5E7 
       12.13        31.13        29.26        15.48        99.78        87.09 
TCGA-P4-A5EB TCGA-P4-A5ED TCGA-P4-AAVL TCGA-P4-AAVM TCGA-P4-AAVO TCGA-PJ-A5Z8 
       99.12        92.58        16.01        50.60        78.90        19.73 
TCGA-PJ-A5Z9 TCGA-SX-A71R TCGA-SX-A71S TCGA-SX-A71U TCGA-SX-A71V TCGA-SX-A7SL 
       17.75        47.90        49.45        44.61        28.80        27.06 
TCGA-SX-A7SM TCGA-SX-A7SN TCGA-SX-A7SO TCGA-SX-A7SP TCGA-SX-A7SQ TCGA-SX-A7SR 
       11.93        19.00        41.33        16.31        41.62        26.47 
TCGA-SX-A7SU TCGA-UZ-A9PJ TCGA-UZ-A9PK TCGA-UZ-A9PL TCGA-UZ-A9PM TCGA-UZ-A9PN 
       43.76        26.20       117.40       103.63       125.29        37.35 
TCGA-UZ-A9PO TCGA-UZ-A9PP TCGA-UZ-A9PQ TCGA-UZ-A9PR TCGA-UZ-A9PS TCGA-UZ-A9PU 
       62.83        98.96        86.27        86.37        71.24        30.67 
TCGA-UZ-A9PV TCGA-UZ-A9PX TCGA-UZ-A9PZ TCGA-UZ-A9Q0 TCGA-UZ-A9Q1 TCGA-V9-A7HT 
       47.47        65.13        21.60       110.73        51.35        31.73 
TCGA-WN-A9G9 TCGA-WN-AB4C TCGA-Y8-A894 TCGA-Y8-A895 TCGA-Y8-A896 TCGA-Y8-A897 
       26.01        39.06        18.64        15.91        18.64        18.05 
TCGA-Y8-A898 TCGA-Y8-A8RY TCGA-Y8-A8RZ TCGA-Y8-A8S0 TCGA-Y8-A8S1 
       15.62        25.28         3.68         6.02        13.28 

  DEL PEAK  9(4Q34.3) MUTATED DEL PEAK  9(4Q34.3) WILD-TYPE 
                         0.43                          0.07 
  DEL PEAK  9(4Q34.3) MUTATED DEL PEAK  9(4Q34.3) WILD-TYPE 
                       133.71                        194.79 
  DEL PEAK  9(4Q34.3) MUTATED DEL PEAK  9(4Q34.3) WILD-TYPE 
                        30.28                         35.90 
[1] "0.4 - 133.7 (30.3)" "0.1 - 194.8 (35.9)"
[1] "hr=" "2.6"
D22V2, continuous
                               vv
clus                            STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK  9(4Q34.3) MUTATED        26       10        48       26
  DEL PEAK  9(4Q34.3) WILD-TYPE     429       94       143       78
D22V3, multiclass
           clus
vv          DEL PEAK  9(4Q34.3) MUTATED DEL PEAK  9(4Q34.3) WILD-TYPE
  STAGE I                            26                           429
  STAGE II                           10                            94
  STAGE III                          48                           143
  STAGE IV                           26                            78
[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                             T1  T2  T3  T4
  DEL PEAK  9(4Q34.3) MUTATED    29  15  62   7
  DEL PEAK  9(4Q34.3) WILD-TYPE 450 112 196   8
D22V4, multiclass
    clus
vv   DEL PEAK  9(4Q34.3) MUTATED DEL PEAK  9(4Q34.3) WILD-TYPE
  T1                          29                           450
  T2                          15                           112
  T3                          62                           196
  T4                           7                             8
[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                             N0  N1  N2
  DEL PEAK  9(4Q34.3) MUTATED    40  15   1
  DEL PEAK  9(4Q34.3) WILD-TYPE 282  29   6
D22V5, multiclass
    clus
vv   DEL PEAK  9(4Q34.3) MUTATED DEL PEAK  9(4Q34.3) WILD-TYPE
  N0                          40                           282
  N1                          15                            29
  N2                           1                             6
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D22V6, binary
                               cls
clus                              0   1
  DEL PEAK  9(4Q34.3) MUTATED    71  21
  DEL PEAK  9(4Q34.3) WILD-TYPE 474  68
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  9(4Q34.3) MUTATED     71   21
  DEL PEAK  9(4Q34.3) WILD-TYPE  474   68
   clus
vv  DEL PEAK  9(4Q34.3) MUTATED DEL PEAK  9(4Q34.3) WILD-TYPE
  0                          71                           474
  1                          21                            68
[1] 2 2
[1] FALSE
D22V7, binary
                               cls
clus                              0   1
  DEL PEAK  9(4Q34.3) MUTATED    39  74
  DEL PEAK  9(4Q34.3) WILD-TYPE 253 515
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  9(4Q34.3) MUTATED     39   74
  DEL PEAK  9(4Q34.3) WILD-TYPE  253  515
        clus
vv       DEL PEAK  9(4Q34.3) MUTATED DEL PEAK  9(4Q34.3) WILD-TYPE
  FEMALE                          39                           253
  MALE                            74                           515
[1] 2 2
[1] FALSE
D22V8, binary
                               cls
clus                              0   1
  DEL PEAK  9(4Q34.3) MUTATED    39   0
  DEL PEAK  9(4Q34.3) WILD-TYPE 361   3
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  9(4Q34.3) MUTATED     39    0
  DEL PEAK  9(4Q34.3) WILD-TYPE  361    3
     clus
vv    DEL PEAK  9(4Q34.3) MUTATED DEL PEAK  9(4Q34.3) WILD-TYPE
  NO                           39                           361
  YES                           0                             3
[1] 2 2
[1] FALSE
D22V9, continuous
                               vv
clus                            KIDNEY CHROMOPHOBE
  DEL PEAK  9(4Q34.3) MUTATED                    3
  DEL PEAK  9(4Q34.3) WILD-TYPE                 63
                               vv
clus                            KIDNEY CLEAR CELL RENAL CARCINOMA
  DEL PEAK  9(4Q34.3) MUTATED                                  78
  DEL PEAK  9(4Q34.3) WILD-TYPE                               450
                               vv
clus                            KIDNEY PAPILLARY RENAL CELL CARCINOMA
  DEL PEAK  9(4Q34.3) MUTATED                                      32
  DEL PEAK  9(4Q34.3) WILD-TYPE                                   255
D22V10, multiclass
                                       clus
vv                                      DEL PEAK  9(4Q34.3) MUTATED
  KIDNEY CHROMOPHOBE                                              3
  KIDNEY CLEAR CELL RENAL CARCINOMA                              78
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                          32
                                       clus
vv                                      DEL PEAK  9(4Q34.3) WILD-TYPE
  KIDNEY CHROMOPHOBE                                               63
  KIDNEY CLEAR CELL RENAL CARCINOMA                               450
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                           255
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D22V11, continuous
D22V12, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK  9(4Q34.3) MUTATED                                  0     4
  DEL PEAK  9(4Q34.3) WILD-TYPE                                2    11
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  9(4Q34.3) MUTATED                           8    95
  DEL PEAK  9(4Q34.3) WILD-TYPE                       113   624
D22V13, multiclass
                                  clus
vv                                 DEL PEAK  9(4Q34.3) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                      4
  BLACK OR AFRICAN AMERICAN                                  8
  WHITE                                                     95
                                  clus
vv                                 DEL PEAK  9(4Q34.3) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             2
  ASIAN                                                       11
  BLACK OR AFRICAN AMERICAN                                  113
  WHITE                                                      624
[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"
D22V14, binary
                               cls
clus                              0   1
  DEL PEAK  9(4Q34.3) MUTATED     7  80
  DEL PEAK  9(4Q34.3) WILD-TYPE  35 541
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  9(4Q34.3) MUTATED      7   80
  DEL PEAK  9(4Q34.3) WILD-TYPE   35  541
                        clus
vv                       DEL PEAK  9(4Q34.3) MUTATED
  HISPANIC OR LATINO                               7
  NOT HISPANIC OR LATINO                          80
                        clus
vv                       DEL PEAK  9(4Q34.3) WILD-TYPE
  HISPANIC OR LATINO                                35
  NOT HISPANIC OR LATINO                           541
[1] 2 2
[1] FALSE

Clustering(23) Variable = DEL PEAK 10(5P15.33) MUTATION ANALYSIS
D23V1, survival
                                sevent
clus2                              0   1
  DEL PEAK 10(5P15.33) MUTATED    20   9
  DEL PEAK 10(5P15.33) WILD-TYPE 625 219
  DEL PEAK 10(5P15.33) MUTATED DEL PEAK 10(5P15.33) WILD-TYPE 
                            29                            844 
  DEL PEAK 10(5P15.33) MUTATED DEL PEAK 10(5P15.33) WILD-TYPE 
                             9                            219 
$`DEL PEAK 10(5P15.33) MUTATED`
TCGA-KL-8324 TCGA-KL-8330 TCGA-KL-8341 TCGA-KL-8346 TCGA-KM-8438 TCGA-KM-8442 
      141.73       108.62        24.79        62.37       151.96        47.24 
TCGA-KN-8431 TCGA-KO-8405 TCGA-KO-8409 TCGA-AK-3433 TCGA-B0-5107 TCGA-B8-4143 
       19.33       100.47       104.55       112.08        30.48        23.31 
TCGA-BP-4332 TCGA-BP-5010 TCGA-CJ-4901 TCGA-CZ-5469 TCGA-CZ-5988 TCGA-2Z-A9J2 
       37.25        28.87        47.67        31.10        22.78        59.01 
TCGA-2Z-A9J8 TCGA-2Z-A9JJ TCGA-A4-7286 TCGA-BQ-5878 TCGA-BQ-5879 TCGA-BQ-5894 
       91.73        39.88        18.21        63.72        22.92         2.76 
TCGA-F9-A4JJ TCGA-G7-6793 TCGA-GL-7773 TCGA-P4-A5E6 TCGA-P4-A5EA 
       10.68        11.05        12.92        99.78         6.61 

$`DEL PEAK 10(5P15.33) WILD-TYPE`
TCGA-KL-8323 TCGA-KL-8325 TCGA-KL-8326 TCGA-KL-8327 TCGA-KL-8328 TCGA-KL-8329 
       38.07        23.84       109.22       137.06       102.81        90.48 
TCGA-KL-8331 TCGA-KL-8332 TCGA-KL-8333 TCGA-KL-8334 TCGA-KL-8335 TCGA-KL-8336 
       98.96        84.89        98.33        96.95        92.55        30.25 
TCGA-KL-8337 TCGA-KL-8338 TCGA-KL-8339 TCGA-KL-8340 TCGA-KL-8342 TCGA-KL-8343 
       44.84        86.56        28.11        66.54        73.91        71.41 
TCGA-KL-8344 TCGA-KL-8345 TCGA-KM-8439 TCGA-KM-8440 TCGA-KM-8441 TCGA-KM-8443 
       28.80        54.74        23.28        44.91        28.80        49.97 
TCGA-KM-8476 TCGA-KM-8477 TCGA-KM-8639 TCGA-KN-8418 TCGA-KN-8419 TCGA-KN-8421 
      123.12        51.06        31.33       129.37        23.47        87.91 
TCGA-KN-8422 TCGA-KN-8423 TCGA-KN-8424 TCGA-KN-8425 TCGA-KN-8426 TCGA-KN-8427 
       25.48        25.91        65.19       104.52         3.55         0.99 
TCGA-KN-8428 TCGA-KN-8429 TCGA-KN-8432 TCGA-KN-8433 TCGA-KN-8434 TCGA-KN-8435 
       52.27        87.12         2.50        11.21        59.08       115.00 
TCGA-KN-8436 TCGA-KN-8437 TCGA-KO-8403 TCGA-KO-8404 TCGA-KO-8406 TCGA-KO-8407 
       42.35       100.87       105.47        10.68       103.40        92.71 
TCGA-KO-8408 TCGA-KO-8410 TCGA-KO-8411 TCGA-KO-8413 TCGA-KO-8414 TCGA-KO-8415 
       16.67       103.10       130.13        99.88       105.60        96.62 
TCGA-KO-8416 TCGA-KO-8417 TCGA-3Z-A93Z TCGA-6D-AA2E TCGA-A3-3306 TCGA-A3-3307 
       90.48        92.55        12.66        11.90        36.82        47.21 
TCGA-A3-3308 TCGA-A3-3311 TCGA-A3-3313 TCGA-A3-3316 TCGA-A3-3317 TCGA-A3-3319 
        0.53        39.16        24.16        49.08        49.02        37.15 
TCGA-A3-3320 TCGA-A3-3322 TCGA-A3-3323 TCGA-A3-3324 TCGA-A3-3325 TCGA-A3-3326 
       49.58        48.59        36.36        38.99        38.47        37.38 
TCGA-A3-3331 TCGA-A3-3335 TCGA-A3-3336 TCGA-A3-3343 TCGA-A3-3346 TCGA-A3-3347 
       48.82        62.01        34.29        31.07         4.50        52.93 
TCGA-A3-3349 TCGA-A3-3351 TCGA-A3-3352 TCGA-A3-3357 TCGA-A3-3358 TCGA-A3-3359 
       45.53        29.92        18.44        88.37        42.97        82.32 
TCGA-A3-3362 TCGA-A3-3363 TCGA-A3-3365 TCGA-A3-3367 TCGA-A3-3370 TCGA-A3-3372 
       51.25        10.49        28.70        74.63        74.76        24.16 
TCGA-A3-3373 TCGA-A3-3374 TCGA-A3-3376 TCGA-A3-3378 TCGA-A3-3380 TCGA-A3-3382 
       53.29        43.20        55.76        20.71        18.64        18.87 
TCGA-A3-3383 TCGA-A3-3385 TCGA-A3-3387 TCGA-A3-A6NI TCGA-A3-A6NJ TCGA-A3-A6NL 
       28.31        65.52        20.28        33.47        15.39        22.65 
TCGA-A3-A6NN TCGA-A3-A8CQ TCGA-A3-A8OV TCGA-A3-A8OW TCGA-AK-3425 TCGA-AK-3426 
        0.10         0.10        11.18        10.62       109.91        29.10 
TCGA-AK-3427 TCGA-AK-3428 TCGA-AK-3429 TCGA-AK-3430 TCGA-AK-3431 TCGA-AK-3434 
      117.80        73.08       109.41        15.78        73.68        68.61 
TCGA-AK-3436 TCGA-AK-3440 TCGA-AK-3443 TCGA-AK-3444 TCGA-AK-3445 TCGA-AK-3447 
      109.51        94.19        46.78        48.36        78.64        40.01 
TCGA-AK-3450 TCGA-AK-3451 TCGA-AK-3453 TCGA-AK-3454 TCGA-AK-3455 TCGA-AK-3456 
       49.28        94.29        83.21        28.73        22.45        37.58 
TCGA-AK-3458 TCGA-AK-3460 TCGA-AK-3461 TCGA-AK-3465 TCGA-AS-3777 TCGA-AS-3778 
       38.40        82.45        72.89        12.13        40.70         1.41 
TCGA-B0-4688 TCGA-B0-4690 TCGA-B0-4691 TCGA-B0-4693 TCGA-B0-4694 TCGA-B0-4696 
        3.32         1.41         4.57         2.53         3.48        28.47 
TCGA-B0-4697 TCGA-B0-4698 TCGA-B0-4699 TCGA-B0-4700 TCGA-B0-4701 TCGA-B0-4703 
       19.00         1.38         3.62        65.10         7.82         5.98 
TCGA-B0-4706 TCGA-B0-4707 TCGA-B0-4710 TCGA-B0-4712 TCGA-B0-4713 TCGA-B0-4714 
        2.14        19.73        57.70        43.96         6.64         3.25 
TCGA-B0-4718 TCGA-B0-4810 TCGA-B0-4811 TCGA-B0-4813 TCGA-B0-4814 TCGA-B0-4815 
       58.45        15.72        46.59         0.59         5.52        52.21 
TCGA-B0-4816 TCGA-B0-4817 TCGA-B0-4818 TCGA-B0-4819 TCGA-B0-4821 TCGA-B0-4822 
       45.07        33.50        16.77         6.02        40.44        36.53 
TCGA-B0-4823 TCGA-B0-4824 TCGA-B0-4827 TCGA-B0-4828 TCGA-B0-4833 TCGA-B0-4834 
       14.93        54.48        29.10        10.09        78.44        68.71 
TCGA-B0-4836 TCGA-B0-4837 TCGA-B0-4838 TCGA-B0-4839 TCGA-B0-4841 TCGA-B0-4842 
       40.70        45.30        27.42        53.88         6.71        56.68 
TCGA-B0-4843 TCGA-B0-4844 TCGA-B0-4845 TCGA-B0-4846 TCGA-B0-4847 TCGA-B0-4848 
       10.52        10.29        65.29        39.45        26.07        29.03 
TCGA-B0-4849 TCGA-B0-4852 TCGA-B0-4945 TCGA-B0-5075 TCGA-B0-5077 TCGA-B0-5080 
        2.27        36.85        70.52        20.94        43.30        11.24 
TCGA-B0-5081 TCGA-B0-5084 TCGA-B0-5085 TCGA-B0-5088 TCGA-B0-5092 TCGA-B0-5094 
       11.90         7.30        25.32        18.51        15.09        10.95 
TCGA-B0-5095 TCGA-B0-5096 TCGA-B0-5097 TCGA-B0-5098 TCGA-B0-5099 TCGA-B0-5100 
        8.05         2.24        21.86        52.08        15.95        62.89 
TCGA-B0-5102 TCGA-B0-5104 TCGA-B0-5106 TCGA-B0-5108 TCGA-B0-5109 TCGA-B0-5110 
       90.87        90.48        52.54        58.59        19.30        66.05 
TCGA-B0-5113 TCGA-B0-5115 TCGA-B0-5116 TCGA-B0-5117 TCGA-B0-5119 TCGA-B0-5120 
       38.63        52.73        41.88        52.87        51.02        38.43 
TCGA-B0-5121 TCGA-B0-5399 TCGA-B0-5400 TCGA-B0-5402 TCGA-B0-5690 TCGA-B0-5691 
       48.82        46.39        56.98        42.41       111.52       112.80 
TCGA-B0-5692 TCGA-B0-5693 TCGA-B0-5694 TCGA-B0-5695 TCGA-B0-5696 TCGA-B0-5697 
      129.67       133.94        15.78        70.68        85.78        86.47 
TCGA-B0-5698 TCGA-B0-5699 TCGA-B0-5701 TCGA-B0-5702 TCGA-B0-5703 TCGA-B0-5705 
      119.38       126.28        80.91        71.41        73.84       149.16 
TCGA-B0-5706 TCGA-B0-5709 TCGA-B0-5710 TCGA-B0-5711 TCGA-B0-5712 TCGA-B0-5713 
      105.37       130.65        79.89       131.15        89.49        91.46 
TCGA-B0-5812 TCGA-B2-3923 TCGA-B2-3924 TCGA-B2-4098 TCGA-B2-4099 TCGA-B2-4101 
      126.05        32.61        35.90         1.68        31.96        21.30 
TCGA-B2-4102 TCGA-B2-5633 TCGA-B2-5635 TCGA-B2-5639 TCGA-B2-5641 TCGA-B2-A4SR 
       31.30        31.66        24.82        32.98        21.57        16.67 
TCGA-B4-5377 TCGA-B4-5378 TCGA-B4-5832 TCGA-B4-5834 TCGA-B4-5835 TCGA-B4-5836 
       12.00         5.75         5.10         0.85         0.53         4.64 
TCGA-B4-5838 TCGA-B4-5843 TCGA-B4-5844 TCGA-B8-4146 TCGA-B8-4148 TCGA-B8-4151 
        5.46         0.36         0.23        16.80        27.16        42.71 
TCGA-B8-4153 TCGA-B8-4154 TCGA-B8-4619 TCGA-B8-4620 TCGA-B8-4621 TCGA-B8-4622 
       25.05        45.37        17.19        25.55        25.91        50.14 
TCGA-B8-5158 TCGA-B8-5159 TCGA-B8-5162 TCGA-B8-5163 TCGA-B8-5164 TCGA-B8-5165 
       20.91        23.74         1.18        27.02         0.85        24.23 
TCGA-B8-5545 TCGA-B8-5546 TCGA-B8-5549 TCGA-B8-5550 TCGA-B8-5551 TCGA-B8-5552 
       50.14        16.60         6.38        48.53         0.53        34.39 
TCGA-B8-5553 TCGA-B8-A54D TCGA-B8-A54E TCGA-B8-A54F TCGA-B8-A54G TCGA-B8-A54H 
       14.30        27.29        29.88        17.06         1.74         8.42 
TCGA-B8-A54I TCGA-B8-A54J TCGA-B8-A54K TCGA-B8-A7U6 TCGA-B8-A8YJ TCGA-BP-4158 
        4.93        17.36        15.42        16.27        14.17       111.02 
TCGA-BP-4159 TCGA-BP-4160 TCGA-BP-4161 TCGA-BP-4162 TCGA-BP-4163 TCGA-BP-4164 
       85.51        94.72        90.28       101.06        93.34        32.61 
TCGA-BP-4165 TCGA-BP-4166 TCGA-BP-4167 TCGA-BP-4169 TCGA-BP-4170 TCGA-BP-4173 
       99.85         0.43        89.36        23.05        77.03        62.24 
TCGA-BP-4174 TCGA-BP-4176 TCGA-BP-4177 TCGA-BP-4325 TCGA-BP-4326 TCGA-BP-4327 
       61.78        64.27        54.90        97.45        53.42         3.58 
TCGA-BP-4329 TCGA-BP-4330 TCGA-BP-4331 TCGA-BP-4334 TCGA-BP-4335 TCGA-BP-4337 
       27.78        62.07        80.68        21.21        15.16         0.07 
TCGA-BP-4338 TCGA-BP-4340 TCGA-BP-4341 TCGA-BP-4342 TCGA-BP-4343 TCGA-BP-4344 
       93.99        18.48        52.24        74.17        62.86        54.77 
TCGA-BP-4346 TCGA-BP-4347 TCGA-BP-4349 TCGA-BP-4351 TCGA-BP-4352 TCGA-BP-4353 
       49.08        44.94        12.23        31.89        11.31        12.33 
TCGA-BP-4354 TCGA-BP-4355 TCGA-BP-4756 TCGA-BP-4758 TCGA-BP-4759 TCGA-BP-4760 
       33.99        31.33        12.30        72.59        77.98        77.62 
TCGA-BP-4761 TCGA-BP-4762 TCGA-BP-4763 TCGA-BP-4765 TCGA-BP-4766 TCGA-BP-4768 
        5.98        44.15        41.75        71.80        48.07        13.15 
TCGA-BP-4769 TCGA-BP-4770 TCGA-BP-4771 TCGA-BP-4774 TCGA-BP-4775 TCGA-BP-4776 
       61.68        10.82         5.33        61.97        60.59        13.51 
TCGA-BP-4777 TCGA-BP-4781 TCGA-BP-4782 TCGA-BP-4784 TCGA-BP-4787 TCGA-BP-4789 
       56.91        68.38        11.64        60.95        15.78        48.95 
TCGA-BP-4790 TCGA-BP-4795 TCGA-BP-4797 TCGA-BP-4798 TCGA-BP-4799 TCGA-BP-4801 
       36.53        20.38        36.39        10.98        37.25        36.95 
TCGA-BP-4803 TCGA-BP-4804 TCGA-BP-4807 TCGA-BP-4959 TCGA-BP-4960 TCGA-BP-4961 
        6.71        47.97         6.94        87.45        71.41        63.62 
TCGA-BP-4962 TCGA-BP-4963 TCGA-BP-4964 TCGA-BP-4965 TCGA-BP-4967 TCGA-BP-4968 
       58.68        60.30        61.22        61.51         6.74        57.40 
TCGA-BP-4969 TCGA-BP-4970 TCGA-BP-4971 TCGA-BP-4972 TCGA-BP-4973 TCGA-BP-4974 
       58.98        14.24        48.89        49.38        45.50         6.90 
TCGA-BP-4975 TCGA-BP-4976 TCGA-BP-4977 TCGA-BP-4981 TCGA-BP-4982 TCGA-BP-4983 
       47.11        53.65        14.93        36.07        33.34        46.45 
TCGA-BP-4985 TCGA-BP-4986 TCGA-BP-4987 TCGA-BP-4988 TCGA-BP-4989 TCGA-BP-4991 
       31.30        25.81        36.95        27.22         3.88        46.45 
TCGA-BP-4992 TCGA-BP-4993 TCGA-BP-4994 TCGA-BP-4995 TCGA-BP-4998 TCGA-BP-4999 
       16.47         5.82        43.00        45.07        30.64        41.62 
TCGA-BP-5000 TCGA-BP-5001 TCGA-BP-5004 TCGA-BP-5006 TCGA-BP-5007 TCGA-BP-5008 
       18.51        38.70        37.02        27.62        37.48        35.21 
TCGA-BP-5009 TCGA-BP-5168 TCGA-BP-5169 TCGA-BP-5170 TCGA-BP-5173 TCGA-BP-5174 
       36.23        48.10         6.35        79.30         1.74        74.20 
TCGA-BP-5175 TCGA-BP-5176 TCGA-BP-5177 TCGA-BP-5178 TCGA-BP-5180 TCGA-BP-5181 
       30.64        52.27         9.63        62.86        74.40        49.15 
TCGA-BP-5182 TCGA-BP-5183 TCGA-BP-5184 TCGA-BP-5185 TCGA-BP-5186 TCGA-BP-5187 
       38.30        42.44        37.25        37.22        22.78        13.35 
TCGA-BP-5189 TCGA-BP-5190 TCGA-BP-5191 TCGA-BP-5192 TCGA-BP-5194 TCGA-BP-5195 
       27.02        33.24        31.79        23.47        13.41        24.62 
TCGA-BP-5196 TCGA-BP-5198 TCGA-BP-5199 TCGA-BP-5200 TCGA-BP-5201 TCGA-BP-5202 
       33.47        19.82        44.55        34.95        31.27         0.95 
TCGA-CJ-4634 TCGA-CJ-4635 TCGA-CJ-4636 TCGA-CJ-4637 TCGA-CJ-4638 TCGA-CJ-4639 
      115.00        46.55        63.25        73.22        14.17       106.16 
TCGA-CJ-4640 TCGA-CJ-4641 TCGA-CJ-4642 TCGA-CJ-4643 TCGA-CJ-4644 TCGA-CJ-4868 
      114.41        54.61       105.37        58.95        11.05        21.24 
TCGA-CJ-4869 TCGA-CJ-4870 TCGA-CJ-4871 TCGA-CJ-4872 TCGA-CJ-4873 TCGA-CJ-4874 
       83.97        49.25        79.66        10.72        74.27        75.06 
TCGA-CJ-4875 TCGA-CJ-4876 TCGA-CJ-4878 TCGA-CJ-4881 TCGA-CJ-4882 TCGA-CJ-4884 
      116.84        64.27        71.87        66.21        61.91        57.83 
TCGA-CJ-4885 TCGA-CJ-4886 TCGA-CJ-4887 TCGA-CJ-4888 TCGA-CJ-4889 TCGA-CJ-4890 
      113.46        64.18        30.64        51.52        63.98       115.69 
TCGA-CJ-4891 TCGA-CJ-4892 TCGA-CJ-4893 TCGA-CJ-4894 TCGA-CJ-4895 TCGA-CJ-4897 
       26.93        50.01        24.66        27.65        39.45       109.84 
TCGA-CJ-4899 TCGA-CJ-4900 TCGA-CJ-4902 TCGA-CJ-4903 TCGA-CJ-4904 TCGA-CJ-4905 
       50.24        56.35        49.97        51.25       108.56        49.18 
TCGA-CJ-4907 TCGA-CJ-4908 TCGA-CJ-4912 TCGA-CJ-4913 TCGA-CJ-4916 TCGA-CJ-4918 
       49.28        50.33        54.48        38.56        45.14         3.06 
TCGA-CJ-4920 TCGA-CJ-4923 TCGA-CJ-5671 TCGA-CJ-5672 TCGA-CJ-5675 TCGA-CJ-5676 
        4.57        18.81       131.08        72.00       129.40       133.71 
TCGA-CJ-5677 TCGA-CJ-5678 TCGA-CJ-5679 TCGA-CJ-5680 TCGA-CJ-5681 TCGA-CJ-5682 
       25.71        18.87        22.32        25.25        18.15       122.83 
TCGA-CJ-5683 TCGA-CJ-5684 TCGA-CJ-5686 TCGA-CJ-5689 TCGA-CJ-6027 TCGA-CJ-6028 
       62.10        73.35        67.00        53.26       118.85        53.42 
TCGA-CJ-6030 TCGA-CJ-6031 TCGA-CJ-6032 TCGA-CJ-6033 TCGA-CW-5580 TCGA-CW-5581 
       75.58        62.66       119.64         7.36        64.57        92.02 
TCGA-CW-5583 TCGA-CW-5584 TCGA-CW-5585 TCGA-CW-5587 TCGA-CW-5588 TCGA-CW-5589 
       81.83         5.39        85.78        73.18        66.31        78.18 
TCGA-CW-5591 TCGA-CW-6087 TCGA-CW-6088 TCGA-CW-6090 TCGA-CW-6093 TCGA-CW-6097 
       74.66         1.35       105.93        83.90       103.43        18.77 
TCGA-CZ-4853 TCGA-CZ-4854 TCGA-CZ-4856 TCGA-CZ-4857 TCGA-CZ-4858 TCGA-CZ-4859 
       25.45        46.16         0.59        47.08        69.21        58.75 
TCGA-CZ-4860 TCGA-CZ-4861 TCGA-CZ-4862 TCGA-CZ-4863 TCGA-CZ-4864 TCGA-CZ-4865 
        6.77        14.66       107.54        63.39        93.04         5.46 
TCGA-CZ-4866 TCGA-CZ-5451 TCGA-CZ-5452 TCGA-CZ-5453 TCGA-CZ-5454 TCGA-CZ-5455 
       61.41        63.42        58.82        79.53        23.74        18.44 
TCGA-CZ-5456 TCGA-CZ-5457 TCGA-CZ-5458 TCGA-CZ-5459 TCGA-CZ-5460 TCGA-CZ-5461 
       79.63        90.54        91.69        55.33        94.45        10.85 
TCGA-CZ-5462 TCGA-CZ-5463 TCGA-CZ-5464 TCGA-CZ-5465 TCGA-CZ-5466 TCGA-CZ-5467 
       10.22        21.76        69.96        84.30        22.52         2.40 
TCGA-CZ-5468 TCGA-CZ-5470 TCGA-CZ-5982 TCGA-CZ-5984 TCGA-CZ-5985 TCGA-CZ-5986 
        1.94        12.69        80.19        67.96        65.65        12.26 
TCGA-CZ-5987 TCGA-CZ-5989 TCGA-DV-5565 TCGA-DV-5566 TCGA-DV-5567 TCGA-DV-5568 
       14.63        62.63        13.28        45.96        65.88        12.16 
TCGA-DV-5569 TCGA-DV-5573 TCGA-DV-5574 TCGA-DV-5575 TCGA-DV-5576 TCGA-DV-A4VX 
       11.67        37.15        66.28        56.84        23.90        53.46 
TCGA-DV-A4VZ TCGA-DV-A4W0 TCGA-EU-5904 TCGA-EU-5905 TCGA-EU-5906 TCGA-EU-5907 
       12.00        81.21        18.12         3.91         6.77         4.18 
TCGA-G6-A5PC TCGA-G6-A8L6 TCGA-G6-A8L7 TCGA-G6-A8L8 TCGA-GK-A6C7 TCGA-MM-A563 
        7.96        10.29        70.13        35.87         2.01        19.43 
TCGA-MM-A564 TCGA-MM-A84U TCGA-MW-A4EC TCGA-T7-A92I TCGA-2K-A9WE TCGA-2Z-A9J1 
       19.96        23.01        16.37        11.70         7.04        75.55 
TCGA-2Z-A9J3 TCGA-2Z-A9J5 TCGA-2Z-A9J6 TCGA-2Z-A9J7 TCGA-2Z-A9J9 TCGA-2Z-A9JD 
       58.22       100.27        56.91         4.57        75.42        34.85 
TCGA-2Z-A9JE TCGA-2Z-A9JG TCGA-2Z-A9JI TCGA-2Z-A9JK TCGA-2Z-A9JL TCGA-2Z-A9JM 
       56.81        54.64        51.52        38.99        33.07        30.71 
TCGA-2Z-A9JN TCGA-2Z-A9JO TCGA-2Z-A9JP TCGA-2Z-A9JQ TCGA-2Z-A9JR TCGA-2Z-A9JS 
       24.33        31.20        29.36        25.58         5.29        16.18 
TCGA-2Z-A9JT TCGA-4A-A93W TCGA-4A-A93X TCGA-4A-A93Y TCGA-5P-A9JU TCGA-5P-A9JV 
       22.49         0.13        12.82        11.57        12.26        67.17 
TCGA-5P-A9JW TCGA-5P-A9JY TCGA-5P-A9JZ TCGA-5P-A9K0 TCGA-5P-A9K2 TCGA-5P-A9K3 
      106.55        49.58        90.21        22.26        78.64        15.48 
TCGA-5P-A9K4 TCGA-5P-A9K6 TCGA-5P-A9K8 TCGA-5P-A9K9 TCGA-5P-A9KA TCGA-5P-A9KC 
       71.80        62.93        43.04        19.36        12.99        12.39 
TCGA-5P-A9KE TCGA-5P-A9KH TCGA-A4-7287 TCGA-A4-7288 TCGA-A4-7583 TCGA-A4-7584 
       27.09        67.43        19.63        61.05         0.10        21.37 
TCGA-A4-7585 TCGA-A4-7732 TCGA-A4-7734 TCGA-A4-7828 TCGA-A4-7915 TCGA-A4-7996 
       35.18        19.13         0.89         7.82         0.23        16.64 
TCGA-A4-7997 TCGA-A4-8098 TCGA-A4-8310 TCGA-A4-8311 TCGA-A4-8312 TCGA-A4-8515 
       30.48        29.46        25.64        23.97        23.28        23.31 
TCGA-A4-8516 TCGA-A4-8517 TCGA-A4-8518 TCGA-A4-8630 TCGA-A4-A48D TCGA-A4-A4ZT 
        0.76        19.63        19.73        14.33        12.46        16.96 
TCGA-A4-A57E TCGA-A4-A5DU TCGA-A4-A5XZ TCGA-A4-A5Y0 TCGA-A4-A5Y1 TCGA-A4-A6HP 
        8.48        16.31        15.75         8.28        12.99        12.46 
TCGA-AL-3466 TCGA-AL-3467 TCGA-AL-3468 TCGA-AL-3471 TCGA-AL-3472 TCGA-AL-3473 
        9.63        70.19        76.64        49.32        66.71        62.66 
TCGA-AL-7173 TCGA-AL-A5DJ TCGA-AT-A5NU TCGA-B1-5398 TCGA-B1-7332 TCGA-B1-A47M 
       67.73        49.25         2.20        19.56        37.51        21.67 
TCGA-B1-A47N TCGA-B1-A47O TCGA-B1-A654 TCGA-B1-A655 TCGA-B1-A656 TCGA-B1-A657 
       24.56        16.87        20.25        16.77        20.32        21.07 
TCGA-B3-3925 TCGA-B3-3926 TCGA-B3-4103 TCGA-B3-4104 TCGA-B3-8121 TCGA-B3-A6W5 
       33.83        10.09        30.58        34.49        12.46        10.16 
TCGA-B9-4113 TCGA-B9-4114 TCGA-B9-4115 TCGA-B9-4116 TCGA-B9-4117 TCGA-B9-4617 
       50.50        28.18        26.40        20.61         0.46         1.15 
TCGA-B9-5155 TCGA-B9-5156 TCGA-B9-7268 TCGA-B9-A44B TCGA-B9-A5W7 TCGA-B9-A5W8 
       15.12        43.99        22.06         2.10        19.23        17.23 
TCGA-B9-A5W9 TCGA-B9-A69E TCGA-B9-A8YH TCGA-B9-A8YI TCGA-BQ-5875 TCGA-BQ-5876 
        0.16        14.86        17.49        12.30        86.76        19.27 
TCGA-BQ-5877 TCGA-BQ-5880 TCGA-BQ-5881 TCGA-BQ-5882 TCGA-BQ-5883 TCGA-BQ-5884 
        8.88        43.20        47.80        21.63        40.83        26.04 
TCGA-BQ-5885 TCGA-BQ-5886 TCGA-BQ-5887 TCGA-BQ-5888 TCGA-BQ-5889 TCGA-BQ-5890 
       30.28        26.04        25.35        13.25        10.82         7.66 
TCGA-BQ-5891 TCGA-BQ-5892 TCGA-BQ-5893 TCGA-BQ-7044 TCGA-BQ-7045 TCGA-BQ-7046 
        0.95        11.97         7.92       123.62        48.26        96.92 
TCGA-BQ-7048 TCGA-BQ-7049 TCGA-BQ-7050 TCGA-BQ-7051 TCGA-BQ-7053 TCGA-BQ-7055 
       93.34        44.84        61.28        50.40        49.84        26.27 
TCGA-BQ-7056 TCGA-BQ-7058 TCGA-BQ-7059 TCGA-BQ-7060 TCGA-BQ-7061 TCGA-BQ-7062 
       20.12        11.28         7.63         7.04         7.17         3.81 
TCGA-DW-5560 TCGA-DW-5561 TCGA-DW-7834 TCGA-DW-7836 TCGA-DW-7837 TCGA-DW-7838 
       48.85        13.61       129.86        35.93        37.55        24.46 
TCGA-DW-7839 TCGA-DW-7840 TCGA-DW-7841 TCGA-DW-7842 TCGA-DW-7963 TCGA-DZ-6131 
       13.78         3.75        14.63         3.02        40.77        79.86 
TCGA-DZ-6132 TCGA-DZ-6133 TCGA-DZ-6134 TCGA-DZ-6135 TCGA-EV-5901 TCGA-EV-5902 
       80.88        51.19        61.02        74.60        34.19        19.00 
TCGA-EV-5903 TCGA-F9-A7Q0 TCGA-F9-A7VF TCGA-F9-A8NY TCGA-F9-A97G TCGA-G7-6789 
       24.89        13.08         2.40         1.18         0.43         4.01 
TCGA-G7-6790 TCGA-G7-6792 TCGA-G7-6795 TCGA-G7-6796 TCGA-G7-6797 TCGA-G7-7501 
       51.78        90.90        39.25        71.44        25.15        20.52 
TCGA-G7-7502 TCGA-G7-A4TM TCGA-G7-A8LB TCGA-G7-A8LC TCGA-G7-A8LD TCGA-G7-A8LE 
       25.84         6.38        17.98        23.08        16.90        80.65 
TCGA-GL-6846 TCGA-GL-7966 TCGA-GL-8500 TCGA-GL-A4EM TCGA-GL-A59R TCGA-GL-A59T 
      194.79         3.68        27.65         1.05        12.43        17.95 
TCGA-GL-A9DC TCGA-GL-A9DD TCGA-GL-A9DE TCGA-HE-A5NF TCGA-HE-A5NH TCGA-HE-A5NI 
       12.89        11.21        16.31        84.89        26.01        11.84 
TCGA-HE-A5NJ TCGA-HE-A5NK TCGA-HE-A5NL TCGA-IA-A40U TCGA-IA-A40X TCGA-IA-A40Y 
       56.75        73.25        25.22        16.80        19.99         2.04 
TCGA-IA-A83S TCGA-IA-A83T TCGA-IA-A83V TCGA-IA-A83W TCGA-IZ-8195 TCGA-IZ-8196 
       85.78        88.24        96.69        67.17        22.26        21.34 
TCGA-IZ-A6M8 TCGA-IZ-A6M9 TCGA-J7-6720 TCGA-J7-8537 TCGA-KV-A6GD TCGA-KV-A6GE 
       16.34        12.36        12.76        10.55        18.41        29.10 
TCGA-KV-A74V TCGA-MH-A55W TCGA-MH-A55Z TCGA-MH-A560 TCGA-MH-A561 TCGA-MH-A562 
       11.41        34.29        27.78        30.38        27.65        20.25 
TCGA-MH-A854 TCGA-MH-A855 TCGA-MH-A856 TCGA-MH-A857 TCGA-O9-A75Z TCGA-P4-A5E7 
       17.62        12.13        31.13        29.26        15.48        87.09 
TCGA-P4-A5E8 TCGA-P4-A5EB TCGA-P4-A5ED TCGA-P4-AAVK TCGA-P4-AAVL TCGA-P4-AAVM 
       42.94        99.12        92.58        52.27        16.01        50.60 
TCGA-P4-AAVO TCGA-PJ-A5Z8 TCGA-PJ-A5Z9 TCGA-Q2-A5QZ TCGA-SX-A71R TCGA-SX-A71S 
       78.90        19.73        17.75        14.07        47.90        49.45 
TCGA-SX-A71U TCGA-SX-A71V TCGA-SX-A7SL TCGA-SX-A7SM TCGA-SX-A7SN TCGA-SX-A7SO 
       44.61        28.80        27.06        11.93        19.00        41.33 
TCGA-SX-A7SP TCGA-SX-A7SQ TCGA-SX-A7SR TCGA-SX-A7SS TCGA-SX-A7SU TCGA-UN-AAZ9 
       16.31        41.62        26.47        53.10        43.76        18.02 
TCGA-UZ-A9PJ TCGA-UZ-A9PK TCGA-UZ-A9PL TCGA-UZ-A9PM TCGA-UZ-A9PN TCGA-UZ-A9PO 
       26.20       117.40       103.63       125.29        37.35        62.83 
TCGA-UZ-A9PP TCGA-UZ-A9PQ TCGA-UZ-A9PR TCGA-UZ-A9PS TCGA-UZ-A9PU TCGA-UZ-A9PV 
       98.96        86.27        86.37        71.24        30.67        47.47 
TCGA-UZ-A9PX TCGA-UZ-A9PZ TCGA-UZ-A9Q0 TCGA-UZ-A9Q1 TCGA-V9-A7HT TCGA-WN-A9G9 
       65.13        21.60       110.73        51.35        31.73        26.01 
TCGA-WN-AB4C TCGA-Y8-A894 TCGA-Y8-A895 TCGA-Y8-A896 TCGA-Y8-A897 TCGA-Y8-A898 
       39.06        18.64        15.91        18.64        18.05        15.62 
TCGA-Y8-A8RY TCGA-Y8-A8RZ TCGA-Y8-A8S0 TCGA-Y8-A8S1 
       25.28         3.68         6.02        13.28 

  DEL PEAK 10(5P15.33) MUTATED DEL PEAK 10(5P15.33) WILD-TYPE 
                          2.76                           0.07 
  DEL PEAK 10(5P15.33) MUTATED DEL PEAK 10(5P15.33) WILD-TYPE 
                        151.96                         194.79 
  DEL PEAK 10(5P15.33) MUTATED DEL PEAK 10(5P15.33) WILD-TYPE 
                         37.25                          34.44 
[1] "2.8 - 152.0 (37.2)" "0.1 - 194.8 (34.4)"
[1] "hr=" "1"  
D23V2, continuous
                                vv
clus                             STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK 10(5P15.33) MUTATED         7        9         9        5
  DEL PEAK 10(5P15.33) WILD-TYPE     448       95       182       99
D23V3, multiclass
           clus
vv          DEL PEAK 10(5P15.33) MUTATED DEL PEAK 10(5P15.33) WILD-TYPE
  STAGE I                              7                            448
  STAGE II                             9                             95
  STAGE III                            9                            182
  STAGE IV                             5                             99
[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                              T1  T2  T3  T4
  DEL PEAK 10(5P15.33) MUTATED     7  11  13   0
  DEL PEAK 10(5P15.33) WILD-TYPE 472 116 245  15
D23V4, multiclass
    clus
vv   DEL PEAK 10(5P15.33) MUTATED DEL PEAK 10(5P15.33) WILD-TYPE
  T1                            7                            472
  T2                           11                            116
  T3                           13                            245
  T4                            0                             15
[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                              N0  N1  N2
  DEL PEAK 10(5P15.33) MUTATED    13   5   2
  DEL PEAK 10(5P15.33) WILD-TYPE 309  39   5
D23V5, multiclass
    clus
vv   DEL PEAK 10(5P15.33) MUTATED DEL PEAK 10(5P15.33) WILD-TYPE
  N0                           13                            309
  N1                            5                             39
  N2                            2                              5
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D23V6, binary
                                cls
clus                               0   1
  DEL PEAK 10(5P15.33) MUTATED    16   3
  DEL PEAK 10(5P15.33) WILD-TYPE 529  86
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 10(5P15.33) MUTATED     16    3
  DEL PEAK 10(5P15.33) WILD-TYPE  529   86
   clus
vv  DEL PEAK 10(5P15.33) MUTATED DEL PEAK 10(5P15.33) WILD-TYPE
  0                           16                            529
  1                            3                             86
[1] 2 2
[1] FALSE
D23V7, binary
                                cls
clus                               0   1
  DEL PEAK 10(5P15.33) MUTATED    14  17
  DEL PEAK 10(5P15.33) WILD-TYPE 278 572
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 10(5P15.33) MUTATED     14   17
  DEL PEAK 10(5P15.33) WILD-TYPE  278  572
        clus
vv       DEL PEAK 10(5P15.33) MUTATED DEL PEAK 10(5P15.33) WILD-TYPE
  FEMALE                           14                            278
  MALE                             17                            572
[1] 2 2
[1] FALSE
D23V8, binary
                                cls
clus                               0   1
  DEL PEAK 10(5P15.33) MUTATED    19   0
  DEL PEAK 10(5P15.33) WILD-TYPE 381   3
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 10(5P15.33) MUTATED     19    0
  DEL PEAK 10(5P15.33) WILD-TYPE  381    3
     clus
vv    DEL PEAK 10(5P15.33) MUTATED DEL PEAK 10(5P15.33) WILD-TYPE
  NO                            19                            381
  YES                            0                              3
[1] 2 2
[1] FALSE
D23V9, continuous
                                vv
clus                             KIDNEY CHROMOPHOBE
  DEL PEAK 10(5P15.33) MUTATED                   10
  DEL PEAK 10(5P15.33) WILD-TYPE                 56
                                vv
clus                             KIDNEY CLEAR CELL RENAL CARCINOMA
  DEL PEAK 10(5P15.33) MUTATED                                   8
  DEL PEAK 10(5P15.33) WILD-TYPE                               520
                                vv
clus                             KIDNEY PAPILLARY RENAL CELL CARCINOMA
  DEL PEAK 10(5P15.33) MUTATED                                      13
  DEL PEAK 10(5P15.33) WILD-TYPE                                   274
D23V10, multiclass
                                       clus
vv                                      DEL PEAK 10(5P15.33) MUTATED
  KIDNEY CHROMOPHOBE                                              10
  KIDNEY CLEAR CELL RENAL CARCINOMA                                8
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                           13
                                       clus
vv                                      DEL PEAK 10(5P15.33) WILD-TYPE
  KIDNEY CHROMOPHOBE                                                56
  KIDNEY CLEAR CELL RENAL CARCINOMA                                520
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                            274
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D23V11, continuous
D23V12, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 10(5P15.33) MUTATED                                  0     1
  DEL PEAK 10(5P15.33) WILD-TYPE                                2    14
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 10(5P15.33) MUTATED                           3    23
  DEL PEAK 10(5P15.33) WILD-TYPE                       118   696
D23V13, multiclass
                                  clus
vv                                 DEL PEAK 10(5P15.33) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                       1
  BLACK OR AFRICAN AMERICAN                                   3
  WHITE                                                      23
                                  clus
vv                                 DEL PEAK 10(5P15.33) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              2
  ASIAN                                                        14
  BLACK OR AFRICAN AMERICAN                                   118
  WHITE                                                       696
[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"
D23V14, binary
                                cls
clus                               0   1
  DEL PEAK 10(5P15.33) MUTATED     3  18
  DEL PEAK 10(5P15.33) WILD-TYPE  39 603
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 10(5P15.33) MUTATED      3   18
  DEL PEAK 10(5P15.33) WILD-TYPE   39  603
                        clus
vv                       DEL PEAK 10(5P15.33) MUTATED
  HISPANIC OR LATINO                                3
  NOT HISPANIC OR LATINO                           18
                        clus
vv                       DEL PEAK 10(5P15.33) WILD-TYPE
  HISPANIC OR LATINO                                 39
  NOT HISPANIC OR LATINO                            603
[1] 2 2
[1] FALSE

Clustering(24) Variable = DEL PEAK 11(6Q22.31) MUTATION ANALYSIS
D24V1, survival
                                sevent
clus2                              0   1
  DEL PEAK 11(6Q22.31) MUTATED   162  63
  DEL PEAK 11(6Q22.31) WILD-TYPE 483 165
  DEL PEAK 11(6Q22.31) MUTATED DEL PEAK 11(6Q22.31) WILD-TYPE 
                           225                            648 
  DEL PEAK 11(6Q22.31) MUTATED DEL PEAK 11(6Q22.31) WILD-TYPE 
                            63                            165 
$`DEL PEAK 11(6Q22.31) MUTATED`
TCGA-KL-8323 TCGA-KL-8324 TCGA-KL-8325 TCGA-KL-8327 TCGA-KL-8328 TCGA-KL-8329 
       38.07       141.73        23.84       137.06       102.81        90.48 
TCGA-KL-8330 TCGA-KL-8331 TCGA-KL-8332 TCGA-KL-8333 TCGA-KL-8334 TCGA-KL-8335 
      108.62        98.96        84.89        98.33        96.95        92.55 
TCGA-KL-8336 TCGA-KL-8337 TCGA-KL-8338 TCGA-KL-8339 TCGA-KL-8340 TCGA-KL-8341 
       30.25        44.84        86.56        28.11        66.54        24.79 
TCGA-KL-8342 TCGA-KL-8345 TCGA-KM-8438 TCGA-KM-8440 TCGA-KM-8442 TCGA-KM-8443 
       73.91        54.74       151.96        44.91        47.24        49.97 
TCGA-KM-8476 TCGA-KN-8418 TCGA-KN-8421 TCGA-KN-8422 TCGA-KN-8424 TCGA-KN-8425 
      123.12       129.37        87.91        25.48        65.19       104.52 
TCGA-KN-8427 TCGA-KN-8428 TCGA-KN-8429 TCGA-KN-8431 TCGA-KN-8432 TCGA-KN-8434 
        0.99        52.27        87.12        19.33         2.50        59.08 
TCGA-KN-8435 TCGA-KN-8436 TCGA-KO-8403 TCGA-KO-8404 TCGA-KO-8405 TCGA-KO-8406 
      115.00        42.35       105.47        10.68       100.47       103.40 
TCGA-KO-8407 TCGA-KO-8408 TCGA-KO-8409 TCGA-KO-8411 TCGA-KO-8414 TCGA-KO-8415 
       92.71        16.67       104.55       130.13       105.60        96.62 
TCGA-KO-8416 TCGA-KO-8417 TCGA-A3-3306 TCGA-A3-3313 TCGA-A3-3316 TCGA-A3-3317 
       90.48        92.55        36.82        24.16        49.08        49.02 
TCGA-A3-3319 TCGA-A3-3320 TCGA-A3-3325 TCGA-A3-3335 TCGA-A3-3336 TCGA-A3-3346 
       37.15        49.58        38.47        62.01        34.29         4.50 
TCGA-A3-3347 TCGA-A3-3352 TCGA-A3-3374 TCGA-A3-3380 TCGA-A3-3382 TCGA-A3-A8CQ 
       52.93        18.44        43.20        18.64        18.87         0.10 
TCGA-AK-3426 TCGA-AK-3430 TCGA-AK-3433 TCGA-AK-3434 TCGA-AK-3436 TCGA-AK-3440 
       29.10        15.78       112.08        68.61       109.51        94.19 
TCGA-AK-3447 TCGA-AK-3454 TCGA-AK-3458 TCGA-AK-3461 TCGA-AK-3465 TCGA-AS-3777 
       40.01        28.73        38.40        72.89        12.13        40.70 
TCGA-B0-4690 TCGA-B0-4694 TCGA-B0-4696 TCGA-B0-4698 TCGA-B0-4699 TCGA-B0-4707 
        1.41         3.48        28.47         1.38         3.62        19.73 
TCGA-B0-4712 TCGA-B0-4810 TCGA-B0-4813 TCGA-B0-4822 TCGA-B0-4824 TCGA-B0-4828 
       43.96        15.72         0.59        36.53        54.48        10.09 
TCGA-B0-4836 TCGA-B0-4837 TCGA-B0-4844 TCGA-B0-4848 TCGA-B0-4849 TCGA-B0-5084 
       40.70        45.30        10.29        29.03         2.27         7.30 
TCGA-B0-5102 TCGA-B0-5108 TCGA-B0-5117 TCGA-B0-5119 TCGA-B0-5402 TCGA-B0-5702 
       90.87        58.59        52.87        51.02        42.41        71.41 
TCGA-B2-3923 TCGA-B2-5641 TCGA-B4-5377 TCGA-B4-5832 TCGA-B4-5835 TCGA-B4-5838 
       32.61        21.57        12.00         5.10         0.53         5.46 
TCGA-B8-4143 TCGA-B8-4148 TCGA-B8-4620 TCGA-B8-5158 TCGA-B8-A54G TCGA-BP-4164 
       23.31        27.16        25.55        20.91         1.74        32.61 
TCGA-BP-4167 TCGA-BP-4176 TCGA-BP-4325 TCGA-BP-4327 TCGA-BP-4331 TCGA-BP-4334 
       89.36        64.27        97.45         3.58        80.68        21.21 
TCGA-BP-4342 TCGA-BP-4352 TCGA-BP-4353 TCGA-BP-4761 TCGA-BP-4768 TCGA-BP-4770 
       74.17        11.31        12.33         5.98        13.15        10.82 
TCGA-BP-4775 TCGA-BP-4777 TCGA-BP-4781 TCGA-BP-4787 TCGA-BP-4797 TCGA-BP-4959 
       60.59        56.91        68.38        15.78        36.39        87.45 
TCGA-BP-4960 TCGA-BP-4962 TCGA-BP-4963 TCGA-BP-4968 TCGA-BP-4983 TCGA-BP-4986 
       71.41        58.68        60.30        57.40        46.45        25.81 
TCGA-BP-4987 TCGA-BP-4992 TCGA-BP-4993 TCGA-BP-4994 TCGA-BP-5000 TCGA-BP-5169 
       36.95        16.47         5.82        43.00        18.51         6.35 
TCGA-BP-5175 TCGA-BP-5178 TCGA-BP-5180 TCGA-BP-5185 TCGA-BP-5191 TCGA-BP-5201 
       30.64        62.86        74.40        37.22        31.79        31.27 
TCGA-CJ-4634 TCGA-CJ-4635 TCGA-CJ-4640 TCGA-CJ-4643 TCGA-CJ-4871 TCGA-CJ-4872 
      115.00        46.55       114.41        58.95        79.66        10.72 
TCGA-CJ-4878 TCGA-CJ-4881 TCGA-CJ-4887 TCGA-CJ-4893 TCGA-CJ-4895 TCGA-CJ-4897 
       71.87        66.21        30.64        24.66        39.45       109.84 
TCGA-CJ-4901 TCGA-CJ-4904 TCGA-CJ-4907 TCGA-CJ-5675 TCGA-CJ-5676 TCGA-CJ-5679 
       47.67       108.56        49.28       129.40       133.71        22.32 
TCGA-CJ-5680 TCGA-CJ-6027 TCGA-CJ-6028 TCGA-CJ-6032 TCGA-CW-5584 TCGA-CW-5585 
       25.25       118.85        53.42       119.64         5.39        85.78 
TCGA-CW-5588 TCGA-CZ-4853 TCGA-CZ-4858 TCGA-CZ-4859 TCGA-CZ-4866 TCGA-CZ-5452 
       66.31        25.45        69.21        58.75        61.41        58.82 
TCGA-CZ-5456 TCGA-CZ-5460 TCGA-CZ-5462 TCGA-CZ-5465 TCGA-CZ-5982 TCGA-CZ-5984 
       79.63        94.45        10.22        84.30        80.19        67.96 
TCGA-CZ-5985 TCGA-CZ-5987 TCGA-DV-5565 TCGA-DV-5568 TCGA-DV-5573 TCGA-DV-5575 
       65.65        14.63        13.28        12.16        37.15        56.84 
TCGA-EU-5907 TCGA-G6-A8L7 TCGA-G6-A8L8 TCGA-MM-A563 TCGA-MW-A4EC TCGA-2Z-A9J8 
        4.18        70.13        35.87        19.43        16.37        91.73 
TCGA-2Z-A9JG TCGA-2Z-A9JI TCGA-2Z-A9JJ TCGA-5P-A9JU TCGA-5P-A9KH TCGA-A4-7286 
       54.64        51.52        39.88        12.26        67.43        18.21 
TCGA-B3-3926 TCGA-B9-A44B TCGA-BQ-5875 TCGA-BQ-5882 TCGA-BQ-5888 TCGA-BQ-5889 
       10.09         2.10        86.76        21.63        13.25        10.82 
TCGA-BQ-7056 TCGA-EV-5902 TCGA-F9-A7Q0 TCGA-G7-6789 TCGA-G7-6793 TCGA-G7-7502 
       20.12        19.00        13.08         4.01        11.05        25.84 
TCGA-G7-A8LC TCGA-GL-7966 TCGA-J7-8537 TCGA-P4-A5EB TCGA-Q2-A5QZ TCGA-SX-A7SL 
       23.08         3.68        10.55        99.12        14.07        27.06 
TCGA-UN-AAZ9 TCGA-UZ-A9PQ TCGA-Y8-A896 
       18.02        86.27        18.64 

$`DEL PEAK 11(6Q22.31) WILD-TYPE`
TCGA-KL-8326 TCGA-KL-8343 TCGA-KL-8344 TCGA-KL-8346 TCGA-KM-8439 TCGA-KM-8441 
      109.22        71.41        28.80        62.37        23.28        28.80 
TCGA-KM-8477 TCGA-KM-8639 TCGA-KN-8419 TCGA-KN-8423 TCGA-KN-8426 TCGA-KN-8433 
       51.06        31.33        23.47        25.91         3.55        11.21 
TCGA-KN-8437 TCGA-KO-8410 TCGA-KO-8413 TCGA-3Z-A93Z TCGA-6D-AA2E TCGA-A3-3307 
      100.87       103.10        99.88        12.66        11.90        47.21 
TCGA-A3-3308 TCGA-A3-3311 TCGA-A3-3322 TCGA-A3-3323 TCGA-A3-3324 TCGA-A3-3326 
        0.53        39.16        48.59        36.36        38.99        37.38 
TCGA-A3-3331 TCGA-A3-3343 TCGA-A3-3349 TCGA-A3-3351 TCGA-A3-3357 TCGA-A3-3358 
       48.82        31.07        45.53        29.92        88.37        42.97 
TCGA-A3-3359 TCGA-A3-3362 TCGA-A3-3363 TCGA-A3-3365 TCGA-A3-3367 TCGA-A3-3370 
       82.32        51.25        10.49        28.70        74.63        74.76 
TCGA-A3-3372 TCGA-A3-3373 TCGA-A3-3376 TCGA-A3-3378 TCGA-A3-3383 TCGA-A3-3385 
       24.16        53.29        55.76        20.71        28.31        65.52 
TCGA-A3-3387 TCGA-A3-A6NI TCGA-A3-A6NJ TCGA-A3-A6NL TCGA-A3-A6NN TCGA-A3-A8OV 
       20.28        33.47        15.39        22.65         0.10        11.18 
TCGA-A3-A8OW TCGA-AK-3425 TCGA-AK-3427 TCGA-AK-3428 TCGA-AK-3429 TCGA-AK-3431 
       10.62       109.91       117.80        73.08       109.41        73.68 
TCGA-AK-3443 TCGA-AK-3444 TCGA-AK-3445 TCGA-AK-3450 TCGA-AK-3451 TCGA-AK-3453 
       46.78        48.36        78.64        49.28        94.29        83.21 
TCGA-AK-3455 TCGA-AK-3456 TCGA-AK-3460 TCGA-AS-3778 TCGA-B0-4688 TCGA-B0-4691 
       22.45        37.58        82.45         1.41         3.32         4.57 
TCGA-B0-4693 TCGA-B0-4697 TCGA-B0-4700 TCGA-B0-4701 TCGA-B0-4703 TCGA-B0-4706 
        2.53        19.00        65.10         7.82         5.98         2.14 
TCGA-B0-4710 TCGA-B0-4713 TCGA-B0-4714 TCGA-B0-4718 TCGA-B0-4811 TCGA-B0-4814 
       57.70         6.64         3.25        58.45        46.59         5.52 
TCGA-B0-4815 TCGA-B0-4816 TCGA-B0-4817 TCGA-B0-4818 TCGA-B0-4819 TCGA-B0-4821 
       52.21        45.07        33.50        16.77         6.02        40.44 
TCGA-B0-4823 TCGA-B0-4827 TCGA-B0-4833 TCGA-B0-4834 TCGA-B0-4838 TCGA-B0-4839 
       14.93        29.10        78.44        68.71        27.42        53.88 
TCGA-B0-4841 TCGA-B0-4842 TCGA-B0-4843 TCGA-B0-4845 TCGA-B0-4846 TCGA-B0-4847 
        6.71        56.68        10.52        65.29        39.45        26.07 
TCGA-B0-4852 TCGA-B0-4945 TCGA-B0-5075 TCGA-B0-5077 TCGA-B0-5080 TCGA-B0-5081 
       36.85        70.52        20.94        43.30        11.24        11.90 
TCGA-B0-5085 TCGA-B0-5088 TCGA-B0-5092 TCGA-B0-5094 TCGA-B0-5095 TCGA-B0-5096 
       25.32        18.51        15.09        10.95         8.05         2.24 
TCGA-B0-5097 TCGA-B0-5098 TCGA-B0-5099 TCGA-B0-5100 TCGA-B0-5104 TCGA-B0-5106 
       21.86        52.08        15.95        62.89        90.48        52.54 
TCGA-B0-5107 TCGA-B0-5109 TCGA-B0-5110 TCGA-B0-5113 TCGA-B0-5115 TCGA-B0-5116 
       30.48        19.30        66.05        38.63        52.73        41.88 
TCGA-B0-5120 TCGA-B0-5121 TCGA-B0-5399 TCGA-B0-5400 TCGA-B0-5690 TCGA-B0-5691 
       38.43        48.82        46.39        56.98       111.52       112.80 
TCGA-B0-5692 TCGA-B0-5693 TCGA-B0-5694 TCGA-B0-5695 TCGA-B0-5696 TCGA-B0-5697 
      129.67       133.94        15.78        70.68        85.78        86.47 
TCGA-B0-5698 TCGA-B0-5699 TCGA-B0-5701 TCGA-B0-5703 TCGA-B0-5705 TCGA-B0-5706 
      119.38       126.28        80.91        73.84       149.16       105.37 
TCGA-B0-5709 TCGA-B0-5710 TCGA-B0-5711 TCGA-B0-5712 TCGA-B0-5713 TCGA-B0-5812 
      130.65        79.89       131.15        89.49        91.46       126.05 
TCGA-B2-3924 TCGA-B2-4098 TCGA-B2-4099 TCGA-B2-4101 TCGA-B2-4102 TCGA-B2-5633 
       35.90         1.68        31.96        21.30        31.30        31.66 
TCGA-B2-5635 TCGA-B2-5639 TCGA-B2-A4SR TCGA-B4-5378 TCGA-B4-5834 TCGA-B4-5836 
       24.82        32.98        16.67         5.75         0.85         4.64 
TCGA-B4-5843 TCGA-B4-5844 TCGA-B8-4146 TCGA-B8-4151 TCGA-B8-4153 TCGA-B8-4154 
        0.36         0.23        16.80        42.71        25.05        45.37 
TCGA-B8-4619 TCGA-B8-4621 TCGA-B8-4622 TCGA-B8-5159 TCGA-B8-5162 TCGA-B8-5163 
       17.19        25.91        50.14        23.74         1.18        27.02 
TCGA-B8-5164 TCGA-B8-5165 TCGA-B8-5545 TCGA-B8-5546 TCGA-B8-5549 TCGA-B8-5550 
        0.85        24.23        50.14        16.60         6.38        48.53 
TCGA-B8-5551 TCGA-B8-5552 TCGA-B8-5553 TCGA-B8-A54D TCGA-B8-A54E TCGA-B8-A54F 
        0.53        34.39        14.30        27.29        29.88        17.06 
TCGA-B8-A54H TCGA-B8-A54I TCGA-B8-A54J TCGA-B8-A54K TCGA-B8-A7U6 TCGA-B8-A8YJ 
        8.42         4.93        17.36        15.42        16.27        14.17 
TCGA-BP-4158 TCGA-BP-4159 TCGA-BP-4160 TCGA-BP-4161 TCGA-BP-4162 TCGA-BP-4163 
      111.02        85.51        94.72        90.28       101.06        93.34 
TCGA-BP-4165 TCGA-BP-4166 TCGA-BP-4169 TCGA-BP-4170 TCGA-BP-4173 TCGA-BP-4174 
       99.85         0.43        23.05        77.03        62.24        61.78 
TCGA-BP-4177 TCGA-BP-4326 TCGA-BP-4329 TCGA-BP-4330 TCGA-BP-4332 TCGA-BP-4335 
       54.90        53.42        27.78        62.07        37.25        15.16 
TCGA-BP-4337 TCGA-BP-4338 TCGA-BP-4340 TCGA-BP-4341 TCGA-BP-4343 TCGA-BP-4344 
        0.07        93.99        18.48        52.24        62.86        54.77 
TCGA-BP-4346 TCGA-BP-4347 TCGA-BP-4349 TCGA-BP-4351 TCGA-BP-4354 TCGA-BP-4355 
       49.08        44.94        12.23        31.89        33.99        31.33 
TCGA-BP-4756 TCGA-BP-4758 TCGA-BP-4759 TCGA-BP-4760 TCGA-BP-4762 TCGA-BP-4763 
       12.30        72.59        77.98        77.62        44.15        41.75 
TCGA-BP-4765 TCGA-BP-4766 TCGA-BP-4769 TCGA-BP-4771 TCGA-BP-4774 TCGA-BP-4776 
       71.80        48.07        61.68         5.33        61.97        13.51 
TCGA-BP-4782 TCGA-BP-4784 TCGA-BP-4789 TCGA-BP-4790 TCGA-BP-4795 TCGA-BP-4798 
       11.64        60.95        48.95        36.53        20.38        10.98 
TCGA-BP-4799 TCGA-BP-4801 TCGA-BP-4803 TCGA-BP-4804 TCGA-BP-4807 TCGA-BP-4961 
       37.25        36.95         6.71        47.97         6.94        63.62 
TCGA-BP-4964 TCGA-BP-4965 TCGA-BP-4967 TCGA-BP-4969 TCGA-BP-4970 TCGA-BP-4971 
       61.22        61.51         6.74        58.98        14.24        48.89 
TCGA-BP-4972 TCGA-BP-4973 TCGA-BP-4974 TCGA-BP-4975 TCGA-BP-4976 TCGA-BP-4977 
       49.38        45.50         6.90        47.11        53.65        14.93 
TCGA-BP-4981 TCGA-BP-4982 TCGA-BP-4985 TCGA-BP-4988 TCGA-BP-4989 TCGA-BP-4991 
       36.07        33.34        31.30        27.22         3.88        46.45 
TCGA-BP-4995 TCGA-BP-4998 TCGA-BP-4999 TCGA-BP-5001 TCGA-BP-5004 TCGA-BP-5006 
       45.07        30.64        41.62        38.70        37.02        27.62 
TCGA-BP-5007 TCGA-BP-5008 TCGA-BP-5009 TCGA-BP-5010 TCGA-BP-5168 TCGA-BP-5170 
       37.48        35.21        36.23        28.87        48.10        79.30 
TCGA-BP-5173 TCGA-BP-5174 TCGA-BP-5176 TCGA-BP-5177 TCGA-BP-5181 TCGA-BP-5182 
        1.74        74.20        52.27         9.63        49.15        38.30 
TCGA-BP-5183 TCGA-BP-5184 TCGA-BP-5186 TCGA-BP-5187 TCGA-BP-5189 TCGA-BP-5190 
       42.44        37.25        22.78        13.35        27.02        33.24 
TCGA-BP-5192 TCGA-BP-5194 TCGA-BP-5195 TCGA-BP-5196 TCGA-BP-5198 TCGA-BP-5199 
       23.47        13.41        24.62        33.47        19.82        44.55 
TCGA-BP-5200 TCGA-BP-5202 TCGA-CJ-4636 TCGA-CJ-4637 TCGA-CJ-4638 TCGA-CJ-4639 
       34.95         0.95        63.25        73.22        14.17       106.16 
TCGA-CJ-4641 TCGA-CJ-4642 TCGA-CJ-4644 TCGA-CJ-4868 TCGA-CJ-4869 TCGA-CJ-4870 
       54.61       105.37        11.05        21.24        83.97        49.25 
TCGA-CJ-4873 TCGA-CJ-4874 TCGA-CJ-4875 TCGA-CJ-4876 TCGA-CJ-4882 TCGA-CJ-4884 
       74.27        75.06       116.84        64.27        61.91        57.83 
TCGA-CJ-4885 TCGA-CJ-4886 TCGA-CJ-4888 TCGA-CJ-4889 TCGA-CJ-4890 TCGA-CJ-4891 
      113.46        64.18        51.52        63.98       115.69        26.93 
TCGA-CJ-4892 TCGA-CJ-4894 TCGA-CJ-4899 TCGA-CJ-4900 TCGA-CJ-4902 TCGA-CJ-4903 
       50.01        27.65        50.24        56.35        49.97        51.25 
TCGA-CJ-4905 TCGA-CJ-4908 TCGA-CJ-4912 TCGA-CJ-4913 TCGA-CJ-4916 TCGA-CJ-4918 
       49.18        50.33        54.48        38.56        45.14         3.06 
TCGA-CJ-4920 TCGA-CJ-4923 TCGA-CJ-5671 TCGA-CJ-5672 TCGA-CJ-5677 TCGA-CJ-5678 
        4.57        18.81       131.08        72.00        25.71        18.87 
TCGA-CJ-5681 TCGA-CJ-5682 TCGA-CJ-5683 TCGA-CJ-5684 TCGA-CJ-5686 TCGA-CJ-5689 
       18.15       122.83        62.10        73.35        67.00        53.26 
TCGA-CJ-6030 TCGA-CJ-6031 TCGA-CJ-6033 TCGA-CW-5580 TCGA-CW-5581 TCGA-CW-5583 
       75.58        62.66         7.36        64.57        92.02        81.83 
TCGA-CW-5587 TCGA-CW-5589 TCGA-CW-5591 TCGA-CW-6087 TCGA-CW-6088 TCGA-CW-6090 
       73.18        78.18        74.66         1.35       105.93        83.90 
TCGA-CW-6093 TCGA-CW-6097 TCGA-CZ-4854 TCGA-CZ-4856 TCGA-CZ-4857 TCGA-CZ-4860 
      103.43        18.77        46.16         0.59        47.08         6.77 
TCGA-CZ-4861 TCGA-CZ-4862 TCGA-CZ-4863 TCGA-CZ-4864 TCGA-CZ-4865 TCGA-CZ-5451 
       14.66       107.54        63.39        93.04         5.46        63.42 
TCGA-CZ-5453 TCGA-CZ-5454 TCGA-CZ-5455 TCGA-CZ-5457 TCGA-CZ-5458 TCGA-CZ-5459 
       79.53        23.74        18.44        90.54        91.69        55.33 
TCGA-CZ-5461 TCGA-CZ-5463 TCGA-CZ-5464 TCGA-CZ-5466 TCGA-CZ-5467 TCGA-CZ-5468 
       10.85        21.76        69.96        22.52         2.40         1.94 
TCGA-CZ-5469 TCGA-CZ-5470 TCGA-CZ-5986 TCGA-CZ-5988 TCGA-CZ-5989 TCGA-DV-5566 
       31.10        12.69        12.26        22.78        62.63        45.96 
TCGA-DV-5567 TCGA-DV-5569 TCGA-DV-5574 TCGA-DV-5576 TCGA-DV-A4VX TCGA-DV-A4VZ 
       65.88        11.67        66.28        23.90        53.46        12.00 
TCGA-DV-A4W0 TCGA-EU-5904 TCGA-EU-5905 TCGA-EU-5906 TCGA-G6-A5PC TCGA-G6-A8L6 
       81.21        18.12         3.91         6.77         7.96        10.29 
TCGA-GK-A6C7 TCGA-MM-A564 TCGA-MM-A84U TCGA-T7-A92I TCGA-2K-A9WE TCGA-2Z-A9J1 
        2.01        19.96        23.01        11.70         7.04        75.55 
TCGA-2Z-A9J2 TCGA-2Z-A9J3 TCGA-2Z-A9J5 TCGA-2Z-A9J6 TCGA-2Z-A9J7 TCGA-2Z-A9J9 
       59.01        58.22       100.27        56.91         4.57        75.42 
TCGA-2Z-A9JD TCGA-2Z-A9JE TCGA-2Z-A9JK TCGA-2Z-A9JL TCGA-2Z-A9JM TCGA-2Z-A9JN 
       34.85        56.81        38.99        33.07        30.71        24.33 
TCGA-2Z-A9JO TCGA-2Z-A9JP TCGA-2Z-A9JQ TCGA-2Z-A9JR TCGA-2Z-A9JS TCGA-2Z-A9JT 
       31.20        29.36        25.58         5.29        16.18        22.49 
TCGA-4A-A93W TCGA-4A-A93X TCGA-4A-A93Y TCGA-5P-A9JV TCGA-5P-A9JW TCGA-5P-A9JY 
        0.13        12.82        11.57        67.17       106.55        49.58 
TCGA-5P-A9JZ TCGA-5P-A9K0 TCGA-5P-A9K2 TCGA-5P-A9K3 TCGA-5P-A9K4 TCGA-5P-A9K6 
       90.21        22.26        78.64        15.48        71.80        62.93 
TCGA-5P-A9K8 TCGA-5P-A9K9 TCGA-5P-A9KA TCGA-5P-A9KC TCGA-5P-A9KE TCGA-A4-7287 
       43.04        19.36        12.99        12.39        27.09        19.63 
TCGA-A4-7288 TCGA-A4-7583 TCGA-A4-7584 TCGA-A4-7585 TCGA-A4-7732 TCGA-A4-7734 
       61.05         0.10        21.37        35.18        19.13         0.89 
TCGA-A4-7828 TCGA-A4-7915 TCGA-A4-7996 TCGA-A4-7997 TCGA-A4-8098 TCGA-A4-8310 
        7.82         0.23        16.64        30.48        29.46        25.64 
TCGA-A4-8311 TCGA-A4-8312 TCGA-A4-8515 TCGA-A4-8516 TCGA-A4-8517 TCGA-A4-8518 
       23.97        23.28        23.31         0.76        19.63        19.73 
TCGA-A4-8630 TCGA-A4-A48D TCGA-A4-A4ZT TCGA-A4-A57E TCGA-A4-A5DU TCGA-A4-A5XZ 
       14.33        12.46        16.96         8.48        16.31        15.75 
TCGA-A4-A5Y0 TCGA-A4-A5Y1 TCGA-A4-A6HP TCGA-AL-3466 TCGA-AL-3467 TCGA-AL-3468 
        8.28        12.99        12.46         9.63        70.19        76.64 
TCGA-AL-3471 TCGA-AL-3472 TCGA-AL-3473 TCGA-AL-7173 TCGA-AL-A5DJ TCGA-AT-A5NU 
       49.32        66.71        62.66        67.73        49.25         2.20 
TCGA-B1-5398 TCGA-B1-7332 TCGA-B1-A47M TCGA-B1-A47N TCGA-B1-A47O TCGA-B1-A654 
       19.56        37.51        21.67        24.56        16.87        20.25 
TCGA-B1-A655 TCGA-B1-A656 TCGA-B1-A657 TCGA-B3-3925 TCGA-B3-4103 TCGA-B3-4104 
       16.77        20.32        21.07        33.83        30.58        34.49 
TCGA-B3-8121 TCGA-B3-A6W5 TCGA-B9-4113 TCGA-B9-4114 TCGA-B9-4115 TCGA-B9-4116 
       12.46        10.16        50.50        28.18        26.40        20.61 
TCGA-B9-4117 TCGA-B9-4617 TCGA-B9-5155 TCGA-B9-5156 TCGA-B9-7268 TCGA-B9-A5W7 
        0.46         1.15        15.12        43.99        22.06        19.23 
TCGA-B9-A5W8 TCGA-B9-A5W9 TCGA-B9-A69E TCGA-B9-A8YH TCGA-B9-A8YI TCGA-BQ-5876 
       17.23         0.16        14.86        17.49        12.30        19.27 
TCGA-BQ-5877 TCGA-BQ-5878 TCGA-BQ-5879 TCGA-BQ-5880 TCGA-BQ-5881 TCGA-BQ-5883 
        8.88        63.72        22.92        43.20        47.80        40.83 
TCGA-BQ-5884 TCGA-BQ-5885 TCGA-BQ-5886 TCGA-BQ-5887 TCGA-BQ-5890 TCGA-BQ-5891 
       26.04        30.28        26.04        25.35         7.66         0.95 
TCGA-BQ-5892 TCGA-BQ-5893 TCGA-BQ-5894 TCGA-BQ-7044 TCGA-BQ-7045 TCGA-BQ-7046 
       11.97         7.92         2.76       123.62        48.26        96.92 
TCGA-BQ-7048 TCGA-BQ-7049 TCGA-BQ-7050 TCGA-BQ-7051 TCGA-BQ-7053 TCGA-BQ-7055 
       93.34        44.84        61.28        50.40        49.84        26.27 
TCGA-BQ-7058 TCGA-BQ-7059 TCGA-BQ-7060 TCGA-BQ-7061 TCGA-BQ-7062 TCGA-DW-5560 
       11.28         7.63         7.04         7.17         3.81        48.85 
TCGA-DW-5561 TCGA-DW-7834 TCGA-DW-7836 TCGA-DW-7837 TCGA-DW-7838 TCGA-DW-7839 
       13.61       129.86        35.93        37.55        24.46        13.78 
TCGA-DW-7840 TCGA-DW-7841 TCGA-DW-7842 TCGA-DW-7963 TCGA-DZ-6131 TCGA-DZ-6132 
        3.75        14.63         3.02        40.77        79.86        80.88 
TCGA-DZ-6133 TCGA-DZ-6134 TCGA-DZ-6135 TCGA-EV-5901 TCGA-EV-5903 TCGA-F9-A4JJ 
       51.19        61.02        74.60        34.19        24.89        10.68 
TCGA-F9-A7VF TCGA-F9-A8NY TCGA-F9-A97G TCGA-G7-6790 TCGA-G7-6792 TCGA-G7-6795 
        2.40         1.18         0.43        51.78        90.90        39.25 
TCGA-G7-6796 TCGA-G7-6797 TCGA-G7-7501 TCGA-G7-A4TM TCGA-G7-A8LB TCGA-G7-A8LD 
       71.44        25.15        20.52         6.38        17.98        16.90 
TCGA-G7-A8LE TCGA-GL-6846 TCGA-GL-7773 TCGA-GL-8500 TCGA-GL-A4EM TCGA-GL-A59R 
       80.65       194.79        12.92        27.65         1.05        12.43 
TCGA-GL-A59T TCGA-GL-A9DC TCGA-GL-A9DD TCGA-GL-A9DE TCGA-HE-A5NF TCGA-HE-A5NH 
       17.95        12.89        11.21        16.31        84.89        26.01 
TCGA-HE-A5NI TCGA-HE-A5NJ TCGA-HE-A5NK TCGA-HE-A5NL TCGA-IA-A40U TCGA-IA-A40X 
       11.84        56.75        73.25        25.22        16.80        19.99 
TCGA-IA-A40Y TCGA-IA-A83S TCGA-IA-A83T TCGA-IA-A83V TCGA-IA-A83W TCGA-IZ-8195 
        2.04        85.78        88.24        96.69        67.17        22.26 
TCGA-IZ-8196 TCGA-IZ-A6M8 TCGA-IZ-A6M9 TCGA-J7-6720 TCGA-KV-A6GD TCGA-KV-A6GE 
       21.34        16.34        12.36        12.76        18.41        29.10 
TCGA-KV-A74V TCGA-MH-A55W TCGA-MH-A55Z TCGA-MH-A560 TCGA-MH-A561 TCGA-MH-A562 
       11.41        34.29        27.78        30.38        27.65        20.25 
TCGA-MH-A854 TCGA-MH-A855 TCGA-MH-A856 TCGA-MH-A857 TCGA-O9-A75Z TCGA-P4-A5E6 
       17.62        12.13        31.13        29.26        15.48        99.78 
TCGA-P4-A5E7 TCGA-P4-A5E8 TCGA-P4-A5EA TCGA-P4-A5ED TCGA-P4-AAVK TCGA-P4-AAVL 
       87.09        42.94         6.61        92.58        52.27        16.01 
TCGA-P4-AAVM TCGA-P4-AAVO TCGA-PJ-A5Z8 TCGA-PJ-A5Z9 TCGA-SX-A71R TCGA-SX-A71S 
       50.60        78.90        19.73        17.75        47.90        49.45 
TCGA-SX-A71U TCGA-SX-A71V TCGA-SX-A7SM TCGA-SX-A7SN TCGA-SX-A7SO TCGA-SX-A7SP 
       44.61        28.80        11.93        19.00        41.33        16.31 
TCGA-SX-A7SQ TCGA-SX-A7SR TCGA-SX-A7SS TCGA-SX-A7SU TCGA-UZ-A9PJ TCGA-UZ-A9PK 
       41.62        26.47        53.10        43.76        26.20       117.40 
TCGA-UZ-A9PL TCGA-UZ-A9PM TCGA-UZ-A9PN TCGA-UZ-A9PO TCGA-UZ-A9PP TCGA-UZ-A9PR 
      103.63       125.29        37.35        62.83        98.96        86.37 
TCGA-UZ-A9PS TCGA-UZ-A9PU TCGA-UZ-A9PV TCGA-UZ-A9PX TCGA-UZ-A9PZ TCGA-UZ-A9Q0 
       71.24        30.67        47.47        65.13        21.60       110.73 
TCGA-UZ-A9Q1 TCGA-V9-A7HT TCGA-WN-A9G9 TCGA-WN-AB4C TCGA-Y8-A894 TCGA-Y8-A895 
       51.35        31.73        26.01        39.06        18.64        15.91 
TCGA-Y8-A897 TCGA-Y8-A898 TCGA-Y8-A8RY TCGA-Y8-A8RZ TCGA-Y8-A8S0 TCGA-Y8-A8S1 
       18.05        15.62        25.28         3.68         6.02        13.28 

  DEL PEAK 11(6Q22.31) MUTATED DEL PEAK 11(6Q22.31) WILD-TYPE 
                          0.10                           0.07 
  DEL PEAK 11(6Q22.31) MUTATED DEL PEAK 11(6Q22.31) WILD-TYPE 
                        151.96                         194.79 
  DEL PEAK 11(6Q22.31) MUTATED DEL PEAK 11(6Q22.31) WILD-TYPE 
                        42.350                         31.495 
[1] "0.1 - 152.0 (42.4)" "0.1 - 194.8 (31.5)"
[1] "hr=" "1.1"
D24V2, continuous
                                vv
clus                             STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK 11(6Q22.31) MUTATED        93       41        55       36
  DEL PEAK 11(6Q22.31) WILD-TYPE     362       63       136       68
D24V3, multiclass
           clus
vv          DEL PEAK 11(6Q22.31) MUTATED DEL PEAK 11(6Q22.31) WILD-TYPE
  STAGE I                             93                            362
  STAGE II                            41                             63
  STAGE III                           55                            136
  STAGE IV                            36                             68
[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                              T1  T2  T3  T4
  DEL PEAK 11(6Q22.31) MUTATED    95  44  81   7
  DEL PEAK 11(6Q22.31) WILD-TYPE 384  83 177   8
D24V4, multiclass
    clus
vv   DEL PEAK 11(6Q22.31) MUTATED DEL PEAK 11(6Q22.31) WILD-TYPE
  T1                           95                            384
  T2                           44                             83
  T3                           81                            177
  T4                            7                              8
[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                              N0  N1  N2
  DEL PEAK 11(6Q22.31) MUTATED    89  16   4
  DEL PEAK 11(6Q22.31) WILD-TYPE 233  28   3
D24V5, multiclass
    clus
vv   DEL PEAK 11(6Q22.31) MUTATED DEL PEAK 11(6Q22.31) WILD-TYPE
  N0                           89                            233
  N1                           16                             28
  N2                            4                              3
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D24V6, binary
                                cls
clus                               0   1
  DEL PEAK 11(6Q22.31) MUTATED   157  26
  DEL PEAK 11(6Q22.31) WILD-TYPE 388  63
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 11(6Q22.31) MUTATED    157   26
  DEL PEAK 11(6Q22.31) WILD-TYPE  388   63
   clus
vv  DEL PEAK 11(6Q22.31) MUTATED DEL PEAK 11(6Q22.31) WILD-TYPE
  0                          157                            388
  1                           26                             63
[1] 2 2
[1] FALSE
D24V7, binary
                                cls
clus                               0   1
  DEL PEAK 11(6Q22.31) MUTATED    78 149
  DEL PEAK 11(6Q22.31) WILD-TYPE 214 440
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 11(6Q22.31) MUTATED     78  149
  DEL PEAK 11(6Q22.31) WILD-TYPE  214  440
        clus
vv       DEL PEAK 11(6Q22.31) MUTATED DEL PEAK 11(6Q22.31) WILD-TYPE
  FEMALE                           78                            214
  MALE                            149                            440
[1] 2 2
[1] FALSE
D24V8, binary
                                cls
clus                               0   1
  DEL PEAK 11(6Q22.31) MUTATED   101   0
  DEL PEAK 11(6Q22.31) WILD-TYPE 299   3
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 11(6Q22.31) MUTATED    101    0
  DEL PEAK 11(6Q22.31) WILD-TYPE  299    3
     clus
vv    DEL PEAK 11(6Q22.31) MUTATED DEL PEAK 11(6Q22.31) WILD-TYPE
  NO                           101                            299
  YES                            0                              3
[1] 2 2
[1] FALSE
D24V9, continuous
                                vv
clus                             KIDNEY CHROMOPHOBE
  DEL PEAK 11(6Q22.31) MUTATED                   51
  DEL PEAK 11(6Q22.31) WILD-TYPE                 15
                                vv
clus                             KIDNEY CLEAR CELL RENAL CARCINOMA
  DEL PEAK 11(6Q22.31) MUTATED                                 147
  DEL PEAK 11(6Q22.31) WILD-TYPE                               381
                                vv
clus                             KIDNEY PAPILLARY RENAL CELL CARCINOMA
  DEL PEAK 11(6Q22.31) MUTATED                                      29
  DEL PEAK 11(6Q22.31) WILD-TYPE                                   258
D24V10, multiclass
                                       clus
vv                                      DEL PEAK 11(6Q22.31) MUTATED
  KIDNEY CHROMOPHOBE                                              51
  KIDNEY CLEAR CELL RENAL CARCINOMA                              147
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                           29
                                       clus
vv                                      DEL PEAK 11(6Q22.31) WILD-TYPE
  KIDNEY CHROMOPHOBE                                                15
  KIDNEY CLEAR CELL RENAL CARCINOMA                                381
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                            258
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D24V11, continuous
D24V12, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 11(6Q22.31) MUTATED                                  0     6
  DEL PEAK 11(6Q22.31) WILD-TYPE                                2     9
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 11(6Q22.31) MUTATED                          16   197
  DEL PEAK 11(6Q22.31) WILD-TYPE                       105   522
D24V13, multiclass
                                  clus
vv                                 DEL PEAK 11(6Q22.31) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                       6
  BLACK OR AFRICAN AMERICAN                                  16
  WHITE                                                     197
                                  clus
vv                                 DEL PEAK 11(6Q22.31) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              2
  ASIAN                                                         9
  BLACK OR AFRICAN AMERICAN                                   105
  WHITE                                                       522
[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"
D24V14, binary
                                cls
clus                               0   1
  DEL PEAK 11(6Q22.31) MUTATED    13 141
  DEL PEAK 11(6Q22.31) WILD-TYPE  29 480
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 11(6Q22.31) MUTATED     13  141
  DEL PEAK 11(6Q22.31) WILD-TYPE   29  480
                        clus
vv                       DEL PEAK 11(6Q22.31) MUTATED
  HISPANIC OR LATINO                               13
  NOT HISPANIC OR LATINO                          141
                        clus
vv                       DEL PEAK 11(6Q22.31) WILD-TYPE
  HISPANIC OR LATINO                                 29
  NOT HISPANIC OR LATINO                            480
[1] 2 2
[1] FALSE

Clustering(25) Variable = DEL PEAK 12(6Q26) MUTATION ANALYSIS
D25V1, survival
                             sevent
clus2                           0   1
  DEL PEAK 12(6Q26) MUTATED   167  64
  DEL PEAK 12(6Q26) WILD-TYPE 478 164
  DEL PEAK 12(6Q26) MUTATED DEL PEAK 12(6Q26) WILD-TYPE 
                        231                         642 
  DEL PEAK 12(6Q26) MUTATED DEL PEAK 12(6Q26) WILD-TYPE 
                         64                         164 
$`DEL PEAK 12(6Q26) MUTATED`
TCGA-KL-8323 TCGA-KL-8324 TCGA-KL-8325 TCGA-KL-8327 TCGA-KL-8328 TCGA-KL-8329 
       38.07       141.73        23.84       137.06       102.81        90.48 
TCGA-KL-8330 TCGA-KL-8331 TCGA-KL-8332 TCGA-KL-8333 TCGA-KL-8334 TCGA-KL-8335 
      108.62        98.96        84.89        98.33        96.95        92.55 
TCGA-KL-8336 TCGA-KL-8337 TCGA-KL-8338 TCGA-KL-8339 TCGA-KL-8340 TCGA-KL-8341 
       30.25        44.84        86.56        28.11        66.54        24.79 
TCGA-KL-8342 TCGA-KL-8345 TCGA-KM-8438 TCGA-KM-8440 TCGA-KM-8442 TCGA-KM-8443 
       73.91        54.74       151.96        44.91        47.24        49.97 
TCGA-KM-8476 TCGA-KN-8418 TCGA-KN-8421 TCGA-KN-8422 TCGA-KN-8424 TCGA-KN-8425 
      123.12       129.37        87.91        25.48        65.19       104.52 
TCGA-KN-8427 TCGA-KN-8428 TCGA-KN-8429 TCGA-KN-8431 TCGA-KN-8432 TCGA-KN-8434 
        0.99        52.27        87.12        19.33         2.50        59.08 
TCGA-KN-8435 TCGA-KN-8436 TCGA-KO-8403 TCGA-KO-8404 TCGA-KO-8405 TCGA-KO-8406 
      115.00        42.35       105.47        10.68       100.47       103.40 
TCGA-KO-8407 TCGA-KO-8408 TCGA-KO-8409 TCGA-KO-8411 TCGA-KO-8414 TCGA-KO-8415 
       92.71        16.67       104.55       130.13       105.60        96.62 
TCGA-KO-8416 TCGA-KO-8417 TCGA-A3-3306 TCGA-A3-3313 TCGA-A3-3316 TCGA-A3-3317 
       90.48        92.55        36.82        24.16        49.08        49.02 
TCGA-A3-3319 TCGA-A3-3320 TCGA-A3-3335 TCGA-A3-3336 TCGA-A3-3346 TCGA-A3-3347 
       37.15        49.58        62.01        34.29         4.50        52.93 
TCGA-A3-3352 TCGA-A3-3374 TCGA-A3-3380 TCGA-A3-3382 TCGA-A3-A8CQ TCGA-AK-3426 
       18.44        43.20        18.64        18.87         0.10        29.10 
TCGA-AK-3430 TCGA-AK-3433 TCGA-AK-3434 TCGA-AK-3436 TCGA-AK-3440 TCGA-AK-3447 
       15.78       112.08        68.61       109.51        94.19        40.01 
TCGA-AK-3454 TCGA-AK-3458 TCGA-AK-3461 TCGA-AK-3465 TCGA-AS-3777 TCGA-B0-4690 
       28.73        38.40        72.89        12.13        40.70         1.41 
TCGA-B0-4694 TCGA-B0-4696 TCGA-B0-4698 TCGA-B0-4699 TCGA-B0-4707 TCGA-B0-4712 
        3.48        28.47         1.38         3.62        19.73        43.96 
TCGA-B0-4810 TCGA-B0-4813 TCGA-B0-4822 TCGA-B0-4824 TCGA-B0-4828 TCGA-B0-4836 
       15.72         0.59        36.53        54.48        10.09        40.70 
TCGA-B0-4837 TCGA-B0-4844 TCGA-B0-4848 TCGA-B0-4849 TCGA-B0-5084 TCGA-B0-5102 
       45.30        10.29        29.03         2.27         7.30        90.87 
TCGA-B0-5108 TCGA-B0-5117 TCGA-B0-5119 TCGA-B0-5402 TCGA-B0-5702 TCGA-B2-3923 
       58.59        52.87        51.02        42.41        71.41        32.61 
TCGA-B2-5641 TCGA-B4-5377 TCGA-B4-5832 TCGA-B4-5835 TCGA-B4-5838 TCGA-B8-4143 
       21.57        12.00         5.10         0.53         5.46        23.31 
TCGA-B8-4148 TCGA-B8-4620 TCGA-B8-5158 TCGA-B8-A54G TCGA-BP-4160 TCGA-BP-4164 
       27.16        25.55        20.91         1.74        94.72        32.61 
TCGA-BP-4167 TCGA-BP-4176 TCGA-BP-4325 TCGA-BP-4327 TCGA-BP-4331 TCGA-BP-4334 
       89.36        64.27        97.45         3.58        80.68        21.21 
TCGA-BP-4342 TCGA-BP-4346 TCGA-BP-4352 TCGA-BP-4353 TCGA-BP-4761 TCGA-BP-4768 
       74.17        49.08        11.31        12.33         5.98        13.15 
TCGA-BP-4775 TCGA-BP-4777 TCGA-BP-4781 TCGA-BP-4787 TCGA-BP-4797 TCGA-BP-4959 
       60.59        56.91        68.38        15.78        36.39        87.45 
TCGA-BP-4960 TCGA-BP-4962 TCGA-BP-4963 TCGA-BP-4968 TCGA-BP-4974 TCGA-BP-4983 
       71.41        58.68        60.30        57.40         6.90        46.45 
TCGA-BP-4986 TCGA-BP-4987 TCGA-BP-4992 TCGA-BP-4993 TCGA-BP-4994 TCGA-BP-5000 
       25.81        36.95        16.47         5.82        43.00        18.51 
TCGA-BP-5169 TCGA-BP-5175 TCGA-BP-5178 TCGA-BP-5180 TCGA-BP-5181 TCGA-BP-5185 
        6.35        30.64        62.86        74.40        49.15        37.22 
TCGA-BP-5191 TCGA-BP-5201 TCGA-CJ-4634 TCGA-CJ-4635 TCGA-CJ-4643 TCGA-CJ-4871 
       31.79        31.27       115.00        46.55        58.95        79.66 
TCGA-CJ-4872 TCGA-CJ-4876 TCGA-CJ-4878 TCGA-CJ-4881 TCGA-CJ-4887 TCGA-CJ-4892 
       10.72        64.27        71.87        66.21        30.64        50.01 
TCGA-CJ-4893 TCGA-CJ-4895 TCGA-CJ-4897 TCGA-CJ-4901 TCGA-CJ-4904 TCGA-CJ-4907 
       24.66        39.45       109.84        47.67       108.56        49.28 
TCGA-CJ-5675 TCGA-CJ-5676 TCGA-CJ-5679 TCGA-CJ-5680 TCGA-CJ-6027 TCGA-CJ-6028 
      129.40       133.71        22.32        25.25       118.85        53.42 
TCGA-CJ-6032 TCGA-CW-5584 TCGA-CW-5585 TCGA-CW-5588 TCGA-CZ-4853 TCGA-CZ-4858 
      119.64         5.39        85.78        66.31        25.45        69.21 
TCGA-CZ-4859 TCGA-CZ-4864 TCGA-CZ-4866 TCGA-CZ-5452 TCGA-CZ-5456 TCGA-CZ-5460 
       58.75        93.04        61.41        58.82        79.63        94.45 
TCGA-CZ-5462 TCGA-CZ-5465 TCGA-CZ-5982 TCGA-CZ-5984 TCGA-CZ-5985 TCGA-CZ-5987 
       10.22        84.30        80.19        67.96        65.65        14.63 
TCGA-DV-5565 TCGA-DV-5568 TCGA-DV-5573 TCGA-DV-5575 TCGA-EU-5907 TCGA-G6-A8L7 
       13.28        12.16        37.15        56.84         4.18        70.13 
TCGA-G6-A8L8 TCGA-MM-A563 TCGA-MW-A4EC TCGA-2Z-A9J8 TCGA-2Z-A9JG TCGA-2Z-A9JI 
       35.87        19.43        16.37        91.73        54.64        51.52 
TCGA-2Z-A9JJ TCGA-5P-A9JU TCGA-5P-A9K9 TCGA-5P-A9KH TCGA-A4-7286 TCGA-B3-3926 
       39.88        12.26        19.36        67.43        18.21        10.09 
TCGA-B9-A44B TCGA-BQ-5875 TCGA-BQ-5882 TCGA-BQ-5888 TCGA-BQ-5890 TCGA-BQ-7056 
        2.10        86.76        21.63        13.25         7.66        20.12 
TCGA-EV-5902 TCGA-F9-A7Q0 TCGA-G7-6789 TCGA-G7-6793 TCGA-G7-7502 TCGA-G7-A8LC 
       19.00        13.08         4.01        11.05        25.84        23.08 
TCGA-GL-7966 TCGA-IA-A40Y TCGA-J7-8537 TCGA-P4-A5EB TCGA-Q2-A5QZ TCGA-SX-A7SL 
        3.68         2.04        10.55        99.12        14.07        27.06 
TCGA-UN-AAZ9 TCGA-UZ-A9PQ TCGA-Y8-A896 
       18.02        86.27        18.64 

$`DEL PEAK 12(6Q26) WILD-TYPE`
TCGA-KL-8326 TCGA-KL-8343 TCGA-KL-8344 TCGA-KL-8346 TCGA-KM-8439 TCGA-KM-8441 
      109.22        71.41        28.80        62.37        23.28        28.80 
TCGA-KM-8477 TCGA-KM-8639 TCGA-KN-8419 TCGA-KN-8423 TCGA-KN-8426 TCGA-KN-8433 
       51.06        31.33        23.47        25.91         3.55        11.21 
TCGA-KN-8437 TCGA-KO-8410 TCGA-KO-8413 TCGA-3Z-A93Z TCGA-6D-AA2E TCGA-A3-3307 
      100.87       103.10        99.88        12.66        11.90        47.21 
TCGA-A3-3308 TCGA-A3-3311 TCGA-A3-3322 TCGA-A3-3323 TCGA-A3-3324 TCGA-A3-3325 
        0.53        39.16        48.59        36.36        38.99        38.47 
TCGA-A3-3326 TCGA-A3-3331 TCGA-A3-3343 TCGA-A3-3349 TCGA-A3-3351 TCGA-A3-3357 
       37.38        48.82        31.07        45.53        29.92        88.37 
TCGA-A3-3358 TCGA-A3-3359 TCGA-A3-3362 TCGA-A3-3363 TCGA-A3-3365 TCGA-A3-3367 
       42.97        82.32        51.25        10.49        28.70        74.63 
TCGA-A3-3370 TCGA-A3-3372 TCGA-A3-3373 TCGA-A3-3376 TCGA-A3-3378 TCGA-A3-3383 
       74.76        24.16        53.29        55.76        20.71        28.31 
TCGA-A3-3385 TCGA-A3-3387 TCGA-A3-A6NI TCGA-A3-A6NJ TCGA-A3-A6NL TCGA-A3-A6NN 
       65.52        20.28        33.47        15.39        22.65         0.10 
TCGA-A3-A8OV TCGA-A3-A8OW TCGA-AK-3425 TCGA-AK-3427 TCGA-AK-3428 TCGA-AK-3429 
       11.18        10.62       109.91       117.80        73.08       109.41 
TCGA-AK-3431 TCGA-AK-3443 TCGA-AK-3444 TCGA-AK-3445 TCGA-AK-3450 TCGA-AK-3451 
       73.68        46.78        48.36        78.64        49.28        94.29 
TCGA-AK-3453 TCGA-AK-3455 TCGA-AK-3456 TCGA-AK-3460 TCGA-AS-3778 TCGA-B0-4688 
       83.21        22.45        37.58        82.45         1.41         3.32 
TCGA-B0-4691 TCGA-B0-4693 TCGA-B0-4697 TCGA-B0-4700 TCGA-B0-4701 TCGA-B0-4703 
        4.57         2.53        19.00        65.10         7.82         5.98 
TCGA-B0-4706 TCGA-B0-4710 TCGA-B0-4713 TCGA-B0-4714 TCGA-B0-4718 TCGA-B0-4811 
        2.14        57.70         6.64         3.25        58.45        46.59 
TCGA-B0-4814 TCGA-B0-4815 TCGA-B0-4816 TCGA-B0-4817 TCGA-B0-4818 TCGA-B0-4819 
        5.52        52.21        45.07        33.50        16.77         6.02 
TCGA-B0-4821 TCGA-B0-4823 TCGA-B0-4827 TCGA-B0-4833 TCGA-B0-4834 TCGA-B0-4838 
       40.44        14.93        29.10        78.44        68.71        27.42 
TCGA-B0-4839 TCGA-B0-4841 TCGA-B0-4842 TCGA-B0-4843 TCGA-B0-4845 TCGA-B0-4846 
       53.88         6.71        56.68        10.52        65.29        39.45 
TCGA-B0-4847 TCGA-B0-4852 TCGA-B0-4945 TCGA-B0-5075 TCGA-B0-5077 TCGA-B0-5080 
       26.07        36.85        70.52        20.94        43.30        11.24 
TCGA-B0-5081 TCGA-B0-5085 TCGA-B0-5088 TCGA-B0-5092 TCGA-B0-5094 TCGA-B0-5095 
       11.90        25.32        18.51        15.09        10.95         8.05 
TCGA-B0-5096 TCGA-B0-5097 TCGA-B0-5098 TCGA-B0-5099 TCGA-B0-5100 TCGA-B0-5104 
        2.24        21.86        52.08        15.95        62.89        90.48 
TCGA-B0-5106 TCGA-B0-5107 TCGA-B0-5109 TCGA-B0-5110 TCGA-B0-5113 TCGA-B0-5115 
       52.54        30.48        19.30        66.05        38.63        52.73 
TCGA-B0-5116 TCGA-B0-5120 TCGA-B0-5121 TCGA-B0-5399 TCGA-B0-5400 TCGA-B0-5690 
       41.88        38.43        48.82        46.39        56.98       111.52 
TCGA-B0-5691 TCGA-B0-5692 TCGA-B0-5693 TCGA-B0-5694 TCGA-B0-5695 TCGA-B0-5696 
      112.80       129.67       133.94        15.78        70.68        85.78 
TCGA-B0-5697 TCGA-B0-5698 TCGA-B0-5699 TCGA-B0-5701 TCGA-B0-5703 TCGA-B0-5705 
       86.47       119.38       126.28        80.91        73.84       149.16 
TCGA-B0-5706 TCGA-B0-5709 TCGA-B0-5710 TCGA-B0-5711 TCGA-B0-5712 TCGA-B0-5713 
      105.37       130.65        79.89       131.15        89.49        91.46 
TCGA-B0-5812 TCGA-B2-3924 TCGA-B2-4098 TCGA-B2-4099 TCGA-B2-4101 TCGA-B2-4102 
      126.05        35.90         1.68        31.96        21.30        31.30 
TCGA-B2-5633 TCGA-B2-5635 TCGA-B2-5639 TCGA-B2-A4SR TCGA-B4-5378 TCGA-B4-5834 
       31.66        24.82        32.98        16.67         5.75         0.85 
TCGA-B4-5836 TCGA-B4-5843 TCGA-B4-5844 TCGA-B8-4146 TCGA-B8-4151 TCGA-B8-4153 
        4.64         0.36         0.23        16.80        42.71        25.05 
TCGA-B8-4154 TCGA-B8-4619 TCGA-B8-4621 TCGA-B8-4622 TCGA-B8-5159 TCGA-B8-5162 
       45.37        17.19        25.91        50.14        23.74         1.18 
TCGA-B8-5163 TCGA-B8-5164 TCGA-B8-5165 TCGA-B8-5545 TCGA-B8-5546 TCGA-B8-5549 
       27.02         0.85        24.23        50.14        16.60         6.38 
TCGA-B8-5550 TCGA-B8-5551 TCGA-B8-5552 TCGA-B8-5553 TCGA-B8-A54D TCGA-B8-A54E 
       48.53         0.53        34.39        14.30        27.29        29.88 
TCGA-B8-A54F TCGA-B8-A54H TCGA-B8-A54I TCGA-B8-A54J TCGA-B8-A54K TCGA-B8-A7U6 
       17.06         8.42         4.93        17.36        15.42        16.27 
TCGA-B8-A8YJ TCGA-BP-4158 TCGA-BP-4159 TCGA-BP-4161 TCGA-BP-4162 TCGA-BP-4163 
       14.17       111.02        85.51        90.28       101.06        93.34 
TCGA-BP-4165 TCGA-BP-4166 TCGA-BP-4169 TCGA-BP-4170 TCGA-BP-4173 TCGA-BP-4174 
       99.85         0.43        23.05        77.03        62.24        61.78 
TCGA-BP-4177 TCGA-BP-4326 TCGA-BP-4329 TCGA-BP-4330 TCGA-BP-4332 TCGA-BP-4335 
       54.90        53.42        27.78        62.07        37.25        15.16 
TCGA-BP-4337 TCGA-BP-4338 TCGA-BP-4340 TCGA-BP-4341 TCGA-BP-4343 TCGA-BP-4344 
        0.07        93.99        18.48        52.24        62.86        54.77 
TCGA-BP-4347 TCGA-BP-4349 TCGA-BP-4351 TCGA-BP-4354 TCGA-BP-4355 TCGA-BP-4756 
       44.94        12.23        31.89        33.99        31.33        12.30 
TCGA-BP-4758 TCGA-BP-4759 TCGA-BP-4760 TCGA-BP-4762 TCGA-BP-4763 TCGA-BP-4765 
       72.59        77.98        77.62        44.15        41.75        71.80 
TCGA-BP-4766 TCGA-BP-4769 TCGA-BP-4770 TCGA-BP-4771 TCGA-BP-4774 TCGA-BP-4776 
       48.07        61.68        10.82         5.33        61.97        13.51 
TCGA-BP-4782 TCGA-BP-4784 TCGA-BP-4789 TCGA-BP-4790 TCGA-BP-4795 TCGA-BP-4798 
       11.64        60.95        48.95        36.53        20.38        10.98 
TCGA-BP-4799 TCGA-BP-4801 TCGA-BP-4803 TCGA-BP-4804 TCGA-BP-4807 TCGA-BP-4961 
       37.25        36.95         6.71        47.97         6.94        63.62 
TCGA-BP-4964 TCGA-BP-4965 TCGA-BP-4967 TCGA-BP-4969 TCGA-BP-4970 TCGA-BP-4971 
       61.22        61.51         6.74        58.98        14.24        48.89 
TCGA-BP-4972 TCGA-BP-4973 TCGA-BP-4975 TCGA-BP-4976 TCGA-BP-4977 TCGA-BP-4981 
       49.38        45.50        47.11        53.65        14.93        36.07 
TCGA-BP-4982 TCGA-BP-4985 TCGA-BP-4988 TCGA-BP-4989 TCGA-BP-4991 TCGA-BP-4995 
       33.34        31.30        27.22         3.88        46.45        45.07 
TCGA-BP-4998 TCGA-BP-4999 TCGA-BP-5001 TCGA-BP-5004 TCGA-BP-5006 TCGA-BP-5007 
       30.64        41.62        38.70        37.02        27.62        37.48 
TCGA-BP-5008 TCGA-BP-5009 TCGA-BP-5010 TCGA-BP-5168 TCGA-BP-5170 TCGA-BP-5173 
       35.21        36.23        28.87        48.10        79.30         1.74 
TCGA-BP-5174 TCGA-BP-5176 TCGA-BP-5177 TCGA-BP-5182 TCGA-BP-5183 TCGA-BP-5184 
       74.20        52.27         9.63        38.30        42.44        37.25 
TCGA-BP-5186 TCGA-BP-5187 TCGA-BP-5189 TCGA-BP-5190 TCGA-BP-5192 TCGA-BP-5194 
       22.78        13.35        27.02        33.24        23.47        13.41 
TCGA-BP-5195 TCGA-BP-5196 TCGA-BP-5198 TCGA-BP-5199 TCGA-BP-5200 TCGA-BP-5202 
       24.62        33.47        19.82        44.55        34.95         0.95 
TCGA-CJ-4636 TCGA-CJ-4637 TCGA-CJ-4638 TCGA-CJ-4639 TCGA-CJ-4640 TCGA-CJ-4641 
       63.25        73.22        14.17       106.16       114.41        54.61 
TCGA-CJ-4642 TCGA-CJ-4644 TCGA-CJ-4868 TCGA-CJ-4869 TCGA-CJ-4870 TCGA-CJ-4873 
      105.37        11.05        21.24        83.97        49.25        74.27 
TCGA-CJ-4874 TCGA-CJ-4875 TCGA-CJ-4882 TCGA-CJ-4884 TCGA-CJ-4885 TCGA-CJ-4886 
       75.06       116.84        61.91        57.83       113.46        64.18 
TCGA-CJ-4888 TCGA-CJ-4889 TCGA-CJ-4890 TCGA-CJ-4891 TCGA-CJ-4894 TCGA-CJ-4899 
       51.52        63.98       115.69        26.93        27.65        50.24 
TCGA-CJ-4900 TCGA-CJ-4902 TCGA-CJ-4903 TCGA-CJ-4905 TCGA-CJ-4908 TCGA-CJ-4912 
       56.35        49.97        51.25        49.18        50.33        54.48 
TCGA-CJ-4913 TCGA-CJ-4916 TCGA-CJ-4918 TCGA-CJ-4920 TCGA-CJ-4923 TCGA-CJ-5671 
       38.56        45.14         3.06         4.57        18.81       131.08 
TCGA-CJ-5672 TCGA-CJ-5677 TCGA-CJ-5678 TCGA-CJ-5681 TCGA-CJ-5682 TCGA-CJ-5683 
       72.00        25.71        18.87        18.15       122.83        62.10 
TCGA-CJ-5684 TCGA-CJ-5686 TCGA-CJ-5689 TCGA-CJ-6030 TCGA-CJ-6031 TCGA-CJ-6033 
       73.35        67.00        53.26        75.58        62.66         7.36 
TCGA-CW-5580 TCGA-CW-5581 TCGA-CW-5583 TCGA-CW-5587 TCGA-CW-5589 TCGA-CW-5591 
       64.57        92.02        81.83        73.18        78.18        74.66 
TCGA-CW-6087 TCGA-CW-6088 TCGA-CW-6090 TCGA-CW-6093 TCGA-CW-6097 TCGA-CZ-4854 
        1.35       105.93        83.90       103.43        18.77        46.16 
TCGA-CZ-4856 TCGA-CZ-4857 TCGA-CZ-4860 TCGA-CZ-4861 TCGA-CZ-4862 TCGA-CZ-4863 
        0.59        47.08         6.77        14.66       107.54        63.39 
TCGA-CZ-4865 TCGA-CZ-5451 TCGA-CZ-5453 TCGA-CZ-5454 TCGA-CZ-5455 TCGA-CZ-5457 
        5.46        63.42        79.53        23.74        18.44        90.54 
TCGA-CZ-5458 TCGA-CZ-5459 TCGA-CZ-5461 TCGA-CZ-5463 TCGA-CZ-5464 TCGA-CZ-5466 
       91.69        55.33        10.85        21.76        69.96        22.52 
TCGA-CZ-5467 TCGA-CZ-5468 TCGA-CZ-5469 TCGA-CZ-5470 TCGA-CZ-5986 TCGA-CZ-5988 
        2.40         1.94        31.10        12.69        12.26        22.78 
TCGA-CZ-5989 TCGA-DV-5566 TCGA-DV-5567 TCGA-DV-5569 TCGA-DV-5574 TCGA-DV-5576 
       62.63        45.96        65.88        11.67        66.28        23.90 
TCGA-DV-A4VX TCGA-DV-A4VZ TCGA-DV-A4W0 TCGA-EU-5904 TCGA-EU-5905 TCGA-EU-5906 
       53.46        12.00        81.21        18.12         3.91         6.77 
TCGA-G6-A5PC TCGA-G6-A8L6 TCGA-GK-A6C7 TCGA-MM-A564 TCGA-MM-A84U TCGA-T7-A92I 
        7.96        10.29         2.01        19.96        23.01        11.70 
TCGA-2K-A9WE TCGA-2Z-A9J1 TCGA-2Z-A9J2 TCGA-2Z-A9J3 TCGA-2Z-A9J5 TCGA-2Z-A9J6 
        7.04        75.55        59.01        58.22       100.27        56.91 
TCGA-2Z-A9J7 TCGA-2Z-A9J9 TCGA-2Z-A9JD TCGA-2Z-A9JE TCGA-2Z-A9JK TCGA-2Z-A9JL 
        4.57        75.42        34.85        56.81        38.99        33.07 
TCGA-2Z-A9JM TCGA-2Z-A9JN TCGA-2Z-A9JO TCGA-2Z-A9JP TCGA-2Z-A9JQ TCGA-2Z-A9JR 
       30.71        24.33        31.20        29.36        25.58         5.29 
TCGA-2Z-A9JS TCGA-2Z-A9JT TCGA-4A-A93W TCGA-4A-A93X TCGA-4A-A93Y TCGA-5P-A9JV 
       16.18        22.49         0.13        12.82        11.57        67.17 
TCGA-5P-A9JW TCGA-5P-A9JY TCGA-5P-A9JZ TCGA-5P-A9K0 TCGA-5P-A9K2 TCGA-5P-A9K3 
      106.55        49.58        90.21        22.26        78.64        15.48 
TCGA-5P-A9K4 TCGA-5P-A9K6 TCGA-5P-A9K8 TCGA-5P-A9KA TCGA-5P-A9KC TCGA-5P-A9KE 
       71.80        62.93        43.04        12.99        12.39        27.09 
TCGA-A4-7287 TCGA-A4-7288 TCGA-A4-7583 TCGA-A4-7584 TCGA-A4-7585 TCGA-A4-7732 
       19.63        61.05         0.10        21.37        35.18        19.13 
TCGA-A4-7734 TCGA-A4-7828 TCGA-A4-7915 TCGA-A4-7996 TCGA-A4-7997 TCGA-A4-8098 
        0.89         7.82         0.23        16.64        30.48        29.46 
TCGA-A4-8310 TCGA-A4-8311 TCGA-A4-8312 TCGA-A4-8515 TCGA-A4-8516 TCGA-A4-8517 
       25.64        23.97        23.28        23.31         0.76        19.63 
TCGA-A4-8518 TCGA-A4-8630 TCGA-A4-A48D TCGA-A4-A4ZT TCGA-A4-A57E TCGA-A4-A5DU 
       19.73        14.33        12.46        16.96         8.48        16.31 
TCGA-A4-A5XZ TCGA-A4-A5Y0 TCGA-A4-A5Y1 TCGA-A4-A6HP TCGA-AL-3466 TCGA-AL-3467 
       15.75         8.28        12.99        12.46         9.63        70.19 
TCGA-AL-3468 TCGA-AL-3471 TCGA-AL-3472 TCGA-AL-3473 TCGA-AL-7173 TCGA-AL-A5DJ 
       76.64        49.32        66.71        62.66        67.73        49.25 
TCGA-AT-A5NU TCGA-B1-5398 TCGA-B1-7332 TCGA-B1-A47M TCGA-B1-A47N TCGA-B1-A47O 
        2.20        19.56        37.51        21.67        24.56        16.87 
TCGA-B1-A654 TCGA-B1-A655 TCGA-B1-A656 TCGA-B1-A657 TCGA-B3-3925 TCGA-B3-4103 
       20.25        16.77        20.32        21.07        33.83        30.58 
TCGA-B3-4104 TCGA-B3-8121 TCGA-B3-A6W5 TCGA-B9-4113 TCGA-B9-4114 TCGA-B9-4115 
       34.49        12.46        10.16        50.50        28.18        26.40 
TCGA-B9-4116 TCGA-B9-4117 TCGA-B9-4617 TCGA-B9-5155 TCGA-B9-5156 TCGA-B9-7268 
       20.61         0.46         1.15        15.12        43.99        22.06 
TCGA-B9-A5W7 TCGA-B9-A5W8 TCGA-B9-A5W9 TCGA-B9-A69E TCGA-B9-A8YH TCGA-B9-A8YI 
       19.23        17.23         0.16        14.86        17.49        12.30 
TCGA-BQ-5876 TCGA-BQ-5877 TCGA-BQ-5878 TCGA-BQ-5879 TCGA-BQ-5880 TCGA-BQ-5881 
       19.27         8.88        63.72        22.92        43.20        47.80 
TCGA-BQ-5883 TCGA-BQ-5884 TCGA-BQ-5885 TCGA-BQ-5886 TCGA-BQ-5887 TCGA-BQ-5889 
       40.83        26.04        30.28        26.04        25.35        10.82 
TCGA-BQ-5891 TCGA-BQ-5892 TCGA-BQ-5893 TCGA-BQ-5894 TCGA-BQ-7044 TCGA-BQ-7045 
        0.95        11.97         7.92         2.76       123.62        48.26 
TCGA-BQ-7046 TCGA-BQ-7048 TCGA-BQ-7049 TCGA-BQ-7050 TCGA-BQ-7051 TCGA-BQ-7053 
       96.92        93.34        44.84        61.28        50.40        49.84 
TCGA-BQ-7055 TCGA-BQ-7058 TCGA-BQ-7059 TCGA-BQ-7060 TCGA-BQ-7061 TCGA-BQ-7062 
       26.27        11.28         7.63         7.04         7.17         3.81 
TCGA-DW-5560 TCGA-DW-5561 TCGA-DW-7834 TCGA-DW-7836 TCGA-DW-7837 TCGA-DW-7838 
       48.85        13.61       129.86        35.93        37.55        24.46 
TCGA-DW-7839 TCGA-DW-7840 TCGA-DW-7841 TCGA-DW-7842 TCGA-DW-7963 TCGA-DZ-6131 
       13.78         3.75        14.63         3.02        40.77        79.86 
TCGA-DZ-6132 TCGA-DZ-6133 TCGA-DZ-6134 TCGA-DZ-6135 TCGA-EV-5901 TCGA-EV-5903 
       80.88        51.19        61.02        74.60        34.19        24.89 
TCGA-F9-A4JJ TCGA-F9-A7VF TCGA-F9-A8NY TCGA-F9-A97G TCGA-G7-6790 TCGA-G7-6792 
       10.68         2.40         1.18         0.43        51.78        90.90 
TCGA-G7-6795 TCGA-G7-6796 TCGA-G7-6797 TCGA-G7-7501 TCGA-G7-A4TM TCGA-G7-A8LB 
       39.25        71.44        25.15        20.52         6.38        17.98 
TCGA-G7-A8LD TCGA-G7-A8LE TCGA-GL-6846 TCGA-GL-7773 TCGA-GL-8500 TCGA-GL-A4EM 
       16.90        80.65       194.79        12.92        27.65         1.05 
TCGA-GL-A59R TCGA-GL-A59T TCGA-GL-A9DC TCGA-GL-A9DD TCGA-GL-A9DE TCGA-HE-A5NF 
       12.43        17.95        12.89        11.21        16.31        84.89 
TCGA-HE-A5NH TCGA-HE-A5NI TCGA-HE-A5NJ TCGA-HE-A5NK TCGA-HE-A5NL TCGA-IA-A40U 
       26.01        11.84        56.75        73.25        25.22        16.80 
TCGA-IA-A40X TCGA-IA-A83S TCGA-IA-A83T TCGA-IA-A83V TCGA-IA-A83W TCGA-IZ-8195 
       19.99        85.78        88.24        96.69        67.17        22.26 
TCGA-IZ-8196 TCGA-IZ-A6M8 TCGA-IZ-A6M9 TCGA-J7-6720 TCGA-KV-A6GD TCGA-KV-A6GE 
       21.34        16.34        12.36        12.76        18.41        29.10 
TCGA-KV-A74V TCGA-MH-A55W TCGA-MH-A55Z TCGA-MH-A560 TCGA-MH-A561 TCGA-MH-A562 
       11.41        34.29        27.78        30.38        27.65        20.25 
TCGA-MH-A854 TCGA-MH-A855 TCGA-MH-A856 TCGA-MH-A857 TCGA-O9-A75Z TCGA-P4-A5E6 
       17.62        12.13        31.13        29.26        15.48        99.78 
TCGA-P4-A5E7 TCGA-P4-A5E8 TCGA-P4-A5EA TCGA-P4-A5ED TCGA-P4-AAVK TCGA-P4-AAVL 
       87.09        42.94         6.61        92.58        52.27        16.01 
TCGA-P4-AAVM TCGA-P4-AAVO TCGA-PJ-A5Z8 TCGA-PJ-A5Z9 TCGA-SX-A71R TCGA-SX-A71S 
       50.60        78.90        19.73        17.75        47.90        49.45 
TCGA-SX-A71U TCGA-SX-A71V TCGA-SX-A7SM TCGA-SX-A7SN TCGA-SX-A7SO TCGA-SX-A7SP 
       44.61        28.80        11.93        19.00        41.33        16.31 
TCGA-SX-A7SQ TCGA-SX-A7SR TCGA-SX-A7SS TCGA-SX-A7SU TCGA-UZ-A9PJ TCGA-UZ-A9PK 
       41.62        26.47        53.10        43.76        26.20       117.40 
TCGA-UZ-A9PL TCGA-UZ-A9PM TCGA-UZ-A9PN TCGA-UZ-A9PO TCGA-UZ-A9PP TCGA-UZ-A9PR 
      103.63       125.29        37.35        62.83        98.96        86.37 
TCGA-UZ-A9PS TCGA-UZ-A9PU TCGA-UZ-A9PV TCGA-UZ-A9PX TCGA-UZ-A9PZ TCGA-UZ-A9Q0 
       71.24        30.67        47.47        65.13        21.60       110.73 
TCGA-UZ-A9Q1 TCGA-V9-A7HT TCGA-WN-A9G9 TCGA-WN-AB4C TCGA-Y8-A894 TCGA-Y8-A895 
       51.35        31.73        26.01        39.06        18.64        15.91 
TCGA-Y8-A897 TCGA-Y8-A898 TCGA-Y8-A8RY TCGA-Y8-A8RZ TCGA-Y8-A8S0 TCGA-Y8-A8S1 
       18.05        15.62        25.28         3.68         6.02        13.28 

  DEL PEAK 12(6Q26) MUTATED DEL PEAK 12(6Q26) WILD-TYPE 
                       0.10                        0.07 
  DEL PEAK 12(6Q26) MUTATED DEL PEAK 12(6Q26) WILD-TYPE 
                     151.96                      194.79 
  DEL PEAK 12(6Q26) MUTATED DEL PEAK 12(6Q26) WILD-TYPE 
                      43.00                       31.33 
[1] "0.1 - 152.0 (43.0)" "0.1 - 194.8 (31.3)"
[1] "hr=" "1.1"
D25V2, continuous
                             vv
clus                          STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK 12(6Q26) MUTATED        94       43        58       35
  DEL PEAK 12(6Q26) WILD-TYPE     361       61       133       69
D25V3, multiclass
           clus
vv          DEL PEAK 12(6Q26) MUTATED DEL PEAK 12(6Q26) WILD-TYPE
  STAGE I                          94                         361
  STAGE II                         43                          61
  STAGE III                        58                         133
  STAGE IV                         35                          69
[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                           T1  T2  T3  T4
  DEL PEAK 12(6Q26) MUTATED    96  46  85   6
  DEL PEAK 12(6Q26) WILD-TYPE 383  81 173   9
D25V4, multiclass
    clus
vv   DEL PEAK 12(6Q26) MUTATED DEL PEAK 12(6Q26) WILD-TYPE
  T1                        96                         383
  T2                        46                          81
  T3                        85                         173
  T4                         6                           9
[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                           N0  N1  N2
  DEL PEAK 12(6Q26) MUTATED    94  16   5
  DEL PEAK 12(6Q26) WILD-TYPE 228  28   2
D25V5, multiclass
    clus
vv   DEL PEAK 12(6Q26) MUTATED DEL PEAK 12(6Q26) WILD-TYPE
  N0                        94                         228
  N1                        16                          28
  N2                         5                           2
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D25V6, binary
                             cls
clus                            0   1
  DEL PEAK 12(6Q26) MUTATED   161  26
  DEL PEAK 12(6Q26) WILD-TYPE 384  63
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK 12(6Q26) MUTATED    161   26
  DEL PEAK 12(6Q26) WILD-TYPE  384   63
   clus
vv  DEL PEAK 12(6Q26) MUTATED DEL PEAK 12(6Q26) WILD-TYPE
  0                       161                         384
  1                        26                          63
[1] 2 2
[1] FALSE
D25V7, binary
                             cls
clus                            0   1
  DEL PEAK 12(6Q26) MUTATED    81 152
  DEL PEAK 12(6Q26) WILD-TYPE 211 437
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK 12(6Q26) MUTATED     81  152
  DEL PEAK 12(6Q26) WILD-TYPE  211  437
        clus
vv       DEL PEAK 12(6Q26) MUTATED DEL PEAK 12(6Q26) WILD-TYPE
  FEMALE                        81                         211
  MALE                         152                         437
[1] 2 2
[1] FALSE
D25V8, binary
                             cls
clus                            0   1
  DEL PEAK 12(6Q26) MUTATED   101   0
  DEL PEAK 12(6Q26) WILD-TYPE 299   3
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK 12(6Q26) MUTATED    101    0
  DEL PEAK 12(6Q26) WILD-TYPE  299    3
     clus
vv    DEL PEAK 12(6Q26) MUTATED DEL PEAK 12(6Q26) WILD-TYPE
  NO                        101                         299
  YES                         0                           3
[1] 2 2
[1] FALSE
D25V9, continuous
                             vv
clus                          KIDNEY CHROMOPHOBE
  DEL PEAK 12(6Q26) MUTATED                   51
  DEL PEAK 12(6Q26) WILD-TYPE                 15
                             vv
clus                          KIDNEY CLEAR CELL RENAL CARCINOMA
  DEL PEAK 12(6Q26) MUTATED                                 151
  DEL PEAK 12(6Q26) WILD-TYPE                               377
                             vv
clus                          KIDNEY PAPILLARY RENAL CELL CARCINOMA
  DEL PEAK 12(6Q26) MUTATED                                      31
  DEL PEAK 12(6Q26) WILD-TYPE                                   256
D25V10, multiclass
                                       clus
vv                                      DEL PEAK 12(6Q26) MUTATED
  KIDNEY CHROMOPHOBE                                           51
  KIDNEY CLEAR CELL RENAL CARCINOMA                           151
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                        31
                                       clus
vv                                      DEL PEAK 12(6Q26) WILD-TYPE
  KIDNEY CHROMOPHOBE                                             15
  KIDNEY CLEAR CELL RENAL CARCINOMA                             377
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                         256
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D25V11, continuous
D25V12, continuous
                             vv
clus                          AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 12(6Q26) MUTATED                                  0     6
  DEL PEAK 12(6Q26) WILD-TYPE                                2     9
                             vv
clus                          BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 12(6Q26) MUTATED                          16   203
  DEL PEAK 12(6Q26) WILD-TYPE                       105   516
D25V13, multiclass
                                  clus
vv                                 DEL PEAK 12(6Q26) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                         0
  ASIAN                                                    6
  BLACK OR AFRICAN AMERICAN                               16
  WHITE                                                  203
                                  clus
vv                                 DEL PEAK 12(6Q26) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                           2
  ASIAN                                                      9
  BLACK OR AFRICAN AMERICAN                                105
  WHITE                                                    516
[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"
D25V14, binary
                             cls
clus                            0   1
  DEL PEAK 12(6Q26) MUTATED    14 144
  DEL PEAK 12(6Q26) WILD-TYPE  28 477
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK 12(6Q26) MUTATED     14  144
  DEL PEAK 12(6Q26) WILD-TYPE   28  477
                        clus
vv                       DEL PEAK 12(6Q26) MUTATED DEL PEAK 12(6Q26) WILD-TYPE
  HISPANIC OR LATINO                            14                          28
  NOT HISPANIC OR LATINO                       144                         477
[1] 2 2
[1] FALSE

Clustering(26) Variable = DEL PEAK 13(6Q26) MUTATION ANALYSIS
D26V1, survival
                             sevent
clus2                           0   1
  DEL PEAK 13(6Q26) MUTATED   168  64
  DEL PEAK 13(6Q26) WILD-TYPE 477 164
  DEL PEAK 13(6Q26) MUTATED DEL PEAK 13(6Q26) WILD-TYPE 
                        232                         641 
  DEL PEAK 13(6Q26) MUTATED DEL PEAK 13(6Q26) WILD-TYPE 
                         64                         164 
$`DEL PEAK 13(6Q26) MUTATED`
TCGA-KL-8323 TCGA-KL-8324 TCGA-KL-8325 TCGA-KL-8327 TCGA-KL-8328 TCGA-KL-8329 
       38.07       141.73        23.84       137.06       102.81        90.48 
TCGA-KL-8330 TCGA-KL-8331 TCGA-KL-8332 TCGA-KL-8333 TCGA-KL-8334 TCGA-KL-8335 
      108.62        98.96        84.89        98.33        96.95        92.55 
TCGA-KL-8336 TCGA-KL-8337 TCGA-KL-8338 TCGA-KL-8339 TCGA-KL-8340 TCGA-KL-8341 
       30.25        44.84        86.56        28.11        66.54        24.79 
TCGA-KL-8342 TCGA-KL-8345 TCGA-KM-8438 TCGA-KM-8440 TCGA-KM-8442 TCGA-KM-8443 
       73.91        54.74       151.96        44.91        47.24        49.97 
TCGA-KM-8476 TCGA-KN-8418 TCGA-KN-8421 TCGA-KN-8422 TCGA-KN-8424 TCGA-KN-8425 
      123.12       129.37        87.91        25.48        65.19       104.52 
TCGA-KN-8427 TCGA-KN-8428 TCGA-KN-8429 TCGA-KN-8431 TCGA-KN-8432 TCGA-KN-8434 
        0.99        52.27        87.12        19.33         2.50        59.08 
TCGA-KN-8435 TCGA-KN-8436 TCGA-KO-8403 TCGA-KO-8404 TCGA-KO-8405 TCGA-KO-8406 
      115.00        42.35       105.47        10.68       100.47       103.40 
TCGA-KO-8407 TCGA-KO-8408 TCGA-KO-8409 TCGA-KO-8411 TCGA-KO-8414 TCGA-KO-8415 
       92.71        16.67       104.55       130.13       105.60        96.62 
TCGA-KO-8416 TCGA-KO-8417 TCGA-A3-3306 TCGA-A3-3313 TCGA-A3-3316 TCGA-A3-3317 
       90.48        92.55        36.82        24.16        49.08        49.02 
TCGA-A3-3319 TCGA-A3-3320 TCGA-A3-3335 TCGA-A3-3336 TCGA-A3-3346 TCGA-A3-3347 
       37.15        49.58        62.01        34.29         4.50        52.93 
TCGA-A3-3352 TCGA-A3-3374 TCGA-A3-3380 TCGA-A3-3382 TCGA-A3-A8CQ TCGA-AK-3426 
       18.44        43.20        18.64        18.87         0.10        29.10 
TCGA-AK-3430 TCGA-AK-3433 TCGA-AK-3434 TCGA-AK-3436 TCGA-AK-3440 TCGA-AK-3447 
       15.78       112.08        68.61       109.51        94.19        40.01 
TCGA-AK-3454 TCGA-AK-3458 TCGA-AK-3461 TCGA-AK-3465 TCGA-AS-3777 TCGA-B0-4690 
       28.73        38.40        72.89        12.13        40.70         1.41 
TCGA-B0-4694 TCGA-B0-4696 TCGA-B0-4698 TCGA-B0-4699 TCGA-B0-4707 TCGA-B0-4712 
        3.48        28.47         1.38         3.62        19.73        43.96 
TCGA-B0-4810 TCGA-B0-4813 TCGA-B0-4822 TCGA-B0-4824 TCGA-B0-4828 TCGA-B0-4836 
       15.72         0.59        36.53        54.48        10.09        40.70 
TCGA-B0-4837 TCGA-B0-4844 TCGA-B0-4848 TCGA-B0-4849 TCGA-B0-5084 TCGA-B0-5102 
       45.30        10.29        29.03         2.27         7.30        90.87 
TCGA-B0-5108 TCGA-B0-5117 TCGA-B0-5119 TCGA-B0-5402 TCGA-B0-5702 TCGA-B2-3923 
       58.59        52.87        51.02        42.41        71.41        32.61 
TCGA-B2-5641 TCGA-B4-5377 TCGA-B4-5832 TCGA-B4-5835 TCGA-B4-5838 TCGA-B8-4143 
       21.57        12.00         5.10         0.53         5.46        23.31 
TCGA-B8-4148 TCGA-B8-4620 TCGA-B8-5158 TCGA-B8-A54G TCGA-BP-4160 TCGA-BP-4164 
       27.16        25.55        20.91         1.74        94.72        32.61 
TCGA-BP-4167 TCGA-BP-4176 TCGA-BP-4325 TCGA-BP-4327 TCGA-BP-4331 TCGA-BP-4334 
       89.36        64.27        97.45         3.58        80.68        21.21 
TCGA-BP-4342 TCGA-BP-4346 TCGA-BP-4352 TCGA-BP-4353 TCGA-BP-4761 TCGA-BP-4768 
       74.17        49.08        11.31        12.33         5.98        13.15 
TCGA-BP-4775 TCGA-BP-4777 TCGA-BP-4781 TCGA-BP-4787 TCGA-BP-4797 TCGA-BP-4959 
       60.59        56.91        68.38        15.78        36.39        87.45 
TCGA-BP-4960 TCGA-BP-4962 TCGA-BP-4963 TCGA-BP-4968 TCGA-BP-4974 TCGA-BP-4983 
       71.41        58.68        60.30        57.40         6.90        46.45 
TCGA-BP-4986 TCGA-BP-4987 TCGA-BP-4992 TCGA-BP-4993 TCGA-BP-4994 TCGA-BP-5000 
       25.81        36.95        16.47         5.82        43.00        18.51 
TCGA-BP-5169 TCGA-BP-5175 TCGA-BP-5178 TCGA-BP-5180 TCGA-BP-5181 TCGA-BP-5185 
        6.35        30.64        62.86        74.40        49.15        37.22 
TCGA-BP-5191 TCGA-BP-5201 TCGA-CJ-4634 TCGA-CJ-4635 TCGA-CJ-4643 TCGA-CJ-4871 
       31.79        31.27       115.00        46.55        58.95        79.66 
TCGA-CJ-4872 TCGA-CJ-4876 TCGA-CJ-4878 TCGA-CJ-4881 TCGA-CJ-4887 TCGA-CJ-4892 
       10.72        64.27        71.87        66.21        30.64        50.01 
TCGA-CJ-4893 TCGA-CJ-4895 TCGA-CJ-4897 TCGA-CJ-4901 TCGA-CJ-4904 TCGA-CJ-4907 
       24.66        39.45       109.84        47.67       108.56        49.28 
TCGA-CJ-5675 TCGA-CJ-5676 TCGA-CJ-5679 TCGA-CJ-6027 TCGA-CJ-6028 TCGA-CJ-6032 
      129.40       133.71        22.32       118.85        53.42       119.64 
TCGA-CW-5584 TCGA-CW-5585 TCGA-CW-5588 TCGA-CZ-4853 TCGA-CZ-4858 TCGA-CZ-4859 
        5.39        85.78        66.31        25.45        69.21        58.75 
TCGA-CZ-4864 TCGA-CZ-4866 TCGA-CZ-5452 TCGA-CZ-5456 TCGA-CZ-5460 TCGA-CZ-5462 
       93.04        61.41        58.82        79.63        94.45        10.22 
TCGA-CZ-5465 TCGA-CZ-5468 TCGA-CZ-5982 TCGA-CZ-5984 TCGA-CZ-5985 TCGA-CZ-5987 
       84.30         1.94        80.19        67.96        65.65        14.63 
TCGA-DV-5565 TCGA-DV-5568 TCGA-DV-5573 TCGA-DV-5575 TCGA-EU-5907 TCGA-G6-A8L7 
       13.28        12.16        37.15        56.84         4.18        70.13 
TCGA-G6-A8L8 TCGA-MM-A563 TCGA-MW-A4EC TCGA-2Z-A9J8 TCGA-2Z-A9JG TCGA-2Z-A9JI 
       35.87        19.43        16.37        91.73        54.64        51.52 
TCGA-2Z-A9JJ TCGA-5P-A9JU TCGA-5P-A9K9 TCGA-5P-A9KH TCGA-A4-7286 TCGA-B3-3926 
       39.88        12.26        19.36        67.43        18.21        10.09 
TCGA-B9-A44B TCGA-BQ-5875 TCGA-BQ-5882 TCGA-BQ-5888 TCGA-BQ-5890 TCGA-BQ-7056 
        2.10        86.76        21.63        13.25         7.66        20.12 
TCGA-EV-5902 TCGA-F9-A7Q0 TCGA-G7-6789 TCGA-G7-6793 TCGA-G7-7502 TCGA-G7-A8LC 
       19.00        13.08         4.01        11.05        25.84        23.08 
TCGA-GL-7966 TCGA-IA-A40Y TCGA-J7-8537 TCGA-MH-A55W TCGA-P4-A5EB TCGA-Q2-A5QZ 
        3.68         2.04        10.55        34.29        99.12        14.07 
TCGA-SX-A7SL TCGA-UN-AAZ9 TCGA-UZ-A9PQ TCGA-Y8-A896 
       27.06        18.02        86.27        18.64 

$`DEL PEAK 13(6Q26) WILD-TYPE`
TCGA-KL-8326 TCGA-KL-8343 TCGA-KL-8344 TCGA-KL-8346 TCGA-KM-8439 TCGA-KM-8441 
      109.22        71.41        28.80        62.37        23.28        28.80 
TCGA-KM-8477 TCGA-KM-8639 TCGA-KN-8419 TCGA-KN-8423 TCGA-KN-8426 TCGA-KN-8433 
       51.06        31.33        23.47        25.91         3.55        11.21 
TCGA-KN-8437 TCGA-KO-8410 TCGA-KO-8413 TCGA-3Z-A93Z TCGA-6D-AA2E TCGA-A3-3307 
      100.87       103.10        99.88        12.66        11.90        47.21 
TCGA-A3-3308 TCGA-A3-3311 TCGA-A3-3322 TCGA-A3-3323 TCGA-A3-3324 TCGA-A3-3325 
        0.53        39.16        48.59        36.36        38.99        38.47 
TCGA-A3-3326 TCGA-A3-3331 TCGA-A3-3343 TCGA-A3-3349 TCGA-A3-3351 TCGA-A3-3357 
       37.38        48.82        31.07        45.53        29.92        88.37 
TCGA-A3-3358 TCGA-A3-3359 TCGA-A3-3362 TCGA-A3-3363 TCGA-A3-3365 TCGA-A3-3367 
       42.97        82.32        51.25        10.49        28.70        74.63 
TCGA-A3-3370 TCGA-A3-3372 TCGA-A3-3373 TCGA-A3-3376 TCGA-A3-3378 TCGA-A3-3383 
       74.76        24.16        53.29        55.76        20.71        28.31 
TCGA-A3-3385 TCGA-A3-3387 TCGA-A3-A6NI TCGA-A3-A6NJ TCGA-A3-A6NL TCGA-A3-A6NN 
       65.52        20.28        33.47        15.39        22.65         0.10 
TCGA-A3-A8OV TCGA-A3-A8OW TCGA-AK-3425 TCGA-AK-3427 TCGA-AK-3428 TCGA-AK-3429 
       11.18        10.62       109.91       117.80        73.08       109.41 
TCGA-AK-3431 TCGA-AK-3443 TCGA-AK-3444 TCGA-AK-3445 TCGA-AK-3450 TCGA-AK-3451 
       73.68        46.78        48.36        78.64        49.28        94.29 
TCGA-AK-3453 TCGA-AK-3455 TCGA-AK-3456 TCGA-AK-3460 TCGA-AS-3778 TCGA-B0-4688 
       83.21        22.45        37.58        82.45         1.41         3.32 
TCGA-B0-4691 TCGA-B0-4693 TCGA-B0-4697 TCGA-B0-4700 TCGA-B0-4701 TCGA-B0-4703 
        4.57         2.53        19.00        65.10         7.82         5.98 
TCGA-B0-4706 TCGA-B0-4710 TCGA-B0-4713 TCGA-B0-4714 TCGA-B0-4718 TCGA-B0-4811 
        2.14        57.70         6.64         3.25        58.45        46.59 
TCGA-B0-4814 TCGA-B0-4815 TCGA-B0-4816 TCGA-B0-4817 TCGA-B0-4818 TCGA-B0-4819 
        5.52        52.21        45.07        33.50        16.77         6.02 
TCGA-B0-4821 TCGA-B0-4823 TCGA-B0-4827 TCGA-B0-4833 TCGA-B0-4834 TCGA-B0-4838 
       40.44        14.93        29.10        78.44        68.71        27.42 
TCGA-B0-4839 TCGA-B0-4841 TCGA-B0-4842 TCGA-B0-4843 TCGA-B0-4845 TCGA-B0-4846 
       53.88         6.71        56.68        10.52        65.29        39.45 
TCGA-B0-4847 TCGA-B0-4852 TCGA-B0-4945 TCGA-B0-5075 TCGA-B0-5077 TCGA-B0-5080 
       26.07        36.85        70.52        20.94        43.30        11.24 
TCGA-B0-5081 TCGA-B0-5085 TCGA-B0-5088 TCGA-B0-5092 TCGA-B0-5094 TCGA-B0-5095 
       11.90        25.32        18.51        15.09        10.95         8.05 
TCGA-B0-5096 TCGA-B0-5097 TCGA-B0-5098 TCGA-B0-5099 TCGA-B0-5100 TCGA-B0-5104 
        2.24        21.86        52.08        15.95        62.89        90.48 
TCGA-B0-5106 TCGA-B0-5107 TCGA-B0-5109 TCGA-B0-5110 TCGA-B0-5113 TCGA-B0-5115 
       52.54        30.48        19.30        66.05        38.63        52.73 
TCGA-B0-5116 TCGA-B0-5120 TCGA-B0-5121 TCGA-B0-5399 TCGA-B0-5400 TCGA-B0-5690 
       41.88        38.43        48.82        46.39        56.98       111.52 
TCGA-B0-5691 TCGA-B0-5692 TCGA-B0-5693 TCGA-B0-5694 TCGA-B0-5695 TCGA-B0-5696 
      112.80       129.67       133.94        15.78        70.68        85.78 
TCGA-B0-5697 TCGA-B0-5698 TCGA-B0-5699 TCGA-B0-5701 TCGA-B0-5703 TCGA-B0-5705 
       86.47       119.38       126.28        80.91        73.84       149.16 
TCGA-B0-5706 TCGA-B0-5709 TCGA-B0-5710 TCGA-B0-5711 TCGA-B0-5712 TCGA-B0-5713 
      105.37       130.65        79.89       131.15        89.49        91.46 
TCGA-B0-5812 TCGA-B2-3924 TCGA-B2-4098 TCGA-B2-4099 TCGA-B2-4101 TCGA-B2-4102 
      126.05        35.90         1.68        31.96        21.30        31.30 
TCGA-B2-5633 TCGA-B2-5635 TCGA-B2-5639 TCGA-B2-A4SR TCGA-B4-5378 TCGA-B4-5834 
       31.66        24.82        32.98        16.67         5.75         0.85 
TCGA-B4-5836 TCGA-B4-5843 TCGA-B4-5844 TCGA-B8-4146 TCGA-B8-4151 TCGA-B8-4153 
        4.64         0.36         0.23        16.80        42.71        25.05 
TCGA-B8-4154 TCGA-B8-4619 TCGA-B8-4621 TCGA-B8-4622 TCGA-B8-5159 TCGA-B8-5162 
       45.37        17.19        25.91        50.14        23.74         1.18 
TCGA-B8-5163 TCGA-B8-5164 TCGA-B8-5165 TCGA-B8-5545 TCGA-B8-5546 TCGA-B8-5549 
       27.02         0.85        24.23        50.14        16.60         6.38 
TCGA-B8-5550 TCGA-B8-5551 TCGA-B8-5552 TCGA-B8-5553 TCGA-B8-A54D TCGA-B8-A54E 
       48.53         0.53        34.39        14.30        27.29        29.88 
TCGA-B8-A54F TCGA-B8-A54H TCGA-B8-A54I TCGA-B8-A54J TCGA-B8-A54K TCGA-B8-A7U6 
       17.06         8.42         4.93        17.36        15.42        16.27 
TCGA-B8-A8YJ TCGA-BP-4158 TCGA-BP-4159 TCGA-BP-4161 TCGA-BP-4162 TCGA-BP-4163 
       14.17       111.02        85.51        90.28       101.06        93.34 
TCGA-BP-4165 TCGA-BP-4166 TCGA-BP-4169 TCGA-BP-4170 TCGA-BP-4173 TCGA-BP-4174 
       99.85         0.43        23.05        77.03        62.24        61.78 
TCGA-BP-4177 TCGA-BP-4326 TCGA-BP-4329 TCGA-BP-4330 TCGA-BP-4332 TCGA-BP-4335 
       54.90        53.42        27.78        62.07        37.25        15.16 
TCGA-BP-4337 TCGA-BP-4338 TCGA-BP-4340 TCGA-BP-4341 TCGA-BP-4343 TCGA-BP-4344 
        0.07        93.99        18.48        52.24        62.86        54.77 
TCGA-BP-4347 TCGA-BP-4349 TCGA-BP-4351 TCGA-BP-4354 TCGA-BP-4355 TCGA-BP-4756 
       44.94        12.23        31.89        33.99        31.33        12.30 
TCGA-BP-4758 TCGA-BP-4759 TCGA-BP-4760 TCGA-BP-4762 TCGA-BP-4763 TCGA-BP-4765 
       72.59        77.98        77.62        44.15        41.75        71.80 
TCGA-BP-4766 TCGA-BP-4769 TCGA-BP-4770 TCGA-BP-4771 TCGA-BP-4774 TCGA-BP-4776 
       48.07        61.68        10.82         5.33        61.97        13.51 
TCGA-BP-4782 TCGA-BP-4784 TCGA-BP-4789 TCGA-BP-4790 TCGA-BP-4795 TCGA-BP-4798 
       11.64        60.95        48.95        36.53        20.38        10.98 
TCGA-BP-4799 TCGA-BP-4801 TCGA-BP-4803 TCGA-BP-4804 TCGA-BP-4807 TCGA-BP-4961 
       37.25        36.95         6.71        47.97         6.94        63.62 
TCGA-BP-4964 TCGA-BP-4965 TCGA-BP-4967 TCGA-BP-4969 TCGA-BP-4970 TCGA-BP-4971 
       61.22        61.51         6.74        58.98        14.24        48.89 
TCGA-BP-4972 TCGA-BP-4973 TCGA-BP-4975 TCGA-BP-4976 TCGA-BP-4977 TCGA-BP-4981 
       49.38        45.50        47.11        53.65        14.93        36.07 
TCGA-BP-4982 TCGA-BP-4985 TCGA-BP-4988 TCGA-BP-4989 TCGA-BP-4991 TCGA-BP-4995 
       33.34        31.30        27.22         3.88        46.45        45.07 
TCGA-BP-4998 TCGA-BP-4999 TCGA-BP-5001 TCGA-BP-5004 TCGA-BP-5006 TCGA-BP-5007 
       30.64        41.62        38.70        37.02        27.62        37.48 
TCGA-BP-5008 TCGA-BP-5009 TCGA-BP-5010 TCGA-BP-5168 TCGA-BP-5170 TCGA-BP-5173 
       35.21        36.23        28.87        48.10        79.30         1.74 
TCGA-BP-5174 TCGA-BP-5176 TCGA-BP-5177 TCGA-BP-5182 TCGA-BP-5183 TCGA-BP-5184 
       74.20        52.27         9.63        38.30        42.44        37.25 
TCGA-BP-5186 TCGA-BP-5187 TCGA-BP-5189 TCGA-BP-5190 TCGA-BP-5192 TCGA-BP-5194 
       22.78        13.35        27.02        33.24        23.47        13.41 
TCGA-BP-5195 TCGA-BP-5196 TCGA-BP-5198 TCGA-BP-5199 TCGA-BP-5200 TCGA-BP-5202 
       24.62        33.47        19.82        44.55        34.95         0.95 
TCGA-CJ-4636 TCGA-CJ-4637 TCGA-CJ-4638 TCGA-CJ-4639 TCGA-CJ-4640 TCGA-CJ-4641 
       63.25        73.22        14.17       106.16       114.41        54.61 
TCGA-CJ-4642 TCGA-CJ-4644 TCGA-CJ-4868 TCGA-CJ-4869 TCGA-CJ-4870 TCGA-CJ-4873 
      105.37        11.05        21.24        83.97        49.25        74.27 
TCGA-CJ-4874 TCGA-CJ-4875 TCGA-CJ-4882 TCGA-CJ-4884 TCGA-CJ-4885 TCGA-CJ-4886 
       75.06       116.84        61.91        57.83       113.46        64.18 
TCGA-CJ-4888 TCGA-CJ-4889 TCGA-CJ-4890 TCGA-CJ-4891 TCGA-CJ-4894 TCGA-CJ-4899 
       51.52        63.98       115.69        26.93        27.65        50.24 
TCGA-CJ-4900 TCGA-CJ-4902 TCGA-CJ-4903 TCGA-CJ-4905 TCGA-CJ-4908 TCGA-CJ-4912 
       56.35        49.97        51.25        49.18        50.33        54.48 
TCGA-CJ-4913 TCGA-CJ-4916 TCGA-CJ-4918 TCGA-CJ-4920 TCGA-CJ-4923 TCGA-CJ-5671 
       38.56        45.14         3.06         4.57        18.81       131.08 
TCGA-CJ-5672 TCGA-CJ-5677 TCGA-CJ-5678 TCGA-CJ-5680 TCGA-CJ-5681 TCGA-CJ-5682 
       72.00        25.71        18.87        25.25        18.15       122.83 
TCGA-CJ-5683 TCGA-CJ-5684 TCGA-CJ-5686 TCGA-CJ-5689 TCGA-CJ-6030 TCGA-CJ-6031 
       62.10        73.35        67.00        53.26        75.58        62.66 
TCGA-CJ-6033 TCGA-CW-5580 TCGA-CW-5581 TCGA-CW-5583 TCGA-CW-5587 TCGA-CW-5589 
        7.36        64.57        92.02        81.83        73.18        78.18 
TCGA-CW-5591 TCGA-CW-6087 TCGA-CW-6088 TCGA-CW-6090 TCGA-CW-6093 TCGA-CW-6097 
       74.66         1.35       105.93        83.90       103.43        18.77 
TCGA-CZ-4854 TCGA-CZ-4856 TCGA-CZ-4857 TCGA-CZ-4860 TCGA-CZ-4861 TCGA-CZ-4862 
       46.16         0.59        47.08         6.77        14.66       107.54 
TCGA-CZ-4863 TCGA-CZ-4865 TCGA-CZ-5451 TCGA-CZ-5453 TCGA-CZ-5454 TCGA-CZ-5455 
       63.39         5.46        63.42        79.53        23.74        18.44 
TCGA-CZ-5457 TCGA-CZ-5458 TCGA-CZ-5459 TCGA-CZ-5461 TCGA-CZ-5463 TCGA-CZ-5464 
       90.54        91.69        55.33        10.85        21.76        69.96 
TCGA-CZ-5466 TCGA-CZ-5467 TCGA-CZ-5469 TCGA-CZ-5470 TCGA-CZ-5986 TCGA-CZ-5988 
       22.52         2.40        31.10        12.69        12.26        22.78 
TCGA-CZ-5989 TCGA-DV-5566 TCGA-DV-5567 TCGA-DV-5569 TCGA-DV-5574 TCGA-DV-5576 
       62.63        45.96        65.88        11.67        66.28        23.90 
TCGA-DV-A4VX TCGA-DV-A4VZ TCGA-DV-A4W0 TCGA-EU-5904 TCGA-EU-5905 TCGA-EU-5906 
       53.46        12.00        81.21        18.12         3.91         6.77 
TCGA-G6-A5PC TCGA-G6-A8L6 TCGA-GK-A6C7 TCGA-MM-A564 TCGA-MM-A84U TCGA-T7-A92I 
        7.96        10.29         2.01        19.96        23.01        11.70 
TCGA-2K-A9WE TCGA-2Z-A9J1 TCGA-2Z-A9J2 TCGA-2Z-A9J3 TCGA-2Z-A9J5 TCGA-2Z-A9J6 
        7.04        75.55        59.01        58.22       100.27        56.91 
TCGA-2Z-A9J7 TCGA-2Z-A9J9 TCGA-2Z-A9JD TCGA-2Z-A9JE TCGA-2Z-A9JK TCGA-2Z-A9JL 
        4.57        75.42        34.85        56.81        38.99        33.07 
TCGA-2Z-A9JM TCGA-2Z-A9JN TCGA-2Z-A9JO TCGA-2Z-A9JP TCGA-2Z-A9JQ TCGA-2Z-A9JR 
       30.71        24.33        31.20        29.36        25.58         5.29 
TCGA-2Z-A9JS TCGA-2Z-A9JT TCGA-4A-A93W TCGA-4A-A93X TCGA-4A-A93Y TCGA-5P-A9JV 
       16.18        22.49         0.13        12.82        11.57        67.17 
TCGA-5P-A9JW TCGA-5P-A9JY TCGA-5P-A9JZ TCGA-5P-A9K0 TCGA-5P-A9K2 TCGA-5P-A9K3 
      106.55        49.58        90.21        22.26        78.64        15.48 
TCGA-5P-A9K4 TCGA-5P-A9K6 TCGA-5P-A9K8 TCGA-5P-A9KA TCGA-5P-A9KC TCGA-5P-A9KE 
       71.80        62.93        43.04        12.99        12.39        27.09 
TCGA-A4-7287 TCGA-A4-7288 TCGA-A4-7583 TCGA-A4-7584 TCGA-A4-7585 TCGA-A4-7732 
       19.63        61.05         0.10        21.37        35.18        19.13 
TCGA-A4-7734 TCGA-A4-7828 TCGA-A4-7915 TCGA-A4-7996 TCGA-A4-7997 TCGA-A4-8098 
        0.89         7.82         0.23        16.64        30.48        29.46 
TCGA-A4-8310 TCGA-A4-8311 TCGA-A4-8312 TCGA-A4-8515 TCGA-A4-8516 TCGA-A4-8517 
       25.64        23.97        23.28        23.31         0.76        19.63 
TCGA-A4-8518 TCGA-A4-8630 TCGA-A4-A48D TCGA-A4-A4ZT TCGA-A4-A57E TCGA-A4-A5DU 
       19.73        14.33        12.46        16.96         8.48        16.31 
TCGA-A4-A5XZ TCGA-A4-A5Y0 TCGA-A4-A5Y1 TCGA-A4-A6HP TCGA-AL-3466 TCGA-AL-3467 
       15.75         8.28        12.99        12.46         9.63        70.19 
TCGA-AL-3468 TCGA-AL-3471 TCGA-AL-3472 TCGA-AL-3473 TCGA-AL-7173 TCGA-AL-A5DJ 
       76.64        49.32        66.71        62.66        67.73        49.25 
TCGA-AT-A5NU TCGA-B1-5398 TCGA-B1-7332 TCGA-B1-A47M TCGA-B1-A47N TCGA-B1-A47O 
        2.20        19.56        37.51        21.67        24.56        16.87 
TCGA-B1-A654 TCGA-B1-A655 TCGA-B1-A656 TCGA-B1-A657 TCGA-B3-3925 TCGA-B3-4103 
       20.25        16.77        20.32        21.07        33.83        30.58 
TCGA-B3-4104 TCGA-B3-8121 TCGA-B3-A6W5 TCGA-B9-4113 TCGA-B9-4114 TCGA-B9-4115 
       34.49        12.46        10.16        50.50        28.18        26.40 
TCGA-B9-4116 TCGA-B9-4117 TCGA-B9-4617 TCGA-B9-5155 TCGA-B9-5156 TCGA-B9-7268 
       20.61         0.46         1.15        15.12        43.99        22.06 
TCGA-B9-A5W7 TCGA-B9-A5W8 TCGA-B9-A5W9 TCGA-B9-A69E TCGA-B9-A8YH TCGA-B9-A8YI 
       19.23        17.23         0.16        14.86        17.49        12.30 
TCGA-BQ-5876 TCGA-BQ-5877 TCGA-BQ-5878 TCGA-BQ-5879 TCGA-BQ-5880 TCGA-BQ-5881 
       19.27         8.88        63.72        22.92        43.20        47.80 
TCGA-BQ-5883 TCGA-BQ-5884 TCGA-BQ-5885 TCGA-BQ-5886 TCGA-BQ-5887 TCGA-BQ-5889 
       40.83        26.04        30.28        26.04        25.35        10.82 
TCGA-BQ-5891 TCGA-BQ-5892 TCGA-BQ-5893 TCGA-BQ-5894 TCGA-BQ-7044 TCGA-BQ-7045 
        0.95        11.97         7.92         2.76       123.62        48.26 
TCGA-BQ-7046 TCGA-BQ-7048 TCGA-BQ-7049 TCGA-BQ-7050 TCGA-BQ-7051 TCGA-BQ-7053 
       96.92        93.34        44.84        61.28        50.40        49.84 
TCGA-BQ-7055 TCGA-BQ-7058 TCGA-BQ-7059 TCGA-BQ-7060 TCGA-BQ-7061 TCGA-BQ-7062 
       26.27        11.28         7.63         7.04         7.17         3.81 
TCGA-DW-5560 TCGA-DW-5561 TCGA-DW-7834 TCGA-DW-7836 TCGA-DW-7837 TCGA-DW-7838 
       48.85        13.61       129.86        35.93        37.55        24.46 
TCGA-DW-7839 TCGA-DW-7840 TCGA-DW-7841 TCGA-DW-7842 TCGA-DW-7963 TCGA-DZ-6131 
       13.78         3.75        14.63         3.02        40.77        79.86 
TCGA-DZ-6132 TCGA-DZ-6133 TCGA-DZ-6134 TCGA-DZ-6135 TCGA-EV-5901 TCGA-EV-5903 
       80.88        51.19        61.02        74.60        34.19        24.89 
TCGA-F9-A4JJ TCGA-F9-A7VF TCGA-F9-A8NY TCGA-F9-A97G TCGA-G7-6790 TCGA-G7-6792 
       10.68         2.40         1.18         0.43        51.78        90.90 
TCGA-G7-6795 TCGA-G7-6796 TCGA-G7-6797 TCGA-G7-7501 TCGA-G7-A4TM TCGA-G7-A8LB 
       39.25        71.44        25.15        20.52         6.38        17.98 
TCGA-G7-A8LD TCGA-G7-A8LE TCGA-GL-6846 TCGA-GL-7773 TCGA-GL-8500 TCGA-GL-A4EM 
       16.90        80.65       194.79        12.92        27.65         1.05 
TCGA-GL-A59R TCGA-GL-A59T TCGA-GL-A9DC TCGA-GL-A9DD TCGA-GL-A9DE TCGA-HE-A5NF 
       12.43        17.95        12.89        11.21        16.31        84.89 
TCGA-HE-A5NH TCGA-HE-A5NI TCGA-HE-A5NJ TCGA-HE-A5NK TCGA-HE-A5NL TCGA-IA-A40U 
       26.01        11.84        56.75        73.25        25.22        16.80 
TCGA-IA-A40X TCGA-IA-A83S TCGA-IA-A83T TCGA-IA-A83V TCGA-IA-A83W TCGA-IZ-8195 
       19.99        85.78        88.24        96.69        67.17        22.26 
TCGA-IZ-8196 TCGA-IZ-A6M8 TCGA-IZ-A6M9 TCGA-J7-6720 TCGA-KV-A6GD TCGA-KV-A6GE 
       21.34        16.34        12.36        12.76        18.41        29.10 
TCGA-KV-A74V TCGA-MH-A55Z TCGA-MH-A560 TCGA-MH-A561 TCGA-MH-A562 TCGA-MH-A854 
       11.41        27.78        30.38        27.65        20.25        17.62 
TCGA-MH-A855 TCGA-MH-A856 TCGA-MH-A857 TCGA-O9-A75Z TCGA-P4-A5E6 TCGA-P4-A5E7 
       12.13        31.13        29.26        15.48        99.78        87.09 
TCGA-P4-A5E8 TCGA-P4-A5EA TCGA-P4-A5ED TCGA-P4-AAVK TCGA-P4-AAVL TCGA-P4-AAVM 
       42.94         6.61        92.58        52.27        16.01        50.60 
TCGA-P4-AAVO TCGA-PJ-A5Z8 TCGA-PJ-A5Z9 TCGA-SX-A71R TCGA-SX-A71S TCGA-SX-A71U 
       78.90        19.73        17.75        47.90        49.45        44.61 
TCGA-SX-A71V TCGA-SX-A7SM TCGA-SX-A7SN TCGA-SX-A7SO TCGA-SX-A7SP TCGA-SX-A7SQ 
       28.80        11.93        19.00        41.33        16.31        41.62 
TCGA-SX-A7SR TCGA-SX-A7SS TCGA-SX-A7SU TCGA-UZ-A9PJ TCGA-UZ-A9PK TCGA-UZ-A9PL 
       26.47        53.10        43.76        26.20       117.40       103.63 
TCGA-UZ-A9PM TCGA-UZ-A9PN TCGA-UZ-A9PO TCGA-UZ-A9PP TCGA-UZ-A9PR TCGA-UZ-A9PS 
      125.29        37.35        62.83        98.96        86.37        71.24 
TCGA-UZ-A9PU TCGA-UZ-A9PV TCGA-UZ-A9PX TCGA-UZ-A9PZ TCGA-UZ-A9Q0 TCGA-UZ-A9Q1 
       30.67        47.47        65.13        21.60       110.73        51.35 
TCGA-V9-A7HT TCGA-WN-A9G9 TCGA-WN-AB4C TCGA-Y8-A894 TCGA-Y8-A895 TCGA-Y8-A897 
       31.73        26.01        39.06        18.64        15.91        18.05 
TCGA-Y8-A898 TCGA-Y8-A8RY TCGA-Y8-A8RZ TCGA-Y8-A8S0 TCGA-Y8-A8S1 
       15.62        25.28         3.68         6.02        13.28 

  DEL PEAK 13(6Q26) MUTATED DEL PEAK 13(6Q26) WILD-TYPE 
                       0.10                        0.07 
  DEL PEAK 13(6Q26) MUTATED DEL PEAK 13(6Q26) WILD-TYPE 
                     151.96                      194.79 
  DEL PEAK 13(6Q26) MUTATED DEL PEAK 13(6Q26) WILD-TYPE 
                     42.705                      31.330 
[1] "0.1 - 152.0 (42.7)" "0.1 - 194.8 (31.3)"
[1] "hr=" "1.1"
D26V2, continuous
                             vv
clus                          STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK 13(6Q26) MUTATED        95       43        58       35
  DEL PEAK 13(6Q26) WILD-TYPE     360       61       133       69
D26V3, multiclass
           clus
vv          DEL PEAK 13(6Q26) MUTATED DEL PEAK 13(6Q26) WILD-TYPE
  STAGE I                          95                         360
  STAGE II                         43                          61
  STAGE III                        58                         133
  STAGE IV                         35                          69
[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                           T1  T2  T3  T4
  DEL PEAK 13(6Q26) MUTATED    97  46  85   6
  DEL PEAK 13(6Q26) WILD-TYPE 382  81 173   9
D26V4, multiclass
    clus
vv   DEL PEAK 13(6Q26) MUTATED DEL PEAK 13(6Q26) WILD-TYPE
  T1                        97                         382
  T2                        46                          81
  T3                        85                         173
  T4                         6                           9
[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                           N0  N1  N2
  DEL PEAK 13(6Q26) MUTATED    94  16   5
  DEL PEAK 13(6Q26) WILD-TYPE 228  28   2
D26V5, multiclass
    clus
vv   DEL PEAK 13(6Q26) MUTATED DEL PEAK 13(6Q26) WILD-TYPE
  N0                        94                         228
  N1                        16                          28
  N2                         5                           2
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D26V6, binary
                             cls
clus                            0   1
  DEL PEAK 13(6Q26) MUTATED   161  26
  DEL PEAK 13(6Q26) WILD-TYPE 384  63
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK 13(6Q26) MUTATED    161   26
  DEL PEAK 13(6Q26) WILD-TYPE  384   63
   clus
vv  DEL PEAK 13(6Q26) MUTATED DEL PEAK 13(6Q26) WILD-TYPE
  0                       161                         384
  1                        26                          63
[1] 2 2
[1] FALSE
D26V7, binary
                             cls
clus                            0   1
  DEL PEAK 13(6Q26) MUTATED    80 154
  DEL PEAK 13(6Q26) WILD-TYPE 212 435
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK 13(6Q26) MUTATED     80  154
  DEL PEAK 13(6Q26) WILD-TYPE  212  435
        clus
vv       DEL PEAK 13(6Q26) MUTATED DEL PEAK 13(6Q26) WILD-TYPE
  FEMALE                        80                         212
  MALE                         154                         435
[1] 2 2
[1] FALSE
D26V8, binary
                             cls
clus                            0   1
  DEL PEAK 13(6Q26) MUTATED   102   0
  DEL PEAK 13(6Q26) WILD-TYPE 298   3
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK 13(6Q26) MUTATED    102    0
  DEL PEAK 13(6Q26) WILD-TYPE  298    3
     clus
vv    DEL PEAK 13(6Q26) MUTATED DEL PEAK 13(6Q26) WILD-TYPE
  NO                        102                         298
  YES                         0                           3
[1] 2 2
[1] FALSE
D26V9, continuous
                             vv
clus                          KIDNEY CHROMOPHOBE
  DEL PEAK 13(6Q26) MUTATED                   51
  DEL PEAK 13(6Q26) WILD-TYPE                 15
                             vv
clus                          KIDNEY CLEAR CELL RENAL CARCINOMA
  DEL PEAK 13(6Q26) MUTATED                                 151
  DEL PEAK 13(6Q26) WILD-TYPE                               377
                             vv
clus                          KIDNEY PAPILLARY RENAL CELL CARCINOMA
  DEL PEAK 13(6Q26) MUTATED                                      32
  DEL PEAK 13(6Q26) WILD-TYPE                                   255
D26V10, multiclass
                                       clus
vv                                      DEL PEAK 13(6Q26) MUTATED
  KIDNEY CHROMOPHOBE                                           51
  KIDNEY CLEAR CELL RENAL CARCINOMA                           151
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                        32
                                       clus
vv                                      DEL PEAK 13(6Q26) WILD-TYPE
  KIDNEY CHROMOPHOBE                                             15
  KIDNEY CLEAR CELL RENAL CARCINOMA                             377
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                         255
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D26V11, continuous
D26V12, continuous
                             vv
clus                          AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 13(6Q26) MUTATED                                  0     6
  DEL PEAK 13(6Q26) WILD-TYPE                                2     9
                             vv
clus                          BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 13(6Q26) MUTATED                          17   203
  DEL PEAK 13(6Q26) WILD-TYPE                       104   516
D26V13, multiclass
                                  clus
vv                                 DEL PEAK 13(6Q26) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                         0
  ASIAN                                                    6
  BLACK OR AFRICAN AMERICAN                               17
  WHITE                                                  203
                                  clus
vv                                 DEL PEAK 13(6Q26) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                           2
  ASIAN                                                      9
  BLACK OR AFRICAN AMERICAN                                104
  WHITE                                                    516
[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"
D26V14, binary
                             cls
clus                            0   1
  DEL PEAK 13(6Q26) MUTATED    14 145
  DEL PEAK 13(6Q26) WILD-TYPE  28 476
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK 13(6Q26) MUTATED     14  145
  DEL PEAK 13(6Q26) WILD-TYPE   28  476
                        clus
vv                       DEL PEAK 13(6Q26) MUTATED DEL PEAK 13(6Q26) WILD-TYPE
  HISPANIC OR LATINO                            14                          28
  NOT HISPANIC OR LATINO                       145                         476
[1] 2 2
[1] FALSE

Clustering(27) Variable = DEL PEAK 14(8P23.2) MUTATION ANALYSIS
D27V1, survival
                               sevent
clus2                             0   1
  DEL PEAK 14(8P23.2) MUTATED   115  69
  DEL PEAK 14(8P23.2) WILD-TYPE 530 159
  DEL PEAK 14(8P23.2) MUTATED DEL PEAK 14(8P23.2) WILD-TYPE 
                          184                           689 
  DEL PEAK 14(8P23.2) MUTATED DEL PEAK 14(8P23.2) WILD-TYPE 
                           69                           159 
$`DEL PEAK 14(8P23.2) MUTATED`
TCGA-KL-8327 TCGA-KL-8337 TCGA-KM-8476 TCGA-KN-8424 TCGA-KN-8432 TCGA-KN-8435 
      137.06        44.84       123.12        65.19         2.50       115.00 
TCGA-KN-8436 TCGA-KO-8404 TCGA-KO-8411 TCGA-KO-8414 TCGA-KO-8416 TCGA-KO-8417 
       42.35        10.68       130.13       105.60        90.48        92.55 
TCGA-A3-3319 TCGA-A3-3325 TCGA-A3-3336 TCGA-A3-3346 TCGA-A3-3365 TCGA-A3-3372 
       37.15        38.47        34.29         4.50        28.70        24.16 
TCGA-A3-3373 TCGA-A3-3382 TCGA-A3-A6NN TCGA-AK-3425 TCGA-AK-3426 TCGA-AK-3434 
       53.29        18.87         0.10       109.91        29.10        68.61 
TCGA-AK-3436 TCGA-AK-3440 TCGA-AK-3445 TCGA-AK-3447 TCGA-AK-3458 TCGA-AS-3777 
      109.51        94.19        78.64        40.01        38.40        40.70 
TCGA-B0-4688 TCGA-B0-4690 TCGA-B0-4691 TCGA-B0-4699 TCGA-B0-4703 TCGA-B0-4707 
        3.32         1.41         4.57         3.62         5.98        19.73 
TCGA-B0-4712 TCGA-B0-4713 TCGA-B0-4718 TCGA-B0-4813 TCGA-B0-4815 TCGA-B0-4816 
       43.96         6.64        58.45         0.59        52.21        45.07 
TCGA-B0-4819 TCGA-B0-4821 TCGA-B0-4822 TCGA-B0-4836 TCGA-B0-4838 TCGA-B0-4839 
        6.02        40.44        36.53        40.70        27.42        53.88 
TCGA-B0-4845 TCGA-B0-4849 TCGA-B0-4852 TCGA-B0-4945 TCGA-B0-5094 TCGA-B0-5097 
       65.29         2.27        36.85        70.52        10.95        21.86 
TCGA-B0-5102 TCGA-B0-5108 TCGA-B0-5695 TCGA-B0-5696 TCGA-B0-5712 TCGA-B0-5713 
       90.87        58.59        70.68        85.78        89.49        91.46 
TCGA-B2-A4SR TCGA-B4-5377 TCGA-B4-5832 TCGA-B4-5838 TCGA-B8-4143 TCGA-B8-4151 
       16.67        12.00         5.10         5.46        23.31        42.71 
TCGA-B8-5158 TCGA-B8-5163 TCGA-B8-5164 TCGA-B8-5545 TCGA-B8-5549 TCGA-B8-5551 
       20.91        27.02         0.85        50.14         6.38         0.53 
TCGA-B8-A54H TCGA-B8-A54I TCGA-BP-4164 TCGA-BP-4169 TCGA-BP-4174 TCGA-BP-4176 
        8.42         4.93        32.61        23.05        61.78        64.27 
TCGA-BP-4326 TCGA-BP-4327 TCGA-BP-4338 TCGA-BP-4340 TCGA-BP-4341 TCGA-BP-4343 
       53.42         3.58        93.99        18.48        52.24        62.86 
TCGA-BP-4347 TCGA-BP-4351 TCGA-BP-4352 TCGA-BP-4353 TCGA-BP-4768 TCGA-BP-4775 
       44.94        31.89        11.31        12.33        13.15        60.59 
TCGA-BP-4781 TCGA-BP-4782 TCGA-BP-4787 TCGA-BP-4795 TCGA-BP-4798 TCGA-BP-4799 
       68.38        11.64        15.78        20.38        10.98        37.25 
TCGA-BP-4807 TCGA-BP-4959 TCGA-BP-4960 TCGA-BP-4967 TCGA-BP-4968 TCGA-BP-4970 
        6.94        87.45        71.41         6.74        57.40        14.24 
TCGA-BP-4973 TCGA-BP-4983 TCGA-BP-4985 TCGA-BP-4986 TCGA-BP-4994 TCGA-BP-4998 
       45.50        46.45        31.30        25.81        43.00        30.64 
TCGA-BP-5000 TCGA-BP-5004 TCGA-BP-5169 TCGA-BP-5173 TCGA-BP-5175 TCGA-BP-5177 
       18.51        37.02         6.35         1.74        30.64         9.63 
TCGA-BP-5182 TCGA-BP-5196 TCGA-BP-5200 TCGA-BP-5201 TCGA-CJ-4637 TCGA-CJ-4640 
       38.30        33.47        34.95        31.27        73.22       114.41 
TCGA-CJ-4642 TCGA-CJ-4643 TCGA-CJ-4868 TCGA-CJ-4870 TCGA-CJ-4876 TCGA-CJ-4878 
      105.37        58.95        21.24        49.25        64.27        71.87 
TCGA-CJ-4881 TCGA-CJ-4884 TCGA-CJ-4885 TCGA-CJ-4888 TCGA-CJ-4889 TCGA-CJ-4894 
       66.21        57.83       113.46        51.52        63.98        27.65 
TCGA-CJ-4897 TCGA-CJ-4903 TCGA-CJ-4904 TCGA-CJ-4907 TCGA-CJ-4912 TCGA-CJ-5672 
      109.84        51.25       108.56        49.28        54.48        72.00 
TCGA-CJ-5677 TCGA-CJ-5679 TCGA-CJ-5689 TCGA-CJ-6027 TCGA-CJ-6030 TCGA-CJ-6033 
       25.71        22.32        53.26       118.85        75.58         7.36 
TCGA-CW-6088 TCGA-CW-6090 TCGA-CZ-4854 TCGA-CZ-4860 TCGA-CZ-4862 TCGA-CZ-4865 
      105.93        83.90        46.16         6.77       107.54         5.46 
TCGA-CZ-5453 TCGA-CZ-5457 TCGA-CZ-5462 TCGA-CZ-5463 TCGA-CZ-5465 TCGA-CZ-5466 
       79.53        90.54        10.22        21.76        84.30        22.52 
TCGA-CZ-5468 TCGA-CZ-5470 TCGA-CZ-5986 TCGA-CZ-5987 TCGA-CZ-5988 TCGA-DV-5565 
        1.94        12.69        12.26        14.63        22.78        13.28 
TCGA-DV-5574 TCGA-DV-5575 TCGA-G6-A8L8 TCGA-MM-A563 TCGA-2Z-A9J3 TCGA-5P-A9JV 
       66.28        56.84        35.87        19.43        58.22        67.17 
TCGA-5P-A9K3 TCGA-5P-A9K8 TCGA-A4-A5Y1 TCGA-AL-3466 TCGA-B1-7332 TCGA-B3-3926 
       15.48        43.04        12.99         9.63        37.51        10.09 
TCGA-B9-4117 TCGA-BQ-5889 TCGA-DW-5560 TCGA-F9-A7Q0 TCGA-F9-A8NY TCGA-G7-A8LC 
        0.46        10.82        48.85        13.08         1.18        23.08 
TCGA-G7-A8LD TCGA-J7-8537 TCGA-SX-A7SO TCGA-UN-AAZ9 
       16.90        10.55        41.33        18.02 

$`DEL PEAK 14(8P23.2) WILD-TYPE`
TCGA-KL-8323 TCGA-KL-8324 TCGA-KL-8325 TCGA-KL-8326 TCGA-KL-8328 TCGA-KL-8329 
       38.07       141.73        23.84       109.22       102.81        90.48 
TCGA-KL-8330 TCGA-KL-8331 TCGA-KL-8332 TCGA-KL-8333 TCGA-KL-8334 TCGA-KL-8335 
      108.62        98.96        84.89        98.33        96.95        92.55 
TCGA-KL-8336 TCGA-KL-8338 TCGA-KL-8339 TCGA-KL-8340 TCGA-KL-8341 TCGA-KL-8342 
       30.25        86.56        28.11        66.54        24.79        73.91 
TCGA-KL-8343 TCGA-KL-8344 TCGA-KL-8345 TCGA-KL-8346 TCGA-KM-8438 TCGA-KM-8439 
       71.41        28.80        54.74        62.37       151.96        23.28 
TCGA-KM-8440 TCGA-KM-8441 TCGA-KM-8442 TCGA-KM-8443 TCGA-KM-8477 TCGA-KM-8639 
       44.91        28.80        47.24        49.97        51.06        31.33 
TCGA-KN-8418 TCGA-KN-8419 TCGA-KN-8421 TCGA-KN-8422 TCGA-KN-8423 TCGA-KN-8425 
      129.37        23.47        87.91        25.48        25.91       104.52 
TCGA-KN-8426 TCGA-KN-8427 TCGA-KN-8428 TCGA-KN-8429 TCGA-KN-8431 TCGA-KN-8433 
        3.55         0.99        52.27        87.12        19.33        11.21 
TCGA-KN-8434 TCGA-KN-8437 TCGA-KO-8403 TCGA-KO-8405 TCGA-KO-8406 TCGA-KO-8407 
       59.08       100.87       105.47       100.47       103.40        92.71 
TCGA-KO-8408 TCGA-KO-8409 TCGA-KO-8410 TCGA-KO-8413 TCGA-KO-8415 TCGA-3Z-A93Z 
       16.67       104.55       103.10        99.88        96.62        12.66 
TCGA-6D-AA2E TCGA-A3-3306 TCGA-A3-3307 TCGA-A3-3308 TCGA-A3-3311 TCGA-A3-3313 
       11.90        36.82        47.21         0.53        39.16        24.16 
TCGA-A3-3316 TCGA-A3-3317 TCGA-A3-3320 TCGA-A3-3322 TCGA-A3-3323 TCGA-A3-3324 
       49.08        49.02        49.58        48.59        36.36        38.99 
TCGA-A3-3326 TCGA-A3-3331 TCGA-A3-3335 TCGA-A3-3343 TCGA-A3-3347 TCGA-A3-3349 
       37.38        48.82        62.01        31.07        52.93        45.53 
TCGA-A3-3351 TCGA-A3-3352 TCGA-A3-3357 TCGA-A3-3358 TCGA-A3-3359 TCGA-A3-3362 
       29.92        18.44        88.37        42.97        82.32        51.25 
TCGA-A3-3363 TCGA-A3-3367 TCGA-A3-3370 TCGA-A3-3374 TCGA-A3-3376 TCGA-A3-3378 
       10.49        74.63        74.76        43.20        55.76        20.71 
TCGA-A3-3380 TCGA-A3-3383 TCGA-A3-3385 TCGA-A3-3387 TCGA-A3-A6NI TCGA-A3-A6NJ 
       18.64        28.31        65.52        20.28        33.47        15.39 
TCGA-A3-A6NL TCGA-A3-A8CQ TCGA-A3-A8OV TCGA-A3-A8OW TCGA-AK-3427 TCGA-AK-3428 
       22.65         0.10        11.18        10.62       117.80        73.08 
TCGA-AK-3429 TCGA-AK-3430 TCGA-AK-3431 TCGA-AK-3433 TCGA-AK-3443 TCGA-AK-3444 
      109.41        15.78        73.68       112.08        46.78        48.36 
TCGA-AK-3450 TCGA-AK-3451 TCGA-AK-3453 TCGA-AK-3454 TCGA-AK-3455 TCGA-AK-3456 
       49.28        94.29        83.21        28.73        22.45        37.58 
TCGA-AK-3460 TCGA-AK-3461 TCGA-AK-3465 TCGA-AS-3778 TCGA-B0-4693 TCGA-B0-4694 
       82.45        72.89        12.13         1.41         2.53         3.48 
TCGA-B0-4696 TCGA-B0-4697 TCGA-B0-4698 TCGA-B0-4700 TCGA-B0-4701 TCGA-B0-4706 
       28.47        19.00         1.38        65.10         7.82         2.14 
TCGA-B0-4710 TCGA-B0-4714 TCGA-B0-4810 TCGA-B0-4811 TCGA-B0-4814 TCGA-B0-4817 
       57.70         3.25        15.72        46.59         5.52        33.50 
TCGA-B0-4818 TCGA-B0-4823 TCGA-B0-4824 TCGA-B0-4827 TCGA-B0-4828 TCGA-B0-4833 
       16.77        14.93        54.48        29.10        10.09        78.44 
TCGA-B0-4834 TCGA-B0-4837 TCGA-B0-4841 TCGA-B0-4842 TCGA-B0-4843 TCGA-B0-4844 
       68.71        45.30         6.71        56.68        10.52        10.29 
TCGA-B0-4846 TCGA-B0-4847 TCGA-B0-4848 TCGA-B0-5075 TCGA-B0-5077 TCGA-B0-5080 
       39.45        26.07        29.03        20.94        43.30        11.24 
TCGA-B0-5081 TCGA-B0-5084 TCGA-B0-5085 TCGA-B0-5088 TCGA-B0-5092 TCGA-B0-5095 
       11.90         7.30        25.32        18.51        15.09         8.05 
TCGA-B0-5096 TCGA-B0-5098 TCGA-B0-5099 TCGA-B0-5100 TCGA-B0-5104 TCGA-B0-5106 
        2.24        52.08        15.95        62.89        90.48        52.54 
TCGA-B0-5107 TCGA-B0-5109 TCGA-B0-5110 TCGA-B0-5113 TCGA-B0-5115 TCGA-B0-5116 
       30.48        19.30        66.05        38.63        52.73        41.88 
TCGA-B0-5117 TCGA-B0-5119 TCGA-B0-5120 TCGA-B0-5121 TCGA-B0-5399 TCGA-B0-5400 
       52.87        51.02        38.43        48.82        46.39        56.98 
TCGA-B0-5402 TCGA-B0-5690 TCGA-B0-5691 TCGA-B0-5692 TCGA-B0-5693 TCGA-B0-5694 
       42.41       111.52       112.80       129.67       133.94        15.78 
TCGA-B0-5697 TCGA-B0-5698 TCGA-B0-5699 TCGA-B0-5701 TCGA-B0-5702 TCGA-B0-5703 
       86.47       119.38       126.28        80.91        71.41        73.84 
TCGA-B0-5705 TCGA-B0-5706 TCGA-B0-5709 TCGA-B0-5710 TCGA-B0-5711 TCGA-B0-5812 
      149.16       105.37       130.65        79.89       131.15       126.05 
TCGA-B2-3923 TCGA-B2-3924 TCGA-B2-4098 TCGA-B2-4099 TCGA-B2-4101 TCGA-B2-4102 
       32.61        35.90         1.68        31.96        21.30        31.30 
TCGA-B2-5633 TCGA-B2-5635 TCGA-B2-5639 TCGA-B2-5641 TCGA-B4-5378 TCGA-B4-5834 
       31.66        24.82        32.98        21.57         5.75         0.85 
TCGA-B4-5835 TCGA-B4-5836 TCGA-B4-5843 TCGA-B4-5844 TCGA-B8-4146 TCGA-B8-4148 
        0.53         4.64         0.36         0.23        16.80        27.16 
TCGA-B8-4153 TCGA-B8-4154 TCGA-B8-4619 TCGA-B8-4620 TCGA-B8-4621 TCGA-B8-4622 
       25.05        45.37        17.19        25.55        25.91        50.14 
TCGA-B8-5159 TCGA-B8-5162 TCGA-B8-5165 TCGA-B8-5546 TCGA-B8-5550 TCGA-B8-5552 
       23.74         1.18        24.23        16.60        48.53        34.39 
TCGA-B8-5553 TCGA-B8-A54D TCGA-B8-A54E TCGA-B8-A54F TCGA-B8-A54G TCGA-B8-A54J 
       14.30        27.29        29.88        17.06         1.74        17.36 
TCGA-B8-A54K TCGA-B8-A7U6 TCGA-B8-A8YJ TCGA-BP-4158 TCGA-BP-4159 TCGA-BP-4160 
       15.42        16.27        14.17       111.02        85.51        94.72 
TCGA-BP-4161 TCGA-BP-4162 TCGA-BP-4163 TCGA-BP-4165 TCGA-BP-4166 TCGA-BP-4167 
       90.28       101.06        93.34        99.85         0.43        89.36 
TCGA-BP-4170 TCGA-BP-4173 TCGA-BP-4177 TCGA-BP-4325 TCGA-BP-4329 TCGA-BP-4330 
       77.03        62.24        54.90        97.45        27.78        62.07 
TCGA-BP-4331 TCGA-BP-4332 TCGA-BP-4334 TCGA-BP-4335 TCGA-BP-4337 TCGA-BP-4342 
       80.68        37.25        21.21        15.16         0.07        74.17 
TCGA-BP-4344 TCGA-BP-4346 TCGA-BP-4349 TCGA-BP-4354 TCGA-BP-4355 TCGA-BP-4756 
       54.77        49.08        12.23        33.99        31.33        12.30 
TCGA-BP-4758 TCGA-BP-4759 TCGA-BP-4760 TCGA-BP-4761 TCGA-BP-4762 TCGA-BP-4763 
       72.59        77.98        77.62         5.98        44.15        41.75 
TCGA-BP-4765 TCGA-BP-4766 TCGA-BP-4769 TCGA-BP-4770 TCGA-BP-4771 TCGA-BP-4774 
       71.80        48.07        61.68        10.82         5.33        61.97 
TCGA-BP-4776 TCGA-BP-4777 TCGA-BP-4784 TCGA-BP-4789 TCGA-BP-4790 TCGA-BP-4797 
       13.51        56.91        60.95        48.95        36.53        36.39 
TCGA-BP-4801 TCGA-BP-4803 TCGA-BP-4804 TCGA-BP-4961 TCGA-BP-4962 TCGA-BP-4963 
       36.95         6.71        47.97        63.62        58.68        60.30 
TCGA-BP-4964 TCGA-BP-4965 TCGA-BP-4969 TCGA-BP-4971 TCGA-BP-4972 TCGA-BP-4974 
       61.22        61.51        58.98        48.89        49.38         6.90 
TCGA-BP-4975 TCGA-BP-4976 TCGA-BP-4977 TCGA-BP-4981 TCGA-BP-4982 TCGA-BP-4987 
       47.11        53.65        14.93        36.07        33.34        36.95 
TCGA-BP-4988 TCGA-BP-4989 TCGA-BP-4991 TCGA-BP-4992 TCGA-BP-4993 TCGA-BP-4995 
       27.22         3.88        46.45        16.47         5.82        45.07 
TCGA-BP-4999 TCGA-BP-5001 TCGA-BP-5006 TCGA-BP-5007 TCGA-BP-5008 TCGA-BP-5009 
       41.62        38.70        27.62        37.48        35.21        36.23 
TCGA-BP-5010 TCGA-BP-5168 TCGA-BP-5170 TCGA-BP-5174 TCGA-BP-5176 TCGA-BP-5178 
       28.87        48.10        79.30        74.20        52.27        62.86 
TCGA-BP-5180 TCGA-BP-5181 TCGA-BP-5183 TCGA-BP-5184 TCGA-BP-5185 TCGA-BP-5186 
       74.40        49.15        42.44        37.25        37.22        22.78 
TCGA-BP-5187 TCGA-BP-5189 TCGA-BP-5190 TCGA-BP-5191 TCGA-BP-5192 TCGA-BP-5194 
       13.35        27.02        33.24        31.79        23.47        13.41 
TCGA-BP-5195 TCGA-BP-5198 TCGA-BP-5199 TCGA-BP-5202 TCGA-CJ-4634 TCGA-CJ-4635 
       24.62        19.82        44.55         0.95       115.00        46.55 
TCGA-CJ-4636 TCGA-CJ-4638 TCGA-CJ-4639 TCGA-CJ-4641 TCGA-CJ-4644 TCGA-CJ-4869 
       63.25        14.17       106.16        54.61        11.05        83.97 
TCGA-CJ-4871 TCGA-CJ-4872 TCGA-CJ-4873 TCGA-CJ-4874 TCGA-CJ-4875 TCGA-CJ-4882 
       79.66        10.72        74.27        75.06       116.84        61.91 
TCGA-CJ-4886 TCGA-CJ-4887 TCGA-CJ-4890 TCGA-CJ-4891 TCGA-CJ-4892 TCGA-CJ-4893 
       64.18        30.64       115.69        26.93        50.01        24.66 
TCGA-CJ-4895 TCGA-CJ-4899 TCGA-CJ-4900 TCGA-CJ-4901 TCGA-CJ-4902 TCGA-CJ-4905 
       39.45        50.24        56.35        47.67        49.97        49.18 
TCGA-CJ-4908 TCGA-CJ-4913 TCGA-CJ-4916 TCGA-CJ-4918 TCGA-CJ-4920 TCGA-CJ-4923 
       50.33        38.56        45.14         3.06         4.57        18.81 
TCGA-CJ-5671 TCGA-CJ-5675 TCGA-CJ-5676 TCGA-CJ-5678 TCGA-CJ-5680 TCGA-CJ-5681 
      131.08       129.40       133.71        18.87        25.25        18.15 
TCGA-CJ-5682 TCGA-CJ-5683 TCGA-CJ-5684 TCGA-CJ-5686 TCGA-CJ-6028 TCGA-CJ-6031 
      122.83        62.10        73.35        67.00        53.42        62.66 
TCGA-CJ-6032 TCGA-CW-5580 TCGA-CW-5581 TCGA-CW-5583 TCGA-CW-5584 TCGA-CW-5585 
      119.64        64.57        92.02        81.83         5.39        85.78 
TCGA-CW-5587 TCGA-CW-5588 TCGA-CW-5589 TCGA-CW-5591 TCGA-CW-6087 TCGA-CW-6093 
       73.18        66.31        78.18        74.66         1.35       103.43 
TCGA-CW-6097 TCGA-CZ-4853 TCGA-CZ-4856 TCGA-CZ-4857 TCGA-CZ-4858 TCGA-CZ-4859 
       18.77        25.45         0.59        47.08        69.21        58.75 
TCGA-CZ-4861 TCGA-CZ-4863 TCGA-CZ-4864 TCGA-CZ-4866 TCGA-CZ-5451 TCGA-CZ-5452 
       14.66        63.39        93.04        61.41        63.42        58.82 
TCGA-CZ-5454 TCGA-CZ-5455 TCGA-CZ-5456 TCGA-CZ-5458 TCGA-CZ-5459 TCGA-CZ-5460 
       23.74        18.44        79.63        91.69        55.33        94.45 
TCGA-CZ-5461 TCGA-CZ-5464 TCGA-CZ-5467 TCGA-CZ-5469 TCGA-CZ-5982 TCGA-CZ-5984 
       10.85        69.96         2.40        31.10        80.19        67.96 
TCGA-CZ-5985 TCGA-CZ-5989 TCGA-DV-5566 TCGA-DV-5567 TCGA-DV-5568 TCGA-DV-5569 
       65.65        62.63        45.96        65.88        12.16        11.67 
TCGA-DV-5573 TCGA-DV-5576 TCGA-DV-A4VX TCGA-DV-A4VZ TCGA-DV-A4W0 TCGA-EU-5904 
       37.15        23.90        53.46        12.00        81.21        18.12 
TCGA-EU-5905 TCGA-EU-5906 TCGA-EU-5907 TCGA-G6-A5PC TCGA-G6-A8L6 TCGA-G6-A8L7 
        3.91         6.77         4.18         7.96        10.29        70.13 
TCGA-GK-A6C7 TCGA-MM-A564 TCGA-MM-A84U TCGA-MW-A4EC TCGA-T7-A92I TCGA-2K-A9WE 
        2.01        19.96        23.01        16.37        11.70         7.04 
TCGA-2Z-A9J1 TCGA-2Z-A9J2 TCGA-2Z-A9J5 TCGA-2Z-A9J6 TCGA-2Z-A9J7 TCGA-2Z-A9J8 
       75.55        59.01       100.27        56.91         4.57        91.73 
TCGA-2Z-A9J9 TCGA-2Z-A9JD TCGA-2Z-A9JE TCGA-2Z-A9JG TCGA-2Z-A9JI TCGA-2Z-A9JJ 
       75.42        34.85        56.81        54.64        51.52        39.88 
TCGA-2Z-A9JK TCGA-2Z-A9JL TCGA-2Z-A9JM TCGA-2Z-A9JN TCGA-2Z-A9JO TCGA-2Z-A9JP 
       38.99        33.07        30.71        24.33        31.20        29.36 
TCGA-2Z-A9JQ TCGA-2Z-A9JR TCGA-2Z-A9JS TCGA-2Z-A9JT TCGA-4A-A93W TCGA-4A-A93X 
       25.58         5.29        16.18        22.49         0.13        12.82 
TCGA-4A-A93Y TCGA-5P-A9JU TCGA-5P-A9JW TCGA-5P-A9JY TCGA-5P-A9JZ TCGA-5P-A9K0 
       11.57        12.26       106.55        49.58        90.21        22.26 
TCGA-5P-A9K2 TCGA-5P-A9K4 TCGA-5P-A9K6 TCGA-5P-A9K9 TCGA-5P-A9KA TCGA-5P-A9KC 
       78.64        71.80        62.93        19.36        12.99        12.39 
TCGA-5P-A9KE TCGA-5P-A9KH TCGA-A4-7286 TCGA-A4-7287 TCGA-A4-7288 TCGA-A4-7583 
       27.09        67.43        18.21        19.63        61.05         0.10 
TCGA-A4-7584 TCGA-A4-7585 TCGA-A4-7732 TCGA-A4-7734 TCGA-A4-7828 TCGA-A4-7915 
       21.37        35.18        19.13         0.89         7.82         0.23 
TCGA-A4-7996 TCGA-A4-7997 TCGA-A4-8098 TCGA-A4-8310 TCGA-A4-8311 TCGA-A4-8312 
       16.64        30.48        29.46        25.64        23.97        23.28 
TCGA-A4-8515 TCGA-A4-8516 TCGA-A4-8517 TCGA-A4-8518 TCGA-A4-8630 TCGA-A4-A48D 
       23.31         0.76        19.63        19.73        14.33        12.46 
TCGA-A4-A4ZT TCGA-A4-A57E TCGA-A4-A5DU TCGA-A4-A5XZ TCGA-A4-A5Y0 TCGA-A4-A6HP 
       16.96         8.48        16.31        15.75         8.28        12.46 
TCGA-AL-3467 TCGA-AL-3468 TCGA-AL-3471 TCGA-AL-3472 TCGA-AL-3473 TCGA-AL-7173 
       70.19        76.64        49.32        66.71        62.66        67.73 
TCGA-AL-A5DJ TCGA-AT-A5NU TCGA-B1-5398 TCGA-B1-A47M TCGA-B1-A47N TCGA-B1-A47O 
       49.25         2.20        19.56        21.67        24.56        16.87 
TCGA-B1-A654 TCGA-B1-A655 TCGA-B1-A656 TCGA-B1-A657 TCGA-B3-3925 TCGA-B3-4103 
       20.25        16.77        20.32        21.07        33.83        30.58 
TCGA-B3-4104 TCGA-B3-8121 TCGA-B3-A6W5 TCGA-B9-4113 TCGA-B9-4114 TCGA-B9-4115 
       34.49        12.46        10.16        50.50        28.18        26.40 
TCGA-B9-4116 TCGA-B9-4617 TCGA-B9-5155 TCGA-B9-5156 TCGA-B9-7268 TCGA-B9-A44B 
       20.61         1.15        15.12        43.99        22.06         2.10 
TCGA-B9-A5W7 TCGA-B9-A5W8 TCGA-B9-A5W9 TCGA-B9-A69E TCGA-B9-A8YH TCGA-B9-A8YI 
       19.23        17.23         0.16        14.86        17.49        12.30 
TCGA-BQ-5875 TCGA-BQ-5876 TCGA-BQ-5877 TCGA-BQ-5878 TCGA-BQ-5879 TCGA-BQ-5880 
       86.76        19.27         8.88        63.72        22.92        43.20 
TCGA-BQ-5881 TCGA-BQ-5882 TCGA-BQ-5883 TCGA-BQ-5884 TCGA-BQ-5885 TCGA-BQ-5886 
       47.80        21.63        40.83        26.04        30.28        26.04 
TCGA-BQ-5887 TCGA-BQ-5888 TCGA-BQ-5890 TCGA-BQ-5891 TCGA-BQ-5892 TCGA-BQ-5893 
       25.35        13.25         7.66         0.95        11.97         7.92 
TCGA-BQ-5894 TCGA-BQ-7044 TCGA-BQ-7045 TCGA-BQ-7046 TCGA-BQ-7048 TCGA-BQ-7049 
        2.76       123.62        48.26        96.92        93.34        44.84 
TCGA-BQ-7050 TCGA-BQ-7051 TCGA-BQ-7053 TCGA-BQ-7055 TCGA-BQ-7056 TCGA-BQ-7058 
       61.28        50.40        49.84        26.27        20.12        11.28 
TCGA-BQ-7059 TCGA-BQ-7060 TCGA-BQ-7061 TCGA-BQ-7062 TCGA-DW-5561 TCGA-DW-7834 
        7.63         7.04         7.17         3.81        13.61       129.86 
TCGA-DW-7836 TCGA-DW-7837 TCGA-DW-7838 TCGA-DW-7839 TCGA-DW-7840 TCGA-DW-7841 
       35.93        37.55        24.46        13.78         3.75        14.63 
TCGA-DW-7842 TCGA-DW-7963 TCGA-DZ-6131 TCGA-DZ-6132 TCGA-DZ-6133 TCGA-DZ-6134 
        3.02        40.77        79.86        80.88        51.19        61.02 
TCGA-DZ-6135 TCGA-EV-5901 TCGA-EV-5902 TCGA-EV-5903 TCGA-F9-A4JJ TCGA-F9-A7VF 
       74.60        34.19        19.00        24.89        10.68         2.40 
TCGA-F9-A97G TCGA-G7-6789 TCGA-G7-6790 TCGA-G7-6792 TCGA-G7-6793 TCGA-G7-6795 
        0.43         4.01        51.78        90.90        11.05        39.25 
TCGA-G7-6796 TCGA-G7-6797 TCGA-G7-7501 TCGA-G7-7502 TCGA-G7-A4TM TCGA-G7-A8LB 
       71.44        25.15        20.52        25.84         6.38        17.98 
TCGA-G7-A8LE TCGA-GL-6846 TCGA-GL-7773 TCGA-GL-7966 TCGA-GL-8500 TCGA-GL-A4EM 
       80.65       194.79        12.92         3.68        27.65         1.05 
TCGA-GL-A59R TCGA-GL-A59T TCGA-GL-A9DC TCGA-GL-A9DD TCGA-GL-A9DE TCGA-HE-A5NF 
       12.43        17.95        12.89        11.21        16.31        84.89 
TCGA-HE-A5NH TCGA-HE-A5NI TCGA-HE-A5NJ TCGA-HE-A5NK TCGA-HE-A5NL TCGA-IA-A40U 
       26.01        11.84        56.75        73.25        25.22        16.80 
TCGA-IA-A40X TCGA-IA-A40Y TCGA-IA-A83S TCGA-IA-A83T TCGA-IA-A83V TCGA-IA-A83W 
       19.99         2.04        85.78        88.24        96.69        67.17 
TCGA-IZ-8195 TCGA-IZ-8196 TCGA-IZ-A6M8 TCGA-IZ-A6M9 TCGA-J7-6720 TCGA-KV-A6GD 
       22.26        21.34        16.34        12.36        12.76        18.41 
TCGA-KV-A6GE TCGA-KV-A74V TCGA-MH-A55W TCGA-MH-A55Z TCGA-MH-A560 TCGA-MH-A561 
       29.10        11.41        34.29        27.78        30.38        27.65 
TCGA-MH-A562 TCGA-MH-A854 TCGA-MH-A855 TCGA-MH-A856 TCGA-MH-A857 TCGA-O9-A75Z 
       20.25        17.62        12.13        31.13        29.26        15.48 
TCGA-P4-A5E6 TCGA-P4-A5E7 TCGA-P4-A5E8 TCGA-P4-A5EA TCGA-P4-A5EB TCGA-P4-A5ED 
       99.78        87.09        42.94         6.61        99.12        92.58 
TCGA-P4-AAVK TCGA-P4-AAVL TCGA-P4-AAVM TCGA-P4-AAVO TCGA-PJ-A5Z8 TCGA-PJ-A5Z9 
       52.27        16.01        50.60        78.90        19.73        17.75 
TCGA-Q2-A5QZ TCGA-SX-A71R TCGA-SX-A71S TCGA-SX-A71U TCGA-SX-A71V TCGA-SX-A7SL 
       14.07        47.90        49.45        44.61        28.80        27.06 
TCGA-SX-A7SM TCGA-SX-A7SN TCGA-SX-A7SP TCGA-SX-A7SQ TCGA-SX-A7SR TCGA-SX-A7SS 
       11.93        19.00        16.31        41.62        26.47        53.10 
TCGA-SX-A7SU TCGA-UZ-A9PJ TCGA-UZ-A9PK TCGA-UZ-A9PL TCGA-UZ-A9PM TCGA-UZ-A9PN 
       43.76        26.20       117.40       103.63       125.29        37.35 
TCGA-UZ-A9PO TCGA-UZ-A9PP TCGA-UZ-A9PQ TCGA-UZ-A9PR TCGA-UZ-A9PS TCGA-UZ-A9PU 
       62.83        98.96        86.27        86.37        71.24        30.67 
TCGA-UZ-A9PV TCGA-UZ-A9PX TCGA-UZ-A9PZ TCGA-UZ-A9Q0 TCGA-UZ-A9Q1 TCGA-V9-A7HT 
       47.47        65.13        21.60       110.73        51.35        31.73 
TCGA-WN-A9G9 TCGA-WN-AB4C TCGA-Y8-A894 TCGA-Y8-A895 TCGA-Y8-A896 TCGA-Y8-A897 
       26.01        39.06        18.64        15.91        18.64        18.05 
TCGA-Y8-A898 TCGA-Y8-A8RY TCGA-Y8-A8RZ TCGA-Y8-A8S0 TCGA-Y8-A8S1 
       15.62        25.28         3.68         6.02        13.28 

  DEL PEAK 14(8P23.2) MUTATED DEL PEAK 14(8P23.2) WILD-TYPE 
                         0.10                          0.07 
  DEL PEAK 14(8P23.2) MUTATED DEL PEAK 14(8P23.2) WILD-TYPE 
                       137.06                        194.79 
  DEL PEAK 14(8P23.2) MUTATED DEL PEAK 14(8P23.2) WILD-TYPE 
                       36.935                        33.990 
[1] "0.1 - 137.1 (36.9)" "0.1 - 194.8 (34.0)"
[1] "hr=" "1.7"
D27V2, continuous
                               vv
clus                            STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK 14(8P23.2) MUTATED        75       25        47       33
  DEL PEAK 14(8P23.2) WILD-TYPE     380       79       144       71
D27V3, multiclass
           clus
vv          DEL PEAK 14(8P23.2) MUTATED DEL PEAK 14(8P23.2) WILD-TYPE
  STAGE I                            75                           380
  STAGE II                           25                            79
  STAGE III                          47                           144
  STAGE IV                           33                            71
[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                             T1  T2  T3  T4
  DEL PEAK 14(8P23.2) MUTATED    78  31  69   6
  DEL PEAK 14(8P23.2) WILD-TYPE 401  96 189   9
D27V4, multiclass
    clus
vv   DEL PEAK 14(8P23.2) MUTATED DEL PEAK 14(8P23.2) WILD-TYPE
  T1                          78                           401
  T2                          31                            96
  T3                          69                           189
  T4                           6                             9
[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                             N0  N1  N2
  DEL PEAK 14(8P23.2) MUTATED    74  10   0
  DEL PEAK 14(8P23.2) WILD-TYPE 248  34   7
D27V5, multiclass
    clus
vv   DEL PEAK 14(8P23.2) MUTATED DEL PEAK 14(8P23.2) WILD-TYPE
  N0                          74                           248
  N1                          10                            34
  N2                           0                             7
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D27V6, binary
                               cls
clus                              0   1
  DEL PEAK 14(8P23.2) MUTATED   131  32
  DEL PEAK 14(8P23.2) WILD-TYPE 414  57
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 14(8P23.2) MUTATED    131   32
  DEL PEAK 14(8P23.2) WILD-TYPE  414   57
   clus
vv  DEL PEAK 14(8P23.2) MUTATED DEL PEAK 14(8P23.2) WILD-TYPE
  0                         131                           414
  1                          32                            57
[1] 2 2
[1] FALSE
D27V7, binary
                               cls
clus                              0   1
  DEL PEAK 14(8P23.2) MUTATED    63 121
  DEL PEAK 14(8P23.2) WILD-TYPE 229 468
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 14(8P23.2) MUTATED     63  121
  DEL PEAK 14(8P23.2) WILD-TYPE  229  468
        clus
vv       DEL PEAK 14(8P23.2) MUTATED DEL PEAK 14(8P23.2) WILD-TYPE
  FEMALE                          63                           229
  MALE                           121                           468
[1] 2 2
[1] FALSE
D27V8, binary
                               cls
clus                              0   1
  DEL PEAK 14(8P23.2) MUTATED    55   0
  DEL PEAK 14(8P23.2) WILD-TYPE 345   3
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 14(8P23.2) MUTATED     55    0
  DEL PEAK 14(8P23.2) WILD-TYPE  345    3
     clus
vv    DEL PEAK 14(8P23.2) MUTATED DEL PEAK 14(8P23.2) WILD-TYPE
  NO                           55                           345
  YES                           0                             3
[1] 2 2
[1] FALSE
D27V9, continuous
                               vv
clus                            KIDNEY CHROMOPHOBE
  DEL PEAK 14(8P23.2) MUTATED                   12
  DEL PEAK 14(8P23.2) WILD-TYPE                 54
                               vv
clus                            KIDNEY CLEAR CELL RENAL CARCINOMA
  DEL PEAK 14(8P23.2) MUTATED                                 154
  DEL PEAK 14(8P23.2) WILD-TYPE                               374
                               vv
clus                            KIDNEY PAPILLARY RENAL CELL CARCINOMA
  DEL PEAK 14(8P23.2) MUTATED                                      18
  DEL PEAK 14(8P23.2) WILD-TYPE                                   269
D27V10, multiclass
                                       clus
vv                                      DEL PEAK 14(8P23.2) MUTATED
  KIDNEY CHROMOPHOBE                                             12
  KIDNEY CLEAR CELL RENAL CARCINOMA                             154
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                          18
                                       clus
vv                                      DEL PEAK 14(8P23.2) WILD-TYPE
  KIDNEY CHROMOPHOBE                                               54
  KIDNEY CLEAR CELL RENAL CARCINOMA                               374
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                           269
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D27V11, continuous
D27V12, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 14(8P23.2) MUTATED                                  0     7
  DEL PEAK 14(8P23.2) WILD-TYPE                                2     8
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 14(8P23.2) MUTATED                          14   160
  DEL PEAK 14(8P23.2) WILD-TYPE                       107   559
D27V13, multiclass
                                  clus
vv                                 DEL PEAK 14(8P23.2) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                      7
  BLACK OR AFRICAN AMERICAN                                 14
  WHITE                                                    160
                                  clus
vv                                 DEL PEAK 14(8P23.2) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             2
  ASIAN                                                        8
  BLACK OR AFRICAN AMERICAN                                  107
  WHITE                                                      559
[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"
D27V14, binary
                               cls
clus                              0   1
  DEL PEAK 14(8P23.2) MUTATED    12 116
  DEL PEAK 14(8P23.2) WILD-TYPE  30 505
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 14(8P23.2) MUTATED     12  116
  DEL PEAK 14(8P23.2) WILD-TYPE   30  505
                        clus
vv                       DEL PEAK 14(8P23.2) MUTATED
  HISPANIC OR LATINO                              12
  NOT HISPANIC OR LATINO                         116
                        clus
vv                       DEL PEAK 14(8P23.2) WILD-TYPE
  HISPANIC OR LATINO                                30
  NOT HISPANIC OR LATINO                           505
[1] 2 2
[1] FALSE

Clustering(28) Variable = DEL PEAK 15(9P23) MUTATION ANALYSIS
D28V1, survival
                             sevent
clus2                           0   1
  DEL PEAK 15(9P23) MUTATED   103  92
  DEL PEAK 15(9P23) WILD-TYPE 542 136
  DEL PEAK 15(9P23) MUTATED DEL PEAK 15(9P23) WILD-TYPE 
                        195                         678 
  DEL PEAK 15(9P23) MUTATED DEL PEAK 15(9P23) WILD-TYPE 
                         92                         136 
$`DEL PEAK 15(9P23) MUTATED`
TCGA-KL-8324 TCGA-KL-8325 TCGA-KL-8332 TCGA-KL-8343 TCGA-KL-8346 TCGA-KN-8427 
      141.73        23.84        84.89        71.41        62.37         0.99 
TCGA-KN-8436 TCGA-KO-8404 TCGA-KO-8415 TCGA-A3-3306 TCGA-A3-3311 TCGA-A3-3316 
       42.35        10.68        96.62        36.82        39.16        49.08 
TCGA-A3-3317 TCGA-A3-3319 TCGA-A3-3325 TCGA-A3-3346 TCGA-A3-3347 TCGA-A3-3352 
       49.02        37.15        38.47         4.50        52.93        18.44 
TCGA-A3-3372 TCGA-A3-3382 TCGA-AK-3425 TCGA-AK-3426 TCGA-AK-3436 TCGA-AK-3445 
       24.16        18.87       109.91        29.10       109.51        78.64 
TCGA-AK-3450 TCGA-AS-3777 TCGA-B0-4690 TCGA-B0-4691 TCGA-B0-4694 TCGA-B0-4698 
       49.28        40.70         1.41         4.57         3.48         1.38 
TCGA-B0-4707 TCGA-B0-4710 TCGA-B0-4712 TCGA-B0-4811 TCGA-B0-4815 TCGA-B0-4817 
       19.73        57.70        43.96        46.59        52.21        33.50 
TCGA-B0-4819 TCGA-B0-4821 TCGA-B0-4822 TCGA-B0-4828 TCGA-B0-4836 TCGA-B0-4842 
        6.02        40.44        36.53        10.09        40.70        56.68 
TCGA-B0-4845 TCGA-B0-4848 TCGA-B0-5094 TCGA-B0-5095 TCGA-B0-5096 TCGA-B0-5097 
       65.29        29.03        10.95         8.05         2.24        21.86 
TCGA-B0-5098 TCGA-B0-5100 TCGA-B0-5107 TCGA-B0-5113 TCGA-B0-5116 TCGA-B0-5402 
       52.08        62.89        30.48        38.63        41.88        42.41 
TCGA-B0-5694 TCGA-B0-5701 TCGA-B2-5633 TCGA-B2-5641 TCGA-B4-5832 TCGA-B4-5838 
       15.78        80.91        31.66        21.57         5.10         5.46 
TCGA-B8-4620 TCGA-B8-4622 TCGA-B8-5158 TCGA-B8-5549 TCGA-B8-5551 TCGA-BP-4161 
       25.55        50.14        20.91         6.38         0.53        90.28 
TCGA-BP-4164 TCGA-BP-4167 TCGA-BP-4176 TCGA-BP-4342 TCGA-BP-4343 TCGA-BP-4351 
       32.61        89.36        64.27        74.17        62.86        31.89 
TCGA-BP-4352 TCGA-BP-4353 TCGA-BP-4763 TCGA-BP-4766 TCGA-BP-4768 TCGA-BP-4781 
       11.31        12.33        41.75        48.07        13.15        68.38 
TCGA-BP-4782 TCGA-BP-4797 TCGA-BP-4798 TCGA-BP-4803 TCGA-BP-4960 TCGA-BP-4962 
       11.64        36.39        10.98         6.71        71.41        58.68 
TCGA-BP-4963 TCGA-BP-4964 TCGA-BP-4973 TCGA-BP-4983 TCGA-BP-4985 TCGA-BP-4986 
       60.30        61.22        45.50        46.45        31.30        25.81 
TCGA-BP-4994 TCGA-BP-4995 TCGA-BP-5000 TCGA-BP-5009 TCGA-BP-5010 TCGA-BP-5169 
       43.00        45.07        18.51        36.23        28.87         6.35 
TCGA-BP-5175 TCGA-BP-5178 TCGA-BP-5180 TCGA-BP-5183 TCGA-BP-5189 TCGA-BP-5191 
       30.64        62.86        74.40        42.44        27.02        31.79 
TCGA-BP-5196 TCGA-BP-5198 TCGA-BP-5201 TCGA-CJ-4635 TCGA-CJ-4638 TCGA-CJ-4871 
       33.47        19.82        31.27        46.55        14.17        79.66 
TCGA-CJ-4881 TCGA-CJ-4888 TCGA-CJ-4890 TCGA-CJ-4891 TCGA-CJ-4895 TCGA-CJ-4900 
       66.21        51.52       115.69        26.93        39.45        56.35 
TCGA-CJ-4901 TCGA-CJ-4907 TCGA-CJ-4908 TCGA-CJ-4912 TCGA-CJ-4913 TCGA-CJ-4920 
       47.67        49.28        50.33        54.48        38.56         4.57 
TCGA-CJ-5671 TCGA-CJ-5676 TCGA-CJ-5677 TCGA-CJ-5679 TCGA-CJ-5680 TCGA-CJ-5682 
      131.08       133.71        25.71        22.32        25.25       122.83 
TCGA-CJ-5689 TCGA-CJ-6027 TCGA-CJ-6028 TCGA-CJ-6030 TCGA-CJ-6031 TCGA-CJ-6033 
       53.26       118.85        53.42        75.58        62.66         7.36 
TCGA-CW-5580 TCGA-CW-5584 TCGA-CW-5588 TCGA-CW-5591 TCGA-CW-6090 TCGA-CW-6097 
       64.57         5.39        66.31        74.66        83.90        18.77 
TCGA-CZ-4854 TCGA-CZ-4857 TCGA-CZ-4858 TCGA-CZ-4860 TCGA-CZ-5456 TCGA-CZ-5461 
       46.16        47.08        69.21         6.77        79.63        10.85 
TCGA-CZ-5462 TCGA-CZ-5465 TCGA-CZ-5466 TCGA-CZ-5468 TCGA-CZ-5469 TCGA-CZ-5470 
       10.22        84.30        22.52         1.94        31.10        12.69 
TCGA-CZ-5984 TCGA-CZ-5985 TCGA-CZ-5987 TCGA-DV-5576 TCGA-DV-A4VX TCGA-DV-A4W0 
       67.96        65.65        14.63        23.90        53.46        81.21 
TCGA-G6-A5PC TCGA-G6-A8L7 TCGA-MM-A563 TCGA-MM-A84U TCGA-2Z-A9JG TCGA-2Z-A9JI 
        7.96        70.13        19.43        23.01        54.64        51.52 
TCGA-2Z-A9JJ TCGA-4A-A93X TCGA-5P-A9K9 TCGA-A4-7286 TCGA-A4-7287 TCGA-A4-8516 
       39.88        12.82        19.36        18.21        19.63         0.76 
TCGA-A4-A57E TCGA-A4-A5Y1 TCGA-AL-3466 TCGA-AL-A5DJ TCGA-B3-3926 TCGA-B9-4116 
        8.48        12.99         9.63        49.25        10.09        20.61 
TCGA-B9-A69E TCGA-BQ-5879 TCGA-BQ-5888 TCGA-BQ-5889 TCGA-BQ-7048 TCGA-BQ-7056 
       14.86        22.92        13.25        10.82        93.34        20.12 
TCGA-DZ-6131 TCGA-F9-A7Q0 TCGA-G7-6789 TCGA-G7-6793 TCGA-G7-6796 TCGA-G7-7501 
       79.86        13.08         4.01        11.05        71.44        20.52 
TCGA-G7-A8LC TCGA-G7-A8LD TCGA-IA-A40Y TCGA-J7-8537 TCGA-P4-A5EA TCGA-P4-AAVL 
       23.08        16.90         2.04        10.55         6.61        16.01 
TCGA-UN-AAZ9 TCGA-UZ-A9PQ TCGA-Y8-A896 
       18.02        86.27        18.64 

$`DEL PEAK 15(9P23) WILD-TYPE`
TCGA-KL-8323 TCGA-KL-8326 TCGA-KL-8327 TCGA-KL-8328 TCGA-KL-8329 TCGA-KL-8330 
       38.07       109.22       137.06       102.81        90.48       108.62 
TCGA-KL-8331 TCGA-KL-8333 TCGA-KL-8334 TCGA-KL-8335 TCGA-KL-8336 TCGA-KL-8337 
       98.96        98.33        96.95        92.55        30.25        44.84 
TCGA-KL-8338 TCGA-KL-8339 TCGA-KL-8340 TCGA-KL-8341 TCGA-KL-8342 TCGA-KL-8344 
       86.56        28.11        66.54        24.79        73.91        28.80 
TCGA-KL-8345 TCGA-KM-8438 TCGA-KM-8439 TCGA-KM-8440 TCGA-KM-8441 TCGA-KM-8442 
       54.74       151.96        23.28        44.91        28.80        47.24 
TCGA-KM-8443 TCGA-KM-8476 TCGA-KM-8477 TCGA-KM-8639 TCGA-KN-8418 TCGA-KN-8419 
       49.97       123.12        51.06        31.33       129.37        23.47 
TCGA-KN-8421 TCGA-KN-8422 TCGA-KN-8423 TCGA-KN-8424 TCGA-KN-8425 TCGA-KN-8426 
       87.91        25.48        25.91        65.19       104.52         3.55 
TCGA-KN-8428 TCGA-KN-8429 TCGA-KN-8431 TCGA-KN-8432 TCGA-KN-8433 TCGA-KN-8434 
       52.27        87.12        19.33         2.50        11.21        59.08 
TCGA-KN-8435 TCGA-KN-8437 TCGA-KO-8403 TCGA-KO-8405 TCGA-KO-8406 TCGA-KO-8407 
      115.00       100.87       105.47       100.47       103.40        92.71 
TCGA-KO-8408 TCGA-KO-8409 TCGA-KO-8410 TCGA-KO-8411 TCGA-KO-8413 TCGA-KO-8414 
       16.67       104.55       103.10       130.13        99.88       105.60 
TCGA-KO-8416 TCGA-KO-8417 TCGA-3Z-A93Z TCGA-6D-AA2E TCGA-A3-3307 TCGA-A3-3308 
       90.48        92.55        12.66        11.90        47.21         0.53 
TCGA-A3-3313 TCGA-A3-3320 TCGA-A3-3322 TCGA-A3-3323 TCGA-A3-3324 TCGA-A3-3326 
       24.16        49.58        48.59        36.36        38.99        37.38 
TCGA-A3-3331 TCGA-A3-3335 TCGA-A3-3336 TCGA-A3-3343 TCGA-A3-3349 TCGA-A3-3351 
       48.82        62.01        34.29        31.07        45.53        29.92 
TCGA-A3-3357 TCGA-A3-3358 TCGA-A3-3359 TCGA-A3-3362 TCGA-A3-3363 TCGA-A3-3365 
       88.37        42.97        82.32        51.25        10.49        28.70 
TCGA-A3-3367 TCGA-A3-3370 TCGA-A3-3373 TCGA-A3-3374 TCGA-A3-3376 TCGA-A3-3378 
       74.63        74.76        53.29        43.20        55.76        20.71 
TCGA-A3-3380 TCGA-A3-3383 TCGA-A3-3385 TCGA-A3-3387 TCGA-A3-A6NI TCGA-A3-A6NJ 
       18.64        28.31        65.52        20.28        33.47        15.39 
TCGA-A3-A6NL TCGA-A3-A6NN TCGA-A3-A8CQ TCGA-A3-A8OV TCGA-A3-A8OW TCGA-AK-3427 
       22.65         0.10         0.10        11.18        10.62       117.80 
TCGA-AK-3428 TCGA-AK-3429 TCGA-AK-3430 TCGA-AK-3431 TCGA-AK-3433 TCGA-AK-3434 
       73.08       109.41        15.78        73.68       112.08        68.61 
TCGA-AK-3440 TCGA-AK-3443 TCGA-AK-3444 TCGA-AK-3447 TCGA-AK-3451 TCGA-AK-3453 
       94.19        46.78        48.36        40.01        94.29        83.21 
TCGA-AK-3454 TCGA-AK-3455 TCGA-AK-3456 TCGA-AK-3458 TCGA-AK-3460 TCGA-AK-3461 
       28.73        22.45        37.58        38.40        82.45        72.89 
TCGA-AK-3465 TCGA-AS-3778 TCGA-B0-4688 TCGA-B0-4693 TCGA-B0-4696 TCGA-B0-4697 
       12.13         1.41         3.32         2.53        28.47        19.00 
TCGA-B0-4699 TCGA-B0-4700 TCGA-B0-4701 TCGA-B0-4703 TCGA-B0-4706 TCGA-B0-4713 
        3.62        65.10         7.82         5.98         2.14         6.64 
TCGA-B0-4714 TCGA-B0-4718 TCGA-B0-4810 TCGA-B0-4813 TCGA-B0-4814 TCGA-B0-4816 
        3.25        58.45        15.72         0.59         5.52        45.07 
TCGA-B0-4818 TCGA-B0-4823 TCGA-B0-4824 TCGA-B0-4827 TCGA-B0-4833 TCGA-B0-4834 
       16.77        14.93        54.48        29.10        78.44        68.71 
TCGA-B0-4837 TCGA-B0-4838 TCGA-B0-4839 TCGA-B0-4841 TCGA-B0-4843 TCGA-B0-4844 
       45.30        27.42        53.88         6.71        10.52        10.29 
TCGA-B0-4846 TCGA-B0-4847 TCGA-B0-4849 TCGA-B0-4852 TCGA-B0-4945 TCGA-B0-5075 
       39.45        26.07         2.27        36.85        70.52        20.94 
TCGA-B0-5077 TCGA-B0-5080 TCGA-B0-5081 TCGA-B0-5084 TCGA-B0-5085 TCGA-B0-5088 
       43.30        11.24        11.90         7.30        25.32        18.51 
TCGA-B0-5092 TCGA-B0-5099 TCGA-B0-5102 TCGA-B0-5104 TCGA-B0-5106 TCGA-B0-5108 
       15.09        15.95        90.87        90.48        52.54        58.59 
TCGA-B0-5109 TCGA-B0-5110 TCGA-B0-5115 TCGA-B0-5117 TCGA-B0-5119 TCGA-B0-5120 
       19.30        66.05        52.73        52.87        51.02        38.43 
TCGA-B0-5121 TCGA-B0-5399 TCGA-B0-5400 TCGA-B0-5690 TCGA-B0-5691 TCGA-B0-5692 
       48.82        46.39        56.98       111.52       112.80       129.67 
TCGA-B0-5693 TCGA-B0-5695 TCGA-B0-5696 TCGA-B0-5697 TCGA-B0-5698 TCGA-B0-5699 
      133.94        70.68        85.78        86.47       119.38       126.28 
TCGA-B0-5702 TCGA-B0-5703 TCGA-B0-5705 TCGA-B0-5706 TCGA-B0-5709 TCGA-B0-5710 
       71.41        73.84       149.16       105.37       130.65        79.89 
TCGA-B0-5711 TCGA-B0-5712 TCGA-B0-5713 TCGA-B0-5812 TCGA-B2-3923 TCGA-B2-3924 
      131.15        89.49        91.46       126.05        32.61        35.90 
TCGA-B2-4098 TCGA-B2-4099 TCGA-B2-4101 TCGA-B2-4102 TCGA-B2-5635 TCGA-B2-5639 
        1.68        31.96        21.30        31.30        24.82        32.98 
TCGA-B2-A4SR TCGA-B4-5377 TCGA-B4-5378 TCGA-B4-5834 TCGA-B4-5835 TCGA-B4-5836 
       16.67        12.00         5.75         0.85         0.53         4.64 
TCGA-B4-5843 TCGA-B4-5844 TCGA-B8-4143 TCGA-B8-4146 TCGA-B8-4148 TCGA-B8-4151 
        0.36         0.23        23.31        16.80        27.16        42.71 
TCGA-B8-4153 TCGA-B8-4154 TCGA-B8-4619 TCGA-B8-4621 TCGA-B8-5159 TCGA-B8-5162 
       25.05        45.37        17.19        25.91        23.74         1.18 
TCGA-B8-5163 TCGA-B8-5164 TCGA-B8-5165 TCGA-B8-5545 TCGA-B8-5546 TCGA-B8-5550 
       27.02         0.85        24.23        50.14        16.60        48.53 
TCGA-B8-5552 TCGA-B8-5553 TCGA-B8-A54D TCGA-B8-A54E TCGA-B8-A54F TCGA-B8-A54G 
       34.39        14.30        27.29        29.88        17.06         1.74 
TCGA-B8-A54H TCGA-B8-A54I TCGA-B8-A54J TCGA-B8-A54K TCGA-B8-A7U6 TCGA-B8-A8YJ 
        8.42         4.93        17.36        15.42        16.27        14.17 
TCGA-BP-4158 TCGA-BP-4159 TCGA-BP-4160 TCGA-BP-4162 TCGA-BP-4163 TCGA-BP-4165 
      111.02        85.51        94.72       101.06        93.34        99.85 
TCGA-BP-4166 TCGA-BP-4169 TCGA-BP-4170 TCGA-BP-4173 TCGA-BP-4174 TCGA-BP-4177 
        0.43        23.05        77.03        62.24        61.78        54.90 
TCGA-BP-4325 TCGA-BP-4326 TCGA-BP-4327 TCGA-BP-4329 TCGA-BP-4330 TCGA-BP-4331 
       97.45        53.42         3.58        27.78        62.07        80.68 
TCGA-BP-4332 TCGA-BP-4334 TCGA-BP-4335 TCGA-BP-4337 TCGA-BP-4338 TCGA-BP-4340 
       37.25        21.21        15.16         0.07        93.99        18.48 
TCGA-BP-4341 TCGA-BP-4344 TCGA-BP-4346 TCGA-BP-4347 TCGA-BP-4349 TCGA-BP-4354 
       52.24        54.77        49.08        44.94        12.23        33.99 
TCGA-BP-4355 TCGA-BP-4756 TCGA-BP-4758 TCGA-BP-4759 TCGA-BP-4760 TCGA-BP-4761 
       31.33        12.30        72.59        77.98        77.62         5.98 
TCGA-BP-4762 TCGA-BP-4765 TCGA-BP-4769 TCGA-BP-4770 TCGA-BP-4771 TCGA-BP-4774 
       44.15        71.80        61.68        10.82         5.33        61.97 
TCGA-BP-4775 TCGA-BP-4776 TCGA-BP-4777 TCGA-BP-4784 TCGA-BP-4787 TCGA-BP-4789 
       60.59        13.51        56.91        60.95        15.78        48.95 
TCGA-BP-4790 TCGA-BP-4795 TCGA-BP-4799 TCGA-BP-4801 TCGA-BP-4804 TCGA-BP-4807 
       36.53        20.38        37.25        36.95        47.97         6.94 
TCGA-BP-4959 TCGA-BP-4961 TCGA-BP-4965 TCGA-BP-4967 TCGA-BP-4968 TCGA-BP-4969 
       87.45        63.62        61.51         6.74        57.40        58.98 
TCGA-BP-4970 TCGA-BP-4971 TCGA-BP-4972 TCGA-BP-4974 TCGA-BP-4975 TCGA-BP-4976 
       14.24        48.89        49.38         6.90        47.11        53.65 
TCGA-BP-4977 TCGA-BP-4981 TCGA-BP-4982 TCGA-BP-4987 TCGA-BP-4988 TCGA-BP-4989 
       14.93        36.07        33.34        36.95        27.22         3.88 
TCGA-BP-4991 TCGA-BP-4992 TCGA-BP-4993 TCGA-BP-4998 TCGA-BP-4999 TCGA-BP-5001 
       46.45        16.47         5.82        30.64        41.62        38.70 
TCGA-BP-5004 TCGA-BP-5006 TCGA-BP-5007 TCGA-BP-5008 TCGA-BP-5168 TCGA-BP-5170 
       37.02        27.62        37.48        35.21        48.10        79.30 
TCGA-BP-5173 TCGA-BP-5174 TCGA-BP-5176 TCGA-BP-5177 TCGA-BP-5181 TCGA-BP-5182 
        1.74        74.20        52.27         9.63        49.15        38.30 
TCGA-BP-5184 TCGA-BP-5185 TCGA-BP-5186 TCGA-BP-5187 TCGA-BP-5190 TCGA-BP-5192 
       37.25        37.22        22.78        13.35        33.24        23.47 
TCGA-BP-5194 TCGA-BP-5195 TCGA-BP-5199 TCGA-BP-5200 TCGA-BP-5202 TCGA-CJ-4634 
       13.41        24.62        44.55        34.95         0.95       115.00 
TCGA-CJ-4636 TCGA-CJ-4637 TCGA-CJ-4639 TCGA-CJ-4640 TCGA-CJ-4641 TCGA-CJ-4642 
       63.25        73.22       106.16       114.41        54.61       105.37 
TCGA-CJ-4643 TCGA-CJ-4644 TCGA-CJ-4868 TCGA-CJ-4869 TCGA-CJ-4870 TCGA-CJ-4872 
       58.95        11.05        21.24        83.97        49.25        10.72 
TCGA-CJ-4873 TCGA-CJ-4874 TCGA-CJ-4875 TCGA-CJ-4876 TCGA-CJ-4878 TCGA-CJ-4882 
       74.27        75.06       116.84        64.27        71.87        61.91 
TCGA-CJ-4884 TCGA-CJ-4885 TCGA-CJ-4886 TCGA-CJ-4887 TCGA-CJ-4889 TCGA-CJ-4892 
       57.83       113.46        64.18        30.64        63.98        50.01 
TCGA-CJ-4893 TCGA-CJ-4894 TCGA-CJ-4897 TCGA-CJ-4899 TCGA-CJ-4902 TCGA-CJ-4903 
       24.66        27.65       109.84        50.24        49.97        51.25 
TCGA-CJ-4904 TCGA-CJ-4905 TCGA-CJ-4916 TCGA-CJ-4918 TCGA-CJ-4923 TCGA-CJ-5672 
      108.56        49.18        45.14         3.06        18.81        72.00 
TCGA-CJ-5675 TCGA-CJ-5678 TCGA-CJ-5681 TCGA-CJ-5683 TCGA-CJ-5684 TCGA-CJ-5686 
      129.40        18.87        18.15        62.10        73.35        67.00 
TCGA-CJ-6032 TCGA-CW-5581 TCGA-CW-5583 TCGA-CW-5585 TCGA-CW-5587 TCGA-CW-5589 
      119.64        92.02        81.83        85.78        73.18        78.18 
TCGA-CW-6087 TCGA-CW-6088 TCGA-CW-6093 TCGA-CZ-4853 TCGA-CZ-4856 TCGA-CZ-4859 
        1.35       105.93       103.43        25.45         0.59        58.75 
TCGA-CZ-4861 TCGA-CZ-4862 TCGA-CZ-4863 TCGA-CZ-4864 TCGA-CZ-4865 TCGA-CZ-4866 
       14.66       107.54        63.39        93.04         5.46        61.41 
TCGA-CZ-5451 TCGA-CZ-5452 TCGA-CZ-5453 TCGA-CZ-5454 TCGA-CZ-5455 TCGA-CZ-5457 
       63.42        58.82        79.53        23.74        18.44        90.54 
TCGA-CZ-5458 TCGA-CZ-5459 TCGA-CZ-5460 TCGA-CZ-5463 TCGA-CZ-5464 TCGA-CZ-5467 
       91.69        55.33        94.45        21.76        69.96         2.40 
TCGA-CZ-5982 TCGA-CZ-5986 TCGA-CZ-5988 TCGA-CZ-5989 TCGA-DV-5565 TCGA-DV-5566 
       80.19        12.26        22.78        62.63        13.28        45.96 
TCGA-DV-5567 TCGA-DV-5568 TCGA-DV-5569 TCGA-DV-5573 TCGA-DV-5574 TCGA-DV-5575 
       65.88        12.16        11.67        37.15        66.28        56.84 
TCGA-DV-A4VZ TCGA-EU-5904 TCGA-EU-5905 TCGA-EU-5906 TCGA-EU-5907 TCGA-G6-A8L6 
       12.00        18.12         3.91         6.77         4.18        10.29 
TCGA-G6-A8L8 TCGA-GK-A6C7 TCGA-MM-A564 TCGA-MW-A4EC TCGA-T7-A92I TCGA-2K-A9WE 
       35.87         2.01        19.96        16.37        11.70         7.04 
TCGA-2Z-A9J1 TCGA-2Z-A9J2 TCGA-2Z-A9J3 TCGA-2Z-A9J5 TCGA-2Z-A9J6 TCGA-2Z-A9J7 
       75.55        59.01        58.22       100.27        56.91         4.57 
TCGA-2Z-A9J8 TCGA-2Z-A9J9 TCGA-2Z-A9JD TCGA-2Z-A9JE TCGA-2Z-A9JK TCGA-2Z-A9JL 
       91.73        75.42        34.85        56.81        38.99        33.07 
TCGA-2Z-A9JM TCGA-2Z-A9JN TCGA-2Z-A9JO TCGA-2Z-A9JP TCGA-2Z-A9JQ TCGA-2Z-A9JR 
       30.71        24.33        31.20        29.36        25.58         5.29 
TCGA-2Z-A9JS TCGA-2Z-A9JT TCGA-4A-A93W TCGA-4A-A93Y TCGA-5P-A9JU TCGA-5P-A9JV 
       16.18        22.49         0.13        11.57        12.26        67.17 
TCGA-5P-A9JW TCGA-5P-A9JY TCGA-5P-A9JZ TCGA-5P-A9K0 TCGA-5P-A9K2 TCGA-5P-A9K3 
      106.55        49.58        90.21        22.26        78.64        15.48 
TCGA-5P-A9K4 TCGA-5P-A9K6 TCGA-5P-A9K8 TCGA-5P-A9KA TCGA-5P-A9KC TCGA-5P-A9KE 
       71.80        62.93        43.04        12.99        12.39        27.09 
TCGA-5P-A9KH TCGA-A4-7288 TCGA-A4-7583 TCGA-A4-7584 TCGA-A4-7585 TCGA-A4-7732 
       67.43        61.05         0.10        21.37        35.18        19.13 
TCGA-A4-7734 TCGA-A4-7828 TCGA-A4-7915 TCGA-A4-7996 TCGA-A4-7997 TCGA-A4-8098 
        0.89         7.82         0.23        16.64        30.48        29.46 
TCGA-A4-8310 TCGA-A4-8311 TCGA-A4-8312 TCGA-A4-8515 TCGA-A4-8517 TCGA-A4-8518 
       25.64        23.97        23.28        23.31        19.63        19.73 
TCGA-A4-8630 TCGA-A4-A48D TCGA-A4-A4ZT TCGA-A4-A5DU TCGA-A4-A5XZ TCGA-A4-A5Y0 
       14.33        12.46        16.96        16.31        15.75         8.28 
TCGA-A4-A6HP TCGA-AL-3467 TCGA-AL-3468 TCGA-AL-3471 TCGA-AL-3472 TCGA-AL-3473 
       12.46        70.19        76.64        49.32        66.71        62.66 
TCGA-AL-7173 TCGA-AT-A5NU TCGA-B1-5398 TCGA-B1-7332 TCGA-B1-A47M TCGA-B1-A47N 
       67.73         2.20        19.56        37.51        21.67        24.56 
TCGA-B1-A47O TCGA-B1-A654 TCGA-B1-A655 TCGA-B1-A656 TCGA-B1-A657 TCGA-B3-3925 
       16.87        20.25        16.77        20.32        21.07        33.83 
TCGA-B3-4103 TCGA-B3-4104 TCGA-B3-8121 TCGA-B3-A6W5 TCGA-B9-4113 TCGA-B9-4114 
       30.58        34.49        12.46        10.16        50.50        28.18 
TCGA-B9-4115 TCGA-B9-4117 TCGA-B9-4617 TCGA-B9-5155 TCGA-B9-5156 TCGA-B9-7268 
       26.40         0.46         1.15        15.12        43.99        22.06 
TCGA-B9-A44B TCGA-B9-A5W7 TCGA-B9-A5W8 TCGA-B9-A5W9 TCGA-B9-A8YH TCGA-B9-A8YI 
        2.10        19.23        17.23         0.16        17.49        12.30 
TCGA-BQ-5875 TCGA-BQ-5876 TCGA-BQ-5877 TCGA-BQ-5878 TCGA-BQ-5880 TCGA-BQ-5881 
       86.76        19.27         8.88        63.72        43.20        47.80 
TCGA-BQ-5882 TCGA-BQ-5883 TCGA-BQ-5884 TCGA-BQ-5885 TCGA-BQ-5886 TCGA-BQ-5887 
       21.63        40.83        26.04        30.28        26.04        25.35 
TCGA-BQ-5890 TCGA-BQ-5891 TCGA-BQ-5892 TCGA-BQ-5893 TCGA-BQ-5894 TCGA-BQ-7044 
        7.66         0.95        11.97         7.92         2.76       123.62 
TCGA-BQ-7045 TCGA-BQ-7046 TCGA-BQ-7049 TCGA-BQ-7050 TCGA-BQ-7051 TCGA-BQ-7053 
       48.26        96.92        44.84        61.28        50.40        49.84 
TCGA-BQ-7055 TCGA-BQ-7058 TCGA-BQ-7059 TCGA-BQ-7060 TCGA-BQ-7061 TCGA-BQ-7062 
       26.27        11.28         7.63         7.04         7.17         3.81 
TCGA-DW-5560 TCGA-DW-5561 TCGA-DW-7834 TCGA-DW-7836 TCGA-DW-7837 TCGA-DW-7838 
       48.85        13.61       129.86        35.93        37.55        24.46 
TCGA-DW-7839 TCGA-DW-7840 TCGA-DW-7841 TCGA-DW-7842 TCGA-DW-7963 TCGA-DZ-6132 
       13.78         3.75        14.63         3.02        40.77        80.88 
TCGA-DZ-6133 TCGA-DZ-6134 TCGA-DZ-6135 TCGA-EV-5901 TCGA-EV-5902 TCGA-EV-5903 
       51.19        61.02        74.60        34.19        19.00        24.89 
TCGA-F9-A4JJ TCGA-F9-A7VF TCGA-F9-A8NY TCGA-F9-A97G TCGA-G7-6790 TCGA-G7-6792 
       10.68         2.40         1.18         0.43        51.78        90.90 
TCGA-G7-6795 TCGA-G7-6797 TCGA-G7-7502 TCGA-G7-A4TM TCGA-G7-A8LB TCGA-G7-A8LE 
       39.25        25.15        25.84         6.38        17.98        80.65 
TCGA-GL-6846 TCGA-GL-7773 TCGA-GL-7966 TCGA-GL-8500 TCGA-GL-A4EM TCGA-GL-A59R 
      194.79        12.92         3.68        27.65         1.05        12.43 
TCGA-GL-A59T TCGA-GL-A9DC TCGA-GL-A9DD TCGA-GL-A9DE TCGA-HE-A5NF TCGA-HE-A5NH 
       17.95        12.89        11.21        16.31        84.89        26.01 
TCGA-HE-A5NI TCGA-HE-A5NJ TCGA-HE-A5NK TCGA-HE-A5NL TCGA-IA-A40U TCGA-IA-A40X 
       11.84        56.75        73.25        25.22        16.80        19.99 
TCGA-IA-A83S TCGA-IA-A83T TCGA-IA-A83V TCGA-IA-A83W TCGA-IZ-8195 TCGA-IZ-8196 
       85.78        88.24        96.69        67.17        22.26        21.34 
TCGA-IZ-A6M8 TCGA-IZ-A6M9 TCGA-J7-6720 TCGA-KV-A6GD TCGA-KV-A6GE TCGA-KV-A74V 
       16.34        12.36        12.76        18.41        29.10        11.41 
TCGA-MH-A55W TCGA-MH-A55Z TCGA-MH-A560 TCGA-MH-A561 TCGA-MH-A562 TCGA-MH-A854 
       34.29        27.78        30.38        27.65        20.25        17.62 
TCGA-MH-A855 TCGA-MH-A856 TCGA-MH-A857 TCGA-O9-A75Z TCGA-P4-A5E6 TCGA-P4-A5E7 
       12.13        31.13        29.26        15.48        99.78        87.09 
TCGA-P4-A5E8 TCGA-P4-A5EB TCGA-P4-A5ED TCGA-P4-AAVK TCGA-P4-AAVM TCGA-P4-AAVO 
       42.94        99.12        92.58        52.27        50.60        78.90 
TCGA-PJ-A5Z8 TCGA-PJ-A5Z9 TCGA-Q2-A5QZ TCGA-SX-A71R TCGA-SX-A71S TCGA-SX-A71U 
       19.73        17.75        14.07        47.90        49.45        44.61 
TCGA-SX-A71V TCGA-SX-A7SL TCGA-SX-A7SM TCGA-SX-A7SN TCGA-SX-A7SO TCGA-SX-A7SP 
       28.80        27.06        11.93        19.00        41.33        16.31 
TCGA-SX-A7SQ TCGA-SX-A7SR TCGA-SX-A7SS TCGA-SX-A7SU TCGA-UZ-A9PJ TCGA-UZ-A9PK 
       41.62        26.47        53.10        43.76        26.20       117.40 
TCGA-UZ-A9PL TCGA-UZ-A9PM TCGA-UZ-A9PN TCGA-UZ-A9PO TCGA-UZ-A9PP TCGA-UZ-A9PR 
      103.63       125.29        37.35        62.83        98.96        86.37 
TCGA-UZ-A9PS TCGA-UZ-A9PU TCGA-UZ-A9PV TCGA-UZ-A9PX TCGA-UZ-A9PZ TCGA-UZ-A9Q0 
       71.24        30.67        47.47        65.13        21.60       110.73 
TCGA-UZ-A9Q1 TCGA-V9-A7HT TCGA-WN-A9G9 TCGA-WN-AB4C TCGA-Y8-A894 TCGA-Y8-A895 
       51.35        31.73        26.01        39.06        18.64        15.91 
TCGA-Y8-A897 TCGA-Y8-A898 TCGA-Y8-A8RY TCGA-Y8-A8RZ TCGA-Y8-A8S0 TCGA-Y8-A8S1 
       18.05        15.62        25.28         3.68         6.02        13.28 

  DEL PEAK 15(9P23) MUTATED DEL PEAK 15(9P23) WILD-TYPE 
                       0.53                        0.07 
  DEL PEAK 15(9P23) MUTATED DEL PEAK 15(9P23) WILD-TYPE 
                     141.73                      194.79 
  DEL PEAK 15(9P23) MUTATED DEL PEAK 15(9P23) WILD-TYPE 
                      33.50                       34.67 
[1] "0.5 - 141.7 (33.5)" "0.1 - 194.8 (34.7)"
[1] "hr=" "2.6"
D28V2, continuous
                             vv
clus                          STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK 15(9P23) MUTATED        64       16        69       46
  DEL PEAK 15(9P23) WILD-TYPE     391       88       122       58
D28V3, multiclass
           clus
vv          DEL PEAK 15(9P23) MUTATED DEL PEAK 15(9P23) WILD-TYPE
  STAGE I                          64                         391
  STAGE II                         16                          88
  STAGE III                        69                         122
  STAGE IV                         46                          58
[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                           T1  T2  T3  T4
  DEL PEAK 15(9P23) MUTATED    68  23 100   7
  DEL PEAK 15(9P23) WILD-TYPE 411 104 158   8
D28V4, multiclass
    clus
vv   DEL PEAK 15(9P23) MUTATED DEL PEAK 15(9P23) WILD-TYPE
  T1                        68                         411
  T2                        23                         104
  T3                       100                         158
  T4                         7                           8
[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                           N0  N1  N2
  DEL PEAK 15(9P23) MUTATED    73  20   3
  DEL PEAK 15(9P23) WILD-TYPE 249  24   4
D28V5, multiclass
    clus
vv   DEL PEAK 15(9P23) MUTATED DEL PEAK 15(9P23) WILD-TYPE
  N0                        73                         249
  N1                        20                          24
  N2                         3                           4
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D28V6, binary
                             cls
clus                            0   1
  DEL PEAK 15(9P23) MUTATED   126  38
  DEL PEAK 15(9P23) WILD-TYPE 419  51
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK 15(9P23) MUTATED    126   38
  DEL PEAK 15(9P23) WILD-TYPE  419   51
   clus
vv  DEL PEAK 15(9P23) MUTATED DEL PEAK 15(9P23) WILD-TYPE
  0                       126                         419
  1                        38                          51
[1] 2 2
[1] FALSE
D28V7, binary
                             cls
clus                            0   1
  DEL PEAK 15(9P23) MUTATED    60 138
  DEL PEAK 15(9P23) WILD-TYPE 232 451
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK 15(9P23) MUTATED     60  138
  DEL PEAK 15(9P23) WILD-TYPE  232  451
        clus
vv       DEL PEAK 15(9P23) MUTATED DEL PEAK 15(9P23) WILD-TYPE
  FEMALE                        60                         232
  MALE                         138                         451
[1] 2 2
[1] FALSE
D28V8, binary
                             cls
clus                            0   1
  DEL PEAK 15(9P23) MUTATED    59   1
  DEL PEAK 15(9P23) WILD-TYPE 341   2
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK 15(9P23) MUTATED     59    1
  DEL PEAK 15(9P23) WILD-TYPE  341    2
     clus
vv    DEL PEAK 15(9P23) MUTATED DEL PEAK 15(9P23) WILD-TYPE
  NO                         59                         341
  YES                         1                           2
[1] 2 2
[1] FALSE
D28V9, continuous
                             vv
clus                          KIDNEY CHROMOPHOBE
  DEL PEAK 15(9P23) MUTATED                   10
  DEL PEAK 15(9P23) WILD-TYPE                 56
                             vv
clus                          KIDNEY CLEAR CELL RENAL CARCINOMA
  DEL PEAK 15(9P23) MUTATED                                 152
  DEL PEAK 15(9P23) WILD-TYPE                               376
                             vv
clus                          KIDNEY PAPILLARY RENAL CELL CARCINOMA
  DEL PEAK 15(9P23) MUTATED                                      36
  DEL PEAK 15(9P23) WILD-TYPE                                   251
D28V10, multiclass
                                       clus
vv                                      DEL PEAK 15(9P23) MUTATED
  KIDNEY CHROMOPHOBE                                           10
  KIDNEY CLEAR CELL RENAL CARCINOMA                           152
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                        36
                                       clus
vv                                      DEL PEAK 15(9P23) WILD-TYPE
  KIDNEY CHROMOPHOBE                                             56
  KIDNEY CLEAR CELL RENAL CARCINOMA                             376
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                         251
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D28V11, continuous
D28V12, continuous
                             vv
clus                          AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 15(9P23) MUTATED                                  0     4
  DEL PEAK 15(9P23) WILD-TYPE                                2    11
                             vv
clus                          BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 15(9P23) MUTATED                          15   173
  DEL PEAK 15(9P23) WILD-TYPE                       106   546
D28V13, multiclass
                                  clus
vv                                 DEL PEAK 15(9P23) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                         0
  ASIAN                                                    4
  BLACK OR AFRICAN AMERICAN                               15
  WHITE                                                  173
                                  clus
vv                                 DEL PEAK 15(9P23) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                           2
  ASIAN                                                     11
  BLACK OR AFRICAN AMERICAN                                106
  WHITE                                                    546
[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"
D28V14, binary
                             cls
clus                            0   1
  DEL PEAK 15(9P23) MUTATED     8 136
  DEL PEAK 15(9P23) WILD-TYPE  34 485
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK 15(9P23) MUTATED      8  136
  DEL PEAK 15(9P23) WILD-TYPE   34  485
                        clus
vv                       DEL PEAK 15(9P23) MUTATED DEL PEAK 15(9P23) WILD-TYPE
  HISPANIC OR LATINO                             8                          34
  NOT HISPANIC OR LATINO                       136                         485
[1] 2 2
[1] FALSE

Clustering(29) Variable = DEL PEAK 16(9P21.3) MUTATION ANALYSIS
D29V1, survival
                               sevent
clus2                             0   1
  DEL PEAK 16(9P21.3) MUTATED   105  99
  DEL PEAK 16(9P21.3) WILD-TYPE 540 129
  DEL PEAK 16(9P21.3) MUTATED DEL PEAK 16(9P21.3) WILD-TYPE 
                          204                           669 
  DEL PEAK 16(9P21.3) MUTATED DEL PEAK 16(9P21.3) WILD-TYPE 
                           99                           129 
$`DEL PEAK 16(9P21.3) MUTATED`
TCGA-KL-8324 TCGA-KL-8325 TCGA-KL-8332 TCGA-KL-8343 TCGA-KL-8346 TCGA-KN-8427 
      141.73        23.84        84.89        71.41        62.37         0.99 
TCGA-KN-8436 TCGA-KO-8404 TCGA-KO-8415 TCGA-A3-3306 TCGA-A3-3311 TCGA-A3-3316 
       42.35        10.68        96.62        36.82        39.16        49.08 
TCGA-A3-3317 TCGA-A3-3319 TCGA-A3-3325 TCGA-A3-3346 TCGA-A3-3347 TCGA-A3-3352 
       49.02        37.15        38.47         4.50        52.93        18.44 
TCGA-A3-3372 TCGA-A3-3382 TCGA-AK-3425 TCGA-AK-3426 TCGA-AK-3436 TCGA-AK-3445 
       24.16        18.87       109.91        29.10       109.51        78.64 
TCGA-AK-3450 TCGA-AS-3777 TCGA-B0-4688 TCGA-B0-4690 TCGA-B0-4691 TCGA-B0-4694 
       49.28        40.70         3.32         1.41         4.57         3.48 
TCGA-B0-4696 TCGA-B0-4698 TCGA-B0-4707 TCGA-B0-4710 TCGA-B0-4712 TCGA-B0-4811 
       28.47         1.38        19.73        57.70        43.96        46.59 
TCGA-B0-4815 TCGA-B0-4817 TCGA-B0-4819 TCGA-B0-4821 TCGA-B0-4822 TCGA-B0-4828 
       52.21        33.50         6.02        40.44        36.53        10.09 
TCGA-B0-4836 TCGA-B0-4842 TCGA-B0-4845 TCGA-B0-4848 TCGA-B0-5094 TCGA-B0-5095 
       40.70        56.68        65.29        29.03        10.95         8.05 
TCGA-B0-5096 TCGA-B0-5097 TCGA-B0-5098 TCGA-B0-5100 TCGA-B0-5107 TCGA-B0-5109 
        2.24        21.86        52.08        62.89        30.48        19.30 
TCGA-B0-5113 TCGA-B0-5116 TCGA-B0-5121 TCGA-B0-5402 TCGA-B0-5694 TCGA-B0-5701 
       38.63        41.88        48.82        42.41        15.78        80.91 
TCGA-B2-5633 TCGA-B2-5641 TCGA-B4-5832 TCGA-B4-5838 TCGA-B8-4143 TCGA-B8-4620 
       31.66        21.57         5.10         5.46        23.31        25.55 
TCGA-B8-4622 TCGA-B8-5158 TCGA-B8-5549 TCGA-B8-5550 TCGA-B8-5551 TCGA-BP-4160 
       50.14        20.91         6.38        48.53         0.53        94.72 
TCGA-BP-4161 TCGA-BP-4164 TCGA-BP-4167 TCGA-BP-4176 TCGA-BP-4342 TCGA-BP-4343 
       90.28        32.61        89.36        64.27        74.17        62.86 
TCGA-BP-4351 TCGA-BP-4352 TCGA-BP-4353 TCGA-BP-4761 TCGA-BP-4763 TCGA-BP-4766 
       31.89        11.31        12.33         5.98        41.75        48.07 
TCGA-BP-4768 TCGA-BP-4781 TCGA-BP-4782 TCGA-BP-4787 TCGA-BP-4797 TCGA-BP-4798 
       13.15        68.38        11.64        15.78        36.39        10.98 
TCGA-BP-4803 TCGA-BP-4960 TCGA-BP-4962 TCGA-BP-4963 TCGA-BP-4964 TCGA-BP-4973 
        6.71        71.41        58.68        60.30        61.22        45.50 
TCGA-BP-4985 TCGA-BP-4986 TCGA-BP-4994 TCGA-BP-4995 TCGA-BP-5000 TCGA-BP-5009 
       31.30        25.81        43.00        45.07        18.51        36.23 
TCGA-BP-5010 TCGA-BP-5169 TCGA-BP-5175 TCGA-BP-5178 TCGA-BP-5180 TCGA-BP-5183 
       28.87         6.35        30.64        62.86        74.40        42.44 
TCGA-BP-5189 TCGA-BP-5191 TCGA-BP-5196 TCGA-BP-5198 TCGA-BP-5201 TCGA-CJ-4635 
       27.02        31.79        33.47        19.82        31.27        46.55 
TCGA-CJ-4638 TCGA-CJ-4868 TCGA-CJ-4871 TCGA-CJ-4881 TCGA-CJ-4888 TCGA-CJ-4890 
       14.17        21.24        79.66        66.21        51.52       115.69 
TCGA-CJ-4891 TCGA-CJ-4895 TCGA-CJ-4900 TCGA-CJ-4901 TCGA-CJ-4907 TCGA-CJ-4908 
       26.93        39.45        56.35        47.67        49.28        50.33 
TCGA-CJ-4912 TCGA-CJ-4913 TCGA-CJ-4920 TCGA-CJ-4923 TCGA-CJ-5671 TCGA-CJ-5676 
       54.48        38.56         4.57        18.81       131.08       133.71 
TCGA-CJ-5677 TCGA-CJ-5679 TCGA-CJ-5680 TCGA-CJ-5682 TCGA-CJ-5689 TCGA-CJ-6027 
       25.71        22.32        25.25       122.83        53.26       118.85 
TCGA-CJ-6028 TCGA-CJ-6030 TCGA-CJ-6031 TCGA-CJ-6033 TCGA-CW-5580 TCGA-CW-5584 
       53.42        75.58        62.66         7.36        64.57         5.39 
TCGA-CW-5588 TCGA-CW-6090 TCGA-CW-6097 TCGA-CZ-4854 TCGA-CZ-4857 TCGA-CZ-4858 
       66.31        83.90        18.77        46.16        47.08        69.21 
TCGA-CZ-4860 TCGA-CZ-5456 TCGA-CZ-5461 TCGA-CZ-5462 TCGA-CZ-5465 TCGA-CZ-5466 
        6.77        79.63        10.85        10.22        84.30        22.52 
TCGA-CZ-5468 TCGA-CZ-5469 TCGA-CZ-5984 TCGA-CZ-5985 TCGA-CZ-5987 TCGA-DV-5576 
        1.94        31.10        67.96        65.65        14.63        23.90 
TCGA-DV-A4W0 TCGA-G6-A5PC TCGA-G6-A8L7 TCGA-MM-A563 TCGA-MM-A84U TCGA-2Z-A9JG 
       81.21         7.96        70.13        19.43        23.01        54.64 
TCGA-2Z-A9JI TCGA-2Z-A9JJ TCGA-4A-A93X TCGA-5P-A9K9 TCGA-A4-7286 TCGA-A4-7287 
       51.52        39.88        12.82        19.36        18.21        19.63 
TCGA-A4-A57E TCGA-A4-A5Y1 TCGA-AL-3466 TCGA-AL-A5DJ TCGA-B3-3926 TCGA-B9-4116 
        8.48        12.99         9.63        49.25        10.09        20.61 
TCGA-B9-A69E TCGA-BQ-5877 TCGA-BQ-5879 TCGA-BQ-5888 TCGA-BQ-5889 TCGA-BQ-7048 
       14.86         8.88        22.92        13.25        10.82        93.34 
TCGA-BQ-7056 TCGA-DZ-6131 TCGA-F9-A7Q0 TCGA-G7-6789 TCGA-G7-6793 TCGA-G7-6796 
       20.12        79.86        13.08         4.01        11.05        71.44 
TCGA-G7-7501 TCGA-G7-A8LC TCGA-G7-A8LD TCGA-GL-7966 TCGA-IA-A40Y TCGA-J7-8537 
       20.52        23.08        16.90         3.68         2.04        10.55 
TCGA-P4-A5EA TCGA-P4-AAVL TCGA-SX-A71V TCGA-UN-AAZ9 TCGA-UZ-A9PQ TCGA-Y8-A896 
        6.61        16.01        28.80        18.02        86.27        18.64 

$`DEL PEAK 16(9P21.3) WILD-TYPE`
TCGA-KL-8323 TCGA-KL-8326 TCGA-KL-8327 TCGA-KL-8328 TCGA-KL-8329 TCGA-KL-8330 
       38.07       109.22       137.06       102.81        90.48       108.62 
TCGA-KL-8331 TCGA-KL-8333 TCGA-KL-8334 TCGA-KL-8335 TCGA-KL-8336 TCGA-KL-8337 
       98.96        98.33        96.95        92.55        30.25        44.84 
TCGA-KL-8338 TCGA-KL-8339 TCGA-KL-8340 TCGA-KL-8341 TCGA-KL-8342 TCGA-KL-8344 
       86.56        28.11        66.54        24.79        73.91        28.80 
TCGA-KL-8345 TCGA-KM-8438 TCGA-KM-8439 TCGA-KM-8440 TCGA-KM-8441 TCGA-KM-8442 
       54.74       151.96        23.28        44.91        28.80        47.24 
TCGA-KM-8443 TCGA-KM-8476 TCGA-KM-8477 TCGA-KM-8639 TCGA-KN-8418 TCGA-KN-8419 
       49.97       123.12        51.06        31.33       129.37        23.47 
TCGA-KN-8421 TCGA-KN-8422 TCGA-KN-8423 TCGA-KN-8424 TCGA-KN-8425 TCGA-KN-8426 
       87.91        25.48        25.91        65.19       104.52         3.55 
TCGA-KN-8428 TCGA-KN-8429 TCGA-KN-8431 TCGA-KN-8432 TCGA-KN-8433 TCGA-KN-8434 
       52.27        87.12        19.33         2.50        11.21        59.08 
TCGA-KN-8435 TCGA-KN-8437 TCGA-KO-8403 TCGA-KO-8405 TCGA-KO-8406 TCGA-KO-8407 
      115.00       100.87       105.47       100.47       103.40        92.71 
TCGA-KO-8408 TCGA-KO-8409 TCGA-KO-8410 TCGA-KO-8411 TCGA-KO-8413 TCGA-KO-8414 
       16.67       104.55       103.10       130.13        99.88       105.60 
TCGA-KO-8416 TCGA-KO-8417 TCGA-3Z-A93Z TCGA-6D-AA2E TCGA-A3-3307 TCGA-A3-3308 
       90.48        92.55        12.66        11.90        47.21         0.53 
TCGA-A3-3313 TCGA-A3-3320 TCGA-A3-3322 TCGA-A3-3323 TCGA-A3-3324 TCGA-A3-3326 
       24.16        49.58        48.59        36.36        38.99        37.38 
TCGA-A3-3331 TCGA-A3-3335 TCGA-A3-3336 TCGA-A3-3343 TCGA-A3-3349 TCGA-A3-3351 
       48.82        62.01        34.29        31.07        45.53        29.92 
TCGA-A3-3357 TCGA-A3-3358 TCGA-A3-3359 TCGA-A3-3362 TCGA-A3-3363 TCGA-A3-3365 
       88.37        42.97        82.32        51.25        10.49        28.70 
TCGA-A3-3367 TCGA-A3-3370 TCGA-A3-3373 TCGA-A3-3374 TCGA-A3-3376 TCGA-A3-3378 
       74.63        74.76        53.29        43.20        55.76        20.71 
TCGA-A3-3380 TCGA-A3-3383 TCGA-A3-3385 TCGA-A3-3387 TCGA-A3-A6NI TCGA-A3-A6NJ 
       18.64        28.31        65.52        20.28        33.47        15.39 
TCGA-A3-A6NL TCGA-A3-A6NN TCGA-A3-A8CQ TCGA-A3-A8OV TCGA-A3-A8OW TCGA-AK-3427 
       22.65         0.10         0.10        11.18        10.62       117.80 
TCGA-AK-3428 TCGA-AK-3429 TCGA-AK-3430 TCGA-AK-3431 TCGA-AK-3433 TCGA-AK-3434 
       73.08       109.41        15.78        73.68       112.08        68.61 
TCGA-AK-3440 TCGA-AK-3443 TCGA-AK-3444 TCGA-AK-3447 TCGA-AK-3451 TCGA-AK-3453 
       94.19        46.78        48.36        40.01        94.29        83.21 
TCGA-AK-3454 TCGA-AK-3455 TCGA-AK-3456 TCGA-AK-3458 TCGA-AK-3460 TCGA-AK-3461 
       28.73        22.45        37.58        38.40        82.45        72.89 
TCGA-AK-3465 TCGA-AS-3778 TCGA-B0-4693 TCGA-B0-4697 TCGA-B0-4699 TCGA-B0-4700 
       12.13         1.41         2.53        19.00         3.62        65.10 
TCGA-B0-4701 TCGA-B0-4703 TCGA-B0-4706 TCGA-B0-4713 TCGA-B0-4714 TCGA-B0-4718 
        7.82         5.98         2.14         6.64         3.25        58.45 
TCGA-B0-4810 TCGA-B0-4813 TCGA-B0-4814 TCGA-B0-4816 TCGA-B0-4818 TCGA-B0-4823 
       15.72         0.59         5.52        45.07        16.77        14.93 
TCGA-B0-4824 TCGA-B0-4827 TCGA-B0-4833 TCGA-B0-4834 TCGA-B0-4837 TCGA-B0-4838 
       54.48        29.10        78.44        68.71        45.30        27.42 
TCGA-B0-4839 TCGA-B0-4841 TCGA-B0-4843 TCGA-B0-4844 TCGA-B0-4846 TCGA-B0-4847 
       53.88         6.71        10.52        10.29        39.45        26.07 
TCGA-B0-4849 TCGA-B0-4852 TCGA-B0-4945 TCGA-B0-5075 TCGA-B0-5077 TCGA-B0-5080 
        2.27        36.85        70.52        20.94        43.30        11.24 
TCGA-B0-5081 TCGA-B0-5084 TCGA-B0-5085 TCGA-B0-5088 TCGA-B0-5092 TCGA-B0-5099 
       11.90         7.30        25.32        18.51        15.09        15.95 
TCGA-B0-5102 TCGA-B0-5104 TCGA-B0-5106 TCGA-B0-5108 TCGA-B0-5110 TCGA-B0-5115 
       90.87        90.48        52.54        58.59        66.05        52.73 
TCGA-B0-5117 TCGA-B0-5119 TCGA-B0-5120 TCGA-B0-5399 TCGA-B0-5400 TCGA-B0-5690 
       52.87        51.02        38.43        46.39        56.98       111.52 
TCGA-B0-5691 TCGA-B0-5692 TCGA-B0-5693 TCGA-B0-5695 TCGA-B0-5696 TCGA-B0-5697 
      112.80       129.67       133.94        70.68        85.78        86.47 
TCGA-B0-5698 TCGA-B0-5699 TCGA-B0-5702 TCGA-B0-5703 TCGA-B0-5705 TCGA-B0-5706 
      119.38       126.28        71.41        73.84       149.16       105.37 
TCGA-B0-5709 TCGA-B0-5710 TCGA-B0-5711 TCGA-B0-5712 TCGA-B0-5713 TCGA-B0-5812 
      130.65        79.89       131.15        89.49        91.46       126.05 
TCGA-B2-3923 TCGA-B2-3924 TCGA-B2-4098 TCGA-B2-4099 TCGA-B2-4101 TCGA-B2-4102 
       32.61        35.90         1.68        31.96        21.30        31.30 
TCGA-B2-5635 TCGA-B2-5639 TCGA-B2-A4SR TCGA-B4-5377 TCGA-B4-5378 TCGA-B4-5834 
       24.82        32.98        16.67        12.00         5.75         0.85 
TCGA-B4-5835 TCGA-B4-5836 TCGA-B4-5843 TCGA-B4-5844 TCGA-B8-4146 TCGA-B8-4148 
        0.53         4.64         0.36         0.23        16.80        27.16 
TCGA-B8-4151 TCGA-B8-4153 TCGA-B8-4154 TCGA-B8-4619 TCGA-B8-4621 TCGA-B8-5159 
       42.71        25.05        45.37        17.19        25.91        23.74 
TCGA-B8-5162 TCGA-B8-5163 TCGA-B8-5164 TCGA-B8-5165 TCGA-B8-5545 TCGA-B8-5546 
        1.18        27.02         0.85        24.23        50.14        16.60 
TCGA-B8-5552 TCGA-B8-5553 TCGA-B8-A54D TCGA-B8-A54E TCGA-B8-A54F TCGA-B8-A54G 
       34.39        14.30        27.29        29.88        17.06         1.74 
TCGA-B8-A54H TCGA-B8-A54I TCGA-B8-A54J TCGA-B8-A54K TCGA-B8-A7U6 TCGA-B8-A8YJ 
        8.42         4.93        17.36        15.42        16.27        14.17 
TCGA-BP-4158 TCGA-BP-4159 TCGA-BP-4162 TCGA-BP-4163 TCGA-BP-4165 TCGA-BP-4166 
      111.02        85.51       101.06        93.34        99.85         0.43 
TCGA-BP-4169 TCGA-BP-4170 TCGA-BP-4173 TCGA-BP-4174 TCGA-BP-4177 TCGA-BP-4325 
       23.05        77.03        62.24        61.78        54.90        97.45 
TCGA-BP-4326 TCGA-BP-4327 TCGA-BP-4329 TCGA-BP-4330 TCGA-BP-4331 TCGA-BP-4332 
       53.42         3.58        27.78        62.07        80.68        37.25 
TCGA-BP-4334 TCGA-BP-4335 TCGA-BP-4337 TCGA-BP-4338 TCGA-BP-4340 TCGA-BP-4341 
       21.21        15.16         0.07        93.99        18.48        52.24 
TCGA-BP-4344 TCGA-BP-4346 TCGA-BP-4347 TCGA-BP-4349 TCGA-BP-4354 TCGA-BP-4355 
       54.77        49.08        44.94        12.23        33.99        31.33 
TCGA-BP-4756 TCGA-BP-4758 TCGA-BP-4759 TCGA-BP-4760 TCGA-BP-4762 TCGA-BP-4765 
       12.30        72.59        77.98        77.62        44.15        71.80 
TCGA-BP-4769 TCGA-BP-4770 TCGA-BP-4771 TCGA-BP-4774 TCGA-BP-4775 TCGA-BP-4776 
       61.68        10.82         5.33        61.97        60.59        13.51 
TCGA-BP-4777 TCGA-BP-4784 TCGA-BP-4789 TCGA-BP-4790 TCGA-BP-4795 TCGA-BP-4799 
       56.91        60.95        48.95        36.53        20.38        37.25 
TCGA-BP-4801 TCGA-BP-4804 TCGA-BP-4807 TCGA-BP-4959 TCGA-BP-4961 TCGA-BP-4965 
       36.95        47.97         6.94        87.45        63.62        61.51 
TCGA-BP-4967 TCGA-BP-4968 TCGA-BP-4969 TCGA-BP-4970 TCGA-BP-4971 TCGA-BP-4972 
        6.74        57.40        58.98        14.24        48.89        49.38 
TCGA-BP-4974 TCGA-BP-4975 TCGA-BP-4976 TCGA-BP-4977 TCGA-BP-4981 TCGA-BP-4982 
        6.90        47.11        53.65        14.93        36.07        33.34 
TCGA-BP-4983 TCGA-BP-4987 TCGA-BP-4988 TCGA-BP-4989 TCGA-BP-4991 TCGA-BP-4992 
       46.45        36.95        27.22         3.88        46.45        16.47 
TCGA-BP-4993 TCGA-BP-4998 TCGA-BP-4999 TCGA-BP-5001 TCGA-BP-5004 TCGA-BP-5006 
        5.82        30.64        41.62        38.70        37.02        27.62 
TCGA-BP-5007 TCGA-BP-5008 TCGA-BP-5168 TCGA-BP-5170 TCGA-BP-5173 TCGA-BP-5174 
       37.48        35.21        48.10        79.30         1.74        74.20 
TCGA-BP-5176 TCGA-BP-5177 TCGA-BP-5181 TCGA-BP-5182 TCGA-BP-5184 TCGA-BP-5185 
       52.27         9.63        49.15        38.30        37.25        37.22 
TCGA-BP-5186 TCGA-BP-5187 TCGA-BP-5190 TCGA-BP-5192 TCGA-BP-5194 TCGA-BP-5195 
       22.78        13.35        33.24        23.47        13.41        24.62 
TCGA-BP-5199 TCGA-BP-5200 TCGA-BP-5202 TCGA-CJ-4634 TCGA-CJ-4636 TCGA-CJ-4637 
       44.55        34.95         0.95       115.00        63.25        73.22 
TCGA-CJ-4639 TCGA-CJ-4640 TCGA-CJ-4641 TCGA-CJ-4642 TCGA-CJ-4643 TCGA-CJ-4644 
      106.16       114.41        54.61       105.37        58.95        11.05 
TCGA-CJ-4869 TCGA-CJ-4870 TCGA-CJ-4872 TCGA-CJ-4873 TCGA-CJ-4874 TCGA-CJ-4875 
       83.97        49.25        10.72        74.27        75.06       116.84 
TCGA-CJ-4876 TCGA-CJ-4878 TCGA-CJ-4882 TCGA-CJ-4884 TCGA-CJ-4885 TCGA-CJ-4886 
       64.27        71.87        61.91        57.83       113.46        64.18 
TCGA-CJ-4887 TCGA-CJ-4889 TCGA-CJ-4892 TCGA-CJ-4893 TCGA-CJ-4894 TCGA-CJ-4897 
       30.64        63.98        50.01        24.66        27.65       109.84 
TCGA-CJ-4899 TCGA-CJ-4902 TCGA-CJ-4903 TCGA-CJ-4904 TCGA-CJ-4905 TCGA-CJ-4916 
       50.24        49.97        51.25       108.56        49.18        45.14 
TCGA-CJ-4918 TCGA-CJ-5672 TCGA-CJ-5675 TCGA-CJ-5678 TCGA-CJ-5681 TCGA-CJ-5683 
        3.06        72.00       129.40        18.87        18.15        62.10 
TCGA-CJ-5684 TCGA-CJ-5686 TCGA-CJ-6032 TCGA-CW-5581 TCGA-CW-5583 TCGA-CW-5585 
       73.35        67.00       119.64        92.02        81.83        85.78 
TCGA-CW-5587 TCGA-CW-5589 TCGA-CW-5591 TCGA-CW-6087 TCGA-CW-6088 TCGA-CW-6093 
       73.18        78.18        74.66         1.35       105.93       103.43 
TCGA-CZ-4853 TCGA-CZ-4856 TCGA-CZ-4859 TCGA-CZ-4861 TCGA-CZ-4862 TCGA-CZ-4863 
       25.45         0.59        58.75        14.66       107.54        63.39 
TCGA-CZ-4864 TCGA-CZ-4865 TCGA-CZ-4866 TCGA-CZ-5451 TCGA-CZ-5452 TCGA-CZ-5453 
       93.04         5.46        61.41        63.42        58.82        79.53 
TCGA-CZ-5454 TCGA-CZ-5455 TCGA-CZ-5457 TCGA-CZ-5458 TCGA-CZ-5459 TCGA-CZ-5460 
       23.74        18.44        90.54        91.69        55.33        94.45 
TCGA-CZ-5463 TCGA-CZ-5464 TCGA-CZ-5467 TCGA-CZ-5470 TCGA-CZ-5982 TCGA-CZ-5986 
       21.76        69.96         2.40        12.69        80.19        12.26 
TCGA-CZ-5988 TCGA-CZ-5989 TCGA-DV-5565 TCGA-DV-5566 TCGA-DV-5567 TCGA-DV-5568 
       22.78        62.63        13.28        45.96        65.88        12.16 
TCGA-DV-5569 TCGA-DV-5573 TCGA-DV-5574 TCGA-DV-5575 TCGA-DV-A4VX TCGA-DV-A4VZ 
       11.67        37.15        66.28        56.84        53.46        12.00 
TCGA-EU-5904 TCGA-EU-5905 TCGA-EU-5906 TCGA-EU-5907 TCGA-G6-A8L6 TCGA-G6-A8L8 
       18.12         3.91         6.77         4.18        10.29        35.87 
TCGA-GK-A6C7 TCGA-MM-A564 TCGA-MW-A4EC TCGA-T7-A92I TCGA-2K-A9WE TCGA-2Z-A9J1 
        2.01        19.96        16.37        11.70         7.04        75.55 
TCGA-2Z-A9J2 TCGA-2Z-A9J3 TCGA-2Z-A9J5 TCGA-2Z-A9J6 TCGA-2Z-A9J7 TCGA-2Z-A9J8 
       59.01        58.22       100.27        56.91         4.57        91.73 
TCGA-2Z-A9J9 TCGA-2Z-A9JD TCGA-2Z-A9JE TCGA-2Z-A9JK TCGA-2Z-A9JL TCGA-2Z-A9JM 
       75.42        34.85        56.81        38.99        33.07        30.71 
TCGA-2Z-A9JN TCGA-2Z-A9JO TCGA-2Z-A9JP TCGA-2Z-A9JQ TCGA-2Z-A9JR TCGA-2Z-A9JS 
       24.33        31.20        29.36        25.58         5.29        16.18 
TCGA-2Z-A9JT TCGA-4A-A93W TCGA-4A-A93Y TCGA-5P-A9JU TCGA-5P-A9JV TCGA-5P-A9JW 
       22.49         0.13        11.57        12.26        67.17       106.55 
TCGA-5P-A9JY TCGA-5P-A9JZ TCGA-5P-A9K0 TCGA-5P-A9K2 TCGA-5P-A9K3 TCGA-5P-A9K4 
       49.58        90.21        22.26        78.64        15.48        71.80 
TCGA-5P-A9K6 TCGA-5P-A9K8 TCGA-5P-A9KA TCGA-5P-A9KC TCGA-5P-A9KE TCGA-5P-A9KH 
       62.93        43.04        12.99        12.39        27.09        67.43 
TCGA-A4-7288 TCGA-A4-7583 TCGA-A4-7584 TCGA-A4-7585 TCGA-A4-7732 TCGA-A4-7734 
       61.05         0.10        21.37        35.18        19.13         0.89 
TCGA-A4-7828 TCGA-A4-7915 TCGA-A4-7996 TCGA-A4-7997 TCGA-A4-8098 TCGA-A4-8310 
        7.82         0.23        16.64        30.48        29.46        25.64 
TCGA-A4-8311 TCGA-A4-8312 TCGA-A4-8515 TCGA-A4-8516 TCGA-A4-8517 TCGA-A4-8518 
       23.97        23.28        23.31         0.76        19.63        19.73 
TCGA-A4-8630 TCGA-A4-A48D TCGA-A4-A4ZT TCGA-A4-A5DU TCGA-A4-A5XZ TCGA-A4-A5Y0 
       14.33        12.46        16.96        16.31        15.75         8.28 
TCGA-A4-A6HP TCGA-AL-3467 TCGA-AL-3468 TCGA-AL-3471 TCGA-AL-3472 TCGA-AL-3473 
       12.46        70.19        76.64        49.32        66.71        62.66 
TCGA-AL-7173 TCGA-AT-A5NU TCGA-B1-5398 TCGA-B1-7332 TCGA-B1-A47M TCGA-B1-A47N 
       67.73         2.20        19.56        37.51        21.67        24.56 
TCGA-B1-A47O TCGA-B1-A654 TCGA-B1-A655 TCGA-B1-A656 TCGA-B1-A657 TCGA-B3-3925 
       16.87        20.25        16.77        20.32        21.07        33.83 
TCGA-B3-4103 TCGA-B3-4104 TCGA-B3-8121 TCGA-B3-A6W5 TCGA-B9-4113 TCGA-B9-4114 
       30.58        34.49        12.46        10.16        50.50        28.18 
TCGA-B9-4115 TCGA-B9-4117 TCGA-B9-4617 TCGA-B9-5155 TCGA-B9-5156 TCGA-B9-7268 
       26.40         0.46         1.15        15.12        43.99        22.06 
TCGA-B9-A44B TCGA-B9-A5W7 TCGA-B9-A5W8 TCGA-B9-A5W9 TCGA-B9-A8YH TCGA-B9-A8YI 
        2.10        19.23        17.23         0.16        17.49        12.30 
TCGA-BQ-5875 TCGA-BQ-5876 TCGA-BQ-5878 TCGA-BQ-5880 TCGA-BQ-5881 TCGA-BQ-5882 
       86.76        19.27        63.72        43.20        47.80        21.63 
TCGA-BQ-5883 TCGA-BQ-5884 TCGA-BQ-5885 TCGA-BQ-5886 TCGA-BQ-5887 TCGA-BQ-5890 
       40.83        26.04        30.28        26.04        25.35         7.66 
TCGA-BQ-5891 TCGA-BQ-5892 TCGA-BQ-5893 TCGA-BQ-5894 TCGA-BQ-7044 TCGA-BQ-7045 
        0.95        11.97         7.92         2.76       123.62        48.26 
TCGA-BQ-7046 TCGA-BQ-7049 TCGA-BQ-7050 TCGA-BQ-7051 TCGA-BQ-7053 TCGA-BQ-7055 
       96.92        44.84        61.28        50.40        49.84        26.27 
TCGA-BQ-7058 TCGA-BQ-7059 TCGA-BQ-7060 TCGA-BQ-7061 TCGA-BQ-7062 TCGA-DW-5560 
       11.28         7.63         7.04         7.17         3.81        48.85 
TCGA-DW-5561 TCGA-DW-7834 TCGA-DW-7836 TCGA-DW-7837 TCGA-DW-7838 TCGA-DW-7839 
       13.61       129.86        35.93        37.55        24.46        13.78 
TCGA-DW-7840 TCGA-DW-7841 TCGA-DW-7842 TCGA-DW-7963 TCGA-DZ-6132 TCGA-DZ-6133 
        3.75        14.63         3.02        40.77        80.88        51.19 
TCGA-DZ-6134 TCGA-DZ-6135 TCGA-EV-5901 TCGA-EV-5902 TCGA-EV-5903 TCGA-F9-A4JJ 
       61.02        74.60        34.19        19.00        24.89        10.68 
TCGA-F9-A7VF TCGA-F9-A8NY TCGA-F9-A97G TCGA-G7-6790 TCGA-G7-6792 TCGA-G7-6795 
        2.40         1.18         0.43        51.78        90.90        39.25 
TCGA-G7-6797 TCGA-G7-7502 TCGA-G7-A4TM TCGA-G7-A8LB TCGA-G7-A8LE TCGA-GL-6846 
       25.15        25.84         6.38        17.98        80.65       194.79 
TCGA-GL-7773 TCGA-GL-8500 TCGA-GL-A4EM TCGA-GL-A59R TCGA-GL-A59T TCGA-GL-A9DC 
       12.92        27.65         1.05        12.43        17.95        12.89 
TCGA-GL-A9DD TCGA-GL-A9DE TCGA-HE-A5NF TCGA-HE-A5NH TCGA-HE-A5NI TCGA-HE-A5NJ 
       11.21        16.31        84.89        26.01        11.84        56.75 
TCGA-HE-A5NK TCGA-HE-A5NL TCGA-IA-A40U TCGA-IA-A40X TCGA-IA-A83S TCGA-IA-A83T 
       73.25        25.22        16.80        19.99        85.78        88.24 
TCGA-IA-A83V TCGA-IA-A83W TCGA-IZ-8195 TCGA-IZ-8196 TCGA-IZ-A6M8 TCGA-IZ-A6M9 
       96.69        67.17        22.26        21.34        16.34        12.36 
TCGA-J7-6720 TCGA-KV-A6GD TCGA-KV-A6GE TCGA-KV-A74V TCGA-MH-A55W TCGA-MH-A55Z 
       12.76        18.41        29.10        11.41        34.29        27.78 
TCGA-MH-A560 TCGA-MH-A561 TCGA-MH-A562 TCGA-MH-A854 TCGA-MH-A855 TCGA-MH-A856 
       30.38        27.65        20.25        17.62        12.13        31.13 
TCGA-MH-A857 TCGA-O9-A75Z TCGA-P4-A5E6 TCGA-P4-A5E7 TCGA-P4-A5E8 TCGA-P4-A5EB 
       29.26        15.48        99.78        87.09        42.94        99.12 
TCGA-P4-A5ED TCGA-P4-AAVK TCGA-P4-AAVM TCGA-P4-AAVO TCGA-PJ-A5Z8 TCGA-PJ-A5Z9 
       92.58        52.27        50.60        78.90        19.73        17.75 
TCGA-Q2-A5QZ TCGA-SX-A71R TCGA-SX-A71S TCGA-SX-A71U TCGA-SX-A7SL TCGA-SX-A7SM 
       14.07        47.90        49.45        44.61        27.06        11.93 
TCGA-SX-A7SN TCGA-SX-A7SO TCGA-SX-A7SP TCGA-SX-A7SQ TCGA-SX-A7SR TCGA-SX-A7SS 
       19.00        41.33        16.31        41.62        26.47        53.10 
TCGA-SX-A7SU TCGA-UZ-A9PJ TCGA-UZ-A9PK TCGA-UZ-A9PL TCGA-UZ-A9PM TCGA-UZ-A9PN 
       43.76        26.20       117.40       103.63       125.29        37.35 
TCGA-UZ-A9PO TCGA-UZ-A9PP TCGA-UZ-A9PR TCGA-UZ-A9PS TCGA-UZ-A9PU TCGA-UZ-A9PV 
       62.83        98.96        86.37        71.24        30.67        47.47 
TCGA-UZ-A9PX TCGA-UZ-A9PZ TCGA-UZ-A9Q0 TCGA-UZ-A9Q1 TCGA-V9-A7HT TCGA-WN-A9G9 
       65.13        21.60       110.73        51.35        31.73        26.01 
TCGA-WN-AB4C TCGA-Y8-A894 TCGA-Y8-A895 TCGA-Y8-A897 TCGA-Y8-A898 TCGA-Y8-A8RY 
       39.06        18.64        15.91        18.05        15.62        25.28 
TCGA-Y8-A8RZ TCGA-Y8-A8S0 TCGA-Y8-A8S1 
        3.68         6.02        13.28 

  DEL PEAK 16(9P21.3) MUTATED DEL PEAK 16(9P21.3) WILD-TYPE 
                         0.53                          0.07 
  DEL PEAK 16(9P21.3) MUTATED DEL PEAK 16(9P21.3) WILD-TYPE 
                       141.73                        194.79 
  DEL PEAK 16(9P21.3) MUTATED DEL PEAK 16(9P21.3) WILD-TYPE 
                       31.725                        35.870 
[1] "0.5 - 141.7 (31.7)" "0.1 - 194.8 (35.9)"
[1] "hr=" "2.8"
D29V2, continuous
                               vv
clus                            STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK 16(9P21.3) MUTATED        66       15        74       50
  DEL PEAK 16(9P21.3) WILD-TYPE     389       89       117       54
D29V3, multiclass
           clus
vv          DEL PEAK 16(9P21.3) MUTATED DEL PEAK 16(9P21.3) WILD-TYPE
  STAGE I                            66                           389
  STAGE II                           15                            89
  STAGE III                          74                           117
  STAGE IV                           50                            54
[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                             T1  T2  T3  T4
  DEL PEAK 16(9P21.3) MUTATED    70  22 108   8
  DEL PEAK 16(9P21.3) WILD-TYPE 409 105 150   7
D29V4, multiclass
    clus
vv   DEL PEAK 16(9P21.3) MUTATED DEL PEAK 16(9P21.3) WILD-TYPE
  T1                          70                           409
  T2                          22                           105
  T3                         108                           150
  T4                           8                             7
[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                             N0  N1  N2
  DEL PEAK 16(9P21.3) MUTATED    78  25   3
  DEL PEAK 16(9P21.3) WILD-TYPE 244  19   4
D29V5, multiclass
    clus
vv   DEL PEAK 16(9P21.3) MUTATED DEL PEAK 16(9P21.3) WILD-TYPE
  N0                          78                           244
  N1                          25                            19
  N2                           3                             4
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D29V6, binary
                               cls
clus                              0   1
  DEL PEAK 16(9P21.3) MUTATED   131  43
  DEL PEAK 16(9P21.3) WILD-TYPE 414  46
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 16(9P21.3) MUTATED    131   43
  DEL PEAK 16(9P21.3) WILD-TYPE  414   46
   clus
vv  DEL PEAK 16(9P21.3) MUTATED DEL PEAK 16(9P21.3) WILD-TYPE
  0                         131                           414
  1                          43                            46
[1] 2 2
[1] FALSE
D29V7, binary
                               cls
clus                              0   1
  DEL PEAK 16(9P21.3) MUTATED    62 146
  DEL PEAK 16(9P21.3) WILD-TYPE 230 443
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 16(9P21.3) MUTATED     62  146
  DEL PEAK 16(9P21.3) WILD-TYPE  230  443
        clus
vv       DEL PEAK 16(9P21.3) MUTATED DEL PEAK 16(9P21.3) WILD-TYPE
  FEMALE                          62                           230
  MALE                           146                           443
[1] 2 2
[1] FALSE
D29V8, binary
                               cls
clus                              0   1
  DEL PEAK 16(9P21.3) MUTATED    61   1
  DEL PEAK 16(9P21.3) WILD-TYPE 339   2
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 16(9P21.3) MUTATED     61    1
  DEL PEAK 16(9P21.3) WILD-TYPE  339    2
     clus
vv    DEL PEAK 16(9P21.3) MUTATED DEL PEAK 16(9P21.3) WILD-TYPE
  NO                           61                           339
  YES                           1                             2
[1] 2 2
[1] FALSE
D29V9, continuous
                               vv
clus                            KIDNEY CHROMOPHOBE
  DEL PEAK 16(9P21.3) MUTATED                   10
  DEL PEAK 16(9P21.3) WILD-TYPE                 56
                               vv
clus                            KIDNEY CLEAR CELL RENAL CARCINOMA
  DEL PEAK 16(9P21.3) MUTATED                                 159
  DEL PEAK 16(9P21.3) WILD-TYPE                               369
                               vv
clus                            KIDNEY PAPILLARY RENAL CELL CARCINOMA
  DEL PEAK 16(9P21.3) MUTATED                                      39
  DEL PEAK 16(9P21.3) WILD-TYPE                                   248
D29V10, multiclass
                                       clus
vv                                      DEL PEAK 16(9P21.3) MUTATED
  KIDNEY CHROMOPHOBE                                             10
  KIDNEY CLEAR CELL RENAL CARCINOMA                             159
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                          39
                                       clus
vv                                      DEL PEAK 16(9P21.3) WILD-TYPE
  KIDNEY CHROMOPHOBE                                               56
  KIDNEY CLEAR CELL RENAL CARCINOMA                               369
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                           248
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D29V11, continuous
D29V12, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 16(9P21.3) MUTATED                                  0     3
  DEL PEAK 16(9P21.3) WILD-TYPE                                2    12
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 16(9P21.3) MUTATED                          15   185
  DEL PEAK 16(9P21.3) WILD-TYPE                       106   534
D29V13, multiclass
                                  clus
vv                                 DEL PEAK 16(9P21.3) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                      3
  BLACK OR AFRICAN AMERICAN                                 15
  WHITE                                                    185
                                  clus
vv                                 DEL PEAK 16(9P21.3) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             2
  ASIAN                                                       12
  BLACK OR AFRICAN AMERICAN                                  106
  WHITE                                                      534
[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"
D29V14, binary
                               cls
clus                              0   1
  DEL PEAK 16(9P21.3) MUTATED     9 144
  DEL PEAK 16(9P21.3) WILD-TYPE  33 477
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 16(9P21.3) MUTATED      9  144
  DEL PEAK 16(9P21.3) WILD-TYPE   33  477
                        clus
vv                       DEL PEAK 16(9P21.3) MUTATED
  HISPANIC OR LATINO                               9
  NOT HISPANIC OR LATINO                         144
                        clus
vv                       DEL PEAK 16(9P21.3) WILD-TYPE
  HISPANIC OR LATINO                                33
  NOT HISPANIC OR LATINO                           477
[1] 2 2
[1] FALSE

Clustering(30) Variable = DEL PEAK 17(10Q23.31) MUTATION ANALYSIS
D30V1, survival
                                 sevent
clus2                               0   1
  DEL PEAK 17(10Q23.31) MUTATED   111  51
  DEL PEAK 17(10Q23.31) WILD-TYPE 534 177
  DEL PEAK 17(10Q23.31) MUTATED DEL PEAK 17(10Q23.31) WILD-TYPE 
                            162                             711 
  DEL PEAK 17(10Q23.31) MUTATED DEL PEAK 17(10Q23.31) WILD-TYPE 
                             51                             177 
$`DEL PEAK 17(10Q23.31) MUTATED`
TCGA-KL-8323 TCGA-KL-8325 TCGA-KL-8327 TCGA-KL-8328 TCGA-KL-8329 TCGA-KL-8330 
       38.07        23.84       137.06       102.81        90.48       108.62 
TCGA-KL-8331 TCGA-KL-8332 TCGA-KL-8333 TCGA-KL-8334 TCGA-KL-8335 TCGA-KL-8336 
       98.96        84.89        98.33        96.95        92.55        30.25 
TCGA-KL-8337 TCGA-KL-8338 TCGA-KL-8339 TCGA-KL-8340 TCGA-KL-8341 TCGA-KL-8342 
       44.84        86.56        28.11        66.54        24.79        73.91 
TCGA-KL-8343 TCGA-KL-8345 TCGA-KL-8346 TCGA-KM-8440 TCGA-KM-8442 TCGA-KM-8443 
       71.41        54.74        62.37        44.91        47.24        49.97 
TCGA-KM-8476 TCGA-KN-8418 TCGA-KN-8421 TCGA-KN-8422 TCGA-KN-8424 TCGA-KN-8425 
      123.12       129.37        87.91        25.48        65.19       104.52 
TCGA-KN-8428 TCGA-KN-8429 TCGA-KN-8432 TCGA-KN-8434 TCGA-KN-8435 TCGA-KN-8436 
       52.27        87.12         2.50        59.08       115.00        42.35 
TCGA-KO-8403 TCGA-KO-8404 TCGA-KO-8405 TCGA-KO-8406 TCGA-KO-8407 TCGA-KO-8408 
      105.47        10.68       100.47       103.40        92.71        16.67 
TCGA-KO-8409 TCGA-KO-8411 TCGA-KO-8414 TCGA-KO-8415 TCGA-KO-8416 TCGA-KO-8417 
      104.55       130.13       105.60        96.62        90.48        92.55 
TCGA-A3-3316 TCGA-A3-3331 TCGA-A3-3346 TCGA-A3-3352 TCGA-A3-3374 TCGA-A3-3380 
       49.08        48.82         4.50        18.44        43.20        18.64 
TCGA-A3-A6NN TCGA-AK-3430 TCGA-AK-3433 TCGA-AK-3440 TCGA-AK-3443 TCGA-AK-3458 
        0.10        15.78       112.08        94.19        46.78        38.40 
TCGA-AK-3461 TCGA-AK-3465 TCGA-B0-4688 TCGA-B0-4690 TCGA-B0-4694 TCGA-B0-4696 
       72.89        12.13         3.32         1.41         3.48        28.47 
TCGA-B0-4699 TCGA-B0-4712 TCGA-B0-4718 TCGA-B0-4811 TCGA-B0-4819 TCGA-B0-4828 
        3.62        43.96        58.45        46.59         6.02        10.09 
TCGA-B0-4836 TCGA-B0-4837 TCGA-B0-4843 TCGA-B0-4844 TCGA-B0-4845 TCGA-B0-5099 
       40.70        45.30        10.52        10.29        65.29        15.95 
TCGA-B0-5117 TCGA-B0-5402 TCGA-B0-5703 TCGA-B0-5706 TCGA-B2-3923 TCGA-B2-5641 
       52.87        42.41        73.84       105.37        32.61        21.57 
TCGA-B4-5835 TCGA-B4-5838 TCGA-B8-4143 TCGA-B8-5158 TCGA-B8-5549 TCGA-B8-5550 
        0.53         5.46        23.31        20.91         6.38        48.53 
TCGA-B8-A7U6 TCGA-BP-4161 TCGA-BP-4164 TCGA-BP-4166 TCGA-BP-4167 TCGA-BP-4329 
       16.27        90.28        32.61         0.43        89.36        27.78 
TCGA-BP-4334 TCGA-BP-4342 TCGA-BP-4343 TCGA-BP-4351 TCGA-BP-4766 TCGA-BP-4770 
       21.21        74.17        62.86        31.89        48.07        10.82 
TCGA-BP-4775 TCGA-BP-4797 TCGA-BP-4803 TCGA-BP-4960 TCGA-BP-4973 TCGA-BP-4985 
       60.59        36.39         6.71        71.41        45.50        31.30 
TCGA-BP-4994 TCGA-BP-5010 TCGA-BP-5169 TCGA-BP-5173 TCGA-BP-5180 TCGA-BP-5185 
       43.00        28.87         6.35         1.74        74.40        37.22 
TCGA-BP-5196 TCGA-BP-5198 TCGA-BP-5201 TCGA-CJ-4635 TCGA-CJ-4642 TCGA-CJ-4644 
       33.47        19.82        31.27        46.55       105.37        11.05 
TCGA-CJ-4872 TCGA-CJ-4874 TCGA-CJ-4882 TCGA-CJ-4893 TCGA-CJ-4897 TCGA-CJ-4901 
       10.72        75.06        61.91        24.66       109.84        47.67 
TCGA-CJ-4907 TCGA-CJ-4923 TCGA-CJ-5676 TCGA-CJ-6032 TCGA-CJ-6033 TCGA-CW-6090 
       49.28        18.81       133.71       119.64         7.36        83.90 
TCGA-CZ-4860 TCGA-CZ-5457 TCGA-CZ-5460 TCGA-CZ-5465 TCGA-CZ-5468 TCGA-CZ-5469 
        6.77        90.54        94.45        84.30         1.94        31.10 
TCGA-CZ-5470 TCGA-CZ-5982 TCGA-DV-5565 TCGA-DV-5566 TCGA-EU-5907 TCGA-G6-A8L8 
       12.69        80.19        13.28        45.96         4.18        35.87 
TCGA-2Z-A9J8 TCGA-5P-A9JU TCGA-5P-A9KH TCGA-A4-A5Y1 TCGA-AL-3466 TCGA-B9-A44B 
       91.73        12.26        67.43        12.99         9.63         2.10 
TCGA-BQ-5876 TCGA-BQ-5882 TCGA-DZ-6131 TCGA-F9-A97G TCGA-G7-6789 TCGA-G7-7501 
       19.27        21.63        79.86         0.43         4.01        20.52 
TCGA-G7-7502 TCGA-G7-A8LC TCGA-GL-7966 TCGA-J7-8537 TCGA-MH-A857 TCGA-Q2-A5QZ 
       25.84        23.08         3.68        10.55        29.26        14.07 

$`DEL PEAK 17(10Q23.31) WILD-TYPE`
TCGA-KL-8324 TCGA-KL-8326 TCGA-KL-8344 TCGA-KM-8438 TCGA-KM-8439 TCGA-KM-8441 
      141.73       109.22        28.80       151.96        23.28        28.80 
TCGA-KM-8477 TCGA-KM-8639 TCGA-KN-8419 TCGA-KN-8423 TCGA-KN-8426 TCGA-KN-8427 
       51.06        31.33        23.47        25.91         3.55         0.99 
TCGA-KN-8431 TCGA-KN-8433 TCGA-KN-8437 TCGA-KO-8410 TCGA-KO-8413 TCGA-3Z-A93Z 
       19.33        11.21       100.87       103.10        99.88        12.66 
TCGA-6D-AA2E TCGA-A3-3306 TCGA-A3-3307 TCGA-A3-3308 TCGA-A3-3311 TCGA-A3-3313 
       11.90        36.82        47.21         0.53        39.16        24.16 
TCGA-A3-3317 TCGA-A3-3319 TCGA-A3-3320 TCGA-A3-3322 TCGA-A3-3323 TCGA-A3-3324 
       49.02        37.15        49.58        48.59        36.36        38.99 
TCGA-A3-3325 TCGA-A3-3326 TCGA-A3-3335 TCGA-A3-3336 TCGA-A3-3343 TCGA-A3-3347 
       38.47        37.38        62.01        34.29        31.07        52.93 
TCGA-A3-3349 TCGA-A3-3351 TCGA-A3-3357 TCGA-A3-3358 TCGA-A3-3359 TCGA-A3-3362 
       45.53        29.92        88.37        42.97        82.32        51.25 
TCGA-A3-3363 TCGA-A3-3365 TCGA-A3-3367 TCGA-A3-3370 TCGA-A3-3372 TCGA-A3-3373 
       10.49        28.70        74.63        74.76        24.16        53.29 
TCGA-A3-3376 TCGA-A3-3378 TCGA-A3-3382 TCGA-A3-3383 TCGA-A3-3385 TCGA-A3-3387 
       55.76        20.71        18.87        28.31        65.52        20.28 
TCGA-A3-A6NI TCGA-A3-A6NJ TCGA-A3-A6NL TCGA-A3-A8CQ TCGA-A3-A8OV TCGA-A3-A8OW 
       33.47        15.39        22.65         0.10        11.18        10.62 
TCGA-AK-3425 TCGA-AK-3426 TCGA-AK-3427 TCGA-AK-3428 TCGA-AK-3429 TCGA-AK-3431 
      109.91        29.10       117.80        73.08       109.41        73.68 
TCGA-AK-3434 TCGA-AK-3436 TCGA-AK-3444 TCGA-AK-3445 TCGA-AK-3447 TCGA-AK-3450 
       68.61       109.51        48.36        78.64        40.01        49.28 
TCGA-AK-3451 TCGA-AK-3453 TCGA-AK-3454 TCGA-AK-3455 TCGA-AK-3456 TCGA-AK-3460 
       94.29        83.21        28.73        22.45        37.58        82.45 
TCGA-AS-3777 TCGA-AS-3778 TCGA-B0-4691 TCGA-B0-4693 TCGA-B0-4697 TCGA-B0-4698 
       40.70         1.41         4.57         2.53        19.00         1.38 
TCGA-B0-4700 TCGA-B0-4701 TCGA-B0-4703 TCGA-B0-4706 TCGA-B0-4707 TCGA-B0-4710 
       65.10         7.82         5.98         2.14        19.73        57.70 
TCGA-B0-4713 TCGA-B0-4714 TCGA-B0-4810 TCGA-B0-4813 TCGA-B0-4814 TCGA-B0-4815 
        6.64         3.25        15.72         0.59         5.52        52.21 
TCGA-B0-4816 TCGA-B0-4817 TCGA-B0-4818 TCGA-B0-4821 TCGA-B0-4822 TCGA-B0-4823 
       45.07        33.50        16.77        40.44        36.53        14.93 
TCGA-B0-4824 TCGA-B0-4827 TCGA-B0-4833 TCGA-B0-4834 TCGA-B0-4838 TCGA-B0-4839 
       54.48        29.10        78.44        68.71        27.42        53.88 
TCGA-B0-4841 TCGA-B0-4842 TCGA-B0-4846 TCGA-B0-4847 TCGA-B0-4848 TCGA-B0-4849 
        6.71        56.68        39.45        26.07        29.03         2.27 
TCGA-B0-4852 TCGA-B0-4945 TCGA-B0-5075 TCGA-B0-5077 TCGA-B0-5080 TCGA-B0-5081 
       36.85        70.52        20.94        43.30        11.24        11.90 
TCGA-B0-5084 TCGA-B0-5085 TCGA-B0-5088 TCGA-B0-5092 TCGA-B0-5094 TCGA-B0-5095 
        7.30        25.32        18.51        15.09        10.95         8.05 
TCGA-B0-5096 TCGA-B0-5097 TCGA-B0-5098 TCGA-B0-5100 TCGA-B0-5102 TCGA-B0-5104 
        2.24        21.86        52.08        62.89        90.87        90.48 
TCGA-B0-5106 TCGA-B0-5107 TCGA-B0-5108 TCGA-B0-5109 TCGA-B0-5110 TCGA-B0-5113 
       52.54        30.48        58.59        19.30        66.05        38.63 
TCGA-B0-5115 TCGA-B0-5116 TCGA-B0-5119 TCGA-B0-5120 TCGA-B0-5121 TCGA-B0-5399 
       52.73        41.88        51.02        38.43        48.82        46.39 
TCGA-B0-5400 TCGA-B0-5690 TCGA-B0-5691 TCGA-B0-5692 TCGA-B0-5693 TCGA-B0-5694 
       56.98       111.52       112.80       129.67       133.94        15.78 
TCGA-B0-5695 TCGA-B0-5696 TCGA-B0-5697 TCGA-B0-5698 TCGA-B0-5699 TCGA-B0-5701 
       70.68        85.78        86.47       119.38       126.28        80.91 
TCGA-B0-5702 TCGA-B0-5705 TCGA-B0-5709 TCGA-B0-5710 TCGA-B0-5711 TCGA-B0-5712 
       71.41       149.16       130.65        79.89       131.15        89.49 
TCGA-B0-5713 TCGA-B0-5812 TCGA-B2-3924 TCGA-B2-4098 TCGA-B2-4099 TCGA-B2-4101 
       91.46       126.05        35.90         1.68        31.96        21.30 
TCGA-B2-4102 TCGA-B2-5633 TCGA-B2-5635 TCGA-B2-5639 TCGA-B2-A4SR TCGA-B4-5377 
       31.30        31.66        24.82        32.98        16.67        12.00 
TCGA-B4-5378 TCGA-B4-5832 TCGA-B4-5834 TCGA-B4-5836 TCGA-B4-5843 TCGA-B4-5844 
        5.75         5.10         0.85         4.64         0.36         0.23 
TCGA-B8-4146 TCGA-B8-4148 TCGA-B8-4151 TCGA-B8-4153 TCGA-B8-4154 TCGA-B8-4619 
       16.80        27.16        42.71        25.05        45.37        17.19 
TCGA-B8-4620 TCGA-B8-4621 TCGA-B8-4622 TCGA-B8-5159 TCGA-B8-5162 TCGA-B8-5163 
       25.55        25.91        50.14        23.74         1.18        27.02 
TCGA-B8-5164 TCGA-B8-5165 TCGA-B8-5545 TCGA-B8-5546 TCGA-B8-5551 TCGA-B8-5552 
        0.85        24.23        50.14        16.60         0.53        34.39 
TCGA-B8-5553 TCGA-B8-A54D TCGA-B8-A54E TCGA-B8-A54F TCGA-B8-A54G TCGA-B8-A54H 
       14.30        27.29        29.88        17.06         1.74         8.42 
TCGA-B8-A54I TCGA-B8-A54J TCGA-B8-A54K TCGA-B8-A8YJ TCGA-BP-4158 TCGA-BP-4159 
        4.93        17.36        15.42        14.17       111.02        85.51 
TCGA-BP-4160 TCGA-BP-4162 TCGA-BP-4163 TCGA-BP-4165 TCGA-BP-4169 TCGA-BP-4170 
       94.72       101.06        93.34        99.85        23.05        77.03 
TCGA-BP-4173 TCGA-BP-4174 TCGA-BP-4176 TCGA-BP-4177 TCGA-BP-4325 TCGA-BP-4326 
       62.24        61.78        64.27        54.90        97.45        53.42 
TCGA-BP-4327 TCGA-BP-4330 TCGA-BP-4331 TCGA-BP-4332 TCGA-BP-4335 TCGA-BP-4337 
        3.58        62.07        80.68        37.25        15.16         0.07 
TCGA-BP-4338 TCGA-BP-4340 TCGA-BP-4341 TCGA-BP-4344 TCGA-BP-4346 TCGA-BP-4347 
       93.99        18.48        52.24        54.77        49.08        44.94 
TCGA-BP-4349 TCGA-BP-4352 TCGA-BP-4353 TCGA-BP-4354 TCGA-BP-4355 TCGA-BP-4756 
       12.23        11.31        12.33        33.99        31.33        12.30 
TCGA-BP-4758 TCGA-BP-4759 TCGA-BP-4760 TCGA-BP-4761 TCGA-BP-4762 TCGA-BP-4763 
       72.59        77.98        77.62         5.98        44.15        41.75 
TCGA-BP-4765 TCGA-BP-4768 TCGA-BP-4769 TCGA-BP-4771 TCGA-BP-4774 TCGA-BP-4776 
       71.80        13.15        61.68         5.33        61.97        13.51 
TCGA-BP-4777 TCGA-BP-4781 TCGA-BP-4782 TCGA-BP-4784 TCGA-BP-4787 TCGA-BP-4789 
       56.91        68.38        11.64        60.95        15.78        48.95 
TCGA-BP-4790 TCGA-BP-4795 TCGA-BP-4798 TCGA-BP-4799 TCGA-BP-4801 TCGA-BP-4804 
       36.53        20.38        10.98        37.25        36.95        47.97 
TCGA-BP-4807 TCGA-BP-4959 TCGA-BP-4961 TCGA-BP-4962 TCGA-BP-4963 TCGA-BP-4964 
        6.94        87.45        63.62        58.68        60.30        61.22 
TCGA-BP-4965 TCGA-BP-4967 TCGA-BP-4968 TCGA-BP-4969 TCGA-BP-4970 TCGA-BP-4971 
       61.51         6.74        57.40        58.98        14.24        48.89 
TCGA-BP-4972 TCGA-BP-4974 TCGA-BP-4975 TCGA-BP-4976 TCGA-BP-4977 TCGA-BP-4981 
       49.38         6.90        47.11        53.65        14.93        36.07 
TCGA-BP-4982 TCGA-BP-4983 TCGA-BP-4986 TCGA-BP-4987 TCGA-BP-4988 TCGA-BP-4989 
       33.34        46.45        25.81        36.95        27.22         3.88 
TCGA-BP-4991 TCGA-BP-4992 TCGA-BP-4993 TCGA-BP-4995 TCGA-BP-4998 TCGA-BP-4999 
       46.45        16.47         5.82        45.07        30.64        41.62 
TCGA-BP-5000 TCGA-BP-5001 TCGA-BP-5004 TCGA-BP-5006 TCGA-BP-5007 TCGA-BP-5008 
       18.51        38.70        37.02        27.62        37.48        35.21 
TCGA-BP-5009 TCGA-BP-5168 TCGA-BP-5170 TCGA-BP-5174 TCGA-BP-5175 TCGA-BP-5176 
       36.23        48.10        79.30        74.20        30.64        52.27 
TCGA-BP-5177 TCGA-BP-5178 TCGA-BP-5181 TCGA-BP-5182 TCGA-BP-5183 TCGA-BP-5184 
        9.63        62.86        49.15        38.30        42.44        37.25 
TCGA-BP-5186 TCGA-BP-5187 TCGA-BP-5189 TCGA-BP-5190 TCGA-BP-5191 TCGA-BP-5192 
       22.78        13.35        27.02        33.24        31.79        23.47 
TCGA-BP-5194 TCGA-BP-5195 TCGA-BP-5199 TCGA-BP-5200 TCGA-BP-5202 TCGA-CJ-4634 
       13.41        24.62        44.55        34.95         0.95       115.00 
TCGA-CJ-4636 TCGA-CJ-4637 TCGA-CJ-4638 TCGA-CJ-4639 TCGA-CJ-4640 TCGA-CJ-4641 
       63.25        73.22        14.17       106.16       114.41        54.61 
TCGA-CJ-4643 TCGA-CJ-4868 TCGA-CJ-4869 TCGA-CJ-4870 TCGA-CJ-4871 TCGA-CJ-4873 
       58.95        21.24        83.97        49.25        79.66        74.27 
TCGA-CJ-4875 TCGA-CJ-4876 TCGA-CJ-4878 TCGA-CJ-4881 TCGA-CJ-4884 TCGA-CJ-4885 
      116.84        64.27        71.87        66.21        57.83       113.46 
TCGA-CJ-4886 TCGA-CJ-4887 TCGA-CJ-4888 TCGA-CJ-4889 TCGA-CJ-4890 TCGA-CJ-4891 
       64.18        30.64        51.52        63.98       115.69        26.93 
TCGA-CJ-4892 TCGA-CJ-4894 TCGA-CJ-4895 TCGA-CJ-4899 TCGA-CJ-4900 TCGA-CJ-4902 
       50.01        27.65        39.45        50.24        56.35        49.97 
TCGA-CJ-4903 TCGA-CJ-4904 TCGA-CJ-4905 TCGA-CJ-4908 TCGA-CJ-4912 TCGA-CJ-4913 
       51.25       108.56        49.18        50.33        54.48        38.56 
TCGA-CJ-4916 TCGA-CJ-4918 TCGA-CJ-4920 TCGA-CJ-5671 TCGA-CJ-5672 TCGA-CJ-5675 
       45.14         3.06         4.57       131.08        72.00       129.40 
TCGA-CJ-5677 TCGA-CJ-5678 TCGA-CJ-5679 TCGA-CJ-5680 TCGA-CJ-5681 TCGA-CJ-5682 
       25.71        18.87        22.32        25.25        18.15       122.83 
TCGA-CJ-5683 TCGA-CJ-5684 TCGA-CJ-5686 TCGA-CJ-5689 TCGA-CJ-6027 TCGA-CJ-6028 
       62.10        73.35        67.00        53.26       118.85        53.42 
TCGA-CJ-6030 TCGA-CJ-6031 TCGA-CW-5580 TCGA-CW-5581 TCGA-CW-5583 TCGA-CW-5584 
       75.58        62.66        64.57        92.02        81.83         5.39 
TCGA-CW-5585 TCGA-CW-5587 TCGA-CW-5588 TCGA-CW-5589 TCGA-CW-5591 TCGA-CW-6087 
       85.78        73.18        66.31        78.18        74.66         1.35 
TCGA-CW-6088 TCGA-CW-6093 TCGA-CW-6097 TCGA-CZ-4853 TCGA-CZ-4854 TCGA-CZ-4856 
      105.93       103.43        18.77        25.45        46.16         0.59 
TCGA-CZ-4857 TCGA-CZ-4858 TCGA-CZ-4859 TCGA-CZ-4861 TCGA-CZ-4862 TCGA-CZ-4863 
       47.08        69.21        58.75        14.66       107.54        63.39 
TCGA-CZ-4864 TCGA-CZ-4865 TCGA-CZ-4866 TCGA-CZ-5451 TCGA-CZ-5452 TCGA-CZ-5453 
       93.04         5.46        61.41        63.42        58.82        79.53 
TCGA-CZ-5454 TCGA-CZ-5455 TCGA-CZ-5456 TCGA-CZ-5458 TCGA-CZ-5459 TCGA-CZ-5461 
       23.74        18.44        79.63        91.69        55.33        10.85 
TCGA-CZ-5462 TCGA-CZ-5463 TCGA-CZ-5464 TCGA-CZ-5466 TCGA-CZ-5467 TCGA-CZ-5984 
       10.22        21.76        69.96        22.52         2.40        67.96 
TCGA-CZ-5985 TCGA-CZ-5986 TCGA-CZ-5987 TCGA-CZ-5988 TCGA-CZ-5989 TCGA-DV-5567 
       65.65        12.26        14.63        22.78        62.63        65.88 
TCGA-DV-5568 TCGA-DV-5569 TCGA-DV-5573 TCGA-DV-5574 TCGA-DV-5575 TCGA-DV-5576 
       12.16        11.67        37.15        66.28        56.84        23.90 
TCGA-DV-A4VX TCGA-DV-A4VZ TCGA-DV-A4W0 TCGA-EU-5904 TCGA-EU-5905 TCGA-EU-5906 
       53.46        12.00        81.21        18.12         3.91         6.77 
TCGA-G6-A5PC TCGA-G6-A8L6 TCGA-G6-A8L7 TCGA-GK-A6C7 TCGA-MM-A563 TCGA-MM-A564 
        7.96        10.29        70.13         2.01        19.43        19.96 
TCGA-MM-A84U TCGA-MW-A4EC TCGA-T7-A92I TCGA-2K-A9WE TCGA-2Z-A9J1 TCGA-2Z-A9J2 
       23.01        16.37        11.70         7.04        75.55        59.01 
TCGA-2Z-A9J3 TCGA-2Z-A9J5 TCGA-2Z-A9J6 TCGA-2Z-A9J7 TCGA-2Z-A9J9 TCGA-2Z-A9JD 
       58.22       100.27        56.91         4.57        75.42        34.85 
TCGA-2Z-A9JE TCGA-2Z-A9JG TCGA-2Z-A9JI TCGA-2Z-A9JJ TCGA-2Z-A9JK TCGA-2Z-A9JL 
       56.81        54.64        51.52        39.88        38.99        33.07 
TCGA-2Z-A9JM TCGA-2Z-A9JN TCGA-2Z-A9JO TCGA-2Z-A9JP TCGA-2Z-A9JQ TCGA-2Z-A9JR 
       30.71        24.33        31.20        29.36        25.58         5.29 
TCGA-2Z-A9JS TCGA-2Z-A9JT TCGA-4A-A93W TCGA-4A-A93X TCGA-4A-A93Y TCGA-5P-A9JV 
       16.18        22.49         0.13        12.82        11.57        67.17 
TCGA-5P-A9JW TCGA-5P-A9JY TCGA-5P-A9JZ TCGA-5P-A9K0 TCGA-5P-A9K2 TCGA-5P-A9K3 
      106.55        49.58        90.21        22.26        78.64        15.48 
TCGA-5P-A9K4 TCGA-5P-A9K6 TCGA-5P-A9K8 TCGA-5P-A9K9 TCGA-5P-A9KA TCGA-5P-A9KC 
       71.80        62.93        43.04        19.36        12.99        12.39 
TCGA-5P-A9KE TCGA-A4-7286 TCGA-A4-7287 TCGA-A4-7288 TCGA-A4-7583 TCGA-A4-7584 
       27.09        18.21        19.63        61.05         0.10        21.37 
TCGA-A4-7585 TCGA-A4-7732 TCGA-A4-7734 TCGA-A4-7828 TCGA-A4-7915 TCGA-A4-7996 
       35.18        19.13         0.89         7.82         0.23        16.64 
TCGA-A4-7997 TCGA-A4-8098 TCGA-A4-8310 TCGA-A4-8311 TCGA-A4-8312 TCGA-A4-8515 
       30.48        29.46        25.64        23.97        23.28        23.31 
TCGA-A4-8516 TCGA-A4-8517 TCGA-A4-8518 TCGA-A4-8630 TCGA-A4-A48D TCGA-A4-A4ZT 
        0.76        19.63        19.73        14.33        12.46        16.96 
TCGA-A4-A57E TCGA-A4-A5DU TCGA-A4-A5XZ TCGA-A4-A5Y0 TCGA-A4-A6HP TCGA-AL-3467 
        8.48        16.31        15.75         8.28        12.46        70.19 
TCGA-AL-3468 TCGA-AL-3471 TCGA-AL-3472 TCGA-AL-3473 TCGA-AL-7173 TCGA-AL-A5DJ 
       76.64        49.32        66.71        62.66        67.73        49.25 
TCGA-AT-A5NU TCGA-B1-5398 TCGA-B1-7332 TCGA-B1-A47M TCGA-B1-A47N TCGA-B1-A47O 
        2.20        19.56        37.51        21.67        24.56        16.87 
TCGA-B1-A654 TCGA-B1-A655 TCGA-B1-A656 TCGA-B1-A657 TCGA-B3-3925 TCGA-B3-3926 
       20.25        16.77        20.32        21.07        33.83        10.09 
TCGA-B3-4103 TCGA-B3-4104 TCGA-B3-8121 TCGA-B3-A6W5 TCGA-B9-4113 TCGA-B9-4114 
       30.58        34.49        12.46        10.16        50.50        28.18 
TCGA-B9-4115 TCGA-B9-4116 TCGA-B9-4117 TCGA-B9-4617 TCGA-B9-5155 TCGA-B9-5156 
       26.40        20.61         0.46         1.15        15.12        43.99 
TCGA-B9-7268 TCGA-B9-A5W7 TCGA-B9-A5W8 TCGA-B9-A5W9 TCGA-B9-A69E TCGA-B9-A8YH 
       22.06        19.23        17.23         0.16        14.86        17.49 
TCGA-B9-A8YI TCGA-BQ-5875 TCGA-BQ-5877 TCGA-BQ-5878 TCGA-BQ-5879 TCGA-BQ-5880 
       12.30        86.76         8.88        63.72        22.92        43.20 
TCGA-BQ-5881 TCGA-BQ-5883 TCGA-BQ-5884 TCGA-BQ-5885 TCGA-BQ-5886 TCGA-BQ-5887 
       47.80        40.83        26.04        30.28        26.04        25.35 
TCGA-BQ-5888 TCGA-BQ-5889 TCGA-BQ-5890 TCGA-BQ-5891 TCGA-BQ-5892 TCGA-BQ-5893 
       13.25        10.82         7.66         0.95        11.97         7.92 
TCGA-BQ-5894 TCGA-BQ-7044 TCGA-BQ-7045 TCGA-BQ-7046 TCGA-BQ-7048 TCGA-BQ-7049 
        2.76       123.62        48.26        96.92        93.34        44.84 
TCGA-BQ-7050 TCGA-BQ-7051 TCGA-BQ-7053 TCGA-BQ-7055 TCGA-BQ-7056 TCGA-BQ-7058 
       61.28        50.40        49.84        26.27        20.12        11.28 
TCGA-BQ-7059 TCGA-BQ-7060 TCGA-BQ-7061 TCGA-BQ-7062 TCGA-DW-5560 TCGA-DW-5561 
        7.63         7.04         7.17         3.81        48.85        13.61 
TCGA-DW-7834 TCGA-DW-7836 TCGA-DW-7837 TCGA-DW-7838 TCGA-DW-7839 TCGA-DW-7840 
      129.86        35.93        37.55        24.46        13.78         3.75 
TCGA-DW-7841 TCGA-DW-7842 TCGA-DW-7963 TCGA-DZ-6132 TCGA-DZ-6133 TCGA-DZ-6134 
       14.63         3.02        40.77        80.88        51.19        61.02 
TCGA-DZ-6135 TCGA-EV-5901 TCGA-EV-5902 TCGA-EV-5903 TCGA-F9-A4JJ TCGA-F9-A7Q0 
       74.60        34.19        19.00        24.89        10.68        13.08 
TCGA-F9-A7VF TCGA-F9-A8NY TCGA-G7-6790 TCGA-G7-6792 TCGA-G7-6793 TCGA-G7-6795 
        2.40         1.18        51.78        90.90        11.05        39.25 
TCGA-G7-6796 TCGA-G7-6797 TCGA-G7-A4TM TCGA-G7-A8LB TCGA-G7-A8LD TCGA-G7-A8LE 
       71.44        25.15         6.38        17.98        16.90        80.65 
TCGA-GL-6846 TCGA-GL-7773 TCGA-GL-8500 TCGA-GL-A4EM TCGA-GL-A59R TCGA-GL-A59T 
      194.79        12.92        27.65         1.05        12.43        17.95 
TCGA-GL-A9DC TCGA-GL-A9DD TCGA-GL-A9DE TCGA-HE-A5NF TCGA-HE-A5NH TCGA-HE-A5NI 
       12.89        11.21        16.31        84.89        26.01        11.84 
TCGA-HE-A5NJ TCGA-HE-A5NK TCGA-HE-A5NL TCGA-IA-A40U TCGA-IA-A40X TCGA-IA-A40Y 
       56.75        73.25        25.22        16.80        19.99         2.04 
TCGA-IA-A83S TCGA-IA-A83T TCGA-IA-A83V TCGA-IA-A83W TCGA-IZ-8195 TCGA-IZ-8196 
       85.78        88.24        96.69        67.17        22.26        21.34 
TCGA-IZ-A6M8 TCGA-IZ-A6M9 TCGA-J7-6720 TCGA-KV-A6GD TCGA-KV-A6GE TCGA-KV-A74V 
       16.34        12.36        12.76        18.41        29.10        11.41 
TCGA-MH-A55W TCGA-MH-A55Z TCGA-MH-A560 TCGA-MH-A561 TCGA-MH-A562 TCGA-MH-A854 
       34.29        27.78        30.38        27.65        20.25        17.62 
TCGA-MH-A855 TCGA-MH-A856 TCGA-O9-A75Z TCGA-P4-A5E6 TCGA-P4-A5E7 TCGA-P4-A5E8 
       12.13        31.13        15.48        99.78        87.09        42.94 
TCGA-P4-A5EA TCGA-P4-A5EB TCGA-P4-A5ED TCGA-P4-AAVK TCGA-P4-AAVL TCGA-P4-AAVM 
        6.61        99.12        92.58        52.27        16.01        50.60 
TCGA-P4-AAVO TCGA-PJ-A5Z8 TCGA-PJ-A5Z9 TCGA-SX-A71R TCGA-SX-A71S TCGA-SX-A71U 
       78.90        19.73        17.75        47.90        49.45        44.61 
TCGA-SX-A71V TCGA-SX-A7SL TCGA-SX-A7SM TCGA-SX-A7SN TCGA-SX-A7SO TCGA-SX-A7SP 
       28.80        27.06        11.93        19.00        41.33        16.31 
TCGA-SX-A7SQ TCGA-SX-A7SR TCGA-SX-A7SS TCGA-SX-A7SU TCGA-UN-AAZ9 TCGA-UZ-A9PJ 
       41.62        26.47        53.10        43.76        18.02        26.20 
TCGA-UZ-A9PK TCGA-UZ-A9PL TCGA-UZ-A9PM TCGA-UZ-A9PN TCGA-UZ-A9PO TCGA-UZ-A9PP 
      117.40       103.63       125.29        37.35        62.83        98.96 
TCGA-UZ-A9PQ TCGA-UZ-A9PR TCGA-UZ-A9PS TCGA-UZ-A9PU TCGA-UZ-A9PV TCGA-UZ-A9PX 
       86.27        86.37        71.24        30.67        47.47        65.13 
TCGA-UZ-A9PZ TCGA-UZ-A9Q0 TCGA-UZ-A9Q1 TCGA-V9-A7HT TCGA-WN-A9G9 TCGA-WN-AB4C 
       21.60       110.73        51.35        31.73        26.01        39.06 
TCGA-Y8-A894 TCGA-Y8-A895 TCGA-Y8-A896 TCGA-Y8-A897 TCGA-Y8-A898 TCGA-Y8-A8RY 
       18.64        15.91        18.64        18.05        15.62        25.28 
TCGA-Y8-A8RZ TCGA-Y8-A8S0 TCGA-Y8-A8S1 
        3.68         6.02        13.28 

  DEL PEAK 17(10Q23.31) MUTATED DEL PEAK 17(10Q23.31) WILD-TYPE 
                           0.10                            0.07 
  DEL PEAK 17(10Q23.31) MUTATED DEL PEAK 17(10Q23.31) WILD-TYPE 
                         137.06                          194.79 
  DEL PEAK 17(10Q23.31) MUTATED DEL PEAK 17(10Q23.31) WILD-TYPE 
                          43.10                           33.34 
[1] "0.1 - 137.1 (43.1)" "0.1 - 194.8 (33.3)"
[1] "hr=" "1.1"
D30V2, continuous
                                 vv
clus                              STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK 17(10Q23.31) MUTATED        52       32        53       26
  DEL PEAK 17(10Q23.31) WILD-TYPE     403       72       138       78
D30V3, multiclass
           clus
vv          DEL PEAK 17(10Q23.31) MUTATED DEL PEAK 17(10Q23.31) WILD-TYPE
  STAGE I                              52                             403
  STAGE II                             32                              72
  STAGE III                            53                             138
  STAGE IV                             26                              78
[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                               T1  T2  T3  T4
  DEL PEAK 17(10Q23.31) MUTATED    54  33  70   7
  DEL PEAK 17(10Q23.31) WILD-TYPE 425  94 188   8
D30V4, multiclass
    clus
vv   DEL PEAK 17(10Q23.31) MUTATED DEL PEAK 17(10Q23.31) WILD-TYPE
  T1                            54                             425
  T2                            33                              94
  T3                            70                             188
  T4                             7                               8
[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                               N0  N1  N2
  DEL PEAK 17(10Q23.31) MUTATED    77  10   3
  DEL PEAK 17(10Q23.31) WILD-TYPE 245  34   4
D30V5, multiclass
    clus
vv   DEL PEAK 17(10Q23.31) MUTATED DEL PEAK 17(10Q23.31) WILD-TYPE
  N0                            77                             245
  N1                            10                              34
  N2                             3                               4
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D30V6, binary
                                 cls
clus                                0   1
  DEL PEAK 17(10Q23.31) MUTATED   112  19
  DEL PEAK 17(10Q23.31) WILD-TYPE 433  70
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 17(10Q23.31) MUTATED    112   19
  DEL PEAK 17(10Q23.31) WILD-TYPE  433   70
   clus
vv  DEL PEAK 17(10Q23.31) MUTATED DEL PEAK 17(10Q23.31) WILD-TYPE
  0                           112                             433
  1                            19                              70
[1] 2 2
[1] FALSE
D30V7, binary
                                 cls
clus                                0   1
  DEL PEAK 17(10Q23.31) MUTATED    52 112
  DEL PEAK 17(10Q23.31) WILD-TYPE 240 477
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 17(10Q23.31) MUTATED     52  112
  DEL PEAK 17(10Q23.31) WILD-TYPE  240  477
        clus
vv       DEL PEAK 17(10Q23.31) MUTATED DEL PEAK 17(10Q23.31) WILD-TYPE
  FEMALE                            52                             240
  MALE                             112                             477
[1] 2 2
[1] FALSE
D30V8, binary
                                 cls
clus                                0   1
  DEL PEAK 17(10Q23.31) MUTATED    83   0
  DEL PEAK 17(10Q23.31) WILD-TYPE 317   3
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 17(10Q23.31) MUTATED     83    0
  DEL PEAK 17(10Q23.31) WILD-TYPE  317    3
     clus
vv    DEL PEAK 17(10Q23.31) MUTATED DEL PEAK 17(10Q23.31) WILD-TYPE
  NO                             83                             317
  YES                             0                               3
[1] 2 2
[1] FALSE
D30V9, continuous
                                 vv
clus                              KIDNEY CHROMOPHOBE
  DEL PEAK 17(10Q23.31) MUTATED                   49
  DEL PEAK 17(10Q23.31) WILD-TYPE                 17
                                 vv
clus                              KIDNEY CLEAR CELL RENAL CARCINOMA
  DEL PEAK 17(10Q23.31) MUTATED                                  96
  DEL PEAK 17(10Q23.31) WILD-TYPE                               432
                                 vv
clus                              KIDNEY PAPILLARY RENAL CELL CARCINOMA
  DEL PEAK 17(10Q23.31) MUTATED                                      19
  DEL PEAK 17(10Q23.31) WILD-TYPE                                   268
D30V10, multiclass
                                       clus
vv                                      DEL PEAK 17(10Q23.31) MUTATED
  KIDNEY CHROMOPHOBE                                               49
  KIDNEY CLEAR CELL RENAL CARCINOMA                                96
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                            19
                                       clus
vv                                      DEL PEAK 17(10Q23.31) WILD-TYPE
  KIDNEY CHROMOPHOBE                                                 17
  KIDNEY CLEAR CELL RENAL CARCINOMA                                 432
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                             268
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D30V11, continuous
D30V12, continuous
                                 vv
clus                              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 17(10Q23.31) MUTATED                                  0     4
  DEL PEAK 17(10Q23.31) WILD-TYPE                                2    11
                                 vv
clus                              BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 17(10Q23.31) MUTATED                          13   141
  DEL PEAK 17(10Q23.31) WILD-TYPE                       108   578
D30V13, multiclass
                                  clus
vv                                 DEL PEAK 17(10Q23.31) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                             0
  ASIAN                                                        4
  BLACK OR AFRICAN AMERICAN                                   13
  WHITE                                                      141
                                  clus
vv                                 DEL PEAK 17(10Q23.31) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                               2
  ASIAN                                                         11
  BLACK OR AFRICAN AMERICAN                                    108
  WHITE                                                        578
[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"
D30V14, binary
                                 cls
clus                                0   1
  DEL PEAK 17(10Q23.31) MUTATED     9  97
  DEL PEAK 17(10Q23.31) WILD-TYPE  33 524
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 17(10Q23.31) MUTATED      9   97
  DEL PEAK 17(10Q23.31) WILD-TYPE   33  524
                        clus
vv                       DEL PEAK 17(10Q23.31) MUTATED
  HISPANIC OR LATINO                                 9
  NOT HISPANIC OR LATINO                            97
                        clus
vv                       DEL PEAK 17(10Q23.31) WILD-TYPE
  HISPANIC OR LATINO                                  33
  NOT HISPANIC OR LATINO                             524
[1] 2 2
[1] FALSE

Clustering(31) Variable = DEL PEAK 18(11Q21) MUTATION ANALYSIS
D31V1, survival
                              sevent
clus2                            0   1
  DEL PEAK 18(11Q21) MUTATED    35  25
  DEL PEAK 18(11Q21) WILD-TYPE 610 203
  DEL PEAK 18(11Q21) MUTATED DEL PEAK 18(11Q21) WILD-TYPE 
                          60                          813 
  DEL PEAK 18(11Q21) MUTATED DEL PEAK 18(11Q21) WILD-TYPE 
                          25                          203 
$`DEL PEAK 18(11Q21) MUTATED`
TCGA-KL-8328 TCGA-KL-8331 TCGA-KL-8339 TCGA-KL-8345 TCGA-KM-8443 TCGA-KN-8427 
      102.81        98.96        28.11        54.74        49.97         0.99 
TCGA-KN-8428 TCGA-KN-8434 TCGA-KN-8436 TCGA-A3-3316 TCGA-A3-3346 TCGA-AK-3425 
       52.27        59.08        42.35        49.08         4.50       109.91 
TCGA-AK-3465 TCGA-B0-4696 TCGA-B0-4707 TCGA-B0-4819 TCGA-B0-4822 TCGA-B0-5084 
       12.13        28.47        19.73         6.02        36.53         7.30 
TCGA-B0-5094 TCGA-B0-5702 TCGA-B2-5641 TCGA-B4-5832 TCGA-B4-5838 TCGA-B8-4154 
       10.95        71.41        21.57         5.10         5.46        45.37 
TCGA-BP-4352 TCGA-BP-4768 TCGA-BP-4985 TCGA-BP-4986 TCGA-BP-5173 TCGA-BP-5201 
       11.31        13.15        31.30        25.81         1.74        31.27 
TCGA-CW-5588 TCGA-CZ-5465 TCGA-CZ-5468 TCGA-CZ-5469 TCGA-2Z-A9JE TCGA-2Z-A9JG 
       66.31        84.30         1.94        31.10        56.81        54.64 
TCGA-2Z-A9JI TCGA-4A-A93X TCGA-5P-A9K9 TCGA-A4-A5Y1 TCGA-B1-7332 TCGA-B9-A44B 
       51.52        12.82        19.36        12.99        37.51         2.10 
TCGA-BQ-5876 TCGA-BQ-5877 TCGA-BQ-5882 TCGA-BQ-5889 TCGA-BQ-5890 TCGA-BQ-7044 
       19.27         8.88        21.63        10.82         7.66       123.62 
TCGA-F9-A97G TCGA-G7-6789 TCGA-G7-6793 TCGA-G7-7502 TCGA-G7-A8LD TCGA-IA-A40Y 
        0.43         4.01        11.05        25.84        16.90         2.04 
TCGA-J7-8537 TCGA-PJ-A5Z8 TCGA-UZ-A9PQ TCGA-UZ-A9PS TCGA-Y8-A894 TCGA-Y8-A896 
       10.55        19.73        86.27        71.24        18.64        18.64 

$`DEL PEAK 18(11Q21) WILD-TYPE`
TCGA-KL-8323 TCGA-KL-8324 TCGA-KL-8325 TCGA-KL-8326 TCGA-KL-8327 TCGA-KL-8329 
       38.07       141.73        23.84       109.22       137.06        90.48 
TCGA-KL-8330 TCGA-KL-8332 TCGA-KL-8333 TCGA-KL-8334 TCGA-KL-8335 TCGA-KL-8336 
      108.62        84.89        98.33        96.95        92.55        30.25 
TCGA-KL-8337 TCGA-KL-8338 TCGA-KL-8340 TCGA-KL-8341 TCGA-KL-8342 TCGA-KL-8343 
       44.84        86.56        66.54        24.79        73.91        71.41 
TCGA-KL-8344 TCGA-KL-8346 TCGA-KM-8438 TCGA-KM-8439 TCGA-KM-8440 TCGA-KM-8441 
       28.80        62.37       151.96        23.28        44.91        28.80 
TCGA-KM-8442 TCGA-KM-8476 TCGA-KM-8477 TCGA-KM-8639 TCGA-KN-8418 TCGA-KN-8419 
       47.24       123.12        51.06        31.33       129.37        23.47 
TCGA-KN-8421 TCGA-KN-8422 TCGA-KN-8423 TCGA-KN-8424 TCGA-KN-8425 TCGA-KN-8426 
       87.91        25.48        25.91        65.19       104.52         3.55 
TCGA-KN-8429 TCGA-KN-8431 TCGA-KN-8432 TCGA-KN-8433 TCGA-KN-8435 TCGA-KN-8437 
       87.12        19.33         2.50        11.21       115.00       100.87 
TCGA-KO-8403 TCGA-KO-8404 TCGA-KO-8405 TCGA-KO-8406 TCGA-KO-8407 TCGA-KO-8408 
      105.47        10.68       100.47       103.40        92.71        16.67 
TCGA-KO-8409 TCGA-KO-8410 TCGA-KO-8411 TCGA-KO-8413 TCGA-KO-8414 TCGA-KO-8415 
      104.55       103.10       130.13        99.88       105.60        96.62 
TCGA-KO-8416 TCGA-KO-8417 TCGA-3Z-A93Z TCGA-6D-AA2E TCGA-A3-3306 TCGA-A3-3307 
       90.48        92.55        12.66        11.90        36.82        47.21 
TCGA-A3-3308 TCGA-A3-3311 TCGA-A3-3313 TCGA-A3-3317 TCGA-A3-3319 TCGA-A3-3320 
        0.53        39.16        24.16        49.02        37.15        49.58 
TCGA-A3-3322 TCGA-A3-3323 TCGA-A3-3324 TCGA-A3-3325 TCGA-A3-3326 TCGA-A3-3331 
       48.59        36.36        38.99        38.47        37.38        48.82 
TCGA-A3-3335 TCGA-A3-3336 TCGA-A3-3343 TCGA-A3-3347 TCGA-A3-3349 TCGA-A3-3351 
       62.01        34.29        31.07        52.93        45.53        29.92 
TCGA-A3-3352 TCGA-A3-3357 TCGA-A3-3358 TCGA-A3-3359 TCGA-A3-3362 TCGA-A3-3363 
       18.44        88.37        42.97        82.32        51.25        10.49 
TCGA-A3-3365 TCGA-A3-3367 TCGA-A3-3370 TCGA-A3-3372 TCGA-A3-3373 TCGA-A3-3374 
       28.70        74.63        74.76        24.16        53.29        43.20 
TCGA-A3-3376 TCGA-A3-3378 TCGA-A3-3380 TCGA-A3-3382 TCGA-A3-3383 TCGA-A3-3385 
       55.76        20.71        18.64        18.87        28.31        65.52 
TCGA-A3-3387 TCGA-A3-A6NI TCGA-A3-A6NJ TCGA-A3-A6NL TCGA-A3-A6NN TCGA-A3-A8CQ 
       20.28        33.47        15.39        22.65         0.10         0.10 
TCGA-A3-A8OV TCGA-A3-A8OW TCGA-AK-3426 TCGA-AK-3427 TCGA-AK-3428 TCGA-AK-3429 
       11.18        10.62        29.10       117.80        73.08       109.41 
TCGA-AK-3430 TCGA-AK-3431 TCGA-AK-3433 TCGA-AK-3434 TCGA-AK-3436 TCGA-AK-3440 
       15.78        73.68       112.08        68.61       109.51        94.19 
TCGA-AK-3443 TCGA-AK-3444 TCGA-AK-3445 TCGA-AK-3447 TCGA-AK-3450 TCGA-AK-3451 
       46.78        48.36        78.64        40.01        49.28        94.29 
TCGA-AK-3453 TCGA-AK-3454 TCGA-AK-3455 TCGA-AK-3456 TCGA-AK-3458 TCGA-AK-3460 
       83.21        28.73        22.45        37.58        38.40        82.45 
TCGA-AK-3461 TCGA-AS-3777 TCGA-AS-3778 TCGA-B0-4688 TCGA-B0-4690 TCGA-B0-4691 
       72.89        40.70         1.41         3.32         1.41         4.57 
TCGA-B0-4693 TCGA-B0-4694 TCGA-B0-4697 TCGA-B0-4698 TCGA-B0-4699 TCGA-B0-4700 
        2.53         3.48        19.00         1.38         3.62        65.10 
TCGA-B0-4701 TCGA-B0-4703 TCGA-B0-4706 TCGA-B0-4710 TCGA-B0-4712 TCGA-B0-4713 
        7.82         5.98         2.14        57.70        43.96         6.64 
TCGA-B0-4714 TCGA-B0-4718 TCGA-B0-4810 TCGA-B0-4811 TCGA-B0-4813 TCGA-B0-4814 
        3.25        58.45        15.72        46.59         0.59         5.52 
TCGA-B0-4815 TCGA-B0-4816 TCGA-B0-4817 TCGA-B0-4818 TCGA-B0-4821 TCGA-B0-4823 
       52.21        45.07        33.50        16.77        40.44        14.93 
TCGA-B0-4824 TCGA-B0-4827 TCGA-B0-4828 TCGA-B0-4833 TCGA-B0-4834 TCGA-B0-4836 
       54.48        29.10        10.09        78.44        68.71        40.70 
TCGA-B0-4837 TCGA-B0-4838 TCGA-B0-4839 TCGA-B0-4841 TCGA-B0-4842 TCGA-B0-4843 
       45.30        27.42        53.88         6.71        56.68        10.52 
TCGA-B0-4844 TCGA-B0-4845 TCGA-B0-4846 TCGA-B0-4847 TCGA-B0-4848 TCGA-B0-4849 
       10.29        65.29        39.45        26.07        29.03         2.27 
TCGA-B0-4852 TCGA-B0-4945 TCGA-B0-5075 TCGA-B0-5077 TCGA-B0-5080 TCGA-B0-5081 
       36.85        70.52        20.94        43.30        11.24        11.90 
TCGA-B0-5085 TCGA-B0-5088 TCGA-B0-5092 TCGA-B0-5095 TCGA-B0-5096 TCGA-B0-5097 
       25.32        18.51        15.09         8.05         2.24        21.86 
TCGA-B0-5098 TCGA-B0-5099 TCGA-B0-5100 TCGA-B0-5102 TCGA-B0-5104 TCGA-B0-5106 
       52.08        15.95        62.89        90.87        90.48        52.54 
TCGA-B0-5107 TCGA-B0-5108 TCGA-B0-5109 TCGA-B0-5110 TCGA-B0-5113 TCGA-B0-5115 
       30.48        58.59        19.30        66.05        38.63        52.73 
TCGA-B0-5116 TCGA-B0-5117 TCGA-B0-5119 TCGA-B0-5120 TCGA-B0-5121 TCGA-B0-5399 
       41.88        52.87        51.02        38.43        48.82        46.39 
TCGA-B0-5400 TCGA-B0-5402 TCGA-B0-5690 TCGA-B0-5691 TCGA-B0-5692 TCGA-B0-5693 
       56.98        42.41       111.52       112.80       129.67       133.94 
TCGA-B0-5694 TCGA-B0-5695 TCGA-B0-5696 TCGA-B0-5697 TCGA-B0-5698 TCGA-B0-5699 
       15.78        70.68        85.78        86.47       119.38       126.28 
TCGA-B0-5701 TCGA-B0-5703 TCGA-B0-5705 TCGA-B0-5706 TCGA-B0-5709 TCGA-B0-5710 
       80.91        73.84       149.16       105.37       130.65        79.89 
TCGA-B0-5711 TCGA-B0-5712 TCGA-B0-5713 TCGA-B0-5812 TCGA-B2-3923 TCGA-B2-3924 
      131.15        89.49        91.46       126.05        32.61        35.90 
TCGA-B2-4098 TCGA-B2-4099 TCGA-B2-4101 TCGA-B2-4102 TCGA-B2-5633 TCGA-B2-5635 
        1.68        31.96        21.30        31.30        31.66        24.82 
TCGA-B2-5639 TCGA-B2-A4SR TCGA-B4-5377 TCGA-B4-5378 TCGA-B4-5834 TCGA-B4-5835 
       32.98        16.67        12.00         5.75         0.85         0.53 
TCGA-B4-5836 TCGA-B4-5843 TCGA-B4-5844 TCGA-B8-4143 TCGA-B8-4146 TCGA-B8-4148 
        4.64         0.36         0.23        23.31        16.80        27.16 
TCGA-B8-4151 TCGA-B8-4153 TCGA-B8-4619 TCGA-B8-4620 TCGA-B8-4621 TCGA-B8-4622 
       42.71        25.05        17.19        25.55        25.91        50.14 
TCGA-B8-5158 TCGA-B8-5159 TCGA-B8-5162 TCGA-B8-5163 TCGA-B8-5164 TCGA-B8-5165 
       20.91        23.74         1.18        27.02         0.85        24.23 
TCGA-B8-5545 TCGA-B8-5546 TCGA-B8-5549 TCGA-B8-5550 TCGA-B8-5551 TCGA-B8-5552 
       50.14        16.60         6.38        48.53         0.53        34.39 
TCGA-B8-5553 TCGA-B8-A54D TCGA-B8-A54E TCGA-B8-A54F TCGA-B8-A54G TCGA-B8-A54H 
       14.30        27.29        29.88        17.06         1.74         8.42 
TCGA-B8-A54I TCGA-B8-A54J TCGA-B8-A54K TCGA-B8-A7U6 TCGA-B8-A8YJ TCGA-BP-4158 
        4.93        17.36        15.42        16.27        14.17       111.02 
TCGA-BP-4159 TCGA-BP-4160 TCGA-BP-4161 TCGA-BP-4162 TCGA-BP-4163 TCGA-BP-4164 
       85.51        94.72        90.28       101.06        93.34        32.61 
TCGA-BP-4165 TCGA-BP-4166 TCGA-BP-4167 TCGA-BP-4169 TCGA-BP-4170 TCGA-BP-4173 
       99.85         0.43        89.36        23.05        77.03        62.24 
TCGA-BP-4174 TCGA-BP-4176 TCGA-BP-4177 TCGA-BP-4325 TCGA-BP-4326 TCGA-BP-4327 
       61.78        64.27        54.90        97.45        53.42         3.58 
TCGA-BP-4329 TCGA-BP-4330 TCGA-BP-4331 TCGA-BP-4332 TCGA-BP-4334 TCGA-BP-4335 
       27.78        62.07        80.68        37.25        21.21        15.16 
TCGA-BP-4337 TCGA-BP-4338 TCGA-BP-4340 TCGA-BP-4341 TCGA-BP-4342 TCGA-BP-4343 
        0.07        93.99        18.48        52.24        74.17        62.86 
TCGA-BP-4344 TCGA-BP-4346 TCGA-BP-4347 TCGA-BP-4349 TCGA-BP-4351 TCGA-BP-4353 
       54.77        49.08        44.94        12.23        31.89        12.33 
TCGA-BP-4354 TCGA-BP-4355 TCGA-BP-4756 TCGA-BP-4758 TCGA-BP-4759 TCGA-BP-4760 
       33.99        31.33        12.30        72.59        77.98        77.62 
TCGA-BP-4761 TCGA-BP-4762 TCGA-BP-4763 TCGA-BP-4765 TCGA-BP-4766 TCGA-BP-4769 
        5.98        44.15        41.75        71.80        48.07        61.68 
TCGA-BP-4770 TCGA-BP-4771 TCGA-BP-4774 TCGA-BP-4775 TCGA-BP-4776 TCGA-BP-4777 
       10.82         5.33        61.97        60.59        13.51        56.91 
TCGA-BP-4781 TCGA-BP-4782 TCGA-BP-4784 TCGA-BP-4787 TCGA-BP-4789 TCGA-BP-4790 
       68.38        11.64        60.95        15.78        48.95        36.53 
TCGA-BP-4795 TCGA-BP-4797 TCGA-BP-4798 TCGA-BP-4799 TCGA-BP-4801 TCGA-BP-4803 
       20.38        36.39        10.98        37.25        36.95         6.71 
TCGA-BP-4804 TCGA-BP-4807 TCGA-BP-4959 TCGA-BP-4960 TCGA-BP-4961 TCGA-BP-4962 
       47.97         6.94        87.45        71.41        63.62        58.68 
TCGA-BP-4963 TCGA-BP-4964 TCGA-BP-4965 TCGA-BP-4967 TCGA-BP-4968 TCGA-BP-4969 
       60.30        61.22        61.51         6.74        57.40        58.98 
TCGA-BP-4970 TCGA-BP-4971 TCGA-BP-4972 TCGA-BP-4973 TCGA-BP-4974 TCGA-BP-4975 
       14.24        48.89        49.38        45.50         6.90        47.11 
TCGA-BP-4976 TCGA-BP-4977 TCGA-BP-4981 TCGA-BP-4982 TCGA-BP-4983 TCGA-BP-4987 
       53.65        14.93        36.07        33.34        46.45        36.95 
TCGA-BP-4988 TCGA-BP-4989 TCGA-BP-4991 TCGA-BP-4992 TCGA-BP-4993 TCGA-BP-4994 
       27.22         3.88        46.45        16.47         5.82        43.00 
TCGA-BP-4995 TCGA-BP-4998 TCGA-BP-4999 TCGA-BP-5000 TCGA-BP-5001 TCGA-BP-5004 
       45.07        30.64        41.62        18.51        38.70        37.02 
TCGA-BP-5006 TCGA-BP-5007 TCGA-BP-5008 TCGA-BP-5009 TCGA-BP-5010 TCGA-BP-5168 
       27.62        37.48        35.21        36.23        28.87        48.10 
TCGA-BP-5169 TCGA-BP-5170 TCGA-BP-5174 TCGA-BP-5175 TCGA-BP-5176 TCGA-BP-5177 
        6.35        79.30        74.20        30.64        52.27         9.63 
TCGA-BP-5178 TCGA-BP-5180 TCGA-BP-5181 TCGA-BP-5182 TCGA-BP-5183 TCGA-BP-5184 
       62.86        74.40        49.15        38.30        42.44        37.25 
TCGA-BP-5185 TCGA-BP-5186 TCGA-BP-5187 TCGA-BP-5189 TCGA-BP-5190 TCGA-BP-5191 
       37.22        22.78        13.35        27.02        33.24        31.79 
TCGA-BP-5192 TCGA-BP-5194 TCGA-BP-5195 TCGA-BP-5196 TCGA-BP-5198 TCGA-BP-5199 
       23.47        13.41        24.62        33.47        19.82        44.55 
TCGA-BP-5200 TCGA-BP-5202 TCGA-CJ-4634 TCGA-CJ-4635 TCGA-CJ-4636 TCGA-CJ-4637 
       34.95         0.95       115.00        46.55        63.25        73.22 
TCGA-CJ-4638 TCGA-CJ-4639 TCGA-CJ-4640 TCGA-CJ-4641 TCGA-CJ-4642 TCGA-CJ-4643 
       14.17       106.16       114.41        54.61       105.37        58.95 
TCGA-CJ-4644 TCGA-CJ-4868 TCGA-CJ-4869 TCGA-CJ-4870 TCGA-CJ-4871 TCGA-CJ-4872 
       11.05        21.24        83.97        49.25        79.66        10.72 
TCGA-CJ-4873 TCGA-CJ-4874 TCGA-CJ-4875 TCGA-CJ-4876 TCGA-CJ-4878 TCGA-CJ-4881 
       74.27        75.06       116.84        64.27        71.87        66.21 
TCGA-CJ-4882 TCGA-CJ-4884 TCGA-CJ-4885 TCGA-CJ-4886 TCGA-CJ-4887 TCGA-CJ-4888 
       61.91        57.83       113.46        64.18        30.64        51.52 
TCGA-CJ-4889 TCGA-CJ-4890 TCGA-CJ-4891 TCGA-CJ-4892 TCGA-CJ-4893 TCGA-CJ-4894 
       63.98       115.69        26.93        50.01        24.66        27.65 
TCGA-CJ-4895 TCGA-CJ-4897 TCGA-CJ-4899 TCGA-CJ-4900 TCGA-CJ-4901 TCGA-CJ-4902 
       39.45       109.84        50.24        56.35        47.67        49.97 
TCGA-CJ-4903 TCGA-CJ-4904 TCGA-CJ-4905 TCGA-CJ-4907 TCGA-CJ-4908 TCGA-CJ-4912 
       51.25       108.56        49.18        49.28        50.33        54.48 
TCGA-CJ-4913 TCGA-CJ-4916 TCGA-CJ-4918 TCGA-CJ-4920 TCGA-CJ-4923 TCGA-CJ-5671 
       38.56        45.14         3.06         4.57        18.81       131.08 
TCGA-CJ-5672 TCGA-CJ-5675 TCGA-CJ-5676 TCGA-CJ-5677 TCGA-CJ-5678 TCGA-CJ-5679 
       72.00       129.40       133.71        25.71        18.87        22.32 
TCGA-CJ-5680 TCGA-CJ-5681 TCGA-CJ-5682 TCGA-CJ-5683 TCGA-CJ-5684 TCGA-CJ-5686 
       25.25        18.15       122.83        62.10        73.35        67.00 
TCGA-CJ-5689 TCGA-CJ-6027 TCGA-CJ-6028 TCGA-CJ-6030 TCGA-CJ-6031 TCGA-CJ-6032 
       53.26       118.85        53.42        75.58        62.66       119.64 
TCGA-CJ-6033 TCGA-CW-5580 TCGA-CW-5581 TCGA-CW-5583 TCGA-CW-5584 TCGA-CW-5585 
        7.36        64.57        92.02        81.83         5.39        85.78 
TCGA-CW-5587 TCGA-CW-5589 TCGA-CW-5591 TCGA-CW-6087 TCGA-CW-6088 TCGA-CW-6090 
       73.18        78.18        74.66         1.35       105.93        83.90 
TCGA-CW-6093 TCGA-CW-6097 TCGA-CZ-4853 TCGA-CZ-4854 TCGA-CZ-4856 TCGA-CZ-4857 
      103.43        18.77        25.45        46.16         0.59        47.08 
TCGA-CZ-4858 TCGA-CZ-4859 TCGA-CZ-4860 TCGA-CZ-4861 TCGA-CZ-4862 TCGA-CZ-4863 
       69.21        58.75         6.77        14.66       107.54        63.39 
TCGA-CZ-4864 TCGA-CZ-4865 TCGA-CZ-4866 TCGA-CZ-5451 TCGA-CZ-5452 TCGA-CZ-5453 
       93.04         5.46        61.41        63.42        58.82        79.53 
TCGA-CZ-5454 TCGA-CZ-5455 TCGA-CZ-5456 TCGA-CZ-5457 TCGA-CZ-5458 TCGA-CZ-5459 
       23.74        18.44        79.63        90.54        91.69        55.33 
TCGA-CZ-5460 TCGA-CZ-5461 TCGA-CZ-5462 TCGA-CZ-5463 TCGA-CZ-5464 TCGA-CZ-5466 
       94.45        10.85        10.22        21.76        69.96        22.52 
TCGA-CZ-5467 TCGA-CZ-5470 TCGA-CZ-5982 TCGA-CZ-5984 TCGA-CZ-5985 TCGA-CZ-5986 
        2.40        12.69        80.19        67.96        65.65        12.26 
TCGA-CZ-5987 TCGA-CZ-5988 TCGA-CZ-5989 TCGA-DV-5565 TCGA-DV-5566 TCGA-DV-5567 
       14.63        22.78        62.63        13.28        45.96        65.88 
TCGA-DV-5568 TCGA-DV-5569 TCGA-DV-5573 TCGA-DV-5574 TCGA-DV-5575 TCGA-DV-5576 
       12.16        11.67        37.15        66.28        56.84        23.90 
TCGA-DV-A4VX TCGA-DV-A4VZ TCGA-DV-A4W0 TCGA-EU-5904 TCGA-EU-5905 TCGA-EU-5906 
       53.46        12.00        81.21        18.12         3.91         6.77 
TCGA-EU-5907 TCGA-G6-A5PC TCGA-G6-A8L6 TCGA-G6-A8L7 TCGA-G6-A8L8 TCGA-GK-A6C7 
        4.18         7.96        10.29        70.13        35.87         2.01 
TCGA-MM-A563 TCGA-MM-A564 TCGA-MM-A84U TCGA-MW-A4EC TCGA-T7-A92I TCGA-2K-A9WE 
       19.43        19.96        23.01        16.37        11.70         7.04 
TCGA-2Z-A9J1 TCGA-2Z-A9J2 TCGA-2Z-A9J3 TCGA-2Z-A9J5 TCGA-2Z-A9J6 TCGA-2Z-A9J7 
       75.55        59.01        58.22       100.27        56.91         4.57 
TCGA-2Z-A9J8 TCGA-2Z-A9J9 TCGA-2Z-A9JD TCGA-2Z-A9JJ TCGA-2Z-A9JK TCGA-2Z-A9JL 
       91.73        75.42        34.85        39.88        38.99        33.07 
TCGA-2Z-A9JM TCGA-2Z-A9JN TCGA-2Z-A9JO TCGA-2Z-A9JP TCGA-2Z-A9JQ TCGA-2Z-A9JR 
       30.71        24.33        31.20        29.36        25.58         5.29 
TCGA-2Z-A9JS TCGA-2Z-A9JT TCGA-4A-A93W TCGA-4A-A93Y TCGA-5P-A9JU TCGA-5P-A9JV 
       16.18        22.49         0.13        11.57        12.26        67.17 
TCGA-5P-A9JW TCGA-5P-A9JY TCGA-5P-A9JZ TCGA-5P-A9K0 TCGA-5P-A9K2 TCGA-5P-A9K3 
      106.55        49.58        90.21        22.26        78.64        15.48 
TCGA-5P-A9K4 TCGA-5P-A9K6 TCGA-5P-A9K8 TCGA-5P-A9KA TCGA-5P-A9KC TCGA-5P-A9KE 
       71.80        62.93        43.04        12.99        12.39        27.09 
TCGA-5P-A9KH TCGA-A4-7286 TCGA-A4-7287 TCGA-A4-7288 TCGA-A4-7583 TCGA-A4-7584 
       67.43        18.21        19.63        61.05         0.10        21.37 
TCGA-A4-7585 TCGA-A4-7732 TCGA-A4-7734 TCGA-A4-7828 TCGA-A4-7915 TCGA-A4-7996 
       35.18        19.13         0.89         7.82         0.23        16.64 
TCGA-A4-7997 TCGA-A4-8098 TCGA-A4-8310 TCGA-A4-8311 TCGA-A4-8312 TCGA-A4-8515 
       30.48        29.46        25.64        23.97        23.28        23.31 
TCGA-A4-8516 TCGA-A4-8517 TCGA-A4-8518 TCGA-A4-8630 TCGA-A4-A48D TCGA-A4-A4ZT 
        0.76        19.63        19.73        14.33        12.46        16.96 
TCGA-A4-A57E TCGA-A4-A5DU TCGA-A4-A5XZ TCGA-A4-A5Y0 TCGA-A4-A6HP TCGA-AL-3466 
        8.48        16.31        15.75         8.28        12.46         9.63 
TCGA-AL-3467 TCGA-AL-3468 TCGA-AL-3471 TCGA-AL-3472 TCGA-AL-3473 TCGA-AL-7173 
       70.19        76.64        49.32        66.71        62.66        67.73 
TCGA-AL-A5DJ TCGA-AT-A5NU TCGA-B1-5398 TCGA-B1-A47M TCGA-B1-A47N TCGA-B1-A47O 
       49.25         2.20        19.56        21.67        24.56        16.87 
TCGA-B1-A654 TCGA-B1-A655 TCGA-B1-A656 TCGA-B1-A657 TCGA-B3-3925 TCGA-B3-3926 
       20.25        16.77        20.32        21.07        33.83        10.09 
TCGA-B3-4103 TCGA-B3-4104 TCGA-B3-8121 TCGA-B3-A6W5 TCGA-B9-4113 TCGA-B9-4114 
       30.58        34.49        12.46        10.16        50.50        28.18 
TCGA-B9-4115 TCGA-B9-4116 TCGA-B9-4117 TCGA-B9-4617 TCGA-B9-5155 TCGA-B9-5156 
       26.40        20.61         0.46         1.15        15.12        43.99 
TCGA-B9-7268 TCGA-B9-A5W7 TCGA-B9-A5W8 TCGA-B9-A5W9 TCGA-B9-A69E TCGA-B9-A8YH 
       22.06        19.23        17.23         0.16        14.86        17.49 
TCGA-B9-A8YI TCGA-BQ-5875 TCGA-BQ-5878 TCGA-BQ-5879 TCGA-BQ-5880 TCGA-BQ-5881 
       12.30        86.76        63.72        22.92        43.20        47.80 
TCGA-BQ-5883 TCGA-BQ-5884 TCGA-BQ-5885 TCGA-BQ-5886 TCGA-BQ-5887 TCGA-BQ-5888 
       40.83        26.04        30.28        26.04        25.35        13.25 
TCGA-BQ-5891 TCGA-BQ-5892 TCGA-BQ-5893 TCGA-BQ-5894 TCGA-BQ-7045 TCGA-BQ-7046 
        0.95        11.97         7.92         2.76        48.26        96.92 
TCGA-BQ-7048 TCGA-BQ-7049 TCGA-BQ-7050 TCGA-BQ-7051 TCGA-BQ-7053 TCGA-BQ-7055 
       93.34        44.84        61.28        50.40        49.84        26.27 
TCGA-BQ-7056 TCGA-BQ-7058 TCGA-BQ-7059 TCGA-BQ-7060 TCGA-BQ-7061 TCGA-BQ-7062 
       20.12        11.28         7.63         7.04         7.17         3.81 
TCGA-DW-5560 TCGA-DW-5561 TCGA-DW-7834 TCGA-DW-7836 TCGA-DW-7837 TCGA-DW-7838 
       48.85        13.61       129.86        35.93        37.55        24.46 
TCGA-DW-7839 TCGA-DW-7840 TCGA-DW-7841 TCGA-DW-7842 TCGA-DW-7963 TCGA-DZ-6131 
       13.78         3.75        14.63         3.02        40.77        79.86 
TCGA-DZ-6132 TCGA-DZ-6133 TCGA-DZ-6134 TCGA-DZ-6135 TCGA-EV-5901 TCGA-EV-5902 
       80.88        51.19        61.02        74.60        34.19        19.00 
TCGA-EV-5903 TCGA-F9-A4JJ TCGA-F9-A7Q0 TCGA-F9-A7VF TCGA-F9-A8NY TCGA-G7-6790 
       24.89        10.68        13.08         2.40         1.18        51.78 
TCGA-G7-6792 TCGA-G7-6795 TCGA-G7-6796 TCGA-G7-6797 TCGA-G7-7501 TCGA-G7-A4TM 
       90.90        39.25        71.44        25.15        20.52         6.38 
TCGA-G7-A8LB TCGA-G7-A8LC TCGA-G7-A8LE TCGA-GL-6846 TCGA-GL-7773 TCGA-GL-7966 
       17.98        23.08        80.65       194.79        12.92         3.68 
TCGA-GL-8500 TCGA-GL-A4EM TCGA-GL-A59R TCGA-GL-A59T TCGA-GL-A9DC TCGA-GL-A9DD 
       27.65         1.05        12.43        17.95        12.89        11.21 
TCGA-GL-A9DE TCGA-HE-A5NF TCGA-HE-A5NH TCGA-HE-A5NI TCGA-HE-A5NJ TCGA-HE-A5NK 
       16.31        84.89        26.01        11.84        56.75        73.25 
TCGA-HE-A5NL TCGA-IA-A40U TCGA-IA-A40X TCGA-IA-A83S TCGA-IA-A83T TCGA-IA-A83V 
       25.22        16.80        19.99        85.78        88.24        96.69 
TCGA-IA-A83W TCGA-IZ-8195 TCGA-IZ-8196 TCGA-IZ-A6M8 TCGA-IZ-A6M9 TCGA-J7-6720 
       67.17        22.26        21.34        16.34        12.36        12.76 
TCGA-KV-A6GD TCGA-KV-A6GE TCGA-KV-A74V TCGA-MH-A55W TCGA-MH-A55Z TCGA-MH-A560 
       18.41        29.10        11.41        34.29        27.78        30.38 
TCGA-MH-A561 TCGA-MH-A562 TCGA-MH-A854 TCGA-MH-A855 TCGA-MH-A856 TCGA-MH-A857 
       27.65        20.25        17.62        12.13        31.13        29.26 
TCGA-O9-A75Z TCGA-P4-A5E6 TCGA-P4-A5E7 TCGA-P4-A5E8 TCGA-P4-A5EA TCGA-P4-A5EB 
       15.48        99.78        87.09        42.94         6.61        99.12 
TCGA-P4-A5ED TCGA-P4-AAVK TCGA-P4-AAVL TCGA-P4-AAVM TCGA-P4-AAVO TCGA-PJ-A5Z9 
       92.58        52.27        16.01        50.60        78.90        17.75 
TCGA-Q2-A5QZ TCGA-SX-A71R TCGA-SX-A71S TCGA-SX-A71U TCGA-SX-A71V TCGA-SX-A7SL 
       14.07        47.90        49.45        44.61        28.80        27.06 
TCGA-SX-A7SM TCGA-SX-A7SN TCGA-SX-A7SO TCGA-SX-A7SP TCGA-SX-A7SQ TCGA-SX-A7SR 
       11.93        19.00        41.33        16.31        41.62        26.47 
TCGA-SX-A7SS TCGA-SX-A7SU TCGA-UN-AAZ9 TCGA-UZ-A9PJ TCGA-UZ-A9PK TCGA-UZ-A9PL 
       53.10        43.76        18.02        26.20       117.40       103.63 
TCGA-UZ-A9PM TCGA-UZ-A9PN TCGA-UZ-A9PO TCGA-UZ-A9PP TCGA-UZ-A9PR TCGA-UZ-A9PU 
      125.29        37.35        62.83        98.96        86.37        30.67 
TCGA-UZ-A9PV TCGA-UZ-A9PX TCGA-UZ-A9PZ TCGA-UZ-A9Q0 TCGA-UZ-A9Q1 TCGA-V9-A7HT 
       47.47        65.13        21.60       110.73        51.35        31.73 
TCGA-WN-A9G9 TCGA-WN-AB4C TCGA-Y8-A895 TCGA-Y8-A897 TCGA-Y8-A898 TCGA-Y8-A8RY 
       26.01        39.06        15.91        18.05        15.62        25.28 
TCGA-Y8-A8RZ TCGA-Y8-A8S0 TCGA-Y8-A8S1 
        3.68         6.02        13.28 

  DEL PEAK 18(11Q21) MUTATED DEL PEAK 18(11Q21) WILD-TYPE 
                        0.43                         0.07 
  DEL PEAK 18(11Q21) MUTATED DEL PEAK 18(11Q21) WILD-TYPE 
                      123.62                       194.79 
  DEL PEAK 18(11Q21) MUTATED DEL PEAK 18(11Q21) WILD-TYPE 
                       20.65                        36.23 
[1] "0.4 - 123.6 (20.6)" "0.1 - 194.8 (36.2)"
[1] "hr=" "2.2"
D31V2, continuous
                              vv
clus                           STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK 18(11Q21) MUTATED        16       11        19       14
  DEL PEAK 18(11Q21) WILD-TYPE     439       93       172       90
D31V3, multiclass
           clus
vv          DEL PEAK 18(11Q21) MUTATED DEL PEAK 18(11Q21) WILD-TYPE
  STAGE I                           16                          439
  STAGE II                          11                           93
  STAGE III                         19                          172
  STAGE IV                          14                           90
[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                            T1  T2  T3  T4
  DEL PEAK 18(11Q21) MUTATED    17  12  31   1
  DEL PEAK 18(11Q21) WILD-TYPE 462 115 227  14
D31V4, multiclass
    clus
vv   DEL PEAK 18(11Q21) MUTATED DEL PEAK 18(11Q21) WILD-TYPE
  T1                         17                          462
  T2                         12                          115
  T3                         31                          227
  T4                          1                           14
[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                            N0  N1  N2
  DEL PEAK 18(11Q21) MUTATED    21  12   3
  DEL PEAK 18(11Q21) WILD-TYPE 301  32   4
D31V5, multiclass
    clus
vv   DEL PEAK 18(11Q21) MUTATED DEL PEAK 18(11Q21) WILD-TYPE
  N0                         21                          301
  N1                         12                           32
  N2                          3                            4
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D31V6, binary
                              cls
clus                             0   1
  DEL PEAK 18(11Q21) MUTATED    30   9
  DEL PEAK 18(11Q21) WILD-TYPE 515  80
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 18(11Q21) MUTATED     30    9
  DEL PEAK 18(11Q21) WILD-TYPE  515   80
   clus
vv  DEL PEAK 18(11Q21) MUTATED DEL PEAK 18(11Q21) WILD-TYPE
  0                         30                          515
  1                          9                           80
[1] 2 2
[1] FALSE
D31V7, binary
                              cls
clus                             0   1
  DEL PEAK 18(11Q21) MUTATED    19  42
  DEL PEAK 18(11Q21) WILD-TYPE 273 547
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 18(11Q21) MUTATED     19   42
  DEL PEAK 18(11Q21) WILD-TYPE  273  547
        clus
vv       DEL PEAK 18(11Q21) MUTATED DEL PEAK 18(11Q21) WILD-TYPE
  FEMALE                         19                          273
  MALE                           42                          547
[1] 2 2
[1] FALSE
D31V8, binary
                              cls
clus                             0   1
  DEL PEAK 18(11Q21) MUTATED    32   0
  DEL PEAK 18(11Q21) WILD-TYPE 368   3
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 18(11Q21) MUTATED     32    0
  DEL PEAK 18(11Q21) WILD-TYPE  368    3
     clus
vv    DEL PEAK 18(11Q21) MUTATED DEL PEAK 18(11Q21) WILD-TYPE
  NO                          32                          368
  YES                          0                            3
[1] 2 2
[1] FALSE
D31V9, continuous
                              vv
clus                           KIDNEY CHROMOPHOBE
  DEL PEAK 18(11Q21) MUTATED                    9
  DEL PEAK 18(11Q21) WILD-TYPE                 57
                              vv
clus                           KIDNEY CLEAR CELL RENAL CARCINOMA
  DEL PEAK 18(11Q21) MUTATED                                  25
  DEL PEAK 18(11Q21) WILD-TYPE                               503
                              vv
clus                           KIDNEY PAPILLARY RENAL CELL CARCINOMA
  DEL PEAK 18(11Q21) MUTATED                                      27
  DEL PEAK 18(11Q21) WILD-TYPE                                   260
D31V10, multiclass
                                       clus
vv                                      DEL PEAK 18(11Q21) MUTATED
  KIDNEY CHROMOPHOBE                                             9
  KIDNEY CLEAR CELL RENAL CARCINOMA                             25
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                         27
                                       clus
vv                                      DEL PEAK 18(11Q21) WILD-TYPE
  KIDNEY CHROMOPHOBE                                              57
  KIDNEY CLEAR CELL RENAL CARCINOMA                              503
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                          260
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D31V11, continuous
D31V12, continuous
                              vv
clus                           AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 18(11Q21) MUTATED                                  0     2
  DEL PEAK 18(11Q21) WILD-TYPE                                2    13
                              vv
clus                           BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 18(11Q21) MUTATED                           6    50
  DEL PEAK 18(11Q21) WILD-TYPE                       115   669
D31V13, multiclass
                                  clus
vv                                 DEL PEAK 18(11Q21) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                          0
  ASIAN                                                     2
  BLACK OR AFRICAN AMERICAN                                 6
  WHITE                                                    50
                                  clus
vv                                 DEL PEAK 18(11Q21) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                            2
  ASIAN                                                      13
  BLACK OR AFRICAN AMERICAN                                 115
  WHITE                                                     669
[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"
D31V14, binary
                              cls
clus                             0   1
  DEL PEAK 18(11Q21) MUTATED     1  44
  DEL PEAK 18(11Q21) WILD-TYPE  41 577
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 18(11Q21) MUTATED      1   44
  DEL PEAK 18(11Q21) WILD-TYPE   41  577
                        clus
vv                       DEL PEAK 18(11Q21) MUTATED
  HISPANIC OR LATINO                              1
  NOT HISPANIC OR LATINO                         44
                        clus
vv                       DEL PEAK 18(11Q21) WILD-TYPE
  HISPANIC OR LATINO                               41
  NOT HISPANIC OR LATINO                          577
[1] 2 2
[1] FALSE

Clustering(32) Variable = DEL PEAK 19(11Q23.1) MUTATION ANALYSIS
D32V1, survival
                                sevent
clus2                              0   1
  DEL PEAK 19(11Q23.1) MUTATED    41  28
  DEL PEAK 19(11Q23.1) WILD-TYPE 604 200
  DEL PEAK 19(11Q23.1) MUTATED DEL PEAK 19(11Q23.1) WILD-TYPE 
                            69                            804 
  DEL PEAK 19(11Q23.1) MUTATED DEL PEAK 19(11Q23.1) WILD-TYPE 
                            28                            200 
$`DEL PEAK 19(11Q23.1) MUTATED`
TCGA-KL-8328 TCGA-KL-8331 TCGA-KL-8345 TCGA-KM-8443 TCGA-KN-8427 TCGA-KN-8428 
      102.81        98.96        54.74        49.97         0.99        52.27 
TCGA-KN-8434 TCGA-KN-8436 TCGA-KO-8404 TCGA-A3-3316 TCGA-A3-3346 TCGA-AK-3425 
       59.08        42.35        10.68        49.08         4.50       109.91 
TCGA-AK-3465 TCGA-B0-4690 TCGA-B0-4696 TCGA-B0-4707 TCGA-B0-4819 TCGA-B0-4822 
       12.13         1.41        28.47        19.73         6.02        36.53 
TCGA-B0-5084 TCGA-B0-5094 TCGA-B0-5702 TCGA-B2-5641 TCGA-B4-5832 TCGA-B4-5838 
        7.30        10.95        71.41        21.57         5.10         5.46 
TCGA-BP-4352 TCGA-BP-4768 TCGA-BP-4983 TCGA-BP-4985 TCGA-BP-4986 TCGA-BP-5173 
       11.31        13.15        46.45        31.30        25.81         1.74 
TCGA-BP-5201 TCGA-CW-5588 TCGA-CW-6088 TCGA-CZ-5458 TCGA-CZ-5465 TCGA-CZ-5468 
       31.27        66.31       105.93        91.69        84.30         1.94 
TCGA-CZ-5469 TCGA-CZ-5985 TCGA-G6-A8L7 TCGA-2Z-A9J7 TCGA-2Z-A9JE TCGA-2Z-A9JG 
       31.10        65.65        70.13         4.57        56.81        54.64 
TCGA-2Z-A9JI TCGA-4A-A93X TCGA-5P-A9K9 TCGA-A4-A5Y1 TCGA-AL-A5DJ TCGA-B1-7332 
       51.52        12.82        19.36        12.99        49.25        37.51 
TCGA-B3-4104 TCGA-B9-A44B TCGA-BQ-5876 TCGA-BQ-5877 TCGA-BQ-5882 TCGA-BQ-5889 
       34.49         2.10        19.27         8.88        21.63        10.82 
TCGA-BQ-5890 TCGA-BQ-7044 TCGA-F9-A97G TCGA-G7-6789 TCGA-G7-6793 TCGA-G7-7502 
        7.66       123.62         0.43         4.01        11.05        25.84 
TCGA-G7-A8LD TCGA-IA-A40Y TCGA-J7-8537 TCGA-PJ-A5Z8 TCGA-UZ-A9PQ TCGA-UZ-A9PS 
       16.90         2.04        10.55        19.73        86.27        71.24 
TCGA-Y8-A894 TCGA-Y8-A896 TCGA-Y8-A8S1 
       18.64        18.64        13.28 

$`DEL PEAK 19(11Q23.1) WILD-TYPE`
TCGA-KL-8323 TCGA-KL-8324 TCGA-KL-8325 TCGA-KL-8326 TCGA-KL-8327 TCGA-KL-8329 
       38.07       141.73        23.84       109.22       137.06        90.48 
TCGA-KL-8330 TCGA-KL-8332 TCGA-KL-8333 TCGA-KL-8334 TCGA-KL-8335 TCGA-KL-8336 
      108.62        84.89        98.33        96.95        92.55        30.25 
TCGA-KL-8337 TCGA-KL-8338 TCGA-KL-8339 TCGA-KL-8340 TCGA-KL-8341 TCGA-KL-8342 
       44.84        86.56        28.11        66.54        24.79        73.91 
TCGA-KL-8343 TCGA-KL-8344 TCGA-KL-8346 TCGA-KM-8438 TCGA-KM-8439 TCGA-KM-8440 
       71.41        28.80        62.37       151.96        23.28        44.91 
TCGA-KM-8441 TCGA-KM-8442 TCGA-KM-8476 TCGA-KM-8477 TCGA-KM-8639 TCGA-KN-8418 
       28.80        47.24       123.12        51.06        31.33       129.37 
TCGA-KN-8419 TCGA-KN-8421 TCGA-KN-8422 TCGA-KN-8423 TCGA-KN-8424 TCGA-KN-8425 
       23.47        87.91        25.48        25.91        65.19       104.52 
TCGA-KN-8426 TCGA-KN-8429 TCGA-KN-8431 TCGA-KN-8432 TCGA-KN-8433 TCGA-KN-8435 
        3.55        87.12        19.33         2.50        11.21       115.00 
TCGA-KN-8437 TCGA-KO-8403 TCGA-KO-8405 TCGA-KO-8406 TCGA-KO-8407 TCGA-KO-8408 
      100.87       105.47       100.47       103.40        92.71        16.67 
TCGA-KO-8409 TCGA-KO-8410 TCGA-KO-8411 TCGA-KO-8413 TCGA-KO-8414 TCGA-KO-8415 
      104.55       103.10       130.13        99.88       105.60        96.62 
TCGA-KO-8416 TCGA-KO-8417 TCGA-3Z-A93Z TCGA-6D-AA2E TCGA-A3-3306 TCGA-A3-3307 
       90.48        92.55        12.66        11.90        36.82        47.21 
TCGA-A3-3308 TCGA-A3-3311 TCGA-A3-3313 TCGA-A3-3317 TCGA-A3-3319 TCGA-A3-3320 
        0.53        39.16        24.16        49.02        37.15        49.58 
TCGA-A3-3322 TCGA-A3-3323 TCGA-A3-3324 TCGA-A3-3325 TCGA-A3-3326 TCGA-A3-3331 
       48.59        36.36        38.99        38.47        37.38        48.82 
TCGA-A3-3335 TCGA-A3-3336 TCGA-A3-3343 TCGA-A3-3347 TCGA-A3-3349 TCGA-A3-3351 
       62.01        34.29        31.07        52.93        45.53        29.92 
TCGA-A3-3352 TCGA-A3-3357 TCGA-A3-3358 TCGA-A3-3359 TCGA-A3-3362 TCGA-A3-3363 
       18.44        88.37        42.97        82.32        51.25        10.49 
TCGA-A3-3365 TCGA-A3-3367 TCGA-A3-3370 TCGA-A3-3372 TCGA-A3-3373 TCGA-A3-3374 
       28.70        74.63        74.76        24.16        53.29        43.20 
TCGA-A3-3376 TCGA-A3-3378 TCGA-A3-3380 TCGA-A3-3382 TCGA-A3-3383 TCGA-A3-3385 
       55.76        20.71        18.64        18.87        28.31        65.52 
TCGA-A3-3387 TCGA-A3-A6NI TCGA-A3-A6NJ TCGA-A3-A6NL TCGA-A3-A6NN TCGA-A3-A8CQ 
       20.28        33.47        15.39        22.65         0.10         0.10 
TCGA-A3-A8OV TCGA-A3-A8OW TCGA-AK-3426 TCGA-AK-3427 TCGA-AK-3428 TCGA-AK-3429 
       11.18        10.62        29.10       117.80        73.08       109.41 
TCGA-AK-3430 TCGA-AK-3431 TCGA-AK-3433 TCGA-AK-3434 TCGA-AK-3436 TCGA-AK-3440 
       15.78        73.68       112.08        68.61       109.51        94.19 
TCGA-AK-3443 TCGA-AK-3444 TCGA-AK-3445 TCGA-AK-3447 TCGA-AK-3450 TCGA-AK-3451 
       46.78        48.36        78.64        40.01        49.28        94.29 
TCGA-AK-3453 TCGA-AK-3454 TCGA-AK-3455 TCGA-AK-3456 TCGA-AK-3458 TCGA-AK-3460 
       83.21        28.73        22.45        37.58        38.40        82.45 
TCGA-AK-3461 TCGA-AS-3777 TCGA-AS-3778 TCGA-B0-4688 TCGA-B0-4691 TCGA-B0-4693 
       72.89        40.70         1.41         3.32         4.57         2.53 
TCGA-B0-4694 TCGA-B0-4697 TCGA-B0-4698 TCGA-B0-4699 TCGA-B0-4700 TCGA-B0-4701 
        3.48        19.00         1.38         3.62        65.10         7.82 
TCGA-B0-4703 TCGA-B0-4706 TCGA-B0-4710 TCGA-B0-4712 TCGA-B0-4713 TCGA-B0-4714 
        5.98         2.14        57.70        43.96         6.64         3.25 
TCGA-B0-4718 TCGA-B0-4810 TCGA-B0-4811 TCGA-B0-4813 TCGA-B0-4814 TCGA-B0-4815 
       58.45        15.72        46.59         0.59         5.52        52.21 
TCGA-B0-4816 TCGA-B0-4817 TCGA-B0-4818 TCGA-B0-4821 TCGA-B0-4823 TCGA-B0-4824 
       45.07        33.50        16.77        40.44        14.93        54.48 
TCGA-B0-4827 TCGA-B0-4828 TCGA-B0-4833 TCGA-B0-4834 TCGA-B0-4836 TCGA-B0-4837 
       29.10        10.09        78.44        68.71        40.70        45.30 
TCGA-B0-4838 TCGA-B0-4839 TCGA-B0-4841 TCGA-B0-4842 TCGA-B0-4843 TCGA-B0-4844 
       27.42        53.88         6.71        56.68        10.52        10.29 
TCGA-B0-4845 TCGA-B0-4846 TCGA-B0-4847 TCGA-B0-4848 TCGA-B0-4849 TCGA-B0-4852 
       65.29        39.45        26.07        29.03         2.27        36.85 
TCGA-B0-4945 TCGA-B0-5075 TCGA-B0-5077 TCGA-B0-5080 TCGA-B0-5081 TCGA-B0-5085 
       70.52        20.94        43.30        11.24        11.90        25.32 
TCGA-B0-5088 TCGA-B0-5092 TCGA-B0-5095 TCGA-B0-5096 TCGA-B0-5097 TCGA-B0-5098 
       18.51        15.09         8.05         2.24        21.86        52.08 
TCGA-B0-5099 TCGA-B0-5100 TCGA-B0-5102 TCGA-B0-5104 TCGA-B0-5106 TCGA-B0-5107 
       15.95        62.89        90.87        90.48        52.54        30.48 
TCGA-B0-5108 TCGA-B0-5109 TCGA-B0-5110 TCGA-B0-5113 TCGA-B0-5115 TCGA-B0-5116 
       58.59        19.30        66.05        38.63        52.73        41.88 
TCGA-B0-5117 TCGA-B0-5119 TCGA-B0-5120 TCGA-B0-5121 TCGA-B0-5399 TCGA-B0-5400 
       52.87        51.02        38.43        48.82        46.39        56.98 
TCGA-B0-5402 TCGA-B0-5690 TCGA-B0-5691 TCGA-B0-5692 TCGA-B0-5693 TCGA-B0-5694 
       42.41       111.52       112.80       129.67       133.94        15.78 
TCGA-B0-5695 TCGA-B0-5696 TCGA-B0-5697 TCGA-B0-5698 TCGA-B0-5699 TCGA-B0-5701 
       70.68        85.78        86.47       119.38       126.28        80.91 
TCGA-B0-5703 TCGA-B0-5705 TCGA-B0-5706 TCGA-B0-5709 TCGA-B0-5710 TCGA-B0-5711 
       73.84       149.16       105.37       130.65        79.89       131.15 
TCGA-B0-5712 TCGA-B0-5713 TCGA-B0-5812 TCGA-B2-3923 TCGA-B2-3924 TCGA-B2-4098 
       89.49        91.46       126.05        32.61        35.90         1.68 
TCGA-B2-4099 TCGA-B2-4101 TCGA-B2-4102 TCGA-B2-5633 TCGA-B2-5635 TCGA-B2-5639 
       31.96        21.30        31.30        31.66        24.82        32.98 
TCGA-B2-A4SR TCGA-B4-5377 TCGA-B4-5378 TCGA-B4-5834 TCGA-B4-5835 TCGA-B4-5836 
       16.67        12.00         5.75         0.85         0.53         4.64 
TCGA-B4-5843 TCGA-B4-5844 TCGA-B8-4143 TCGA-B8-4146 TCGA-B8-4148 TCGA-B8-4151 
        0.36         0.23        23.31        16.80        27.16        42.71 
TCGA-B8-4153 TCGA-B8-4154 TCGA-B8-4619 TCGA-B8-4620 TCGA-B8-4621 TCGA-B8-4622 
       25.05        45.37        17.19        25.55        25.91        50.14 
TCGA-B8-5158 TCGA-B8-5159 TCGA-B8-5162 TCGA-B8-5163 TCGA-B8-5164 TCGA-B8-5165 
       20.91        23.74         1.18        27.02         0.85        24.23 
TCGA-B8-5545 TCGA-B8-5546 TCGA-B8-5549 TCGA-B8-5550 TCGA-B8-5551 TCGA-B8-5552 
       50.14        16.60         6.38        48.53         0.53        34.39 
TCGA-B8-5553 TCGA-B8-A54D TCGA-B8-A54E TCGA-B8-A54F TCGA-B8-A54G TCGA-B8-A54H 
       14.30        27.29        29.88        17.06         1.74         8.42 
TCGA-B8-A54I TCGA-B8-A54J TCGA-B8-A54K TCGA-B8-A7U6 TCGA-B8-A8YJ TCGA-BP-4158 
        4.93        17.36        15.42        16.27        14.17       111.02 
TCGA-BP-4159 TCGA-BP-4160 TCGA-BP-4161 TCGA-BP-4162 TCGA-BP-4163 TCGA-BP-4164 
       85.51        94.72        90.28       101.06        93.34        32.61 
TCGA-BP-4165 TCGA-BP-4166 TCGA-BP-4167 TCGA-BP-4169 TCGA-BP-4170 TCGA-BP-4173 
       99.85         0.43        89.36        23.05        77.03        62.24 
TCGA-BP-4174 TCGA-BP-4176 TCGA-BP-4177 TCGA-BP-4325 TCGA-BP-4326 TCGA-BP-4327 
       61.78        64.27        54.90        97.45        53.42         3.58 
TCGA-BP-4329 TCGA-BP-4330 TCGA-BP-4331 TCGA-BP-4332 TCGA-BP-4334 TCGA-BP-4335 
       27.78        62.07        80.68        37.25        21.21        15.16 
TCGA-BP-4337 TCGA-BP-4338 TCGA-BP-4340 TCGA-BP-4341 TCGA-BP-4342 TCGA-BP-4343 
        0.07        93.99        18.48        52.24        74.17        62.86 
TCGA-BP-4344 TCGA-BP-4346 TCGA-BP-4347 TCGA-BP-4349 TCGA-BP-4351 TCGA-BP-4353 
       54.77        49.08        44.94        12.23        31.89        12.33 
TCGA-BP-4354 TCGA-BP-4355 TCGA-BP-4756 TCGA-BP-4758 TCGA-BP-4759 TCGA-BP-4760 
       33.99        31.33        12.30        72.59        77.98        77.62 
TCGA-BP-4761 TCGA-BP-4762 TCGA-BP-4763 TCGA-BP-4765 TCGA-BP-4766 TCGA-BP-4769 
        5.98        44.15        41.75        71.80        48.07        61.68 
TCGA-BP-4770 TCGA-BP-4771 TCGA-BP-4774 TCGA-BP-4775 TCGA-BP-4776 TCGA-BP-4777 
       10.82         5.33        61.97        60.59        13.51        56.91 
TCGA-BP-4781 TCGA-BP-4782 TCGA-BP-4784 TCGA-BP-4787 TCGA-BP-4789 TCGA-BP-4790 
       68.38        11.64        60.95        15.78        48.95        36.53 
TCGA-BP-4795 TCGA-BP-4797 TCGA-BP-4798 TCGA-BP-4799 TCGA-BP-4801 TCGA-BP-4803 
       20.38        36.39        10.98        37.25        36.95         6.71 
TCGA-BP-4804 TCGA-BP-4807 TCGA-BP-4959 TCGA-BP-4960 TCGA-BP-4961 TCGA-BP-4962 
       47.97         6.94        87.45        71.41        63.62        58.68 
TCGA-BP-4963 TCGA-BP-4964 TCGA-BP-4965 TCGA-BP-4967 TCGA-BP-4968 TCGA-BP-4969 
       60.30        61.22        61.51         6.74        57.40        58.98 
TCGA-BP-4970 TCGA-BP-4971 TCGA-BP-4972 TCGA-BP-4973 TCGA-BP-4974 TCGA-BP-4975 
       14.24        48.89        49.38        45.50         6.90        47.11 
TCGA-BP-4976 TCGA-BP-4977 TCGA-BP-4981 TCGA-BP-4982 TCGA-BP-4987 TCGA-BP-4988 
       53.65        14.93        36.07        33.34        36.95        27.22 
TCGA-BP-4989 TCGA-BP-4991 TCGA-BP-4992 TCGA-BP-4993 TCGA-BP-4994 TCGA-BP-4995 
        3.88        46.45        16.47         5.82        43.00        45.07 
TCGA-BP-4998 TCGA-BP-4999 TCGA-BP-5000 TCGA-BP-5001 TCGA-BP-5004 TCGA-BP-5006 
       30.64        41.62        18.51        38.70        37.02        27.62 
TCGA-BP-5007 TCGA-BP-5008 TCGA-BP-5009 TCGA-BP-5010 TCGA-BP-5168 TCGA-BP-5169 
       37.48        35.21        36.23        28.87        48.10         6.35 
TCGA-BP-5170 TCGA-BP-5174 TCGA-BP-5175 TCGA-BP-5176 TCGA-BP-5177 TCGA-BP-5178 
       79.30        74.20        30.64        52.27         9.63        62.86 
TCGA-BP-5180 TCGA-BP-5181 TCGA-BP-5182 TCGA-BP-5183 TCGA-BP-5184 TCGA-BP-5185 
       74.40        49.15        38.30        42.44        37.25        37.22 
TCGA-BP-5186 TCGA-BP-5187 TCGA-BP-5189 TCGA-BP-5190 TCGA-BP-5191 TCGA-BP-5192 
       22.78        13.35        27.02        33.24        31.79        23.47 
TCGA-BP-5194 TCGA-BP-5195 TCGA-BP-5196 TCGA-BP-5198 TCGA-BP-5199 TCGA-BP-5200 
       13.41        24.62        33.47        19.82        44.55        34.95 
TCGA-BP-5202 TCGA-CJ-4634 TCGA-CJ-4635 TCGA-CJ-4636 TCGA-CJ-4637 TCGA-CJ-4638 
        0.95       115.00        46.55        63.25        73.22        14.17 
TCGA-CJ-4639 TCGA-CJ-4640 TCGA-CJ-4641 TCGA-CJ-4642 TCGA-CJ-4643 TCGA-CJ-4644 
      106.16       114.41        54.61       105.37        58.95        11.05 
TCGA-CJ-4868 TCGA-CJ-4869 TCGA-CJ-4870 TCGA-CJ-4871 TCGA-CJ-4872 TCGA-CJ-4873 
       21.24        83.97        49.25        79.66        10.72        74.27 
TCGA-CJ-4874 TCGA-CJ-4875 TCGA-CJ-4876 TCGA-CJ-4878 TCGA-CJ-4881 TCGA-CJ-4882 
       75.06       116.84        64.27        71.87        66.21        61.91 
TCGA-CJ-4884 TCGA-CJ-4885 TCGA-CJ-4886 TCGA-CJ-4887 TCGA-CJ-4888 TCGA-CJ-4889 
       57.83       113.46        64.18        30.64        51.52        63.98 
TCGA-CJ-4890 TCGA-CJ-4891 TCGA-CJ-4892 TCGA-CJ-4893 TCGA-CJ-4894 TCGA-CJ-4895 
      115.69        26.93        50.01        24.66        27.65        39.45 
TCGA-CJ-4897 TCGA-CJ-4899 TCGA-CJ-4900 TCGA-CJ-4901 TCGA-CJ-4902 TCGA-CJ-4903 
      109.84        50.24        56.35        47.67        49.97        51.25 
TCGA-CJ-4904 TCGA-CJ-4905 TCGA-CJ-4907 TCGA-CJ-4908 TCGA-CJ-4912 TCGA-CJ-4913 
      108.56        49.18        49.28        50.33        54.48        38.56 
TCGA-CJ-4916 TCGA-CJ-4918 TCGA-CJ-4920 TCGA-CJ-4923 TCGA-CJ-5671 TCGA-CJ-5672 
       45.14         3.06         4.57        18.81       131.08        72.00 
TCGA-CJ-5675 TCGA-CJ-5676 TCGA-CJ-5677 TCGA-CJ-5678 TCGA-CJ-5679 TCGA-CJ-5680 
      129.40       133.71        25.71        18.87        22.32        25.25 
TCGA-CJ-5681 TCGA-CJ-5682 TCGA-CJ-5683 TCGA-CJ-5684 TCGA-CJ-5686 TCGA-CJ-5689 
       18.15       122.83        62.10        73.35        67.00        53.26 
TCGA-CJ-6027 TCGA-CJ-6028 TCGA-CJ-6030 TCGA-CJ-6031 TCGA-CJ-6032 TCGA-CJ-6033 
      118.85        53.42        75.58        62.66       119.64         7.36 
TCGA-CW-5580 TCGA-CW-5581 TCGA-CW-5583 TCGA-CW-5584 TCGA-CW-5585 TCGA-CW-5587 
       64.57        92.02        81.83         5.39        85.78        73.18 
TCGA-CW-5589 TCGA-CW-5591 TCGA-CW-6087 TCGA-CW-6090 TCGA-CW-6093 TCGA-CW-6097 
       78.18        74.66         1.35        83.90       103.43        18.77 
TCGA-CZ-4853 TCGA-CZ-4854 TCGA-CZ-4856 TCGA-CZ-4857 TCGA-CZ-4858 TCGA-CZ-4859 
       25.45        46.16         0.59        47.08        69.21        58.75 
TCGA-CZ-4860 TCGA-CZ-4861 TCGA-CZ-4862 TCGA-CZ-4863 TCGA-CZ-4864 TCGA-CZ-4865 
        6.77        14.66       107.54        63.39        93.04         5.46 
TCGA-CZ-4866 TCGA-CZ-5451 TCGA-CZ-5452 TCGA-CZ-5453 TCGA-CZ-5454 TCGA-CZ-5455 
       61.41        63.42        58.82        79.53        23.74        18.44 
TCGA-CZ-5456 TCGA-CZ-5457 TCGA-CZ-5459 TCGA-CZ-5460 TCGA-CZ-5461 TCGA-CZ-5462 
       79.63        90.54        55.33        94.45        10.85        10.22 
TCGA-CZ-5463 TCGA-CZ-5464 TCGA-CZ-5466 TCGA-CZ-5467 TCGA-CZ-5470 TCGA-CZ-5982 
       21.76        69.96        22.52         2.40        12.69        80.19 
TCGA-CZ-5984 TCGA-CZ-5986 TCGA-CZ-5987 TCGA-CZ-5988 TCGA-CZ-5989 TCGA-DV-5565 
       67.96        12.26        14.63        22.78        62.63        13.28 
TCGA-DV-5566 TCGA-DV-5567 TCGA-DV-5568 TCGA-DV-5569 TCGA-DV-5573 TCGA-DV-5574 
       45.96        65.88        12.16        11.67        37.15        66.28 
TCGA-DV-5575 TCGA-DV-5576 TCGA-DV-A4VX TCGA-DV-A4VZ TCGA-DV-A4W0 TCGA-EU-5904 
       56.84        23.90        53.46        12.00        81.21        18.12 
TCGA-EU-5905 TCGA-EU-5906 TCGA-EU-5907 TCGA-G6-A5PC TCGA-G6-A8L6 TCGA-G6-A8L8 
        3.91         6.77         4.18         7.96        10.29        35.87 
TCGA-GK-A6C7 TCGA-MM-A563 TCGA-MM-A564 TCGA-MM-A84U TCGA-MW-A4EC TCGA-T7-A92I 
        2.01        19.43        19.96        23.01        16.37        11.70 
TCGA-2K-A9WE TCGA-2Z-A9J1 TCGA-2Z-A9J2 TCGA-2Z-A9J3 TCGA-2Z-A9J5 TCGA-2Z-A9J6 
        7.04        75.55        59.01        58.22       100.27        56.91 
TCGA-2Z-A9J8 TCGA-2Z-A9J9 TCGA-2Z-A9JD TCGA-2Z-A9JJ TCGA-2Z-A9JK TCGA-2Z-A9JL 
       91.73        75.42        34.85        39.88        38.99        33.07 
TCGA-2Z-A9JM TCGA-2Z-A9JN TCGA-2Z-A9JO TCGA-2Z-A9JP TCGA-2Z-A9JQ TCGA-2Z-A9JR 
       30.71        24.33        31.20        29.36        25.58         5.29 
TCGA-2Z-A9JS TCGA-2Z-A9JT TCGA-4A-A93W TCGA-4A-A93Y TCGA-5P-A9JU TCGA-5P-A9JV 
       16.18        22.49         0.13        11.57        12.26        67.17 
TCGA-5P-A9JW TCGA-5P-A9JY TCGA-5P-A9JZ TCGA-5P-A9K0 TCGA-5P-A9K2 TCGA-5P-A9K3 
      106.55        49.58        90.21        22.26        78.64        15.48 
TCGA-5P-A9K4 TCGA-5P-A9K6 TCGA-5P-A9K8 TCGA-5P-A9KA TCGA-5P-A9KC TCGA-5P-A9KE 
       71.80        62.93        43.04        12.99        12.39        27.09 
TCGA-5P-A9KH TCGA-A4-7286 TCGA-A4-7287 TCGA-A4-7288 TCGA-A4-7583 TCGA-A4-7584 
       67.43        18.21        19.63        61.05         0.10        21.37 
TCGA-A4-7585 TCGA-A4-7732 TCGA-A4-7734 TCGA-A4-7828 TCGA-A4-7915 TCGA-A4-7996 
       35.18        19.13         0.89         7.82         0.23        16.64 
TCGA-A4-7997 TCGA-A4-8098 TCGA-A4-8310 TCGA-A4-8311 TCGA-A4-8312 TCGA-A4-8515 
       30.48        29.46        25.64        23.97        23.28        23.31 
TCGA-A4-8516 TCGA-A4-8517 TCGA-A4-8518 TCGA-A4-8630 TCGA-A4-A48D TCGA-A4-A4ZT 
        0.76        19.63        19.73        14.33        12.46        16.96 
TCGA-A4-A57E TCGA-A4-A5DU TCGA-A4-A5XZ TCGA-A4-A5Y0 TCGA-A4-A6HP TCGA-AL-3466 
        8.48        16.31        15.75         8.28        12.46         9.63 
TCGA-AL-3467 TCGA-AL-3468 TCGA-AL-3471 TCGA-AL-3472 TCGA-AL-3473 TCGA-AL-7173 
       70.19        76.64        49.32        66.71        62.66        67.73 
TCGA-AT-A5NU TCGA-B1-5398 TCGA-B1-A47M TCGA-B1-A47N TCGA-B1-A47O TCGA-B1-A654 
        2.20        19.56        21.67        24.56        16.87        20.25 
TCGA-B1-A655 TCGA-B1-A656 TCGA-B1-A657 TCGA-B3-3925 TCGA-B3-3926 TCGA-B3-4103 
       16.77        20.32        21.07        33.83        10.09        30.58 
TCGA-B3-8121 TCGA-B3-A6W5 TCGA-B9-4113 TCGA-B9-4114 TCGA-B9-4115 TCGA-B9-4116 
       12.46        10.16        50.50        28.18        26.40        20.61 
TCGA-B9-4117 TCGA-B9-4617 TCGA-B9-5155 TCGA-B9-5156 TCGA-B9-7268 TCGA-B9-A5W7 
        0.46         1.15        15.12        43.99        22.06        19.23 
TCGA-B9-A5W8 TCGA-B9-A5W9 TCGA-B9-A69E TCGA-B9-A8YH TCGA-B9-A8YI TCGA-BQ-5875 
       17.23         0.16        14.86        17.49        12.30        86.76 
TCGA-BQ-5878 TCGA-BQ-5879 TCGA-BQ-5880 TCGA-BQ-5881 TCGA-BQ-5883 TCGA-BQ-5884 
       63.72        22.92        43.20        47.80        40.83        26.04 
TCGA-BQ-5885 TCGA-BQ-5886 TCGA-BQ-5887 TCGA-BQ-5888 TCGA-BQ-5891 TCGA-BQ-5892 
       30.28        26.04        25.35        13.25         0.95        11.97 
TCGA-BQ-5893 TCGA-BQ-5894 TCGA-BQ-7045 TCGA-BQ-7046 TCGA-BQ-7048 TCGA-BQ-7049 
        7.92         2.76        48.26        96.92        93.34        44.84 
TCGA-BQ-7050 TCGA-BQ-7051 TCGA-BQ-7053 TCGA-BQ-7055 TCGA-BQ-7056 TCGA-BQ-7058 
       61.28        50.40        49.84        26.27        20.12        11.28 
TCGA-BQ-7059 TCGA-BQ-7060 TCGA-BQ-7061 TCGA-BQ-7062 TCGA-DW-5560 TCGA-DW-5561 
        7.63         7.04         7.17         3.81        48.85        13.61 
TCGA-DW-7834 TCGA-DW-7836 TCGA-DW-7837 TCGA-DW-7838 TCGA-DW-7839 TCGA-DW-7840 
      129.86        35.93        37.55        24.46        13.78         3.75 
TCGA-DW-7841 TCGA-DW-7842 TCGA-DW-7963 TCGA-DZ-6131 TCGA-DZ-6132 TCGA-DZ-6133 
       14.63         3.02        40.77        79.86        80.88        51.19 
TCGA-DZ-6134 TCGA-DZ-6135 TCGA-EV-5901 TCGA-EV-5902 TCGA-EV-5903 TCGA-F9-A4JJ 
       61.02        74.60        34.19        19.00        24.89        10.68 
TCGA-F9-A7Q0 TCGA-F9-A7VF TCGA-F9-A8NY TCGA-G7-6790 TCGA-G7-6792 TCGA-G7-6795 
       13.08         2.40         1.18        51.78        90.90        39.25 
TCGA-G7-6796 TCGA-G7-6797 TCGA-G7-7501 TCGA-G7-A4TM TCGA-G7-A8LB TCGA-G7-A8LC 
       71.44        25.15        20.52         6.38        17.98        23.08 
TCGA-G7-A8LE TCGA-GL-6846 TCGA-GL-7773 TCGA-GL-7966 TCGA-GL-8500 TCGA-GL-A4EM 
       80.65       194.79        12.92         3.68        27.65         1.05 
TCGA-GL-A59R TCGA-GL-A59T TCGA-GL-A9DC TCGA-GL-A9DD TCGA-GL-A9DE TCGA-HE-A5NF 
       12.43        17.95        12.89        11.21        16.31        84.89 
TCGA-HE-A5NH TCGA-HE-A5NI TCGA-HE-A5NJ TCGA-HE-A5NK TCGA-HE-A5NL TCGA-IA-A40U 
       26.01        11.84        56.75        73.25        25.22        16.80 
TCGA-IA-A40X TCGA-IA-A83S TCGA-IA-A83T TCGA-IA-A83V TCGA-IA-A83W TCGA-IZ-8195 
       19.99        85.78        88.24        96.69        67.17        22.26 
TCGA-IZ-8196 TCGA-IZ-A6M8 TCGA-IZ-A6M9 TCGA-J7-6720 TCGA-KV-A6GD TCGA-KV-A6GE 
       21.34        16.34        12.36        12.76        18.41        29.10 
TCGA-KV-A74V TCGA-MH-A55W TCGA-MH-A55Z TCGA-MH-A560 TCGA-MH-A561 TCGA-MH-A562 
       11.41        34.29        27.78        30.38        27.65        20.25 
TCGA-MH-A854 TCGA-MH-A855 TCGA-MH-A856 TCGA-MH-A857 TCGA-O9-A75Z TCGA-P4-A5E6 
       17.62        12.13        31.13        29.26        15.48        99.78 
TCGA-P4-A5E7 TCGA-P4-A5E8 TCGA-P4-A5EA TCGA-P4-A5EB TCGA-P4-A5ED TCGA-P4-AAVK 
       87.09        42.94         6.61        99.12        92.58        52.27 
TCGA-P4-AAVL TCGA-P4-AAVM TCGA-P4-AAVO TCGA-PJ-A5Z9 TCGA-Q2-A5QZ TCGA-SX-A71R 
       16.01        50.60        78.90        17.75        14.07        47.90 
TCGA-SX-A71S TCGA-SX-A71U TCGA-SX-A71V TCGA-SX-A7SL TCGA-SX-A7SM TCGA-SX-A7SN 
       49.45        44.61        28.80        27.06        11.93        19.00 
TCGA-SX-A7SO TCGA-SX-A7SP TCGA-SX-A7SQ TCGA-SX-A7SR TCGA-SX-A7SS TCGA-SX-A7SU 
       41.33        16.31        41.62        26.47        53.10        43.76 
TCGA-UN-AAZ9 TCGA-UZ-A9PJ TCGA-UZ-A9PK TCGA-UZ-A9PL TCGA-UZ-A9PM TCGA-UZ-A9PN 
       18.02        26.20       117.40       103.63       125.29        37.35 
TCGA-UZ-A9PO TCGA-UZ-A9PP TCGA-UZ-A9PR TCGA-UZ-A9PU TCGA-UZ-A9PV TCGA-UZ-A9PX 
       62.83        98.96        86.37        30.67        47.47        65.13 
TCGA-UZ-A9PZ TCGA-UZ-A9Q0 TCGA-UZ-A9Q1 TCGA-V9-A7HT TCGA-WN-A9G9 TCGA-WN-AB4C 
       21.60       110.73        51.35        31.73        26.01        39.06 
TCGA-Y8-A895 TCGA-Y8-A897 TCGA-Y8-A898 TCGA-Y8-A8RY TCGA-Y8-A8RZ TCGA-Y8-A8S0 
       15.91        18.05        15.62        25.28         3.68         6.02 

  DEL PEAK 19(11Q23.1) MUTATED DEL PEAK 19(11Q23.1) WILD-TYPE 
                          0.43                           0.07 
  DEL PEAK 19(11Q23.1) MUTATED DEL PEAK 19(11Q23.1) WILD-TYPE 
                        123.62                         194.79 
  DEL PEAK 19(11Q23.1) MUTATED DEL PEAK 19(11Q23.1) WILD-TYPE 
                         21.57                          36.15 
[1] "0.4 - 123.6 (21.6)" "0.1 - 194.8 (36.1)"
[1] "hr=" "2"  
D32V2, continuous
                                vv
clus                             STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK 19(11Q23.1) MUTATED        18       13        23       16
  DEL PEAK 19(11Q23.1) WILD-TYPE     437       91       168       88
D32V3, multiclass
           clus
vv          DEL PEAK 19(11Q23.1) MUTATED DEL PEAK 19(11Q23.1) WILD-TYPE
  STAGE I                             18                            437
  STAGE II                            13                             91
  STAGE III                           23                            168
  STAGE IV                            16                             88
[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                              T1  T2  T3  T4
  DEL PEAK 19(11Q23.1) MUTATED    19  15  34   3
  DEL PEAK 19(11Q23.1) WILD-TYPE 460 112 224  12
D32V4, multiclass
    clus
vv   DEL PEAK 19(11Q23.1) MUTATED DEL PEAK 19(11Q23.1) WILD-TYPE
  T1                           19                            460
  T2                           15                            112
  T3                           34                            224
  T4                            3                             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"
                                vv
clus                              N0  N1  N2
  DEL PEAK 19(11Q23.1) MUTATED    24  12   3
  DEL PEAK 19(11Q23.1) WILD-TYPE 298  32   4
D32V5, multiclass
    clus
vv   DEL PEAK 19(11Q23.1) MUTATED DEL PEAK 19(11Q23.1) WILD-TYPE
  N0                           24                            298
  N1                           12                             32
  N2                            3                              4
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D32V6, binary
                                cls
clus                               0   1
  DEL PEAK 19(11Q23.1) MUTATED    34  10
  DEL PEAK 19(11Q23.1) WILD-TYPE 511  79
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 19(11Q23.1) MUTATED     34   10
  DEL PEAK 19(11Q23.1) WILD-TYPE  511   79
   clus
vv  DEL PEAK 19(11Q23.1) MUTATED DEL PEAK 19(11Q23.1) WILD-TYPE
  0                           34                            511
  1                           10                             79
[1] 2 2
[1] FALSE
D32V7, binary
                                cls
clus                               0   1
  DEL PEAK 19(11Q23.1) MUTATED    21  50
  DEL PEAK 19(11Q23.1) WILD-TYPE 271 539
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 19(11Q23.1) MUTATED     21   50
  DEL PEAK 19(11Q23.1) WILD-TYPE  271  539
        clus
vv       DEL PEAK 19(11Q23.1) MUTATED DEL PEAK 19(11Q23.1) WILD-TYPE
  FEMALE                           21                            271
  MALE                             50                            539
[1] 2 2
[1] FALSE
D32V8, binary
                                cls
clus                               0   1
  DEL PEAK 19(11Q23.1) MUTATED    35   1
  DEL PEAK 19(11Q23.1) WILD-TYPE 365   2
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 19(11Q23.1) MUTATED     35    1
  DEL PEAK 19(11Q23.1) WILD-TYPE  365    2
     clus
vv    DEL PEAK 19(11Q23.1) MUTATED DEL PEAK 19(11Q23.1) WILD-TYPE
  NO                            35                            365
  YES                            1                              2
[1] 2 2
[1] FALSE
D32V9, continuous
                                vv
clus                             KIDNEY CHROMOPHOBE
  DEL PEAK 19(11Q23.1) MUTATED                    9
  DEL PEAK 19(11Q23.1) WILD-TYPE                 57
                                vv
clus                             KIDNEY CLEAR CELL RENAL CARCINOMA
  DEL PEAK 19(11Q23.1) MUTATED                                  30
  DEL PEAK 19(11Q23.1) WILD-TYPE                               498
                                vv
clus                             KIDNEY PAPILLARY RENAL CELL CARCINOMA
  DEL PEAK 19(11Q23.1) MUTATED                                      32
  DEL PEAK 19(11Q23.1) WILD-TYPE                                   255
D32V10, multiclass
                                       clus
vv                                      DEL PEAK 19(11Q23.1) MUTATED
  KIDNEY CHROMOPHOBE                                               9
  KIDNEY CLEAR CELL RENAL CARCINOMA                               30
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                           32
                                       clus
vv                                      DEL PEAK 19(11Q23.1) WILD-TYPE
  KIDNEY CHROMOPHOBE                                                57
  KIDNEY CLEAR CELL RENAL CARCINOMA                                498
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                            255
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D32V11, continuous
D32V12, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 19(11Q23.1) MUTATED                                  0     3
  DEL PEAK 19(11Q23.1) WILD-TYPE                                2    12
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 19(11Q23.1) MUTATED                           7    58
  DEL PEAK 19(11Q23.1) WILD-TYPE                       114   661
D32V13, multiclass
                                  clus
vv                                 DEL PEAK 19(11Q23.1) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                       3
  BLACK OR AFRICAN AMERICAN                                   7
  WHITE                                                      58
                                  clus
vv                                 DEL PEAK 19(11Q23.1) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              2
  ASIAN                                                        12
  BLACK OR AFRICAN AMERICAN                                   114
  WHITE                                                       661
[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"
D32V14, binary
                                cls
clus                               0   1
  DEL PEAK 19(11Q23.1) MUTATED     1  53
  DEL PEAK 19(11Q23.1) WILD-TYPE  41 568
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 19(11Q23.1) MUTATED      1   53
  DEL PEAK 19(11Q23.1) WILD-TYPE   41  568
                        clus
vv                       DEL PEAK 19(11Q23.1) MUTATED
  HISPANIC OR LATINO                                1
  NOT HISPANIC OR LATINO                           53
                        clus
vv                       DEL PEAK 19(11Q23.1) WILD-TYPE
  HISPANIC OR LATINO                                 41
  NOT HISPANIC OR LATINO                            568
[1] 2 2
[1] FALSE

Clustering(33) Variable = DEL PEAK 20(13Q12.13) MUTATION ANALYSIS
D33V1, survival
                                 sevent
clus2                               0   1
  DEL PEAK 20(13Q12.13) MUTATED    92  56
  DEL PEAK 20(13Q12.13) WILD-TYPE 553 172
  DEL PEAK 20(13Q12.13) MUTATED DEL PEAK 20(13Q12.13) WILD-TYPE 
                            148                             725 
  DEL PEAK 20(13Q12.13) MUTATED DEL PEAK 20(13Q12.13) WILD-TYPE 
                             56                             172 
$`DEL PEAK 20(13Q12.13) MUTATED`
TCGA-KL-8323 TCGA-KL-8324 TCGA-KL-8327 TCGA-KL-8328 TCGA-KL-8329 TCGA-KL-8330 
       38.07       141.73       137.06       102.81        90.48       108.62 
TCGA-KL-8331 TCGA-KL-8332 TCGA-KL-8334 TCGA-KL-8335 TCGA-KL-8336 TCGA-KL-8337 
       98.96        84.89        96.95        92.55        30.25        44.84 
TCGA-KL-8338 TCGA-KL-8339 TCGA-KL-8340 TCGA-KL-8341 TCGA-KM-8438 TCGA-KM-8440 
       86.56        28.11        66.54        24.79       151.96        44.91 
TCGA-KM-8442 TCGA-KM-8443 TCGA-KM-8476 TCGA-KN-8418 TCGA-KN-8421 TCGA-KN-8422 
       47.24        49.97       123.12       129.37        87.91        25.48 
TCGA-KN-8424 TCGA-KN-8425 TCGA-KN-8427 TCGA-KN-8428 TCGA-KN-8429 TCGA-KN-8431 
       65.19       104.52         0.99        52.27        87.12        19.33 
TCGA-KN-8432 TCGA-KN-8434 TCGA-KN-8435 TCGA-KO-8403 TCGA-KO-8404 TCGA-KO-8405 
        2.50        59.08       115.00       105.47        10.68       100.47 
TCGA-KO-8406 TCGA-KO-8407 TCGA-KO-8408 TCGA-KO-8409 TCGA-KO-8414 TCGA-KO-8416 
      103.40        92.71        16.67       104.55       105.60        90.48 
TCGA-KO-8417 TCGA-A3-3319 TCGA-A3-3346 TCGA-A3-3347 TCGA-A3-3370 TCGA-A3-3374 
       92.55        37.15         4.50        52.93        74.76        43.20 
TCGA-AK-3426 TCGA-AK-3433 TCGA-AK-3440 TCGA-AK-3445 TCGA-AK-3465 TCGA-AS-3777 
       29.10       112.08        94.19        78.64        12.13        40.70 
TCGA-B0-4690 TCGA-B0-4691 TCGA-B0-4696 TCGA-B0-4698 TCGA-B0-4699 TCGA-B0-4700 
        1.41         4.57        28.47         1.38         3.62        65.10 
TCGA-B0-4707 TCGA-B0-4710 TCGA-B0-4712 TCGA-B0-4713 TCGA-B0-4815 TCGA-B0-4819 
       19.73        57.70        43.96         6.64        52.21         6.02 
TCGA-B0-5092 TCGA-B0-5094 TCGA-B0-5095 TCGA-B0-5099 TCGA-B0-5113 TCGA-B0-5117 
       15.09        10.95         8.05        15.95        38.63        52.87 
TCGA-B4-5832 TCGA-B4-5835 TCGA-B4-5838 TCGA-B8-5163 TCGA-B8-5549 TCGA-BP-4167 
        5.10         0.53         5.46        27.02         6.38        89.36 
TCGA-BP-4334 TCGA-BP-4343 TCGA-BP-4351 TCGA-BP-4352 TCGA-BP-4354 TCGA-BP-4761 
       21.21        62.86        31.89        11.31        33.99         5.98 
TCGA-BP-4765 TCGA-BP-4768 TCGA-BP-4770 TCGA-BP-4787 TCGA-BP-4797 TCGA-BP-4964 
       71.80        13.15        10.82        15.78        36.39        61.22 
TCGA-BP-4968 TCGA-BP-4973 TCGA-BP-4985 TCGA-BP-4994 TCGA-BP-5004 TCGA-BP-5175 
       57.40        45.50        31.30        43.00        37.02        30.64 
TCGA-BP-5184 TCGA-BP-5191 TCGA-BP-5196 TCGA-CJ-4639 TCGA-CJ-4868 TCGA-CJ-4881 
       37.25        31.79        33.47       106.16        21.24        66.21 
TCGA-CJ-4901 TCGA-CJ-5677 TCGA-CJ-5679 TCGA-CJ-6028 TCGA-CW-5588 TCGA-CW-6090 
       47.67        25.71        22.32        53.42        66.31        83.90 
TCGA-CW-6097 TCGA-CZ-4854 TCGA-CZ-4857 TCGA-CZ-4860 TCGA-CZ-4863 TCGA-CZ-4864 
       18.77        46.16        47.08         6.77        63.39        93.04 
TCGA-CZ-4866 TCGA-CZ-5455 TCGA-CZ-5457 TCGA-CZ-5465 TCGA-CZ-5468 TCGA-CZ-5469 
       61.41        18.44        90.54        84.30         1.94        31.10 
TCGA-CZ-5984 TCGA-DV-5568 TCGA-G6-A8L7 TCGA-2Z-A9JI TCGA-5P-A9K8 TCGA-5P-A9K9 
       67.96        12.16        70.13        51.52        43.04        19.36 
TCGA-A4-7287 TCGA-A4-7915 TCGA-AL-A5DJ TCGA-B3-3926 TCGA-B3-A6W5 TCGA-BQ-5875 
       19.63         0.23        49.25        10.09        10.16        86.76 
TCGA-BQ-5879 TCGA-BQ-5882 TCGA-BQ-5894 TCGA-BQ-7061 TCGA-F9-A4JJ TCGA-F9-A7Q0 
       22.92        21.63         2.76         7.17        10.68        13.08 
TCGA-G7-6789 TCGA-G7-6793 TCGA-G7-7502 TCGA-G7-A8LC TCGA-G7-A8LD TCGA-GL-7966 
        4.01        11.05        25.84        23.08        16.90         3.68 
TCGA-J7-8537 TCGA-P4-A5E8 TCGA-Q2-A5QZ TCGA-UN-AAZ9 
       10.55        42.94        14.07        18.02 

$`DEL PEAK 20(13Q12.13) WILD-TYPE`
TCGA-KL-8325 TCGA-KL-8326 TCGA-KL-8333 TCGA-KL-8342 TCGA-KL-8343 TCGA-KL-8344 
       23.84       109.22        98.33        73.91        71.41        28.80 
TCGA-KL-8345 TCGA-KL-8346 TCGA-KM-8439 TCGA-KM-8441 TCGA-KM-8477 TCGA-KM-8639 
       54.74        62.37        23.28        28.80        51.06        31.33 
TCGA-KN-8419 TCGA-KN-8423 TCGA-KN-8426 TCGA-KN-8433 TCGA-KN-8436 TCGA-KN-8437 
       23.47        25.91         3.55        11.21        42.35       100.87 
TCGA-KO-8410 TCGA-KO-8411 TCGA-KO-8413 TCGA-KO-8415 TCGA-3Z-A93Z TCGA-6D-AA2E 
      103.10       130.13        99.88        96.62        12.66        11.90 
TCGA-A3-3306 TCGA-A3-3307 TCGA-A3-3308 TCGA-A3-3311 TCGA-A3-3313 TCGA-A3-3316 
       36.82        47.21         0.53        39.16        24.16        49.08 
TCGA-A3-3317 TCGA-A3-3320 TCGA-A3-3322 TCGA-A3-3323 TCGA-A3-3324 TCGA-A3-3325 
       49.02        49.58        48.59        36.36        38.99        38.47 
TCGA-A3-3326 TCGA-A3-3331 TCGA-A3-3335 TCGA-A3-3336 TCGA-A3-3343 TCGA-A3-3349 
       37.38        48.82        62.01        34.29        31.07        45.53 
TCGA-A3-3351 TCGA-A3-3352 TCGA-A3-3357 TCGA-A3-3358 TCGA-A3-3359 TCGA-A3-3362 
       29.92        18.44        88.37        42.97        82.32        51.25 
TCGA-A3-3363 TCGA-A3-3365 TCGA-A3-3367 TCGA-A3-3372 TCGA-A3-3373 TCGA-A3-3376 
       10.49        28.70        74.63        24.16        53.29        55.76 
TCGA-A3-3378 TCGA-A3-3380 TCGA-A3-3382 TCGA-A3-3383 TCGA-A3-3385 TCGA-A3-3387 
       20.71        18.64        18.87        28.31        65.52        20.28 
TCGA-A3-A6NI TCGA-A3-A6NJ TCGA-A3-A6NL TCGA-A3-A6NN TCGA-A3-A8CQ TCGA-A3-A8OV 
       33.47        15.39        22.65         0.10         0.10        11.18 
TCGA-A3-A8OW TCGA-AK-3425 TCGA-AK-3427 TCGA-AK-3428 TCGA-AK-3429 TCGA-AK-3430 
       10.62       109.91       117.80        73.08       109.41        15.78 
TCGA-AK-3431 TCGA-AK-3434 TCGA-AK-3436 TCGA-AK-3443 TCGA-AK-3444 TCGA-AK-3447 
       73.68        68.61       109.51        46.78        48.36        40.01 
TCGA-AK-3450 TCGA-AK-3451 TCGA-AK-3453 TCGA-AK-3454 TCGA-AK-3455 TCGA-AK-3456 
       49.28        94.29        83.21        28.73        22.45        37.58 
TCGA-AK-3458 TCGA-AK-3460 TCGA-AK-3461 TCGA-AS-3778 TCGA-B0-4688 TCGA-B0-4693 
       38.40        82.45        72.89         1.41         3.32         2.53 
TCGA-B0-4694 TCGA-B0-4697 TCGA-B0-4701 TCGA-B0-4703 TCGA-B0-4706 TCGA-B0-4714 
        3.48        19.00         7.82         5.98         2.14         3.25 
TCGA-B0-4718 TCGA-B0-4810 TCGA-B0-4811 TCGA-B0-4813 TCGA-B0-4814 TCGA-B0-4816 
       58.45        15.72        46.59         0.59         5.52        45.07 
TCGA-B0-4817 TCGA-B0-4818 TCGA-B0-4821 TCGA-B0-4822 TCGA-B0-4823 TCGA-B0-4824 
       33.50        16.77        40.44        36.53        14.93        54.48 
TCGA-B0-4827 TCGA-B0-4828 TCGA-B0-4833 TCGA-B0-4834 TCGA-B0-4836 TCGA-B0-4837 
       29.10        10.09        78.44        68.71        40.70        45.30 
TCGA-B0-4838 TCGA-B0-4839 TCGA-B0-4841 TCGA-B0-4842 TCGA-B0-4843 TCGA-B0-4844 
       27.42        53.88         6.71        56.68        10.52        10.29 
TCGA-B0-4845 TCGA-B0-4846 TCGA-B0-4847 TCGA-B0-4848 TCGA-B0-4849 TCGA-B0-4852 
       65.29        39.45        26.07        29.03         2.27        36.85 
TCGA-B0-4945 TCGA-B0-5075 TCGA-B0-5077 TCGA-B0-5080 TCGA-B0-5081 TCGA-B0-5084 
       70.52        20.94        43.30        11.24        11.90         7.30 
TCGA-B0-5085 TCGA-B0-5088 TCGA-B0-5096 TCGA-B0-5097 TCGA-B0-5098 TCGA-B0-5100 
       25.32        18.51         2.24        21.86        52.08        62.89 
TCGA-B0-5102 TCGA-B0-5104 TCGA-B0-5106 TCGA-B0-5107 TCGA-B0-5108 TCGA-B0-5109 
       90.87        90.48        52.54        30.48        58.59        19.30 
TCGA-B0-5110 TCGA-B0-5115 TCGA-B0-5116 TCGA-B0-5119 TCGA-B0-5120 TCGA-B0-5121 
       66.05        52.73        41.88        51.02        38.43        48.82 
TCGA-B0-5399 TCGA-B0-5400 TCGA-B0-5402 TCGA-B0-5690 TCGA-B0-5691 TCGA-B0-5692 
       46.39        56.98        42.41       111.52       112.80       129.67 
TCGA-B0-5693 TCGA-B0-5694 TCGA-B0-5695 TCGA-B0-5696 TCGA-B0-5697 TCGA-B0-5698 
      133.94        15.78        70.68        85.78        86.47       119.38 
TCGA-B0-5699 TCGA-B0-5701 TCGA-B0-5702 TCGA-B0-5703 TCGA-B0-5705 TCGA-B0-5706 
      126.28        80.91        71.41        73.84       149.16       105.37 
TCGA-B0-5709 TCGA-B0-5710 TCGA-B0-5711 TCGA-B0-5712 TCGA-B0-5713 TCGA-B0-5812 
      130.65        79.89       131.15        89.49        91.46       126.05 
TCGA-B2-3923 TCGA-B2-3924 TCGA-B2-4098 TCGA-B2-4099 TCGA-B2-4101 TCGA-B2-4102 
       32.61        35.90         1.68        31.96        21.30        31.30 
TCGA-B2-5633 TCGA-B2-5635 TCGA-B2-5639 TCGA-B2-5641 TCGA-B2-A4SR TCGA-B4-5377 
       31.66        24.82        32.98        21.57        16.67        12.00 
TCGA-B4-5378 TCGA-B4-5834 TCGA-B4-5836 TCGA-B4-5843 TCGA-B4-5844 TCGA-B8-4143 
        5.75         0.85         4.64         0.36         0.23        23.31 
TCGA-B8-4146 TCGA-B8-4148 TCGA-B8-4151 TCGA-B8-4153 TCGA-B8-4154 TCGA-B8-4619 
       16.80        27.16        42.71        25.05        45.37        17.19 
TCGA-B8-4620 TCGA-B8-4621 TCGA-B8-4622 TCGA-B8-5158 TCGA-B8-5159 TCGA-B8-5162 
       25.55        25.91        50.14        20.91        23.74         1.18 
TCGA-B8-5164 TCGA-B8-5165 TCGA-B8-5545 TCGA-B8-5546 TCGA-B8-5550 TCGA-B8-5551 
        0.85        24.23        50.14        16.60        48.53         0.53 
TCGA-B8-5552 TCGA-B8-5553 TCGA-B8-A54D TCGA-B8-A54E TCGA-B8-A54F TCGA-B8-A54G 
       34.39        14.30        27.29        29.88        17.06         1.74 
TCGA-B8-A54H TCGA-B8-A54I TCGA-B8-A54J TCGA-B8-A54K TCGA-B8-A7U6 TCGA-B8-A8YJ 
        8.42         4.93        17.36        15.42        16.27        14.17 
TCGA-BP-4158 TCGA-BP-4159 TCGA-BP-4160 TCGA-BP-4161 TCGA-BP-4162 TCGA-BP-4163 
      111.02        85.51        94.72        90.28       101.06        93.34 
TCGA-BP-4164 TCGA-BP-4165 TCGA-BP-4166 TCGA-BP-4169 TCGA-BP-4170 TCGA-BP-4173 
       32.61        99.85         0.43        23.05        77.03        62.24 
TCGA-BP-4174 TCGA-BP-4176 TCGA-BP-4177 TCGA-BP-4325 TCGA-BP-4326 TCGA-BP-4327 
       61.78        64.27        54.90        97.45        53.42         3.58 
TCGA-BP-4329 TCGA-BP-4330 TCGA-BP-4331 TCGA-BP-4332 TCGA-BP-4335 TCGA-BP-4337 
       27.78        62.07        80.68        37.25        15.16         0.07 
TCGA-BP-4338 TCGA-BP-4340 TCGA-BP-4341 TCGA-BP-4342 TCGA-BP-4344 TCGA-BP-4346 
       93.99        18.48        52.24        74.17        54.77        49.08 
TCGA-BP-4347 TCGA-BP-4349 TCGA-BP-4353 TCGA-BP-4355 TCGA-BP-4756 TCGA-BP-4758 
       44.94        12.23        12.33        31.33        12.30        72.59 
TCGA-BP-4759 TCGA-BP-4760 TCGA-BP-4762 TCGA-BP-4763 TCGA-BP-4766 TCGA-BP-4769 
       77.98        77.62        44.15        41.75        48.07        61.68 
TCGA-BP-4771 TCGA-BP-4774 TCGA-BP-4775 TCGA-BP-4776 TCGA-BP-4777 TCGA-BP-4781 
        5.33        61.97        60.59        13.51        56.91        68.38 
TCGA-BP-4782 TCGA-BP-4784 TCGA-BP-4789 TCGA-BP-4790 TCGA-BP-4795 TCGA-BP-4798 
       11.64        60.95        48.95        36.53        20.38        10.98 
TCGA-BP-4799 TCGA-BP-4801 TCGA-BP-4803 TCGA-BP-4804 TCGA-BP-4807 TCGA-BP-4959 
       37.25        36.95         6.71        47.97         6.94        87.45 
TCGA-BP-4960 TCGA-BP-4961 TCGA-BP-4962 TCGA-BP-4963 TCGA-BP-4965 TCGA-BP-4967 
       71.41        63.62        58.68        60.30        61.51         6.74 
TCGA-BP-4969 TCGA-BP-4970 TCGA-BP-4971 TCGA-BP-4972 TCGA-BP-4974 TCGA-BP-4975 
       58.98        14.24        48.89        49.38         6.90        47.11 
TCGA-BP-4976 TCGA-BP-4977 TCGA-BP-4981 TCGA-BP-4982 TCGA-BP-4983 TCGA-BP-4986 
       53.65        14.93        36.07        33.34        46.45        25.81 
TCGA-BP-4987 TCGA-BP-4988 TCGA-BP-4989 TCGA-BP-4991 TCGA-BP-4992 TCGA-BP-4993 
       36.95        27.22         3.88        46.45        16.47         5.82 
TCGA-BP-4995 TCGA-BP-4998 TCGA-BP-4999 TCGA-BP-5000 TCGA-BP-5001 TCGA-BP-5006 
       45.07        30.64        41.62        18.51        38.70        27.62 
TCGA-BP-5007 TCGA-BP-5008 TCGA-BP-5009 TCGA-BP-5010 TCGA-BP-5168 TCGA-BP-5169 
       37.48        35.21        36.23        28.87        48.10         6.35 
TCGA-BP-5170 TCGA-BP-5173 TCGA-BP-5174 TCGA-BP-5176 TCGA-BP-5177 TCGA-BP-5178 
       79.30         1.74        74.20        52.27         9.63        62.86 
TCGA-BP-5180 TCGA-BP-5181 TCGA-BP-5182 TCGA-BP-5183 TCGA-BP-5185 TCGA-BP-5186 
       74.40        49.15        38.30        42.44        37.22        22.78 
TCGA-BP-5187 TCGA-BP-5189 TCGA-BP-5190 TCGA-BP-5192 TCGA-BP-5194 TCGA-BP-5195 
       13.35        27.02        33.24        23.47        13.41        24.62 
TCGA-BP-5198 TCGA-BP-5199 TCGA-BP-5200 TCGA-BP-5201 TCGA-BP-5202 TCGA-CJ-4634 
       19.82        44.55        34.95        31.27         0.95       115.00 
TCGA-CJ-4635 TCGA-CJ-4636 TCGA-CJ-4637 TCGA-CJ-4638 TCGA-CJ-4640 TCGA-CJ-4641 
       46.55        63.25        73.22        14.17       114.41        54.61 
TCGA-CJ-4642 TCGA-CJ-4643 TCGA-CJ-4644 TCGA-CJ-4869 TCGA-CJ-4870 TCGA-CJ-4871 
      105.37        58.95        11.05        83.97        49.25        79.66 
TCGA-CJ-4872 TCGA-CJ-4873 TCGA-CJ-4874 TCGA-CJ-4875 TCGA-CJ-4876 TCGA-CJ-4878 
       10.72        74.27        75.06       116.84        64.27        71.87 
TCGA-CJ-4882 TCGA-CJ-4884 TCGA-CJ-4885 TCGA-CJ-4886 TCGA-CJ-4887 TCGA-CJ-4888 
       61.91        57.83       113.46        64.18        30.64        51.52 
TCGA-CJ-4889 TCGA-CJ-4890 TCGA-CJ-4891 TCGA-CJ-4892 TCGA-CJ-4893 TCGA-CJ-4894 
       63.98       115.69        26.93        50.01        24.66        27.65 
TCGA-CJ-4895 TCGA-CJ-4897 TCGA-CJ-4899 TCGA-CJ-4900 TCGA-CJ-4902 TCGA-CJ-4903 
       39.45       109.84        50.24        56.35        49.97        51.25 
TCGA-CJ-4904 TCGA-CJ-4905 TCGA-CJ-4907 TCGA-CJ-4908 TCGA-CJ-4912 TCGA-CJ-4913 
      108.56        49.18        49.28        50.33        54.48        38.56 
TCGA-CJ-4916 TCGA-CJ-4918 TCGA-CJ-4920 TCGA-CJ-4923 TCGA-CJ-5671 TCGA-CJ-5672 
       45.14         3.06         4.57        18.81       131.08        72.00 
TCGA-CJ-5675 TCGA-CJ-5676 TCGA-CJ-5678 TCGA-CJ-5680 TCGA-CJ-5681 TCGA-CJ-5682 
      129.40       133.71        18.87        25.25        18.15       122.83 
TCGA-CJ-5683 TCGA-CJ-5684 TCGA-CJ-5686 TCGA-CJ-5689 TCGA-CJ-6027 TCGA-CJ-6030 
       62.10        73.35        67.00        53.26       118.85        75.58 
TCGA-CJ-6031 TCGA-CJ-6032 TCGA-CJ-6033 TCGA-CW-5580 TCGA-CW-5581 TCGA-CW-5583 
       62.66       119.64         7.36        64.57        92.02        81.83 
TCGA-CW-5584 TCGA-CW-5585 TCGA-CW-5587 TCGA-CW-5589 TCGA-CW-5591 TCGA-CW-6087 
        5.39        85.78        73.18        78.18        74.66         1.35 
TCGA-CW-6088 TCGA-CW-6093 TCGA-CZ-4853 TCGA-CZ-4856 TCGA-CZ-4858 TCGA-CZ-4859 
      105.93       103.43        25.45         0.59        69.21        58.75 
TCGA-CZ-4861 TCGA-CZ-4862 TCGA-CZ-4865 TCGA-CZ-5451 TCGA-CZ-5452 TCGA-CZ-5453 
       14.66       107.54         5.46        63.42        58.82        79.53 
TCGA-CZ-5454 TCGA-CZ-5456 TCGA-CZ-5458 TCGA-CZ-5459 TCGA-CZ-5460 TCGA-CZ-5461 
       23.74        79.63        91.69        55.33        94.45        10.85 
TCGA-CZ-5462 TCGA-CZ-5463 TCGA-CZ-5464 TCGA-CZ-5466 TCGA-CZ-5467 TCGA-CZ-5470 
       10.22        21.76        69.96        22.52         2.40        12.69 
TCGA-CZ-5982 TCGA-CZ-5985 TCGA-CZ-5986 TCGA-CZ-5987 TCGA-CZ-5988 TCGA-CZ-5989 
       80.19        65.65        12.26        14.63        22.78        62.63 
TCGA-DV-5565 TCGA-DV-5566 TCGA-DV-5567 TCGA-DV-5569 TCGA-DV-5573 TCGA-DV-5574 
       13.28        45.96        65.88        11.67        37.15        66.28 
TCGA-DV-5575 TCGA-DV-5576 TCGA-DV-A4VX TCGA-DV-A4VZ TCGA-DV-A4W0 TCGA-EU-5904 
       56.84        23.90        53.46        12.00        81.21        18.12 
TCGA-EU-5905 TCGA-EU-5906 TCGA-EU-5907 TCGA-G6-A5PC TCGA-G6-A8L6 TCGA-G6-A8L8 
        3.91         6.77         4.18         7.96        10.29        35.87 
TCGA-GK-A6C7 TCGA-MM-A563 TCGA-MM-A564 TCGA-MM-A84U TCGA-MW-A4EC TCGA-T7-A92I 
        2.01        19.43        19.96        23.01        16.37        11.70 
TCGA-2K-A9WE TCGA-2Z-A9J1 TCGA-2Z-A9J2 TCGA-2Z-A9J3 TCGA-2Z-A9J5 TCGA-2Z-A9J6 
        7.04        75.55        59.01        58.22       100.27        56.91 
TCGA-2Z-A9J7 TCGA-2Z-A9J8 TCGA-2Z-A9J9 TCGA-2Z-A9JD TCGA-2Z-A9JE TCGA-2Z-A9JG 
        4.57        91.73        75.42        34.85        56.81        54.64 
TCGA-2Z-A9JJ TCGA-2Z-A9JK TCGA-2Z-A9JL TCGA-2Z-A9JM TCGA-2Z-A9JN TCGA-2Z-A9JO 
       39.88        38.99        33.07        30.71        24.33        31.20 
TCGA-2Z-A9JP TCGA-2Z-A9JQ TCGA-2Z-A9JR TCGA-2Z-A9JS TCGA-2Z-A9JT TCGA-4A-A93W 
       29.36        25.58         5.29        16.18        22.49         0.13 
TCGA-4A-A93X TCGA-4A-A93Y TCGA-5P-A9JU TCGA-5P-A9JV TCGA-5P-A9JW TCGA-5P-A9JY 
       12.82        11.57        12.26        67.17       106.55        49.58 
TCGA-5P-A9JZ TCGA-5P-A9K0 TCGA-5P-A9K2 TCGA-5P-A9K3 TCGA-5P-A9K4 TCGA-5P-A9K6 
       90.21        22.26        78.64        15.48        71.80        62.93 
TCGA-5P-A9KA TCGA-5P-A9KC TCGA-5P-A9KE TCGA-5P-A9KH TCGA-A4-7286 TCGA-A4-7288 
       12.99        12.39        27.09        67.43        18.21        61.05 
TCGA-A4-7583 TCGA-A4-7584 TCGA-A4-7585 TCGA-A4-7732 TCGA-A4-7734 TCGA-A4-7828 
        0.10        21.37        35.18        19.13         0.89         7.82 
TCGA-A4-7996 TCGA-A4-7997 TCGA-A4-8098 TCGA-A4-8310 TCGA-A4-8311 TCGA-A4-8312 
       16.64        30.48        29.46        25.64        23.97        23.28 
TCGA-A4-8515 TCGA-A4-8516 TCGA-A4-8517 TCGA-A4-8518 TCGA-A4-8630 TCGA-A4-A48D 
       23.31         0.76        19.63        19.73        14.33        12.46 
TCGA-A4-A4ZT TCGA-A4-A57E TCGA-A4-A5DU TCGA-A4-A5XZ TCGA-A4-A5Y0 TCGA-A4-A5Y1 
       16.96         8.48        16.31        15.75         8.28        12.99 
TCGA-A4-A6HP TCGA-AL-3466 TCGA-AL-3467 TCGA-AL-3468 TCGA-AL-3471 TCGA-AL-3472 
       12.46         9.63        70.19        76.64        49.32        66.71 
TCGA-AL-3473 TCGA-AL-7173 TCGA-AT-A5NU TCGA-B1-5398 TCGA-B1-7332 TCGA-B1-A47M 
       62.66        67.73         2.20        19.56        37.51        21.67 
TCGA-B1-A47N TCGA-B1-A47O TCGA-B1-A654 TCGA-B1-A655 TCGA-B1-A656 TCGA-B1-A657 
       24.56        16.87        20.25        16.77        20.32        21.07 
TCGA-B3-3925 TCGA-B3-4103 TCGA-B3-4104 TCGA-B3-8121 TCGA-B9-4113 TCGA-B9-4114 
       33.83        30.58        34.49        12.46        50.50        28.18 
TCGA-B9-4115 TCGA-B9-4116 TCGA-B9-4117 TCGA-B9-4617 TCGA-B9-5155 TCGA-B9-5156 
       26.40        20.61         0.46         1.15        15.12        43.99 
TCGA-B9-7268 TCGA-B9-A44B TCGA-B9-A5W7 TCGA-B9-A5W8 TCGA-B9-A5W9 TCGA-B9-A69E 
       22.06         2.10        19.23        17.23         0.16        14.86 
TCGA-B9-A8YH TCGA-B9-A8YI TCGA-BQ-5876 TCGA-BQ-5877 TCGA-BQ-5878 TCGA-BQ-5880 
       17.49        12.30        19.27         8.88        63.72        43.20 
TCGA-BQ-5881 TCGA-BQ-5883 TCGA-BQ-5884 TCGA-BQ-5885 TCGA-BQ-5886 TCGA-BQ-5887 
       47.80        40.83        26.04        30.28        26.04        25.35 
TCGA-BQ-5888 TCGA-BQ-5889 TCGA-BQ-5890 TCGA-BQ-5891 TCGA-BQ-5892 TCGA-BQ-5893 
       13.25        10.82         7.66         0.95        11.97         7.92 
TCGA-BQ-7044 TCGA-BQ-7045 TCGA-BQ-7046 TCGA-BQ-7048 TCGA-BQ-7049 TCGA-BQ-7050 
      123.62        48.26        96.92        93.34        44.84        61.28 
TCGA-BQ-7051 TCGA-BQ-7053 TCGA-BQ-7055 TCGA-BQ-7056 TCGA-BQ-7058 TCGA-BQ-7059 
       50.40        49.84        26.27        20.12        11.28         7.63 
TCGA-BQ-7060 TCGA-BQ-7062 TCGA-DW-5560 TCGA-DW-5561 TCGA-DW-7834 TCGA-DW-7836 
        7.04         3.81        48.85        13.61       129.86        35.93 
TCGA-DW-7837 TCGA-DW-7838 TCGA-DW-7839 TCGA-DW-7840 TCGA-DW-7841 TCGA-DW-7842 
       37.55        24.46        13.78         3.75        14.63         3.02 
TCGA-DW-7963 TCGA-DZ-6131 TCGA-DZ-6132 TCGA-DZ-6133 TCGA-DZ-6134 TCGA-DZ-6135 
       40.77        79.86        80.88        51.19        61.02        74.60 
TCGA-EV-5901 TCGA-EV-5902 TCGA-EV-5903 TCGA-F9-A7VF TCGA-F9-A8NY TCGA-F9-A97G 
       34.19        19.00        24.89         2.40         1.18         0.43 
TCGA-G7-6790 TCGA-G7-6792 TCGA-G7-6795 TCGA-G7-6796 TCGA-G7-6797 TCGA-G7-7501 
       51.78        90.90        39.25        71.44        25.15        20.52 
TCGA-G7-A4TM TCGA-G7-A8LB TCGA-G7-A8LE TCGA-GL-6846 TCGA-GL-7773 TCGA-GL-8500 
        6.38        17.98        80.65       194.79        12.92        27.65 
TCGA-GL-A4EM TCGA-GL-A59R TCGA-GL-A59T TCGA-GL-A9DC TCGA-GL-A9DD TCGA-GL-A9DE 
        1.05        12.43        17.95        12.89        11.21        16.31 
TCGA-HE-A5NF TCGA-HE-A5NH TCGA-HE-A5NI TCGA-HE-A5NJ TCGA-HE-A5NK TCGA-HE-A5NL 
       84.89        26.01        11.84        56.75        73.25        25.22 
TCGA-IA-A40U TCGA-IA-A40X TCGA-IA-A40Y TCGA-IA-A83S TCGA-IA-A83T TCGA-IA-A83V 
       16.80        19.99         2.04        85.78        88.24        96.69 
TCGA-IA-A83W TCGA-IZ-8195 TCGA-IZ-8196 TCGA-IZ-A6M8 TCGA-IZ-A6M9 TCGA-J7-6720 
       67.17        22.26        21.34        16.34        12.36        12.76 
TCGA-KV-A6GD TCGA-KV-A6GE TCGA-KV-A74V TCGA-MH-A55W TCGA-MH-A55Z TCGA-MH-A560 
       18.41        29.10        11.41        34.29        27.78        30.38 
TCGA-MH-A561 TCGA-MH-A562 TCGA-MH-A854 TCGA-MH-A855 TCGA-MH-A856 TCGA-MH-A857 
       27.65        20.25        17.62        12.13        31.13        29.26 
TCGA-O9-A75Z TCGA-P4-A5E6 TCGA-P4-A5E7 TCGA-P4-A5EA TCGA-P4-A5EB TCGA-P4-A5ED 
       15.48        99.78        87.09         6.61        99.12        92.58 
TCGA-P4-AAVK TCGA-P4-AAVL TCGA-P4-AAVM TCGA-P4-AAVO TCGA-PJ-A5Z8 TCGA-PJ-A5Z9 
       52.27        16.01        50.60        78.90        19.73        17.75 
TCGA-SX-A71R TCGA-SX-A71S TCGA-SX-A71U TCGA-SX-A71V TCGA-SX-A7SL TCGA-SX-A7SM 
       47.90        49.45        44.61        28.80        27.06        11.93 
TCGA-SX-A7SN TCGA-SX-A7SO TCGA-SX-A7SP TCGA-SX-A7SQ TCGA-SX-A7SR TCGA-SX-A7SS 
       19.00        41.33        16.31        41.62        26.47        53.10 
TCGA-SX-A7SU TCGA-UZ-A9PJ TCGA-UZ-A9PK TCGA-UZ-A9PL TCGA-UZ-A9PM TCGA-UZ-A9PN 
       43.76        26.20       117.40       103.63       125.29        37.35 
TCGA-UZ-A9PO TCGA-UZ-A9PP TCGA-UZ-A9PQ TCGA-UZ-A9PR TCGA-UZ-A9PS TCGA-UZ-A9PU 
       62.83        98.96        86.27        86.37        71.24        30.67 
TCGA-UZ-A9PV TCGA-UZ-A9PX TCGA-UZ-A9PZ TCGA-UZ-A9Q0 TCGA-UZ-A9Q1 TCGA-V9-A7HT 
       47.47        65.13        21.60       110.73        51.35        31.73 
TCGA-WN-A9G9 TCGA-WN-AB4C TCGA-Y8-A894 TCGA-Y8-A895 TCGA-Y8-A896 TCGA-Y8-A897 
       26.01        39.06        18.64        15.91        18.64        18.05 
TCGA-Y8-A898 TCGA-Y8-A8RY TCGA-Y8-A8RZ TCGA-Y8-A8S0 TCGA-Y8-A8S1 
       15.62        25.28         3.68         6.02        13.28 

  DEL PEAK 20(13Q12.13) MUTATED DEL PEAK 20(13Q12.13) WILD-TYPE 
                           0.23                            0.07 
  DEL PEAK 20(13Q12.13) MUTATED DEL PEAK 20(13Q12.13) WILD-TYPE 
                         151.96                          194.79 
  DEL PEAK 20(13Q12.13) MUTATED DEL PEAK 20(13Q12.13) WILD-TYPE 
                          37.66                           34.19 
[1] "0.2 - 152.0 (37.7)" "0.1 - 194.8 (34.2)"
[1] "hr=" "1.5"
D33V2, continuous
                                 vv
clus                              STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK 20(13Q12.13) MUTATED        46       24        49       29
  DEL PEAK 20(13Q12.13) WILD-TYPE     409       80       142       75
D33V3, multiclass
           clus
vv          DEL PEAK 20(13Q12.13) MUTATED DEL PEAK 20(13Q12.13) WILD-TYPE
  STAGE I                              46                             409
  STAGE II                             24                              80
  STAGE III                            49                             142
  STAGE IV                             29                              75
[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                               T1  T2  T3  T4
  DEL PEAK 20(13Q12.13) MUTATED    48  26  67   9
  DEL PEAK 20(13Q12.13) WILD-TYPE 431 101 191   6
D33V4, multiclass
    clus
vv   DEL PEAK 20(13Q12.13) MUTATED DEL PEAK 20(13Q12.13) WILD-TYPE
  T1                            48                             431
  T2                            26                             101
  T3                            67                             191
  T4                             9                               6
[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                               N0  N1  N2
  DEL PEAK 20(13Q12.13) MUTATED    68  14   5
  DEL PEAK 20(13Q12.13) WILD-TYPE 254  30   2
D33V5, multiclass
    clus
vv   DEL PEAK 20(13Q12.13) MUTATED DEL PEAK 20(13Q12.13) WILD-TYPE
  N0                            68                             254
  N1                            14                              30
  N2                             5                               2
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D33V6, binary
                                 cls
clus                                0   1
  DEL PEAK 20(13Q12.13) MUTATED    91  20
  DEL PEAK 20(13Q12.13) WILD-TYPE 454  69
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 20(13Q12.13) MUTATED     91   20
  DEL PEAK 20(13Q12.13) WILD-TYPE  454   69
   clus
vv  DEL PEAK 20(13Q12.13) MUTATED DEL PEAK 20(13Q12.13) WILD-TYPE
  0                            91                             454
  1                            20                              69
[1] 2 2
[1] FALSE
D33V7, binary
                                 cls
clus                                0   1
  DEL PEAK 20(13Q12.13) MUTATED    64  86
  DEL PEAK 20(13Q12.13) WILD-TYPE 228 503
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 20(13Q12.13) MUTATED     64   86
  DEL PEAK 20(13Q12.13) WILD-TYPE  228  503
        clus
vv       DEL PEAK 20(13Q12.13) MUTATED DEL PEAK 20(13Q12.13) WILD-TYPE
  FEMALE                            64                             228
  MALE                              86                             503
[1] 2 2
[1] FALSE
D33V8, binary
                                 cls
clus                                0   1
  DEL PEAK 20(13Q12.13) MUTATED    73   0
  DEL PEAK 20(13Q12.13) WILD-TYPE 327   3
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 20(13Q12.13) MUTATED     73    0
  DEL PEAK 20(13Q12.13) WILD-TYPE  327    3
     clus
vv    DEL PEAK 20(13Q12.13) MUTATED DEL PEAK 20(13Q12.13) WILD-TYPE
  NO                             73                             327
  YES                             0                               3
[1] 2 2
[1] FALSE
D33V9, continuous
                                 vv
clus                              KIDNEY CHROMOPHOBE
  DEL PEAK 20(13Q12.13) MUTATED                   44
  DEL PEAK 20(13Q12.13) WILD-TYPE                 22
                                 vv
clus                              KIDNEY CLEAR CELL RENAL CARCINOMA
  DEL PEAK 20(13Q12.13) MUTATED                                  81
  DEL PEAK 20(13Q12.13) WILD-TYPE                               447
                                 vv
clus                              KIDNEY PAPILLARY RENAL CELL CARCINOMA
  DEL PEAK 20(13Q12.13) MUTATED                                      25
  DEL PEAK 20(13Q12.13) WILD-TYPE                                   262
D33V10, multiclass
                                       clus
vv                                      DEL PEAK 20(13Q12.13) MUTATED
  KIDNEY CHROMOPHOBE                                               44
  KIDNEY CLEAR CELL RENAL CARCINOMA                                81
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                            25
                                       clus
vv                                      DEL PEAK 20(13Q12.13) WILD-TYPE
  KIDNEY CHROMOPHOBE                                                 22
  KIDNEY CLEAR CELL RENAL CARCINOMA                                 447
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                             262
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D33V11, continuous
D33V12, continuous
                                 vv
clus                              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 20(13Q12.13) MUTATED                                  0     4
  DEL PEAK 20(13Q12.13) WILD-TYPE                                2    11
                                 vv
clus                              BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 20(13Q12.13) MUTATED                          12   129
  DEL PEAK 20(13Q12.13) WILD-TYPE                       109   590
D33V13, multiclass
                                  clus
vv                                 DEL PEAK 20(13Q12.13) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                             0
  ASIAN                                                        4
  BLACK OR AFRICAN AMERICAN                                   12
  WHITE                                                      129
                                  clus
vv                                 DEL PEAK 20(13Q12.13) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                               2
  ASIAN                                                         11
  BLACK OR AFRICAN AMERICAN                                    109
  WHITE                                                        590
[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"
D33V14, binary
                                 cls
clus                                0   1
  DEL PEAK 20(13Q12.13) MUTATED     4  95
  DEL PEAK 20(13Q12.13) WILD-TYPE  38 526
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 20(13Q12.13) MUTATED      4   95
  DEL PEAK 20(13Q12.13) WILD-TYPE   38  526
                        clus
vv                       DEL PEAK 20(13Q12.13) MUTATED
  HISPANIC OR LATINO                                 4
  NOT HISPANIC OR LATINO                            95
                        clus
vv                       DEL PEAK 20(13Q12.13) WILD-TYPE
  HISPANIC OR LATINO                                  38
  NOT HISPANIC OR LATINO                             526
[1] 2 2
[1] FALSE

Clustering(34) Variable = DEL PEAK 21(13Q14.2) MUTATION ANALYSIS
D34V1, survival
                                sevent
clus2                              0   1
  DEL PEAK 21(13Q14.2) MUTATED    92  55
  DEL PEAK 21(13Q14.2) WILD-TYPE 553 173
  DEL PEAK 21(13Q14.2) MUTATED DEL PEAK 21(13Q14.2) WILD-TYPE 
                           147                            726 
  DEL PEAK 21(13Q14.2) MUTATED DEL PEAK 21(13Q14.2) WILD-TYPE 
                            55                            173 
$`DEL PEAK 21(13Q14.2) MUTATED`
TCGA-KL-8323 TCGA-KL-8324 TCGA-KL-8327 TCGA-KL-8328 TCGA-KL-8329 TCGA-KL-8330 
       38.07       141.73       137.06       102.81        90.48       108.62 
TCGA-KL-8331 TCGA-KL-8332 TCGA-KL-8334 TCGA-KL-8335 TCGA-KL-8336 TCGA-KL-8337 
       98.96        84.89        96.95        92.55        30.25        44.84 
TCGA-KL-8338 TCGA-KL-8339 TCGA-KL-8340 TCGA-KL-8341 TCGA-KM-8438 TCGA-KM-8440 
       86.56        28.11        66.54        24.79       151.96        44.91 
TCGA-KM-8442 TCGA-KM-8476 TCGA-KN-8418 TCGA-KN-8421 TCGA-KN-8422 TCGA-KN-8424 
       47.24       123.12       129.37        87.91        25.48        65.19 
TCGA-KN-8425 TCGA-KN-8427 TCGA-KN-8428 TCGA-KN-8429 TCGA-KN-8431 TCGA-KN-8432 
      104.52         0.99        52.27        87.12        19.33         2.50 
TCGA-KN-8434 TCGA-KN-8435 TCGA-KO-8403 TCGA-KO-8404 TCGA-KO-8405 TCGA-KO-8406 
       59.08       115.00       105.47        10.68       100.47       103.40 
TCGA-KO-8407 TCGA-KO-8408 TCGA-KO-8409 TCGA-KO-8414 TCGA-KO-8416 TCGA-KO-8417 
       92.71        16.67       104.55       105.60        90.48        92.55 
TCGA-A3-3319 TCGA-A3-3346 TCGA-A3-3347 TCGA-A3-3370 TCGA-A3-3374 TCGA-AK-3426 
       37.15         4.50        52.93        74.76        43.20        29.10 
TCGA-AK-3433 TCGA-AK-3440 TCGA-AK-3445 TCGA-AK-3465 TCGA-AS-3777 TCGA-B0-4688 
      112.08        94.19        78.64        12.13        40.70         3.32 
TCGA-B0-4690 TCGA-B0-4691 TCGA-B0-4696 TCGA-B0-4698 TCGA-B0-4699 TCGA-B0-4707 
        1.41         4.57        28.47         1.38         3.62        19.73 
TCGA-B0-4710 TCGA-B0-4712 TCGA-B0-4713 TCGA-B0-4815 TCGA-B0-4819 TCGA-B0-5092 
       57.70        43.96         6.64        52.21         6.02        15.09 
TCGA-B0-5094 TCGA-B0-5095 TCGA-B0-5099 TCGA-B0-5113 TCGA-B0-5117 TCGA-B0-5696 
       10.95         8.05        15.95        38.63        52.87        85.78 
TCGA-B4-5832 TCGA-B4-5835 TCGA-B4-5838 TCGA-B8-4143 TCGA-B8-4146 TCGA-B8-5163 
        5.10         0.53         5.46        23.31        16.80        27.02 
TCGA-B8-5549 TCGA-BP-4167 TCGA-BP-4334 TCGA-BP-4343 TCGA-BP-4351 TCGA-BP-4352 
        6.38        89.36        21.21        62.86        31.89        11.31 
TCGA-BP-4354 TCGA-BP-4761 TCGA-BP-4765 TCGA-BP-4768 TCGA-BP-4770 TCGA-BP-4787 
       33.99         5.98        71.80        13.15        10.82        15.78 
TCGA-BP-4797 TCGA-BP-4964 TCGA-BP-4968 TCGA-BP-4973 TCGA-BP-4985 TCGA-BP-4994 
       36.39        61.22        57.40        45.50        31.30        43.00 
TCGA-BP-5004 TCGA-BP-5175 TCGA-BP-5191 TCGA-BP-5196 TCGA-CJ-4639 TCGA-CJ-4868 
       37.02        30.64        31.79        33.47       106.16        21.24 
TCGA-CJ-4881 TCGA-CJ-4901 TCGA-CJ-5677 TCGA-CJ-5679 TCGA-CJ-6028 TCGA-CW-5588 
       66.21        47.67        25.71        22.32        53.42        66.31 
TCGA-CW-6090 TCGA-CW-6097 TCGA-CZ-4854 TCGA-CZ-4857 TCGA-CZ-4860 TCGA-CZ-4863 
       83.90        18.77        46.16        47.08         6.77        63.39 
TCGA-CZ-4866 TCGA-CZ-5455 TCGA-CZ-5457 TCGA-CZ-5465 TCGA-CZ-5468 TCGA-CZ-5469 
       61.41        18.44        90.54        84.30         1.94        31.10 
TCGA-CZ-5984 TCGA-DV-5568 TCGA-G6-A8L7 TCGA-2Z-A9J8 TCGA-2Z-A9JI TCGA-5P-A9K8 
       67.96        12.16        70.13        91.73        51.52        43.04 
TCGA-A4-7287 TCGA-A4-7915 TCGA-AL-A5DJ TCGA-B3-3926 TCGA-B3-A6W5 TCGA-BQ-5875 
       19.63         0.23        49.25        10.09        10.16        86.76 
TCGA-BQ-5879 TCGA-BQ-5882 TCGA-BQ-5894 TCGA-F9-A4JJ TCGA-F9-A7Q0 TCGA-G7-6789 
       22.92        21.63         2.76        10.68        13.08         4.01 
TCGA-G7-6793 TCGA-G7-7502 TCGA-G7-A8LC TCGA-G7-A8LD TCGA-GL-7966 TCGA-J7-8537 
       11.05        25.84        23.08        16.90         3.68        10.55 
TCGA-P4-A5E8 TCGA-Q2-A5QZ TCGA-UN-AAZ9 
       42.94        14.07        18.02 

$`DEL PEAK 21(13Q14.2) WILD-TYPE`
TCGA-KL-8325 TCGA-KL-8326 TCGA-KL-8333 TCGA-KL-8342 TCGA-KL-8343 TCGA-KL-8344 
       23.84       109.22        98.33        73.91        71.41        28.80 
TCGA-KL-8345 TCGA-KL-8346 TCGA-KM-8439 TCGA-KM-8441 TCGA-KM-8443 TCGA-KM-8477 
       54.74        62.37        23.28        28.80        49.97        51.06 
TCGA-KM-8639 TCGA-KN-8419 TCGA-KN-8423 TCGA-KN-8426 TCGA-KN-8433 TCGA-KN-8436 
       31.33        23.47        25.91         3.55        11.21        42.35 
TCGA-KN-8437 TCGA-KO-8410 TCGA-KO-8411 TCGA-KO-8413 TCGA-KO-8415 TCGA-3Z-A93Z 
      100.87       103.10       130.13        99.88        96.62        12.66 
TCGA-6D-AA2E TCGA-A3-3306 TCGA-A3-3307 TCGA-A3-3308 TCGA-A3-3311 TCGA-A3-3313 
       11.90        36.82        47.21         0.53        39.16        24.16 
TCGA-A3-3316 TCGA-A3-3317 TCGA-A3-3320 TCGA-A3-3322 TCGA-A3-3323 TCGA-A3-3324 
       49.08        49.02        49.58        48.59        36.36        38.99 
TCGA-A3-3325 TCGA-A3-3326 TCGA-A3-3331 TCGA-A3-3335 TCGA-A3-3336 TCGA-A3-3343 
       38.47        37.38        48.82        62.01        34.29        31.07 
TCGA-A3-3349 TCGA-A3-3351 TCGA-A3-3352 TCGA-A3-3357 TCGA-A3-3358 TCGA-A3-3359 
       45.53        29.92        18.44        88.37        42.97        82.32 
TCGA-A3-3362 TCGA-A3-3363 TCGA-A3-3365 TCGA-A3-3367 TCGA-A3-3372 TCGA-A3-3373 
       51.25        10.49        28.70        74.63        24.16        53.29 
TCGA-A3-3376 TCGA-A3-3378 TCGA-A3-3380 TCGA-A3-3382 TCGA-A3-3383 TCGA-A3-3385 
       55.76        20.71        18.64        18.87        28.31        65.52 
TCGA-A3-3387 TCGA-A3-A6NI TCGA-A3-A6NJ TCGA-A3-A6NL TCGA-A3-A6NN TCGA-A3-A8CQ 
       20.28        33.47        15.39        22.65         0.10         0.10 
TCGA-A3-A8OV TCGA-A3-A8OW TCGA-AK-3425 TCGA-AK-3427 TCGA-AK-3428 TCGA-AK-3429 
       11.18        10.62       109.91       117.80        73.08       109.41 
TCGA-AK-3430 TCGA-AK-3431 TCGA-AK-3434 TCGA-AK-3436 TCGA-AK-3443 TCGA-AK-3444 
       15.78        73.68        68.61       109.51        46.78        48.36 
TCGA-AK-3447 TCGA-AK-3450 TCGA-AK-3451 TCGA-AK-3453 TCGA-AK-3454 TCGA-AK-3455 
       40.01        49.28        94.29        83.21        28.73        22.45 
TCGA-AK-3456 TCGA-AK-3458 TCGA-AK-3460 TCGA-AK-3461 TCGA-AS-3778 TCGA-B0-4693 
       37.58        38.40        82.45        72.89         1.41         2.53 
TCGA-B0-4694 TCGA-B0-4697 TCGA-B0-4700 TCGA-B0-4701 TCGA-B0-4703 TCGA-B0-4706 
        3.48        19.00        65.10         7.82         5.98         2.14 
TCGA-B0-4714 TCGA-B0-4718 TCGA-B0-4810 TCGA-B0-4811 TCGA-B0-4813 TCGA-B0-4814 
        3.25        58.45        15.72        46.59         0.59         5.52 
TCGA-B0-4816 TCGA-B0-4817 TCGA-B0-4818 TCGA-B0-4821 TCGA-B0-4822 TCGA-B0-4823 
       45.07        33.50        16.77        40.44        36.53        14.93 
TCGA-B0-4824 TCGA-B0-4827 TCGA-B0-4828 TCGA-B0-4833 TCGA-B0-4834 TCGA-B0-4836 
       54.48        29.10        10.09        78.44        68.71        40.70 
TCGA-B0-4837 TCGA-B0-4838 TCGA-B0-4839 TCGA-B0-4841 TCGA-B0-4842 TCGA-B0-4843 
       45.30        27.42        53.88         6.71        56.68        10.52 
TCGA-B0-4844 TCGA-B0-4845 TCGA-B0-4846 TCGA-B0-4847 TCGA-B0-4848 TCGA-B0-4849 
       10.29        65.29        39.45        26.07        29.03         2.27 
TCGA-B0-4852 TCGA-B0-4945 TCGA-B0-5075 TCGA-B0-5077 TCGA-B0-5080 TCGA-B0-5081 
       36.85        70.52        20.94        43.30        11.24        11.90 
TCGA-B0-5084 TCGA-B0-5085 TCGA-B0-5088 TCGA-B0-5096 TCGA-B0-5097 TCGA-B0-5098 
        7.30        25.32        18.51         2.24        21.86        52.08 
TCGA-B0-5100 TCGA-B0-5102 TCGA-B0-5104 TCGA-B0-5106 TCGA-B0-5107 TCGA-B0-5108 
       62.89        90.87        90.48        52.54        30.48        58.59 
TCGA-B0-5109 TCGA-B0-5110 TCGA-B0-5115 TCGA-B0-5116 TCGA-B0-5119 TCGA-B0-5120 
       19.30        66.05        52.73        41.88        51.02        38.43 
TCGA-B0-5121 TCGA-B0-5399 TCGA-B0-5400 TCGA-B0-5402 TCGA-B0-5690 TCGA-B0-5691 
       48.82        46.39        56.98        42.41       111.52       112.80 
TCGA-B0-5692 TCGA-B0-5693 TCGA-B0-5694 TCGA-B0-5695 TCGA-B0-5697 TCGA-B0-5698 
      129.67       133.94        15.78        70.68        86.47       119.38 
TCGA-B0-5699 TCGA-B0-5701 TCGA-B0-5702 TCGA-B0-5703 TCGA-B0-5705 TCGA-B0-5706 
      126.28        80.91        71.41        73.84       149.16       105.37 
TCGA-B0-5709 TCGA-B0-5710 TCGA-B0-5711 TCGA-B0-5712 TCGA-B0-5713 TCGA-B0-5812 
      130.65        79.89       131.15        89.49        91.46       126.05 
TCGA-B2-3923 TCGA-B2-3924 TCGA-B2-4098 TCGA-B2-4099 TCGA-B2-4101 TCGA-B2-4102 
       32.61        35.90         1.68        31.96        21.30        31.30 
TCGA-B2-5633 TCGA-B2-5635 TCGA-B2-5639 TCGA-B2-5641 TCGA-B2-A4SR TCGA-B4-5377 
       31.66        24.82        32.98        21.57        16.67        12.00 
TCGA-B4-5378 TCGA-B4-5834 TCGA-B4-5836 TCGA-B4-5843 TCGA-B4-5844 TCGA-B8-4148 
        5.75         0.85         4.64         0.36         0.23        27.16 
TCGA-B8-4151 TCGA-B8-4153 TCGA-B8-4154 TCGA-B8-4619 TCGA-B8-4620 TCGA-B8-4621 
       42.71        25.05        45.37        17.19        25.55        25.91 
TCGA-B8-4622 TCGA-B8-5158 TCGA-B8-5159 TCGA-B8-5162 TCGA-B8-5164 TCGA-B8-5165 
       50.14        20.91        23.74         1.18         0.85        24.23 
TCGA-B8-5545 TCGA-B8-5546 TCGA-B8-5550 TCGA-B8-5551 TCGA-B8-5552 TCGA-B8-5553 
       50.14        16.60        48.53         0.53        34.39        14.30 
TCGA-B8-A54D TCGA-B8-A54E TCGA-B8-A54F TCGA-B8-A54G TCGA-B8-A54H TCGA-B8-A54I 
       27.29        29.88        17.06         1.74         8.42         4.93 
TCGA-B8-A54J TCGA-B8-A54K TCGA-B8-A7U6 TCGA-B8-A8YJ TCGA-BP-4158 TCGA-BP-4159 
       17.36        15.42        16.27        14.17       111.02        85.51 
TCGA-BP-4160 TCGA-BP-4161 TCGA-BP-4162 TCGA-BP-4163 TCGA-BP-4164 TCGA-BP-4165 
       94.72        90.28       101.06        93.34        32.61        99.85 
TCGA-BP-4166 TCGA-BP-4169 TCGA-BP-4170 TCGA-BP-4173 TCGA-BP-4174 TCGA-BP-4176 
        0.43        23.05        77.03        62.24        61.78        64.27 
TCGA-BP-4177 TCGA-BP-4325 TCGA-BP-4326 TCGA-BP-4327 TCGA-BP-4329 TCGA-BP-4330 
       54.90        97.45        53.42         3.58        27.78        62.07 
TCGA-BP-4331 TCGA-BP-4332 TCGA-BP-4335 TCGA-BP-4337 TCGA-BP-4338 TCGA-BP-4340 
       80.68        37.25        15.16         0.07        93.99        18.48 
TCGA-BP-4341 TCGA-BP-4342 TCGA-BP-4344 TCGA-BP-4346 TCGA-BP-4347 TCGA-BP-4349 
       52.24        74.17        54.77        49.08        44.94        12.23 
TCGA-BP-4353 TCGA-BP-4355 TCGA-BP-4756 TCGA-BP-4758 TCGA-BP-4759 TCGA-BP-4760 
       12.33        31.33        12.30        72.59        77.98        77.62 
TCGA-BP-4762 TCGA-BP-4763 TCGA-BP-4766 TCGA-BP-4769 TCGA-BP-4771 TCGA-BP-4774 
       44.15        41.75        48.07        61.68         5.33        61.97 
TCGA-BP-4775 TCGA-BP-4776 TCGA-BP-4777 TCGA-BP-4781 TCGA-BP-4782 TCGA-BP-4784 
       60.59        13.51        56.91        68.38        11.64        60.95 
TCGA-BP-4789 TCGA-BP-4790 TCGA-BP-4795 TCGA-BP-4798 TCGA-BP-4799 TCGA-BP-4801 
       48.95        36.53        20.38        10.98        37.25        36.95 
TCGA-BP-4803 TCGA-BP-4804 TCGA-BP-4807 TCGA-BP-4959 TCGA-BP-4960 TCGA-BP-4961 
        6.71        47.97         6.94        87.45        71.41        63.62 
TCGA-BP-4962 TCGA-BP-4963 TCGA-BP-4965 TCGA-BP-4967 TCGA-BP-4969 TCGA-BP-4970 
       58.68        60.30        61.51         6.74        58.98        14.24 
TCGA-BP-4971 TCGA-BP-4972 TCGA-BP-4974 TCGA-BP-4975 TCGA-BP-4976 TCGA-BP-4977 
       48.89        49.38         6.90        47.11        53.65        14.93 
TCGA-BP-4981 TCGA-BP-4982 TCGA-BP-4983 TCGA-BP-4986 TCGA-BP-4987 TCGA-BP-4988 
       36.07        33.34        46.45        25.81        36.95        27.22 
TCGA-BP-4989 TCGA-BP-4991 TCGA-BP-4992 TCGA-BP-4993 TCGA-BP-4995 TCGA-BP-4998 
        3.88        46.45        16.47         5.82        45.07        30.64 
TCGA-BP-4999 TCGA-BP-5000 TCGA-BP-5001 TCGA-BP-5006 TCGA-BP-5007 TCGA-BP-5008 
       41.62        18.51        38.70        27.62        37.48        35.21 
TCGA-BP-5009 TCGA-BP-5010 TCGA-BP-5168 TCGA-BP-5169 TCGA-BP-5170 TCGA-BP-5173 
       36.23        28.87        48.10         6.35        79.30         1.74 
TCGA-BP-5174 TCGA-BP-5176 TCGA-BP-5177 TCGA-BP-5178 TCGA-BP-5180 TCGA-BP-5181 
       74.20        52.27         9.63        62.86        74.40        49.15 
TCGA-BP-5182 TCGA-BP-5183 TCGA-BP-5184 TCGA-BP-5185 TCGA-BP-5186 TCGA-BP-5187 
       38.30        42.44        37.25        37.22        22.78        13.35 
TCGA-BP-5189 TCGA-BP-5190 TCGA-BP-5192 TCGA-BP-5194 TCGA-BP-5195 TCGA-BP-5198 
       27.02        33.24        23.47        13.41        24.62        19.82 
TCGA-BP-5199 TCGA-BP-5200 TCGA-BP-5201 TCGA-BP-5202 TCGA-CJ-4634 TCGA-CJ-4635 
       44.55        34.95        31.27         0.95       115.00        46.55 
TCGA-CJ-4636 TCGA-CJ-4637 TCGA-CJ-4638 TCGA-CJ-4640 TCGA-CJ-4641 TCGA-CJ-4642 
       63.25        73.22        14.17       114.41        54.61       105.37 
TCGA-CJ-4643 TCGA-CJ-4644 TCGA-CJ-4869 TCGA-CJ-4870 TCGA-CJ-4871 TCGA-CJ-4872 
       58.95        11.05        83.97        49.25        79.66        10.72 
TCGA-CJ-4873 TCGA-CJ-4874 TCGA-CJ-4875 TCGA-CJ-4876 TCGA-CJ-4878 TCGA-CJ-4882 
       74.27        75.06       116.84        64.27        71.87        61.91 
TCGA-CJ-4884 TCGA-CJ-4885 TCGA-CJ-4886 TCGA-CJ-4887 TCGA-CJ-4888 TCGA-CJ-4889 
       57.83       113.46        64.18        30.64        51.52        63.98 
TCGA-CJ-4890 TCGA-CJ-4891 TCGA-CJ-4892 TCGA-CJ-4893 TCGA-CJ-4894 TCGA-CJ-4895 
      115.69        26.93        50.01        24.66        27.65        39.45 
TCGA-CJ-4897 TCGA-CJ-4899 TCGA-CJ-4900 TCGA-CJ-4902 TCGA-CJ-4903 TCGA-CJ-4904 
      109.84        50.24        56.35        49.97        51.25       108.56 
TCGA-CJ-4905 TCGA-CJ-4907 TCGA-CJ-4908 TCGA-CJ-4912 TCGA-CJ-4913 TCGA-CJ-4916 
       49.18        49.28        50.33        54.48        38.56        45.14 
TCGA-CJ-4918 TCGA-CJ-4920 TCGA-CJ-4923 TCGA-CJ-5671 TCGA-CJ-5672 TCGA-CJ-5675 
        3.06         4.57        18.81       131.08        72.00       129.40 
TCGA-CJ-5676 TCGA-CJ-5678 TCGA-CJ-5680 TCGA-CJ-5681 TCGA-CJ-5682 TCGA-CJ-5683 
      133.71        18.87        25.25        18.15       122.83        62.10 
TCGA-CJ-5684 TCGA-CJ-5686 TCGA-CJ-5689 TCGA-CJ-6027 TCGA-CJ-6030 TCGA-CJ-6031 
       73.35        67.00        53.26       118.85        75.58        62.66 
TCGA-CJ-6032 TCGA-CJ-6033 TCGA-CW-5580 TCGA-CW-5581 TCGA-CW-5583 TCGA-CW-5584 
      119.64         7.36        64.57        92.02        81.83         5.39 
TCGA-CW-5585 TCGA-CW-5587 TCGA-CW-5589 TCGA-CW-5591 TCGA-CW-6087 TCGA-CW-6088 
       85.78        73.18        78.18        74.66         1.35       105.93 
TCGA-CW-6093 TCGA-CZ-4853 TCGA-CZ-4856 TCGA-CZ-4858 TCGA-CZ-4859 TCGA-CZ-4861 
      103.43        25.45         0.59        69.21        58.75        14.66 
TCGA-CZ-4862 TCGA-CZ-4864 TCGA-CZ-4865 TCGA-CZ-5451 TCGA-CZ-5452 TCGA-CZ-5453 
      107.54        93.04         5.46        63.42        58.82        79.53 
TCGA-CZ-5454 TCGA-CZ-5456 TCGA-CZ-5458 TCGA-CZ-5459 TCGA-CZ-5460 TCGA-CZ-5461 
       23.74        79.63        91.69        55.33        94.45        10.85 
TCGA-CZ-5462 TCGA-CZ-5463 TCGA-CZ-5464 TCGA-CZ-5466 TCGA-CZ-5467 TCGA-CZ-5470 
       10.22        21.76        69.96        22.52         2.40        12.69 
TCGA-CZ-5982 TCGA-CZ-5985 TCGA-CZ-5986 TCGA-CZ-5987 TCGA-CZ-5988 TCGA-CZ-5989 
       80.19        65.65        12.26        14.63        22.78        62.63 
TCGA-DV-5565 TCGA-DV-5566 TCGA-DV-5567 TCGA-DV-5569 TCGA-DV-5573 TCGA-DV-5574 
       13.28        45.96        65.88        11.67        37.15        66.28 
TCGA-DV-5575 TCGA-DV-5576 TCGA-DV-A4VX TCGA-DV-A4VZ TCGA-DV-A4W0 TCGA-EU-5904 
       56.84        23.90        53.46        12.00        81.21        18.12 
TCGA-EU-5905 TCGA-EU-5906 TCGA-EU-5907 TCGA-G6-A5PC TCGA-G6-A8L6 TCGA-G6-A8L8 
        3.91         6.77         4.18         7.96        10.29        35.87 
TCGA-GK-A6C7 TCGA-MM-A563 TCGA-MM-A564 TCGA-MM-A84U TCGA-MW-A4EC TCGA-T7-A92I 
        2.01        19.43        19.96        23.01        16.37        11.70 
TCGA-2K-A9WE TCGA-2Z-A9J1 TCGA-2Z-A9J2 TCGA-2Z-A9J3 TCGA-2Z-A9J5 TCGA-2Z-A9J6 
        7.04        75.55        59.01        58.22       100.27        56.91 
TCGA-2Z-A9J7 TCGA-2Z-A9J9 TCGA-2Z-A9JD TCGA-2Z-A9JE TCGA-2Z-A9JG TCGA-2Z-A9JJ 
        4.57        75.42        34.85        56.81        54.64        39.88 
TCGA-2Z-A9JK TCGA-2Z-A9JL TCGA-2Z-A9JM TCGA-2Z-A9JN TCGA-2Z-A9JO TCGA-2Z-A9JP 
       38.99        33.07        30.71        24.33        31.20        29.36 
TCGA-2Z-A9JQ TCGA-2Z-A9JR TCGA-2Z-A9JS TCGA-2Z-A9JT TCGA-4A-A93W TCGA-4A-A93X 
       25.58         5.29        16.18        22.49         0.13        12.82 
TCGA-4A-A93Y TCGA-5P-A9JU TCGA-5P-A9JV TCGA-5P-A9JW TCGA-5P-A9JY TCGA-5P-A9JZ 
       11.57        12.26        67.17       106.55        49.58        90.21 
TCGA-5P-A9K0 TCGA-5P-A9K2 TCGA-5P-A9K3 TCGA-5P-A9K4 TCGA-5P-A9K6 TCGA-5P-A9K9 
       22.26        78.64        15.48        71.80        62.93        19.36 
TCGA-5P-A9KA TCGA-5P-A9KC TCGA-5P-A9KE TCGA-5P-A9KH TCGA-A4-7286 TCGA-A4-7288 
       12.99        12.39        27.09        67.43        18.21        61.05 
TCGA-A4-7583 TCGA-A4-7584 TCGA-A4-7585 TCGA-A4-7732 TCGA-A4-7734 TCGA-A4-7828 
        0.10        21.37        35.18        19.13         0.89         7.82 
TCGA-A4-7996 TCGA-A4-7997 TCGA-A4-8098 TCGA-A4-8310 TCGA-A4-8311 TCGA-A4-8312 
       16.64        30.48        29.46        25.64        23.97        23.28 
TCGA-A4-8515 TCGA-A4-8516 TCGA-A4-8517 TCGA-A4-8518 TCGA-A4-8630 TCGA-A4-A48D 
       23.31         0.76        19.63        19.73        14.33        12.46 
TCGA-A4-A4ZT TCGA-A4-A57E TCGA-A4-A5DU TCGA-A4-A5XZ TCGA-A4-A5Y0 TCGA-A4-A5Y1 
       16.96         8.48        16.31        15.75         8.28        12.99 
TCGA-A4-A6HP TCGA-AL-3466 TCGA-AL-3467 TCGA-AL-3468 TCGA-AL-3471 TCGA-AL-3472 
       12.46         9.63        70.19        76.64        49.32        66.71 
TCGA-AL-3473 TCGA-AL-7173 TCGA-AT-A5NU TCGA-B1-5398 TCGA-B1-7332 TCGA-B1-A47M 
       62.66        67.73         2.20        19.56        37.51        21.67 
TCGA-B1-A47N TCGA-B1-A47O TCGA-B1-A654 TCGA-B1-A655 TCGA-B1-A656 TCGA-B1-A657 
       24.56        16.87        20.25        16.77        20.32        21.07 
TCGA-B3-3925 TCGA-B3-4103 TCGA-B3-4104 TCGA-B3-8121 TCGA-B9-4113 TCGA-B9-4114 
       33.83        30.58        34.49        12.46        50.50        28.18 
TCGA-B9-4115 TCGA-B9-4116 TCGA-B9-4117 TCGA-B9-4617 TCGA-B9-5155 TCGA-B9-5156 
       26.40        20.61         0.46         1.15        15.12        43.99 
TCGA-B9-7268 TCGA-B9-A44B TCGA-B9-A5W7 TCGA-B9-A5W8 TCGA-B9-A5W9 TCGA-B9-A69E 
       22.06         2.10        19.23        17.23         0.16        14.86 
TCGA-B9-A8YH TCGA-B9-A8YI TCGA-BQ-5876 TCGA-BQ-5877 TCGA-BQ-5878 TCGA-BQ-5880 
       17.49        12.30        19.27         8.88        63.72        43.20 
TCGA-BQ-5881 TCGA-BQ-5883 TCGA-BQ-5884 TCGA-BQ-5885 TCGA-BQ-5886 TCGA-BQ-5887 
       47.80        40.83        26.04        30.28        26.04        25.35 
TCGA-BQ-5888 TCGA-BQ-5889 TCGA-BQ-5890 TCGA-BQ-5891 TCGA-BQ-5892 TCGA-BQ-5893 
       13.25        10.82         7.66         0.95        11.97         7.92 
TCGA-BQ-7044 TCGA-BQ-7045 TCGA-BQ-7046 TCGA-BQ-7048 TCGA-BQ-7049 TCGA-BQ-7050 
      123.62        48.26        96.92        93.34        44.84        61.28 
TCGA-BQ-7051 TCGA-BQ-7053 TCGA-BQ-7055 TCGA-BQ-7056 TCGA-BQ-7058 TCGA-BQ-7059 
       50.40        49.84        26.27        20.12        11.28         7.63 
TCGA-BQ-7060 TCGA-BQ-7061 TCGA-BQ-7062 TCGA-DW-5560 TCGA-DW-5561 TCGA-DW-7834 
        7.04         7.17         3.81        48.85        13.61       129.86 
TCGA-DW-7836 TCGA-DW-7837 TCGA-DW-7838 TCGA-DW-7839 TCGA-DW-7840 TCGA-DW-7841 
       35.93        37.55        24.46        13.78         3.75        14.63 
TCGA-DW-7842 TCGA-DW-7963 TCGA-DZ-6131 TCGA-DZ-6132 TCGA-DZ-6133 TCGA-DZ-6134 
        3.02        40.77        79.86        80.88        51.19        61.02 
TCGA-DZ-6135 TCGA-EV-5901 TCGA-EV-5902 TCGA-EV-5903 TCGA-F9-A7VF TCGA-F9-A8NY 
       74.60        34.19        19.00        24.89         2.40         1.18 
TCGA-F9-A97G TCGA-G7-6790 TCGA-G7-6792 TCGA-G7-6795 TCGA-G7-6796 TCGA-G7-6797 
        0.43        51.78        90.90        39.25        71.44        25.15 
TCGA-G7-7501 TCGA-G7-A4TM TCGA-G7-A8LB TCGA-G7-A8LE TCGA-GL-6846 TCGA-GL-7773 
       20.52         6.38        17.98        80.65       194.79        12.92 
TCGA-GL-8500 TCGA-GL-A4EM TCGA-GL-A59R TCGA-GL-A59T TCGA-GL-A9DC TCGA-GL-A9DD 
       27.65         1.05        12.43        17.95        12.89        11.21 
TCGA-GL-A9DE TCGA-HE-A5NF TCGA-HE-A5NH TCGA-HE-A5NI TCGA-HE-A5NJ TCGA-HE-A5NK 
       16.31        84.89        26.01        11.84        56.75        73.25 
TCGA-HE-A5NL TCGA-IA-A40U TCGA-IA-A40X TCGA-IA-A40Y TCGA-IA-A83S TCGA-IA-A83T 
       25.22        16.80        19.99         2.04        85.78        88.24 
TCGA-IA-A83V TCGA-IA-A83W TCGA-IZ-8195 TCGA-IZ-8196 TCGA-IZ-A6M8 TCGA-IZ-A6M9 
       96.69        67.17        22.26        21.34        16.34        12.36 
TCGA-J7-6720 TCGA-KV-A6GD TCGA-KV-A6GE TCGA-KV-A74V TCGA-MH-A55W TCGA-MH-A55Z 
       12.76        18.41        29.10        11.41        34.29        27.78 
TCGA-MH-A560 TCGA-MH-A561 TCGA-MH-A562 TCGA-MH-A854 TCGA-MH-A855 TCGA-MH-A856 
       30.38        27.65        20.25        17.62        12.13        31.13 
TCGA-MH-A857 TCGA-O9-A75Z TCGA-P4-A5E6 TCGA-P4-A5E7 TCGA-P4-A5EA TCGA-P4-A5EB 
       29.26        15.48        99.78        87.09         6.61        99.12 
TCGA-P4-A5ED TCGA-P4-AAVK TCGA-P4-AAVL TCGA-P4-AAVM TCGA-P4-AAVO TCGA-PJ-A5Z8 
       92.58        52.27        16.01        50.60        78.90        19.73 
TCGA-PJ-A5Z9 TCGA-SX-A71R TCGA-SX-A71S TCGA-SX-A71U TCGA-SX-A71V TCGA-SX-A7SL 
       17.75        47.90        49.45        44.61        28.80        27.06 
TCGA-SX-A7SM TCGA-SX-A7SN TCGA-SX-A7SO TCGA-SX-A7SP TCGA-SX-A7SQ TCGA-SX-A7SR 
       11.93        19.00        41.33        16.31        41.62        26.47 
TCGA-SX-A7SS TCGA-SX-A7SU TCGA-UZ-A9PJ TCGA-UZ-A9PK TCGA-UZ-A9PL TCGA-UZ-A9PM 
       53.10        43.76        26.20       117.40       103.63       125.29 
TCGA-UZ-A9PN TCGA-UZ-A9PO TCGA-UZ-A9PP TCGA-UZ-A9PQ TCGA-UZ-A9PR TCGA-UZ-A9PS 
       37.35        62.83        98.96        86.27        86.37        71.24 
TCGA-UZ-A9PU TCGA-UZ-A9PV TCGA-UZ-A9PX TCGA-UZ-A9PZ TCGA-UZ-A9Q0 TCGA-UZ-A9Q1 
       30.67        47.47        65.13        21.60       110.73        51.35 
TCGA-V9-A7HT TCGA-WN-A9G9 TCGA-WN-AB4C TCGA-Y8-A894 TCGA-Y8-A895 TCGA-Y8-A896 
       31.73        26.01        39.06        18.64        15.91        18.64 
TCGA-Y8-A897 TCGA-Y8-A898 TCGA-Y8-A8RY TCGA-Y8-A8RZ TCGA-Y8-A8S0 TCGA-Y8-A8S1 
       18.05        15.62        25.28         3.68         6.02        13.28 

  DEL PEAK 21(13Q14.2) MUTATED DEL PEAK 21(13Q14.2) WILD-TYPE 
                          0.23                           0.07 
  DEL PEAK 21(13Q14.2) MUTATED DEL PEAK 21(13Q14.2) WILD-TYPE 
                        151.96                         194.79 
  DEL PEAK 21(13Q14.2) MUTATED DEL PEAK 21(13Q14.2) WILD-TYPE 
                         37.15                          34.29 
[1] "0.2 - 152.0 (37.1)" "0.1 - 194.8 (34.3)"
[1] "hr=" "1.4"
D34V2, continuous
                                vv
clus                             STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK 21(13Q14.2) MUTATED        46       22        50       30
  DEL PEAK 21(13Q14.2) WILD-TYPE     409       82       141       74
D34V3, multiclass
           clus
vv          DEL PEAK 21(13Q14.2) MUTATED DEL PEAK 21(13Q14.2) WILD-TYPE
  STAGE I                             46                            409
  STAGE II                            22                             82
  STAGE III                           50                            141
  STAGE IV                            30                             74
[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                              T1  T2  T3  T4
  DEL PEAK 21(13Q14.2) MUTATED    48  24  68   9
  DEL PEAK 21(13Q14.2) WILD-TYPE 431 103 190   6
D34V4, multiclass
    clus
vv   DEL PEAK 21(13Q14.2) MUTATED DEL PEAK 21(13Q14.2) WILD-TYPE
  T1                           48                            431
  T2                           24                            103
  T3                           68                            190
  T4                            9                              6
[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                              N0  N1  N2
  DEL PEAK 21(13Q14.2) MUTATED    69  14   4
  DEL PEAK 21(13Q14.2) WILD-TYPE 253  30   3
D34V5, multiclass
    clus
vv   DEL PEAK 21(13Q14.2) MUTATED DEL PEAK 21(13Q14.2) WILD-TYPE
  N0                           69                            253
  N1                           14                             30
  N2                            4                              3
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D34V6, binary
                                cls
clus                               0   1
  DEL PEAK 21(13Q14.2) MUTATED    90  21
  DEL PEAK 21(13Q14.2) WILD-TYPE 455  68
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 21(13Q14.2) MUTATED     90   21
  DEL PEAK 21(13Q14.2) WILD-TYPE  455   68
   clus
vv  DEL PEAK 21(13Q14.2) MUTATED DEL PEAK 21(13Q14.2) WILD-TYPE
  0                           90                            455
  1                           21                             68
[1] 2 2
[1] FALSE
D34V7, binary
                                cls
clus                               0   1
  DEL PEAK 21(13Q14.2) MUTATED    64  85
  DEL PEAK 21(13Q14.2) WILD-TYPE 228 504
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 21(13Q14.2) MUTATED     64   85
  DEL PEAK 21(13Q14.2) WILD-TYPE  228  504
        clus
vv       DEL PEAK 21(13Q14.2) MUTATED DEL PEAK 21(13Q14.2) WILD-TYPE
  FEMALE                           64                            228
  MALE                             85                            504
[1] 2 2
[1] FALSE
D34V8, binary
                                cls
clus                               0   1
  DEL PEAK 21(13Q14.2) MUTATED    74   0
  DEL PEAK 21(13Q14.2) WILD-TYPE 326   3
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 21(13Q14.2) MUTATED     74    0
  DEL PEAK 21(13Q14.2) WILD-TYPE  326    3
     clus
vv    DEL PEAK 21(13Q14.2) MUTATED DEL PEAK 21(13Q14.2) WILD-TYPE
  NO                            74                            326
  YES                            0                              3
[1] 2 2
[1] FALSE
D34V9, continuous
                                vv
clus                             KIDNEY CHROMOPHOBE
  DEL PEAK 21(13Q14.2) MUTATED                   43
  DEL PEAK 21(13Q14.2) WILD-TYPE                 23
                                vv
clus                             KIDNEY CLEAR CELL RENAL CARCINOMA
  DEL PEAK 21(13Q14.2) MUTATED                                  82
  DEL PEAK 21(13Q14.2) WILD-TYPE                               446
                                vv
clus                             KIDNEY PAPILLARY RENAL CELL CARCINOMA
  DEL PEAK 21(13Q14.2) MUTATED                                      24
  DEL PEAK 21(13Q14.2) WILD-TYPE                                   263
D34V10, multiclass
                                       clus
vv                                      DEL PEAK 21(13Q14.2) MUTATED
  KIDNEY CHROMOPHOBE                                              43
  KIDNEY CLEAR CELL RENAL CARCINOMA                               82
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                           24
                                       clus
vv                                      DEL PEAK 21(13Q14.2) WILD-TYPE
  KIDNEY CHROMOPHOBE                                                23
  KIDNEY CLEAR CELL RENAL CARCINOMA                                446
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                            263
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D34V11, continuous
D34V12, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 21(13Q14.2) MUTATED                                  0     4
  DEL PEAK 21(13Q14.2) WILD-TYPE                                2    11
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 21(13Q14.2) MUTATED                          12   128
  DEL PEAK 21(13Q14.2) WILD-TYPE                       109   591
D34V13, multiclass
                                  clus
vv                                 DEL PEAK 21(13Q14.2) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                       4
  BLACK OR AFRICAN AMERICAN                                  12
  WHITE                                                     128
                                  clus
vv                                 DEL PEAK 21(13Q14.2) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              2
  ASIAN                                                        11
  BLACK OR AFRICAN AMERICAN                                   109
  WHITE                                                       591
[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"
D34V14, binary
                                cls
clus                               0   1
  DEL PEAK 21(13Q14.2) MUTATED     5  94
  DEL PEAK 21(13Q14.2) WILD-TYPE  37 527
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 21(13Q14.2) MUTATED      5   94
  DEL PEAK 21(13Q14.2) WILD-TYPE   37  527
                        clus
vv                       DEL PEAK 21(13Q14.2) MUTATED
  HISPANIC OR LATINO                                5
  NOT HISPANIC OR LATINO                           94
                        clus
vv                       DEL PEAK 21(13Q14.2) WILD-TYPE
  HISPANIC OR LATINO                                 37
  NOT HISPANIC OR LATINO                            527
[1] 2 2
[1] FALSE

Clustering(35) Variable = DEL PEAK 22(14Q31.1) MUTATION ANALYSIS
D35V1, survival
                                sevent
clus2                              0   1
  DEL PEAK 22(14Q31.1) MUTATED   166 112
  DEL PEAK 22(14Q31.1) WILD-TYPE 479 116
  DEL PEAK 22(14Q31.1) MUTATED DEL PEAK 22(14Q31.1) WILD-TYPE 
                           278                            595 
  DEL PEAK 22(14Q31.1) MUTATED DEL PEAK 22(14Q31.1) WILD-TYPE 
                           112                            116 
$`DEL PEAK 22(14Q31.1) MUTATED`
TCGA-KL-8344 TCGA-KN-8418 TCGA-KN-8427 TCGA-3Z-A93Z TCGA-A3-3306 TCGA-A3-3311 
       28.80       129.37         0.99        12.66        36.82        39.16 
TCGA-A3-3316 TCGA-A3-3317 TCGA-A3-3319 TCGA-A3-3320 TCGA-A3-3324 TCGA-A3-3335 
       49.08        49.02        37.15        49.58        38.99        62.01 
TCGA-A3-3336 TCGA-A3-3346 TCGA-A3-3347 TCGA-A3-3349 TCGA-A3-3351 TCGA-A3-3357 
       34.29         4.50        52.93        45.53        29.92        88.37 
TCGA-A3-3378 TCGA-A3-3382 TCGA-A3-3387 TCGA-A3-A6NI TCGA-AK-3426 TCGA-AK-3427 
       20.71        18.87        20.28        33.47        29.10       117.80 
TCGA-AK-3429 TCGA-AK-3430 TCGA-AK-3431 TCGA-AK-3436 TCGA-AK-3445 TCGA-AK-3450 
      109.41        15.78        73.68       109.51        78.64        49.28 
TCGA-AK-3451 TCGA-AK-3454 TCGA-AK-3455 TCGA-AK-3458 TCGA-B0-4691 TCGA-B0-4694 
       94.29        28.73        22.45        38.40         4.57         3.48 
TCGA-B0-4703 TCGA-B0-4707 TCGA-B0-4712 TCGA-B0-4713 TCGA-B0-4814 TCGA-B0-4815 
        5.98        19.73        43.96         6.64         5.52        52.21 
TCGA-B0-4817 TCGA-B0-4819 TCGA-B0-4828 TCGA-B0-4833 TCGA-B0-4836 TCGA-B0-4838 
       33.50         6.02        10.09        78.44        40.70        27.42 
TCGA-B0-4839 TCGA-B0-4842 TCGA-B0-4847 TCGA-B0-4848 TCGA-B0-4852 TCGA-B0-4945 
       53.88        56.68        26.07        29.03        36.85        70.52 
TCGA-B0-5075 TCGA-B0-5081 TCGA-B0-5084 TCGA-B0-5092 TCGA-B0-5094 TCGA-B0-5096 
       20.94        11.90         7.30        15.09        10.95         2.24 
TCGA-B0-5097 TCGA-B0-5106 TCGA-B0-5107 TCGA-B0-5110 TCGA-B0-5113 TCGA-B0-5400 
       21.86        52.54        30.48        66.05        38.63        56.98 
TCGA-B0-5692 TCGA-B0-5694 TCGA-B0-5697 TCGA-B0-5698 TCGA-B0-5701 TCGA-B0-5710 
      129.67        15.78        86.47       119.38        80.91        79.89 
TCGA-B0-5711 TCGA-B0-5712 TCGA-B2-4098 TCGA-B2-4102 TCGA-B2-5633 TCGA-B2-5635 
      131.15        89.49         1.68        31.30        31.66        24.82 
TCGA-B2-5639 TCGA-B2-5641 TCGA-B4-5832 TCGA-B4-5836 TCGA-B4-5838 TCGA-B4-5843 
       32.98        21.57         5.10         4.64         5.46         0.36 
TCGA-B8-4143 TCGA-B8-4619 TCGA-B8-5158 TCGA-B8-5159 TCGA-B8-5162 TCGA-B8-5164 
       23.31        17.19        20.91        23.74         1.18         0.85 
TCGA-B8-5550 TCGA-B8-5551 TCGA-B8-5553 TCGA-B8-A54D TCGA-B8-A54G TCGA-B8-A54I 
       48.53         0.53        14.30        27.29         1.74         4.93 
TCGA-BP-4163 TCGA-BP-4164 TCGA-BP-4167 TCGA-BP-4173 TCGA-BP-4174 TCGA-BP-4176 
       93.34        32.61        89.36        62.24        61.78        64.27 
TCGA-BP-4331 TCGA-BP-4343 TCGA-BP-4346 TCGA-BP-4347 TCGA-BP-4352 TCGA-BP-4353 
       80.68        62.86        49.08        44.94        11.31        12.33 
TCGA-BP-4354 TCGA-BP-4761 TCGA-BP-4763 TCGA-BP-4768 TCGA-BP-4771 TCGA-BP-4777 
       33.99         5.98        41.75        13.15         5.33        56.91 
TCGA-BP-4781 TCGA-BP-4787 TCGA-BP-4797 TCGA-BP-4798 TCGA-BP-4803 TCGA-BP-4959 
       68.38        15.78        36.39        10.98         6.71        87.45 
TCGA-BP-4962 TCGA-BP-4965 TCGA-BP-4970 TCGA-BP-4971 TCGA-BP-4973 TCGA-BP-4977 
       58.68        61.51        14.24        48.89        45.50        14.93 
TCGA-BP-4981 TCGA-BP-4983 TCGA-BP-4986 TCGA-BP-4989 TCGA-BP-4992 TCGA-BP-5000 
       36.07        46.45        25.81         3.88        16.47        18.51 
TCGA-BP-5004 TCGA-BP-5009 TCGA-BP-5169 TCGA-BP-5170 TCGA-BP-5173 TCGA-BP-5174 
       37.02        36.23         6.35        79.30         1.74        74.20 
TCGA-BP-5175 TCGA-BP-5178 TCGA-BP-5180 TCGA-BP-5183 TCGA-BP-5185 TCGA-BP-5189 
       30.64        62.86        74.40        42.44        37.22        27.02 
TCGA-BP-5190 TCGA-BP-5191 TCGA-BP-5195 TCGA-BP-5196 TCGA-BP-5198 TCGA-BP-5201 
       33.24        31.79        24.62        33.47        19.82        31.27 
TCGA-CJ-4636 TCGA-CJ-4637 TCGA-CJ-4638 TCGA-CJ-4640 TCGA-CJ-4641 TCGA-CJ-4642 
       63.25        73.22        14.17       114.41        54.61       105.37 
TCGA-CJ-4644 TCGA-CJ-4868 TCGA-CJ-4869 TCGA-CJ-4871 TCGA-CJ-4873 TCGA-CJ-4874 
       11.05        21.24        83.97        79.66        74.27        75.06 
TCGA-CJ-4875 TCGA-CJ-4876 TCGA-CJ-4881 TCGA-CJ-4884 TCGA-CJ-4888 TCGA-CJ-4891 
      116.84        64.27        66.21        57.83        51.52        26.93 
TCGA-CJ-4893 TCGA-CJ-4894 TCGA-CJ-4897 TCGA-CJ-4900 TCGA-CJ-4903 TCGA-CJ-4904 
       24.66        27.65       109.84        56.35        51.25       108.56 
TCGA-CJ-4907 TCGA-CJ-4908 TCGA-CJ-4912 TCGA-CJ-4913 TCGA-CJ-4916 TCGA-CJ-4920 
       49.28        50.33        54.48        38.56        45.14         4.57 
TCGA-CJ-4923 TCGA-CJ-5671 TCGA-CJ-5672 TCGA-CJ-5675 TCGA-CJ-5676 TCGA-CJ-5677 
       18.81       131.08        72.00       129.40       133.71        25.71 
TCGA-CJ-5678 TCGA-CJ-5679 TCGA-CJ-5680 TCGA-CJ-5682 TCGA-CJ-5686 TCGA-CJ-5689 
       18.87        22.32        25.25       122.83        67.00        53.26 
TCGA-CJ-6027 TCGA-CJ-6030 TCGA-CJ-6033 TCGA-CW-5580 TCGA-CW-5584 TCGA-CW-5587 
      118.85        75.58         7.36        64.57         5.39        73.18 
TCGA-CW-5588 TCGA-CW-6087 TCGA-CW-6090 TCGA-CW-6097 TCGA-CZ-4854 TCGA-CZ-4858 
       66.31         1.35        83.90        18.77        46.16        69.21 
TCGA-CZ-4860 TCGA-CZ-4861 TCGA-CZ-4863 TCGA-CZ-4864 TCGA-CZ-4866 TCGA-CZ-5452 
        6.77        14.66        63.39        93.04        61.41        58.82 
TCGA-CZ-5455 TCGA-CZ-5456 TCGA-CZ-5461 TCGA-CZ-5462 TCGA-CZ-5463 TCGA-CZ-5465 
       18.44        79.63        10.85        10.22        21.76        84.30 
TCGA-CZ-5467 TCGA-CZ-5468 TCGA-CZ-5469 TCGA-CZ-5470 TCGA-CZ-5984 TCGA-CZ-5985 
        2.40         1.94        31.10        12.69        67.96        65.65 
TCGA-CZ-5987 TCGA-CZ-5989 TCGA-DV-5573 TCGA-DV-A4VX TCGA-G6-A5PC TCGA-G6-A8L8 
       14.63        62.63        37.15        53.46         7.96        35.87 
TCGA-MM-A563 TCGA-MM-A84U TCGA-2Z-A9JG TCGA-2Z-A9JI TCGA-2Z-A9JK TCGA-5P-A9K3 
       19.43        23.01        54.64        51.52        38.99        15.48 
TCGA-5P-A9K8 TCGA-5P-A9K9 TCGA-A4-7286 TCGA-A4-7287 TCGA-A4-7583 TCGA-A4-8098 
       43.04        19.36        18.21        19.63         0.10        29.46 
TCGA-A4-A5Y1 TCGA-AL-3466 TCGA-AL-3473 TCGA-AL-7173 TCGA-AL-A5DJ TCGA-B1-7332 
       12.99         9.63        62.66        67.73        49.25        37.51 
TCGA-B1-A655 TCGA-B3-3926 TCGA-B9-4116 TCGA-B9-A5W8 TCGA-BQ-5876 TCGA-BQ-5880 
       16.77        10.09        20.61        17.23        19.27        43.20 
TCGA-BQ-5885 TCGA-BQ-5888 TCGA-BQ-5889 TCGA-BQ-5894 TCGA-DZ-6131 TCGA-DZ-6132 
       30.28        13.25        10.82         2.76        79.86        80.88 
TCGA-F9-A4JJ TCGA-F9-A7Q0 TCGA-G7-6789 TCGA-G7-6793 TCGA-G7-6796 TCGA-G7-7501 
       10.68        13.08         4.01        11.05        71.44        20.52 
TCGA-G7-7502 TCGA-G7-A8LC TCGA-G7-A8LD TCGA-GL-8500 TCGA-HE-A5NK TCGA-IA-A40U 
       25.84        23.08        16.90        27.65        73.25        16.80 
TCGA-IA-A40Y TCGA-MH-A854 TCGA-P4-A5EA TCGA-PJ-A5Z8 TCGA-Q2-A5QZ TCGA-UN-AAZ9 
        2.04        17.62         6.61        19.73        14.07        18.02 
TCGA-UZ-A9PN TCGA-WN-A9G9 
       37.35        26.01 

$`DEL PEAK 22(14Q31.1) WILD-TYPE`
TCGA-KL-8323 TCGA-KL-8324 TCGA-KL-8325 TCGA-KL-8326 TCGA-KL-8327 TCGA-KL-8328 
       38.07       141.73        23.84       109.22       137.06       102.81 
TCGA-KL-8329 TCGA-KL-8330 TCGA-KL-8331 TCGA-KL-8332 TCGA-KL-8333 TCGA-KL-8334 
       90.48       108.62        98.96        84.89        98.33        96.95 
TCGA-KL-8335 TCGA-KL-8336 TCGA-KL-8337 TCGA-KL-8338 TCGA-KL-8339 TCGA-KL-8340 
       92.55        30.25        44.84        86.56        28.11        66.54 
TCGA-KL-8341 TCGA-KL-8342 TCGA-KL-8343 TCGA-KL-8345 TCGA-KL-8346 TCGA-KM-8438 
       24.79        73.91        71.41        54.74        62.37       151.96 
TCGA-KM-8439 TCGA-KM-8440 TCGA-KM-8441 TCGA-KM-8442 TCGA-KM-8443 TCGA-KM-8476 
       23.28        44.91        28.80        47.24        49.97       123.12 
TCGA-KM-8477 TCGA-KM-8639 TCGA-KN-8419 TCGA-KN-8421 TCGA-KN-8422 TCGA-KN-8423 
       51.06        31.33        23.47        87.91        25.48        25.91 
TCGA-KN-8424 TCGA-KN-8425 TCGA-KN-8426 TCGA-KN-8428 TCGA-KN-8429 TCGA-KN-8431 
       65.19       104.52         3.55        52.27        87.12        19.33 
TCGA-KN-8432 TCGA-KN-8433 TCGA-KN-8434 TCGA-KN-8435 TCGA-KN-8436 TCGA-KN-8437 
        2.50        11.21        59.08       115.00        42.35       100.87 
TCGA-KO-8403 TCGA-KO-8404 TCGA-KO-8405 TCGA-KO-8406 TCGA-KO-8407 TCGA-KO-8408 
      105.47        10.68       100.47       103.40        92.71        16.67 
TCGA-KO-8409 TCGA-KO-8410 TCGA-KO-8411 TCGA-KO-8413 TCGA-KO-8414 TCGA-KO-8415 
      104.55       103.10       130.13        99.88       105.60        96.62 
TCGA-KO-8416 TCGA-KO-8417 TCGA-6D-AA2E TCGA-A3-3307 TCGA-A3-3308 TCGA-A3-3313 
       90.48        92.55        11.90        47.21         0.53        24.16 
TCGA-A3-3322 TCGA-A3-3323 TCGA-A3-3325 TCGA-A3-3326 TCGA-A3-3331 TCGA-A3-3343 
       48.59        36.36        38.47        37.38        48.82        31.07 
TCGA-A3-3352 TCGA-A3-3358 TCGA-A3-3359 TCGA-A3-3362 TCGA-A3-3363 TCGA-A3-3365 
       18.44        42.97        82.32        51.25        10.49        28.70 
TCGA-A3-3367 TCGA-A3-3370 TCGA-A3-3372 TCGA-A3-3373 TCGA-A3-3374 TCGA-A3-3376 
       74.63        74.76        24.16        53.29        43.20        55.76 
TCGA-A3-3380 TCGA-A3-3383 TCGA-A3-3385 TCGA-A3-A6NJ TCGA-A3-A6NL TCGA-A3-A6NN 
       18.64        28.31        65.52        15.39        22.65         0.10 
TCGA-A3-A8CQ TCGA-A3-A8OV TCGA-A3-A8OW TCGA-AK-3425 TCGA-AK-3428 TCGA-AK-3433 
        0.10        11.18        10.62       109.91        73.08       112.08 
TCGA-AK-3434 TCGA-AK-3440 TCGA-AK-3443 TCGA-AK-3444 TCGA-AK-3447 TCGA-AK-3453 
       68.61        94.19        46.78        48.36        40.01        83.21 
TCGA-AK-3456 TCGA-AK-3460 TCGA-AK-3461 TCGA-AK-3465 TCGA-AS-3777 TCGA-AS-3778 
       37.58        82.45        72.89        12.13        40.70         1.41 
TCGA-B0-4688 TCGA-B0-4690 TCGA-B0-4693 TCGA-B0-4696 TCGA-B0-4697 TCGA-B0-4698 
        3.32         1.41         2.53        28.47        19.00         1.38 
TCGA-B0-4699 TCGA-B0-4700 TCGA-B0-4701 TCGA-B0-4706 TCGA-B0-4710 TCGA-B0-4714 
        3.62        65.10         7.82         2.14        57.70         3.25 
TCGA-B0-4718 TCGA-B0-4810 TCGA-B0-4811 TCGA-B0-4813 TCGA-B0-4816 TCGA-B0-4818 
       58.45        15.72        46.59         0.59        45.07        16.77 
TCGA-B0-4821 TCGA-B0-4822 TCGA-B0-4823 TCGA-B0-4824 TCGA-B0-4827 TCGA-B0-4834 
       40.44        36.53        14.93        54.48        29.10        68.71 
TCGA-B0-4837 TCGA-B0-4841 TCGA-B0-4843 TCGA-B0-4844 TCGA-B0-4845 TCGA-B0-4846 
       45.30         6.71        10.52        10.29        65.29        39.45 
TCGA-B0-4849 TCGA-B0-5077 TCGA-B0-5080 TCGA-B0-5085 TCGA-B0-5088 TCGA-B0-5095 
        2.27        43.30        11.24        25.32        18.51         8.05 
TCGA-B0-5098 TCGA-B0-5099 TCGA-B0-5100 TCGA-B0-5102 TCGA-B0-5104 TCGA-B0-5108 
       52.08        15.95        62.89        90.87        90.48        58.59 
TCGA-B0-5109 TCGA-B0-5115 TCGA-B0-5116 TCGA-B0-5117 TCGA-B0-5119 TCGA-B0-5120 
       19.30        52.73        41.88        52.87        51.02        38.43 
TCGA-B0-5121 TCGA-B0-5399 TCGA-B0-5402 TCGA-B0-5690 TCGA-B0-5691 TCGA-B0-5693 
       48.82        46.39        42.41       111.52       112.80       133.94 
TCGA-B0-5695 TCGA-B0-5696 TCGA-B0-5699 TCGA-B0-5702 TCGA-B0-5703 TCGA-B0-5705 
       70.68        85.78       126.28        71.41        73.84       149.16 
TCGA-B0-5706 TCGA-B0-5709 TCGA-B0-5713 TCGA-B0-5812 TCGA-B2-3923 TCGA-B2-3924 
      105.37       130.65        91.46       126.05        32.61        35.90 
TCGA-B2-4099 TCGA-B2-4101 TCGA-B2-A4SR TCGA-B4-5377 TCGA-B4-5378 TCGA-B4-5834 
       31.96        21.30        16.67        12.00         5.75         0.85 
TCGA-B4-5835 TCGA-B4-5844 TCGA-B8-4146 TCGA-B8-4148 TCGA-B8-4151 TCGA-B8-4153 
        0.53         0.23        16.80        27.16        42.71        25.05 
TCGA-B8-4154 TCGA-B8-4620 TCGA-B8-4621 TCGA-B8-4622 TCGA-B8-5163 TCGA-B8-5165 
       45.37        25.55        25.91        50.14        27.02        24.23 
TCGA-B8-5545 TCGA-B8-5546 TCGA-B8-5549 TCGA-B8-5552 TCGA-B8-A54E TCGA-B8-A54F 
       50.14        16.60         6.38        34.39        29.88        17.06 
TCGA-B8-A54H TCGA-B8-A54J TCGA-B8-A54K TCGA-B8-A7U6 TCGA-B8-A8YJ TCGA-BP-4158 
        8.42        17.36        15.42        16.27        14.17       111.02 
TCGA-BP-4159 TCGA-BP-4160 TCGA-BP-4161 TCGA-BP-4162 TCGA-BP-4165 TCGA-BP-4166 
       85.51        94.72        90.28       101.06        99.85         0.43 
TCGA-BP-4169 TCGA-BP-4170 TCGA-BP-4177 TCGA-BP-4325 TCGA-BP-4326 TCGA-BP-4327 
       23.05        77.03        54.90        97.45        53.42         3.58 
TCGA-BP-4329 TCGA-BP-4330 TCGA-BP-4332 TCGA-BP-4334 TCGA-BP-4335 TCGA-BP-4337 
       27.78        62.07        37.25        21.21        15.16         0.07 
TCGA-BP-4338 TCGA-BP-4340 TCGA-BP-4341 TCGA-BP-4342 TCGA-BP-4344 TCGA-BP-4349 
       93.99        18.48        52.24        74.17        54.77        12.23 
TCGA-BP-4351 TCGA-BP-4355 TCGA-BP-4756 TCGA-BP-4758 TCGA-BP-4759 TCGA-BP-4760 
       31.89        31.33        12.30        72.59        77.98        77.62 
TCGA-BP-4762 TCGA-BP-4765 TCGA-BP-4766 TCGA-BP-4769 TCGA-BP-4770 TCGA-BP-4774 
       44.15        71.80        48.07        61.68        10.82        61.97 
TCGA-BP-4775 TCGA-BP-4776 TCGA-BP-4782 TCGA-BP-4784 TCGA-BP-4789 TCGA-BP-4790 
       60.59        13.51        11.64        60.95        48.95        36.53 
TCGA-BP-4795 TCGA-BP-4799 TCGA-BP-4801 TCGA-BP-4804 TCGA-BP-4807 TCGA-BP-4960 
       20.38        37.25        36.95        47.97         6.94        71.41 
TCGA-BP-4961 TCGA-BP-4963 TCGA-BP-4964 TCGA-BP-4967 TCGA-BP-4968 TCGA-BP-4969 
       63.62        60.30        61.22         6.74        57.40        58.98 
TCGA-BP-4972 TCGA-BP-4974 TCGA-BP-4975 TCGA-BP-4976 TCGA-BP-4982 TCGA-BP-4985 
       49.38         6.90        47.11        53.65        33.34        31.30 
TCGA-BP-4987 TCGA-BP-4988 TCGA-BP-4991 TCGA-BP-4993 TCGA-BP-4994 TCGA-BP-4995 
       36.95        27.22        46.45         5.82        43.00        45.07 
TCGA-BP-4998 TCGA-BP-4999 TCGA-BP-5001 TCGA-BP-5006 TCGA-BP-5007 TCGA-BP-5008 
       30.64        41.62        38.70        27.62        37.48        35.21 
TCGA-BP-5010 TCGA-BP-5168 TCGA-BP-5176 TCGA-BP-5177 TCGA-BP-5181 TCGA-BP-5182 
       28.87        48.10        52.27         9.63        49.15        38.30 
TCGA-BP-5184 TCGA-BP-5186 TCGA-BP-5187 TCGA-BP-5192 TCGA-BP-5194 TCGA-BP-5199 
       37.25        22.78        13.35        23.47        13.41        44.55 
TCGA-BP-5200 TCGA-BP-5202 TCGA-CJ-4634 TCGA-CJ-4635 TCGA-CJ-4639 TCGA-CJ-4643 
       34.95         0.95       115.00        46.55       106.16        58.95 
TCGA-CJ-4870 TCGA-CJ-4872 TCGA-CJ-4878 TCGA-CJ-4882 TCGA-CJ-4885 TCGA-CJ-4886 
       49.25        10.72        71.87        61.91       113.46        64.18 
TCGA-CJ-4887 TCGA-CJ-4889 TCGA-CJ-4890 TCGA-CJ-4892 TCGA-CJ-4895 TCGA-CJ-4899 
       30.64        63.98       115.69        50.01        39.45        50.24 
TCGA-CJ-4901 TCGA-CJ-4902 TCGA-CJ-4905 TCGA-CJ-4918 TCGA-CJ-5681 TCGA-CJ-5683 
       47.67        49.97        49.18         3.06        18.15        62.10 
TCGA-CJ-5684 TCGA-CJ-6028 TCGA-CJ-6031 TCGA-CJ-6032 TCGA-CW-5581 TCGA-CW-5583 
       73.35        53.42        62.66       119.64        92.02        81.83 
TCGA-CW-5585 TCGA-CW-5589 TCGA-CW-5591 TCGA-CW-6088 TCGA-CW-6093 TCGA-CZ-4853 
       85.78        78.18        74.66       105.93       103.43        25.45 
TCGA-CZ-4856 TCGA-CZ-4857 TCGA-CZ-4859 TCGA-CZ-4862 TCGA-CZ-4865 TCGA-CZ-5451 
        0.59        47.08        58.75       107.54         5.46        63.42 
TCGA-CZ-5453 TCGA-CZ-5454 TCGA-CZ-5457 TCGA-CZ-5458 TCGA-CZ-5459 TCGA-CZ-5460 
       79.53        23.74        90.54        91.69        55.33        94.45 
TCGA-CZ-5464 TCGA-CZ-5466 TCGA-CZ-5982 TCGA-CZ-5986 TCGA-CZ-5988 TCGA-DV-5565 
       69.96        22.52        80.19        12.26        22.78        13.28 
TCGA-DV-5566 TCGA-DV-5567 TCGA-DV-5568 TCGA-DV-5569 TCGA-DV-5574 TCGA-DV-5575 
       45.96        65.88        12.16        11.67        66.28        56.84 
TCGA-DV-5576 TCGA-DV-A4VZ TCGA-DV-A4W0 TCGA-EU-5904 TCGA-EU-5905 TCGA-EU-5906 
       23.90        12.00        81.21        18.12         3.91         6.77 
TCGA-EU-5907 TCGA-G6-A8L6 TCGA-G6-A8L7 TCGA-GK-A6C7 TCGA-MM-A564 TCGA-MW-A4EC 
        4.18        10.29        70.13         2.01        19.96        16.37 
TCGA-T7-A92I TCGA-2K-A9WE TCGA-2Z-A9J1 TCGA-2Z-A9J2 TCGA-2Z-A9J3 TCGA-2Z-A9J5 
       11.70         7.04        75.55        59.01        58.22       100.27 
TCGA-2Z-A9J6 TCGA-2Z-A9J7 TCGA-2Z-A9J8 TCGA-2Z-A9J9 TCGA-2Z-A9JD TCGA-2Z-A9JE 
       56.91         4.57        91.73        75.42        34.85        56.81 
TCGA-2Z-A9JJ TCGA-2Z-A9JL TCGA-2Z-A9JM TCGA-2Z-A9JN TCGA-2Z-A9JO TCGA-2Z-A9JP 
       39.88        33.07        30.71        24.33        31.20        29.36 
TCGA-2Z-A9JQ TCGA-2Z-A9JR TCGA-2Z-A9JS TCGA-2Z-A9JT TCGA-4A-A93W TCGA-4A-A93X 
       25.58         5.29        16.18        22.49         0.13        12.82 
TCGA-4A-A93Y TCGA-5P-A9JU TCGA-5P-A9JV TCGA-5P-A9JW TCGA-5P-A9JY TCGA-5P-A9JZ 
       11.57        12.26        67.17       106.55        49.58        90.21 
TCGA-5P-A9K0 TCGA-5P-A9K2 TCGA-5P-A9K4 TCGA-5P-A9K6 TCGA-5P-A9KA TCGA-5P-A9KC 
       22.26        78.64        71.80        62.93        12.99        12.39 
TCGA-5P-A9KE TCGA-5P-A9KH TCGA-A4-7288 TCGA-A4-7584 TCGA-A4-7585 TCGA-A4-7732 
       27.09        67.43        61.05        21.37        35.18        19.13 
TCGA-A4-7734 TCGA-A4-7828 TCGA-A4-7915 TCGA-A4-7996 TCGA-A4-7997 TCGA-A4-8310 
        0.89         7.82         0.23        16.64        30.48        25.64 
TCGA-A4-8311 TCGA-A4-8312 TCGA-A4-8515 TCGA-A4-8516 TCGA-A4-8517 TCGA-A4-8518 
       23.97        23.28        23.31         0.76        19.63        19.73 
TCGA-A4-8630 TCGA-A4-A48D TCGA-A4-A4ZT TCGA-A4-A57E TCGA-A4-A5DU TCGA-A4-A5XZ 
       14.33        12.46        16.96         8.48        16.31        15.75 
TCGA-A4-A5Y0 TCGA-A4-A6HP TCGA-AL-3467 TCGA-AL-3468 TCGA-AL-3471 TCGA-AL-3472 
        8.28        12.46        70.19        76.64        49.32        66.71 
TCGA-AT-A5NU TCGA-B1-5398 TCGA-B1-A47M TCGA-B1-A47N TCGA-B1-A47O TCGA-B1-A654 
        2.20        19.56        21.67        24.56        16.87        20.25 
TCGA-B1-A656 TCGA-B1-A657 TCGA-B3-3925 TCGA-B3-4103 TCGA-B3-4104 TCGA-B3-8121 
       20.32        21.07        33.83        30.58        34.49        12.46 
TCGA-B3-A6W5 TCGA-B9-4113 TCGA-B9-4114 TCGA-B9-4115 TCGA-B9-4117 TCGA-B9-4617 
       10.16        50.50        28.18        26.40         0.46         1.15 
TCGA-B9-5155 TCGA-B9-5156 TCGA-B9-7268 TCGA-B9-A44B TCGA-B9-A5W7 TCGA-B9-A5W9 
       15.12        43.99        22.06         2.10        19.23         0.16 
TCGA-B9-A69E TCGA-B9-A8YH TCGA-B9-A8YI TCGA-BQ-5875 TCGA-BQ-5877 TCGA-BQ-5878 
       14.86        17.49        12.30        86.76         8.88        63.72 
TCGA-BQ-5879 TCGA-BQ-5881 TCGA-BQ-5882 TCGA-BQ-5883 TCGA-BQ-5884 TCGA-BQ-5886 
       22.92        47.80        21.63        40.83        26.04        26.04 
TCGA-BQ-5887 TCGA-BQ-5890 TCGA-BQ-5891 TCGA-BQ-5892 TCGA-BQ-5893 TCGA-BQ-7044 
       25.35         7.66         0.95        11.97         7.92       123.62 
TCGA-BQ-7045 TCGA-BQ-7046 TCGA-BQ-7048 TCGA-BQ-7049 TCGA-BQ-7050 TCGA-BQ-7051 
       48.26        96.92        93.34        44.84        61.28        50.40 
TCGA-BQ-7053 TCGA-BQ-7055 TCGA-BQ-7056 TCGA-BQ-7058 TCGA-BQ-7059 TCGA-BQ-7060 
       49.84        26.27        20.12        11.28         7.63         7.04 
TCGA-BQ-7061 TCGA-BQ-7062 TCGA-DW-5560 TCGA-DW-5561 TCGA-DW-7834 TCGA-DW-7836 
        7.17         3.81        48.85        13.61       129.86        35.93 
TCGA-DW-7837 TCGA-DW-7838 TCGA-DW-7839 TCGA-DW-7840 TCGA-DW-7841 TCGA-DW-7842 
       37.55        24.46        13.78         3.75        14.63         3.02 
TCGA-DW-7963 TCGA-DZ-6133 TCGA-DZ-6134 TCGA-DZ-6135 TCGA-EV-5901 TCGA-EV-5902 
       40.77        51.19        61.02        74.60        34.19        19.00 
TCGA-EV-5903 TCGA-F9-A7VF TCGA-F9-A8NY TCGA-F9-A97G TCGA-G7-6790 TCGA-G7-6792 
       24.89         2.40         1.18         0.43        51.78        90.90 
TCGA-G7-6795 TCGA-G7-6797 TCGA-G7-A4TM TCGA-G7-A8LB TCGA-G7-A8LE TCGA-GL-6846 
       39.25        25.15         6.38        17.98        80.65       194.79 
TCGA-GL-7773 TCGA-GL-7966 TCGA-GL-A4EM TCGA-GL-A59R TCGA-GL-A59T TCGA-GL-A9DC 
       12.92         3.68         1.05        12.43        17.95        12.89 
TCGA-GL-A9DD TCGA-GL-A9DE TCGA-HE-A5NF TCGA-HE-A5NH TCGA-HE-A5NI TCGA-HE-A5NJ 
       11.21        16.31        84.89        26.01        11.84        56.75 
TCGA-HE-A5NL TCGA-IA-A40X TCGA-IA-A83S TCGA-IA-A83T TCGA-IA-A83V TCGA-IA-A83W 
       25.22        19.99        85.78        88.24        96.69        67.17 
TCGA-IZ-8195 TCGA-IZ-8196 TCGA-IZ-A6M8 TCGA-IZ-A6M9 TCGA-J7-6720 TCGA-J7-8537 
       22.26        21.34        16.34        12.36        12.76        10.55 
TCGA-KV-A6GD TCGA-KV-A6GE TCGA-KV-A74V TCGA-MH-A55W TCGA-MH-A55Z TCGA-MH-A560 
       18.41        29.10        11.41        34.29        27.78        30.38 
TCGA-MH-A561 TCGA-MH-A562 TCGA-MH-A855 TCGA-MH-A856 TCGA-MH-A857 TCGA-O9-A75Z 
       27.65        20.25        12.13        31.13        29.26        15.48 
TCGA-P4-A5E6 TCGA-P4-A5E7 TCGA-P4-A5E8 TCGA-P4-A5EB TCGA-P4-A5ED TCGA-P4-AAVK 
       99.78        87.09        42.94        99.12        92.58        52.27 
TCGA-P4-AAVL TCGA-P4-AAVM TCGA-P4-AAVO TCGA-PJ-A5Z9 TCGA-SX-A71R TCGA-SX-A71S 
       16.01        50.60        78.90        17.75        47.90        49.45 
TCGA-SX-A71U TCGA-SX-A71V TCGA-SX-A7SL TCGA-SX-A7SM TCGA-SX-A7SN TCGA-SX-A7SO 
       44.61        28.80        27.06        11.93        19.00        41.33 
TCGA-SX-A7SP TCGA-SX-A7SQ TCGA-SX-A7SR TCGA-SX-A7SS TCGA-SX-A7SU TCGA-UZ-A9PJ 
       16.31        41.62        26.47        53.10        43.76        26.20 
TCGA-UZ-A9PK TCGA-UZ-A9PL TCGA-UZ-A9PM TCGA-UZ-A9PO TCGA-UZ-A9PP TCGA-UZ-A9PQ 
      117.40       103.63       125.29        62.83        98.96        86.27 
TCGA-UZ-A9PR TCGA-UZ-A9PS TCGA-UZ-A9PU TCGA-UZ-A9PV TCGA-UZ-A9PX TCGA-UZ-A9PZ 
       86.37        71.24        30.67        47.47        65.13        21.60 
TCGA-UZ-A9Q0 TCGA-UZ-A9Q1 TCGA-V9-A7HT TCGA-WN-AB4C TCGA-Y8-A894 TCGA-Y8-A895 
      110.73        51.35        31.73        39.06        18.64        15.91 
TCGA-Y8-A896 TCGA-Y8-A897 TCGA-Y8-A898 TCGA-Y8-A8RY TCGA-Y8-A8RZ TCGA-Y8-A8S0 
       18.64        18.05        15.62        25.28         3.68         6.02 
TCGA-Y8-A8S1 
       13.28 

  DEL PEAK 22(14Q31.1) MUTATED DEL PEAK 22(14Q31.1) WILD-TYPE 
                          0.10                           0.07 
  DEL PEAK 22(14Q31.1) MUTATED DEL PEAK 22(14Q31.1) WILD-TYPE 
                        133.71                         194.79 
  DEL PEAK 22(14Q31.1) MUTATED DEL PEAK 22(14Q31.1) WILD-TYPE 
                        32.795                         36.360 
[1] "0.1 - 133.7 (32.8)" "0.1 - 194.8 (36.4)"
[1] "hr=" "2.2"
D35V2, continuous
                                vv
clus                             STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK 22(14Q31.1) MUTATED       104       31        82       56
  DEL PEAK 22(14Q31.1) WILD-TYPE     351       73       109       48
D35V3, multiclass
           clus
vv          DEL PEAK 22(14Q31.1) MUTATED DEL PEAK 22(14Q31.1) WILD-TYPE
  STAGE I                            104                            351
  STAGE II                            31                             73
  STAGE III                           82                            109
  STAGE IV                            56                             48
[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                              T1  T2  T3  T4
  DEL PEAK 22(14Q31.1) MUTATED   111  41 122   5
  DEL PEAK 22(14Q31.1) WILD-TYPE 368  86 136  10
D35V4, multiclass
    clus
vv   DEL PEAK 22(14Q31.1) MUTATED DEL PEAK 22(14Q31.1) WILD-TYPE
  T1                          111                            368
  T2                           41                             86
  T3                          122                            136
  T4                            5                             10
[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                              N0  N1  N2
  DEL PEAK 22(14Q31.1) MUTATED   110  25   4
  DEL PEAK 22(14Q31.1) WILD-TYPE 212  19   3
D35V5, multiclass
    clus
vv   DEL PEAK 22(14Q31.1) MUTATED DEL PEAK 22(14Q31.1) WILD-TYPE
  N0                          110                            212
  N1                           25                             19
  N2                            4                              3
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D35V6, binary
                                cls
clus                               0   1
  DEL PEAK 22(14Q31.1) MUTATED   185  51
  DEL PEAK 22(14Q31.1) WILD-TYPE 360  38
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 22(14Q31.1) MUTATED    185   51
  DEL PEAK 22(14Q31.1) WILD-TYPE  360   38
   clus
vv  DEL PEAK 22(14Q31.1) MUTATED DEL PEAK 22(14Q31.1) WILD-TYPE
  0                          185                            360
  1                           51                             38
[1] 2 2
[1] FALSE
D35V7, binary
                                cls
clus                               0   1
  DEL PEAK 22(14Q31.1) MUTATED    96 183
  DEL PEAK 22(14Q31.1) WILD-TYPE 196 406
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 22(14Q31.1) MUTATED     96  183
  DEL PEAK 22(14Q31.1) WILD-TYPE  196  406
        clus
vv       DEL PEAK 22(14Q31.1) MUTATED DEL PEAK 22(14Q31.1) WILD-TYPE
  FEMALE                           96                            196
  MALE                            183                            406
[1] 2 2
[1] FALSE
D35V8, binary
                                cls
clus                               0   1
  DEL PEAK 22(14Q31.1) MUTATED    84   2
  DEL PEAK 22(14Q31.1) WILD-TYPE 316   1
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 22(14Q31.1) MUTATED     84    2
  DEL PEAK 22(14Q31.1) WILD-TYPE  316    1
     clus
vv    DEL PEAK 22(14Q31.1) MUTATED DEL PEAK 22(14Q31.1) WILD-TYPE
  NO                            84                            316
  YES                            2                              1
[1] 2 2
[1] FALSE
D35V9, continuous
                                vv
clus                             KIDNEY CHROMOPHOBE
  DEL PEAK 22(14Q31.1) MUTATED                    3
  DEL PEAK 22(14Q31.1) WILD-TYPE                 63
                                vv
clus                             KIDNEY CLEAR CELL RENAL CARCINOMA
  DEL PEAK 22(14Q31.1) MUTATED                                 228
  DEL PEAK 22(14Q31.1) WILD-TYPE                               300
                                vv
clus                             KIDNEY PAPILLARY RENAL CELL CARCINOMA
  DEL PEAK 22(14Q31.1) MUTATED                                      48
  DEL PEAK 22(14Q31.1) WILD-TYPE                                   239
D35V10, multiclass
                                       clus
vv                                      DEL PEAK 22(14Q31.1) MUTATED
  KIDNEY CHROMOPHOBE                                               3
  KIDNEY CLEAR CELL RENAL CARCINOMA                              228
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                           48
                                       clus
vv                                      DEL PEAK 22(14Q31.1) WILD-TYPE
  KIDNEY CHROMOPHOBE                                                63
  KIDNEY CLEAR CELL RENAL CARCINOMA                                300
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                            239
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D35V11, continuous
D35V12, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 22(14Q31.1) MUTATED                                  0     3
  DEL PEAK 22(14Q31.1) WILD-TYPE                                2    12
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 22(14Q31.1) MUTATED                          26   243
  DEL PEAK 22(14Q31.1) WILD-TYPE                        95   476
D35V13, multiclass
                                  clus
vv                                 DEL PEAK 22(14Q31.1) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                       3
  BLACK OR AFRICAN AMERICAN                                  26
  WHITE                                                     243
                                  clus
vv                                 DEL PEAK 22(14Q31.1) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              2
  ASIAN                                                        12
  BLACK OR AFRICAN AMERICAN                                    95
  WHITE                                                       476
[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"
D35V14, binary
                                cls
clus                               0   1
  DEL PEAK 22(14Q31.1) MUTATED    13 199
  DEL PEAK 22(14Q31.1) WILD-TYPE  29 422
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 22(14Q31.1) MUTATED     13  199
  DEL PEAK 22(14Q31.1) WILD-TYPE   29  422
                        clus
vv                       DEL PEAK 22(14Q31.1) MUTATED
  HISPANIC OR LATINO                               13
  NOT HISPANIC OR LATINO                          199
                        clus
vv                       DEL PEAK 22(14Q31.1) WILD-TYPE
  HISPANIC OR LATINO                                 29
  NOT HISPANIC OR LATINO                            422
[1] 2 2
[1] FALSE

Clustering(36) Variable = DEL PEAK 23(16Q23.3) MUTATION ANALYSIS
D36V1, survival
                                sevent
clus2                              0   1
  DEL PEAK 23(16Q23.3) MUTATED    18  18
  DEL PEAK 23(16Q23.3) WILD-TYPE 627 210
  DEL PEAK 23(16Q23.3) MUTATED DEL PEAK 23(16Q23.3) WILD-TYPE 
                            36                            837 
  DEL PEAK 23(16Q23.3) MUTATED DEL PEAK 23(16Q23.3) WILD-TYPE 
                            18                            210 
$`DEL PEAK 23(16Q23.3) MUTATED`
TCGA-KL-8329 TCGA-KL-8336 TCGA-KL-8339 TCGA-KN-8427 TCGA-KN-8428 TCGA-KO-8408 
       90.48        30.25        28.11         0.99        52.27        16.67 
TCGA-A3-3306 TCGA-A3-3316 TCGA-A3-A6NN TCGA-B0-4688 TCGA-B0-4822 TCGA-B0-4836 
       36.82        49.08         0.10         3.32        36.53        40.70 
TCGA-B0-4837 TCGA-B0-5097 TCGA-B0-5402 TCGA-B8-4151 TCGA-B8-5551 TCGA-BP-4354 
       45.30        21.86        42.41        42.71         0.53        33.99 
TCGA-BP-4770 TCGA-BP-4797 TCGA-BP-4985 TCGA-BP-5185 TCGA-CZ-5457 TCGA-CZ-5982 
       10.82        36.39        31.30        37.22        90.54        80.19 
TCGA-G6-A8L8 TCGA-MM-A564 TCGA-2Z-A9JI TCGA-5P-A9JU TCGA-A4-7287 TCGA-A4-A5Y1 
       35.87        19.96        51.52        12.26        19.63        12.99 
TCGA-B9-A8YI TCGA-BQ-5882 TCGA-BQ-5893 TCGA-G7-6793 TCGA-G7-A8LD TCGA-IA-A40X 
       12.30        21.63         7.92        11.05        16.90        19.99 

$`DEL PEAK 23(16Q23.3) WILD-TYPE`
TCGA-KL-8323 TCGA-KL-8324 TCGA-KL-8325 TCGA-KL-8326 TCGA-KL-8327 TCGA-KL-8328 
       38.07       141.73        23.84       109.22       137.06       102.81 
TCGA-KL-8330 TCGA-KL-8331 TCGA-KL-8332 TCGA-KL-8333 TCGA-KL-8334 TCGA-KL-8335 
      108.62        98.96        84.89        98.33        96.95        92.55 
TCGA-KL-8337 TCGA-KL-8338 TCGA-KL-8340 TCGA-KL-8341 TCGA-KL-8342 TCGA-KL-8343 
       44.84        86.56        66.54        24.79        73.91        71.41 
TCGA-KL-8344 TCGA-KL-8345 TCGA-KL-8346 TCGA-KM-8438 TCGA-KM-8439 TCGA-KM-8440 
       28.80        54.74        62.37       151.96        23.28        44.91 
TCGA-KM-8441 TCGA-KM-8442 TCGA-KM-8443 TCGA-KM-8476 TCGA-KM-8477 TCGA-KM-8639 
       28.80        47.24        49.97       123.12        51.06        31.33 
TCGA-KN-8418 TCGA-KN-8419 TCGA-KN-8421 TCGA-KN-8422 TCGA-KN-8423 TCGA-KN-8424 
      129.37        23.47        87.91        25.48        25.91        65.19 
TCGA-KN-8425 TCGA-KN-8426 TCGA-KN-8429 TCGA-KN-8431 TCGA-KN-8432 TCGA-KN-8433 
      104.52         3.55        87.12        19.33         2.50        11.21 
TCGA-KN-8434 TCGA-KN-8435 TCGA-KN-8436 TCGA-KN-8437 TCGA-KO-8403 TCGA-KO-8404 
       59.08       115.00        42.35       100.87       105.47        10.68 
TCGA-KO-8405 TCGA-KO-8406 TCGA-KO-8407 TCGA-KO-8409 TCGA-KO-8410 TCGA-KO-8411 
      100.47       103.40        92.71       104.55       103.10       130.13 
TCGA-KO-8413 TCGA-KO-8414 TCGA-KO-8415 TCGA-KO-8416 TCGA-KO-8417 TCGA-3Z-A93Z 
       99.88       105.60        96.62        90.48        92.55        12.66 
TCGA-6D-AA2E TCGA-A3-3307 TCGA-A3-3308 TCGA-A3-3311 TCGA-A3-3313 TCGA-A3-3317 
       11.90        47.21         0.53        39.16        24.16        49.02 
TCGA-A3-3319 TCGA-A3-3320 TCGA-A3-3322 TCGA-A3-3323 TCGA-A3-3324 TCGA-A3-3325 
       37.15        49.58        48.59        36.36        38.99        38.47 
TCGA-A3-3326 TCGA-A3-3331 TCGA-A3-3335 TCGA-A3-3336 TCGA-A3-3343 TCGA-A3-3346 
       37.38        48.82        62.01        34.29        31.07         4.50 
TCGA-A3-3347 TCGA-A3-3349 TCGA-A3-3351 TCGA-A3-3352 TCGA-A3-3357 TCGA-A3-3358 
       52.93        45.53        29.92        18.44        88.37        42.97 
TCGA-A3-3359 TCGA-A3-3362 TCGA-A3-3363 TCGA-A3-3365 TCGA-A3-3367 TCGA-A3-3370 
       82.32        51.25        10.49        28.70        74.63        74.76 
TCGA-A3-3372 TCGA-A3-3373 TCGA-A3-3374 TCGA-A3-3376 TCGA-A3-3378 TCGA-A3-3380 
       24.16        53.29        43.20        55.76        20.71        18.64 
TCGA-A3-3382 TCGA-A3-3383 TCGA-A3-3385 TCGA-A3-3387 TCGA-A3-A6NI TCGA-A3-A6NJ 
       18.87        28.31        65.52        20.28        33.47        15.39 
TCGA-A3-A6NL TCGA-A3-A8CQ TCGA-A3-A8OV TCGA-A3-A8OW TCGA-AK-3425 TCGA-AK-3426 
       22.65         0.10        11.18        10.62       109.91        29.10 
TCGA-AK-3427 TCGA-AK-3428 TCGA-AK-3429 TCGA-AK-3430 TCGA-AK-3431 TCGA-AK-3433 
      117.80        73.08       109.41        15.78        73.68       112.08 
TCGA-AK-3434 TCGA-AK-3436 TCGA-AK-3440 TCGA-AK-3443 TCGA-AK-3444 TCGA-AK-3445 
       68.61       109.51        94.19        46.78        48.36        78.64 
TCGA-AK-3447 TCGA-AK-3450 TCGA-AK-3451 TCGA-AK-3453 TCGA-AK-3454 TCGA-AK-3455 
       40.01        49.28        94.29        83.21        28.73        22.45 
TCGA-AK-3456 TCGA-AK-3458 TCGA-AK-3460 TCGA-AK-3461 TCGA-AK-3465 TCGA-AS-3777 
       37.58        38.40        82.45        72.89        12.13        40.70 
TCGA-AS-3778 TCGA-B0-4690 TCGA-B0-4691 TCGA-B0-4693 TCGA-B0-4694 TCGA-B0-4696 
        1.41         1.41         4.57         2.53         3.48        28.47 
TCGA-B0-4697 TCGA-B0-4698 TCGA-B0-4699 TCGA-B0-4700 TCGA-B0-4701 TCGA-B0-4703 
       19.00         1.38         3.62        65.10         7.82         5.98 
TCGA-B0-4706 TCGA-B0-4707 TCGA-B0-4710 TCGA-B0-4712 TCGA-B0-4713 TCGA-B0-4714 
        2.14        19.73        57.70        43.96         6.64         3.25 
TCGA-B0-4718 TCGA-B0-4810 TCGA-B0-4811 TCGA-B0-4813 TCGA-B0-4814 TCGA-B0-4815 
       58.45        15.72        46.59         0.59         5.52        52.21 
TCGA-B0-4816 TCGA-B0-4817 TCGA-B0-4818 TCGA-B0-4819 TCGA-B0-4821 TCGA-B0-4823 
       45.07        33.50        16.77         6.02        40.44        14.93 
TCGA-B0-4824 TCGA-B0-4827 TCGA-B0-4828 TCGA-B0-4833 TCGA-B0-4834 TCGA-B0-4838 
       54.48        29.10        10.09        78.44        68.71        27.42 
TCGA-B0-4839 TCGA-B0-4841 TCGA-B0-4842 TCGA-B0-4843 TCGA-B0-4844 TCGA-B0-4845 
       53.88         6.71        56.68        10.52        10.29        65.29 
TCGA-B0-4846 TCGA-B0-4847 TCGA-B0-4848 TCGA-B0-4849 TCGA-B0-4852 TCGA-B0-4945 
       39.45        26.07        29.03         2.27        36.85        70.52 
TCGA-B0-5075 TCGA-B0-5077 TCGA-B0-5080 TCGA-B0-5081 TCGA-B0-5084 TCGA-B0-5085 
       20.94        43.30        11.24        11.90         7.30        25.32 
TCGA-B0-5088 TCGA-B0-5092 TCGA-B0-5094 TCGA-B0-5095 TCGA-B0-5096 TCGA-B0-5098 
       18.51        15.09        10.95         8.05         2.24        52.08 
TCGA-B0-5099 TCGA-B0-5100 TCGA-B0-5102 TCGA-B0-5104 TCGA-B0-5106 TCGA-B0-5107 
       15.95        62.89        90.87        90.48        52.54        30.48 
TCGA-B0-5108 TCGA-B0-5109 TCGA-B0-5110 TCGA-B0-5113 TCGA-B0-5115 TCGA-B0-5116 
       58.59        19.30        66.05        38.63        52.73        41.88 
TCGA-B0-5117 TCGA-B0-5119 TCGA-B0-5120 TCGA-B0-5121 TCGA-B0-5399 TCGA-B0-5400 
       52.87        51.02        38.43        48.82        46.39        56.98 
TCGA-B0-5690 TCGA-B0-5691 TCGA-B0-5692 TCGA-B0-5693 TCGA-B0-5694 TCGA-B0-5695 
      111.52       112.80       129.67       133.94        15.78        70.68 
TCGA-B0-5696 TCGA-B0-5697 TCGA-B0-5698 TCGA-B0-5699 TCGA-B0-5701 TCGA-B0-5702 
       85.78        86.47       119.38       126.28        80.91        71.41 
TCGA-B0-5703 TCGA-B0-5705 TCGA-B0-5706 TCGA-B0-5709 TCGA-B0-5710 TCGA-B0-5711 
       73.84       149.16       105.37       130.65        79.89       131.15 
TCGA-B0-5712 TCGA-B0-5713 TCGA-B0-5812 TCGA-B2-3923 TCGA-B2-3924 TCGA-B2-4098 
       89.49        91.46       126.05        32.61        35.90         1.68 
TCGA-B2-4099 TCGA-B2-4101 TCGA-B2-4102 TCGA-B2-5633 TCGA-B2-5635 TCGA-B2-5639 
       31.96        21.30        31.30        31.66        24.82        32.98 
TCGA-B2-5641 TCGA-B2-A4SR TCGA-B4-5377 TCGA-B4-5378 TCGA-B4-5832 TCGA-B4-5834 
       21.57        16.67        12.00         5.75         5.10         0.85 
TCGA-B4-5835 TCGA-B4-5836 TCGA-B4-5838 TCGA-B4-5843 TCGA-B4-5844 TCGA-B8-4143 
        0.53         4.64         5.46         0.36         0.23        23.31 
TCGA-B8-4146 TCGA-B8-4148 TCGA-B8-4153 TCGA-B8-4154 TCGA-B8-4619 TCGA-B8-4620 
       16.80        27.16        25.05        45.37        17.19        25.55 
TCGA-B8-4621 TCGA-B8-4622 TCGA-B8-5158 TCGA-B8-5159 TCGA-B8-5162 TCGA-B8-5163 
       25.91        50.14        20.91        23.74         1.18        27.02 
TCGA-B8-5164 TCGA-B8-5165 TCGA-B8-5545 TCGA-B8-5546 TCGA-B8-5549 TCGA-B8-5550 
        0.85        24.23        50.14        16.60         6.38        48.53 
TCGA-B8-5552 TCGA-B8-5553 TCGA-B8-A54D TCGA-B8-A54E TCGA-B8-A54F TCGA-B8-A54G 
       34.39        14.30        27.29        29.88        17.06         1.74 
TCGA-B8-A54H TCGA-B8-A54I TCGA-B8-A54J TCGA-B8-A54K TCGA-B8-A7U6 TCGA-B8-A8YJ 
        8.42         4.93        17.36        15.42        16.27        14.17 
TCGA-BP-4158 TCGA-BP-4159 TCGA-BP-4160 TCGA-BP-4161 TCGA-BP-4162 TCGA-BP-4163 
      111.02        85.51        94.72        90.28       101.06        93.34 
TCGA-BP-4164 TCGA-BP-4165 TCGA-BP-4166 TCGA-BP-4167 TCGA-BP-4169 TCGA-BP-4170 
       32.61        99.85         0.43        89.36        23.05        77.03 
TCGA-BP-4173 TCGA-BP-4174 TCGA-BP-4176 TCGA-BP-4177 TCGA-BP-4325 TCGA-BP-4326 
       62.24        61.78        64.27        54.90        97.45        53.42 
TCGA-BP-4327 TCGA-BP-4329 TCGA-BP-4330 TCGA-BP-4331 TCGA-BP-4332 TCGA-BP-4334 
        3.58        27.78        62.07        80.68        37.25        21.21 
TCGA-BP-4335 TCGA-BP-4337 TCGA-BP-4338 TCGA-BP-4340 TCGA-BP-4341 TCGA-BP-4342 
       15.16         0.07        93.99        18.48        52.24        74.17 
TCGA-BP-4343 TCGA-BP-4344 TCGA-BP-4346 TCGA-BP-4347 TCGA-BP-4349 TCGA-BP-4351 
       62.86        54.77        49.08        44.94        12.23        31.89 
TCGA-BP-4352 TCGA-BP-4353 TCGA-BP-4355 TCGA-BP-4756 TCGA-BP-4758 TCGA-BP-4759 
       11.31        12.33        31.33        12.30        72.59        77.98 
TCGA-BP-4760 TCGA-BP-4761 TCGA-BP-4762 TCGA-BP-4763 TCGA-BP-4765 TCGA-BP-4766 
       77.62         5.98        44.15        41.75        71.80        48.07 
TCGA-BP-4768 TCGA-BP-4769 TCGA-BP-4771 TCGA-BP-4774 TCGA-BP-4775 TCGA-BP-4776 
       13.15        61.68         5.33        61.97        60.59        13.51 
TCGA-BP-4777 TCGA-BP-4781 TCGA-BP-4782 TCGA-BP-4784 TCGA-BP-4787 TCGA-BP-4789 
       56.91        68.38        11.64        60.95        15.78        48.95 
TCGA-BP-4790 TCGA-BP-4795 TCGA-BP-4798 TCGA-BP-4799 TCGA-BP-4801 TCGA-BP-4803 
       36.53        20.38        10.98        37.25        36.95         6.71 
TCGA-BP-4804 TCGA-BP-4807 TCGA-BP-4959 TCGA-BP-4960 TCGA-BP-4961 TCGA-BP-4962 
       47.97         6.94        87.45        71.41        63.62        58.68 
TCGA-BP-4963 TCGA-BP-4964 TCGA-BP-4965 TCGA-BP-4967 TCGA-BP-4968 TCGA-BP-4969 
       60.30        61.22        61.51         6.74        57.40        58.98 
TCGA-BP-4970 TCGA-BP-4971 TCGA-BP-4972 TCGA-BP-4973 TCGA-BP-4974 TCGA-BP-4975 
       14.24        48.89        49.38        45.50         6.90        47.11 
TCGA-BP-4976 TCGA-BP-4977 TCGA-BP-4981 TCGA-BP-4982 TCGA-BP-4983 TCGA-BP-4986 
       53.65        14.93        36.07        33.34        46.45        25.81 
TCGA-BP-4987 TCGA-BP-4988 TCGA-BP-4989 TCGA-BP-4991 TCGA-BP-4992 TCGA-BP-4993 
       36.95        27.22         3.88        46.45        16.47         5.82 
TCGA-BP-4994 TCGA-BP-4995 TCGA-BP-4998 TCGA-BP-4999 TCGA-BP-5000 TCGA-BP-5001 
       43.00        45.07        30.64        41.62        18.51        38.70 
TCGA-BP-5004 TCGA-BP-5006 TCGA-BP-5007 TCGA-BP-5008 TCGA-BP-5009 TCGA-BP-5010 
       37.02        27.62        37.48        35.21        36.23        28.87 
TCGA-BP-5168 TCGA-BP-5169 TCGA-BP-5170 TCGA-BP-5173 TCGA-BP-5174 TCGA-BP-5175 
       48.10         6.35        79.30         1.74        74.20        30.64 
TCGA-BP-5176 TCGA-BP-5177 TCGA-BP-5178 TCGA-BP-5180 TCGA-BP-5181 TCGA-BP-5182 
       52.27         9.63        62.86        74.40        49.15        38.30 
TCGA-BP-5183 TCGA-BP-5184 TCGA-BP-5186 TCGA-BP-5187 TCGA-BP-5189 TCGA-BP-5190 
       42.44        37.25        22.78        13.35        27.02        33.24 
TCGA-BP-5191 TCGA-BP-5192 TCGA-BP-5194 TCGA-BP-5195 TCGA-BP-5196 TCGA-BP-5198 
       31.79        23.47        13.41        24.62        33.47        19.82 
TCGA-BP-5199 TCGA-BP-5200 TCGA-BP-5201 TCGA-BP-5202 TCGA-CJ-4634 TCGA-CJ-4635 
       44.55        34.95        31.27         0.95       115.00        46.55 
TCGA-CJ-4636 TCGA-CJ-4637 TCGA-CJ-4638 TCGA-CJ-4639 TCGA-CJ-4640 TCGA-CJ-4641 
       63.25        73.22        14.17       106.16       114.41        54.61 
TCGA-CJ-4642 TCGA-CJ-4643 TCGA-CJ-4644 TCGA-CJ-4868 TCGA-CJ-4869 TCGA-CJ-4870 
      105.37        58.95        11.05        21.24        83.97        49.25 
TCGA-CJ-4871 TCGA-CJ-4872 TCGA-CJ-4873 TCGA-CJ-4874 TCGA-CJ-4875 TCGA-CJ-4876 
       79.66        10.72        74.27        75.06       116.84        64.27 
TCGA-CJ-4878 TCGA-CJ-4881 TCGA-CJ-4882 TCGA-CJ-4884 TCGA-CJ-4885 TCGA-CJ-4886 
       71.87        66.21        61.91        57.83       113.46        64.18 
TCGA-CJ-4887 TCGA-CJ-4888 TCGA-CJ-4889 TCGA-CJ-4890 TCGA-CJ-4891 TCGA-CJ-4892 
       30.64        51.52        63.98       115.69        26.93        50.01 
TCGA-CJ-4893 TCGA-CJ-4894 TCGA-CJ-4895 TCGA-CJ-4897 TCGA-CJ-4899 TCGA-CJ-4900 
       24.66        27.65        39.45       109.84        50.24        56.35 
TCGA-CJ-4901 TCGA-CJ-4902 TCGA-CJ-4903 TCGA-CJ-4904 TCGA-CJ-4905 TCGA-CJ-4907 
       47.67        49.97        51.25       108.56        49.18        49.28 
TCGA-CJ-4908 TCGA-CJ-4912 TCGA-CJ-4913 TCGA-CJ-4916 TCGA-CJ-4918 TCGA-CJ-4920 
       50.33        54.48        38.56        45.14         3.06         4.57 
TCGA-CJ-4923 TCGA-CJ-5671 TCGA-CJ-5672 TCGA-CJ-5675 TCGA-CJ-5676 TCGA-CJ-5677 
       18.81       131.08        72.00       129.40       133.71        25.71 
TCGA-CJ-5678 TCGA-CJ-5679 TCGA-CJ-5680 TCGA-CJ-5681 TCGA-CJ-5682 TCGA-CJ-5683 
       18.87        22.32        25.25        18.15       122.83        62.10 
TCGA-CJ-5684 TCGA-CJ-5686 TCGA-CJ-5689 TCGA-CJ-6027 TCGA-CJ-6028 TCGA-CJ-6030 
       73.35        67.00        53.26       118.85        53.42        75.58 
TCGA-CJ-6031 TCGA-CJ-6032 TCGA-CJ-6033 TCGA-CW-5580 TCGA-CW-5581 TCGA-CW-5583 
       62.66       119.64         7.36        64.57        92.02        81.83 
TCGA-CW-5584 TCGA-CW-5585 TCGA-CW-5587 TCGA-CW-5588 TCGA-CW-5589 TCGA-CW-5591 
        5.39        85.78        73.18        66.31        78.18        74.66 
TCGA-CW-6087 TCGA-CW-6088 TCGA-CW-6090 TCGA-CW-6093 TCGA-CW-6097 TCGA-CZ-4853 
        1.35       105.93        83.90       103.43        18.77        25.45 
TCGA-CZ-4854 TCGA-CZ-4856 TCGA-CZ-4857 TCGA-CZ-4858 TCGA-CZ-4859 TCGA-CZ-4860 
       46.16         0.59        47.08        69.21        58.75         6.77 
TCGA-CZ-4861 TCGA-CZ-4862 TCGA-CZ-4863 TCGA-CZ-4864 TCGA-CZ-4865 TCGA-CZ-4866 
       14.66       107.54        63.39        93.04         5.46        61.41 
TCGA-CZ-5451 TCGA-CZ-5452 TCGA-CZ-5453 TCGA-CZ-5454 TCGA-CZ-5455 TCGA-CZ-5456 
       63.42        58.82        79.53        23.74        18.44        79.63 
TCGA-CZ-5458 TCGA-CZ-5459 TCGA-CZ-5460 TCGA-CZ-5461 TCGA-CZ-5462 TCGA-CZ-5463 
       91.69        55.33        94.45        10.85        10.22        21.76 
TCGA-CZ-5464 TCGA-CZ-5465 TCGA-CZ-5466 TCGA-CZ-5467 TCGA-CZ-5468 TCGA-CZ-5469 
       69.96        84.30        22.52         2.40         1.94        31.10 
TCGA-CZ-5470 TCGA-CZ-5984 TCGA-CZ-5985 TCGA-CZ-5986 TCGA-CZ-5987 TCGA-CZ-5988 
       12.69        67.96        65.65        12.26        14.63        22.78 
TCGA-CZ-5989 TCGA-DV-5565 TCGA-DV-5566 TCGA-DV-5567 TCGA-DV-5568 TCGA-DV-5569 
       62.63        13.28        45.96        65.88        12.16        11.67 
TCGA-DV-5573 TCGA-DV-5574 TCGA-DV-5575 TCGA-DV-5576 TCGA-DV-A4VX TCGA-DV-A4VZ 
       37.15        66.28        56.84        23.90        53.46        12.00 
TCGA-DV-A4W0 TCGA-EU-5904 TCGA-EU-5905 TCGA-EU-5906 TCGA-EU-5907 TCGA-G6-A5PC 
       81.21        18.12         3.91         6.77         4.18         7.96 
TCGA-G6-A8L6 TCGA-G6-A8L7 TCGA-GK-A6C7 TCGA-MM-A563 TCGA-MM-A84U TCGA-MW-A4EC 
       10.29        70.13         2.01        19.43        23.01        16.37 
TCGA-T7-A92I TCGA-2K-A9WE TCGA-2Z-A9J1 TCGA-2Z-A9J2 TCGA-2Z-A9J3 TCGA-2Z-A9J5 
       11.70         7.04        75.55        59.01        58.22       100.27 
TCGA-2Z-A9J6 TCGA-2Z-A9J7 TCGA-2Z-A9J8 TCGA-2Z-A9J9 TCGA-2Z-A9JD TCGA-2Z-A9JE 
       56.91         4.57        91.73        75.42        34.85        56.81 
TCGA-2Z-A9JG TCGA-2Z-A9JJ TCGA-2Z-A9JK TCGA-2Z-A9JL TCGA-2Z-A9JM TCGA-2Z-A9JN 
       54.64        39.88        38.99        33.07        30.71        24.33 
TCGA-2Z-A9JO TCGA-2Z-A9JP TCGA-2Z-A9JQ TCGA-2Z-A9JR TCGA-2Z-A9JS TCGA-2Z-A9JT 
       31.20        29.36        25.58         5.29        16.18        22.49 
TCGA-4A-A93W TCGA-4A-A93X TCGA-4A-A93Y TCGA-5P-A9JV TCGA-5P-A9JW TCGA-5P-A9JY 
        0.13        12.82        11.57        67.17       106.55        49.58 
TCGA-5P-A9JZ TCGA-5P-A9K0 TCGA-5P-A9K2 TCGA-5P-A9K3 TCGA-5P-A9K4 TCGA-5P-A9K6 
       90.21        22.26        78.64        15.48        71.80        62.93 
TCGA-5P-A9K8 TCGA-5P-A9K9 TCGA-5P-A9KA TCGA-5P-A9KC TCGA-5P-A9KE TCGA-5P-A9KH 
       43.04        19.36        12.99        12.39        27.09        67.43 
TCGA-A4-7286 TCGA-A4-7288 TCGA-A4-7583 TCGA-A4-7584 TCGA-A4-7585 TCGA-A4-7732 
       18.21        61.05         0.10        21.37        35.18        19.13 
TCGA-A4-7734 TCGA-A4-7828 TCGA-A4-7915 TCGA-A4-7996 TCGA-A4-7997 TCGA-A4-8098 
        0.89         7.82         0.23        16.64        30.48        29.46 
TCGA-A4-8310 TCGA-A4-8311 TCGA-A4-8312 TCGA-A4-8515 TCGA-A4-8516 TCGA-A4-8517 
       25.64        23.97        23.28        23.31         0.76        19.63 
TCGA-A4-8518 TCGA-A4-8630 TCGA-A4-A48D TCGA-A4-A4ZT TCGA-A4-A57E TCGA-A4-A5DU 
       19.73        14.33        12.46        16.96         8.48        16.31 
TCGA-A4-A5XZ TCGA-A4-A5Y0 TCGA-A4-A6HP TCGA-AL-3466 TCGA-AL-3467 TCGA-AL-3468 
       15.75         8.28        12.46         9.63        70.19        76.64 
TCGA-AL-3471 TCGA-AL-3472 TCGA-AL-3473 TCGA-AL-7173 TCGA-AL-A5DJ TCGA-AT-A5NU 
       49.32        66.71        62.66        67.73        49.25         2.20 
TCGA-B1-5398 TCGA-B1-7332 TCGA-B1-A47M TCGA-B1-A47N TCGA-B1-A47O TCGA-B1-A654 
       19.56        37.51        21.67        24.56        16.87        20.25 
TCGA-B1-A655 TCGA-B1-A656 TCGA-B1-A657 TCGA-B3-3925 TCGA-B3-3926 TCGA-B3-4103 
       16.77        20.32        21.07        33.83        10.09        30.58 
TCGA-B3-4104 TCGA-B3-8121 TCGA-B3-A6W5 TCGA-B9-4113 TCGA-B9-4114 TCGA-B9-4115 
       34.49        12.46        10.16        50.50        28.18        26.40 
TCGA-B9-4116 TCGA-B9-4117 TCGA-B9-4617 TCGA-B9-5155 TCGA-B9-5156 TCGA-B9-7268 
       20.61         0.46         1.15        15.12        43.99        22.06 
TCGA-B9-A44B TCGA-B9-A5W7 TCGA-B9-A5W8 TCGA-B9-A5W9 TCGA-B9-A69E TCGA-B9-A8YH 
        2.10        19.23        17.23         0.16        14.86        17.49 
TCGA-BQ-5875 TCGA-BQ-5876 TCGA-BQ-5877 TCGA-BQ-5878 TCGA-BQ-5879 TCGA-BQ-5880 
       86.76        19.27         8.88        63.72        22.92        43.20 
TCGA-BQ-5881 TCGA-BQ-5883 TCGA-BQ-5884 TCGA-BQ-5885 TCGA-BQ-5886 TCGA-BQ-5887 
       47.80        40.83        26.04        30.28        26.04        25.35 
TCGA-BQ-5888 TCGA-BQ-5889 TCGA-BQ-5890 TCGA-BQ-5891 TCGA-BQ-5892 TCGA-BQ-5894 
       13.25        10.82         7.66         0.95        11.97         2.76 
TCGA-BQ-7044 TCGA-BQ-7045 TCGA-BQ-7046 TCGA-BQ-7048 TCGA-BQ-7049 TCGA-BQ-7050 
      123.62        48.26        96.92        93.34        44.84        61.28 
TCGA-BQ-7051 TCGA-BQ-7053 TCGA-BQ-7055 TCGA-BQ-7056 TCGA-BQ-7058 TCGA-BQ-7059 
       50.40        49.84        26.27        20.12        11.28         7.63 
TCGA-BQ-7060 TCGA-BQ-7061 TCGA-BQ-7062 TCGA-DW-5560 TCGA-DW-5561 TCGA-DW-7834 
        7.04         7.17         3.81        48.85        13.61       129.86 
TCGA-DW-7836 TCGA-DW-7837 TCGA-DW-7838 TCGA-DW-7839 TCGA-DW-7840 TCGA-DW-7841 
       35.93        37.55        24.46        13.78         3.75        14.63 
TCGA-DW-7842 TCGA-DW-7963 TCGA-DZ-6131 TCGA-DZ-6132 TCGA-DZ-6133 TCGA-DZ-6134 
        3.02        40.77        79.86        80.88        51.19        61.02 
TCGA-DZ-6135 TCGA-EV-5901 TCGA-EV-5902 TCGA-EV-5903 TCGA-F9-A4JJ TCGA-F9-A7Q0 
       74.60        34.19        19.00        24.89        10.68        13.08 
TCGA-F9-A7VF TCGA-F9-A8NY TCGA-F9-A97G TCGA-G7-6789 TCGA-G7-6790 TCGA-G7-6792 
        2.40         1.18         0.43         4.01        51.78        90.90 
TCGA-G7-6795 TCGA-G7-6796 TCGA-G7-6797 TCGA-G7-7501 TCGA-G7-7502 TCGA-G7-A4TM 
       39.25        71.44        25.15        20.52        25.84         6.38 
TCGA-G7-A8LB TCGA-G7-A8LC TCGA-G7-A8LE TCGA-GL-6846 TCGA-GL-7773 TCGA-GL-7966 
       17.98        23.08        80.65       194.79        12.92         3.68 
TCGA-GL-8500 TCGA-GL-A4EM TCGA-GL-A59R TCGA-GL-A59T TCGA-GL-A9DC TCGA-GL-A9DD 
       27.65         1.05        12.43        17.95        12.89        11.21 
TCGA-GL-A9DE TCGA-HE-A5NF TCGA-HE-A5NH TCGA-HE-A5NI TCGA-HE-A5NJ TCGA-HE-A5NK 
       16.31        84.89        26.01        11.84        56.75        73.25 
TCGA-HE-A5NL TCGA-IA-A40U TCGA-IA-A40Y TCGA-IA-A83S TCGA-IA-A83T TCGA-IA-A83V 
       25.22        16.80         2.04        85.78        88.24        96.69 
TCGA-IA-A83W TCGA-IZ-8195 TCGA-IZ-8196 TCGA-IZ-A6M8 TCGA-IZ-A6M9 TCGA-J7-6720 
       67.17        22.26        21.34        16.34        12.36        12.76 
TCGA-J7-8537 TCGA-KV-A6GD TCGA-KV-A6GE TCGA-KV-A74V TCGA-MH-A55W TCGA-MH-A55Z 
       10.55        18.41        29.10        11.41        34.29        27.78 
TCGA-MH-A560 TCGA-MH-A561 TCGA-MH-A562 TCGA-MH-A854 TCGA-MH-A855 TCGA-MH-A856 
       30.38        27.65        20.25        17.62        12.13        31.13 
TCGA-MH-A857 TCGA-O9-A75Z TCGA-P4-A5E6 TCGA-P4-A5E7 TCGA-P4-A5E8 TCGA-P4-A5EA 
       29.26        15.48        99.78        87.09        42.94         6.61 
TCGA-P4-A5EB TCGA-P4-A5ED TCGA-P4-AAVK TCGA-P4-AAVL TCGA-P4-AAVM TCGA-P4-AAVO 
       99.12        92.58        52.27        16.01        50.60        78.90 
TCGA-PJ-A5Z8 TCGA-PJ-A5Z9 TCGA-Q2-A5QZ TCGA-SX-A71R TCGA-SX-A71S TCGA-SX-A71U 
       19.73        17.75        14.07        47.90        49.45        44.61 
TCGA-SX-A71V TCGA-SX-A7SL TCGA-SX-A7SM TCGA-SX-A7SN TCGA-SX-A7SO TCGA-SX-A7SP 
       28.80        27.06        11.93        19.00        41.33        16.31 
TCGA-SX-A7SQ TCGA-SX-A7SR TCGA-SX-A7SS TCGA-SX-A7SU TCGA-UN-AAZ9 TCGA-UZ-A9PJ 
       41.62        26.47        53.10        43.76        18.02        26.20 
TCGA-UZ-A9PK TCGA-UZ-A9PL TCGA-UZ-A9PM TCGA-UZ-A9PN TCGA-UZ-A9PO TCGA-UZ-A9PP 
      117.40       103.63       125.29        37.35        62.83        98.96 
TCGA-UZ-A9PQ TCGA-UZ-A9PR TCGA-UZ-A9PS TCGA-UZ-A9PU TCGA-UZ-A9PV TCGA-UZ-A9PX 
       86.27        86.37        71.24        30.67        47.47        65.13 
TCGA-UZ-A9PZ TCGA-UZ-A9Q0 TCGA-UZ-A9Q1 TCGA-V9-A7HT TCGA-WN-A9G9 TCGA-WN-AB4C 
       21.60       110.73        51.35        31.73        26.01        39.06 
TCGA-Y8-A894 TCGA-Y8-A895 TCGA-Y8-A896 TCGA-Y8-A897 TCGA-Y8-A898 TCGA-Y8-A8RY 
       18.64        15.91        18.64        18.05        15.62        25.28 
TCGA-Y8-A8RZ TCGA-Y8-A8S0 TCGA-Y8-A8S1 
        3.68         6.02        13.28 

  DEL PEAK 23(16Q23.3) MUTATED DEL PEAK 23(16Q23.3) WILD-TYPE 
                          0.10                           0.07 
  DEL PEAK 23(16Q23.3) MUTATED DEL PEAK 23(16Q23.3) WILD-TYPE 
                         90.54                         194.79 
  DEL PEAK 23(16Q23.3) MUTATED DEL PEAK 23(16Q23.3) WILD-TYPE 
                         29.18                          35.18 
[1] "0.1 - 90.5 (29.2)"  "0.1 - 194.8 (35.2)"
[1] "hr=" "2.8"
D36V2, continuous
                                vv
clus                             STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK 23(16Q23.3) MUTATED        11        4        12       10
  DEL PEAK 23(16Q23.3) WILD-TYPE     444      100       179       94
D36V3, multiclass
           clus
vv          DEL PEAK 23(16Q23.3) MUTATED DEL PEAK 23(16Q23.3) WILD-TYPE
  STAGE I                             11                            444
  STAGE II                             4                            100
  STAGE III                           12                            179
  STAGE IV                            10                             94
[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                              T1  T2  T3  T4
  DEL PEAK 23(16Q23.3) MUTATED    12   4  16   5
  DEL PEAK 23(16Q23.3) WILD-TYPE 467 123 242  10
D36V4, multiclass
    clus
vv   DEL PEAK 23(16Q23.3) MUTATED DEL PEAK 23(16Q23.3) WILD-TYPE
  T1                           12                            467
  T2                            4                            123
  T3                           16                            242
  T4                            5                             10
[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                              N0  N1  N2
  DEL PEAK 23(16Q23.3) MUTATED    13   7   2
  DEL PEAK 23(16Q23.3) WILD-TYPE 309  37   5
D36V5, multiclass
    clus
vv   DEL PEAK 23(16Q23.3) MUTATED DEL PEAK 23(16Q23.3) WILD-TYPE
  N0                           13                            309
  N1                            7                             37
  N2                            2                              5
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D36V6, binary
                                cls
clus                               0   1
  DEL PEAK 23(16Q23.3) MUTATED    19   5
  DEL PEAK 23(16Q23.3) WILD-TYPE 526  84
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 23(16Q23.3) MUTATED     19    5
  DEL PEAK 23(16Q23.3) WILD-TYPE  526   84
   clus
vv  DEL PEAK 23(16Q23.3) MUTATED DEL PEAK 23(16Q23.3) WILD-TYPE
  0                           19                            526
  1                            5                             84
[1] 2 2
[1] FALSE
D36V7, binary
                                cls
clus                               0   1
  DEL PEAK 23(16Q23.3) MUTATED    12  25
  DEL PEAK 23(16Q23.3) WILD-TYPE 280 564
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 23(16Q23.3) MUTATED     12   25
  DEL PEAK 23(16Q23.3) WILD-TYPE  280  564
        clus
vv       DEL PEAK 23(16Q23.3) MUTATED DEL PEAK 23(16Q23.3) WILD-TYPE
  FEMALE                           12                            280
  MALE                             25                            564
[1] 2 2
[1] FALSE
D36V8, binary
                                cls
clus                               0   1
  DEL PEAK 23(16Q23.3) MUTATED    18   0
  DEL PEAK 23(16Q23.3) WILD-TYPE 382   3
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 23(16Q23.3) MUTATED     18    0
  DEL PEAK 23(16Q23.3) WILD-TYPE  382    3
     clus
vv    DEL PEAK 23(16Q23.3) MUTATED DEL PEAK 23(16Q23.3) WILD-TYPE
  NO                            18                            382
  YES                            0                              3
[1] 2 2
[1] FALSE
D36V9, continuous
                                vv
clus                             KIDNEY CHROMOPHOBE
  DEL PEAK 23(16Q23.3) MUTATED                    6
  DEL PEAK 23(16Q23.3) WILD-TYPE                 60
                                vv
clus                             KIDNEY CLEAR CELL RENAL CARCINOMA
  DEL PEAK 23(16Q23.3) MUTATED                                  20
  DEL PEAK 23(16Q23.3) WILD-TYPE                               508
                                vv
clus                             KIDNEY PAPILLARY RENAL CELL CARCINOMA
  DEL PEAK 23(16Q23.3) MUTATED                                      11
  DEL PEAK 23(16Q23.3) WILD-TYPE                                   276
D36V10, multiclass
                                       clus
vv                                      DEL PEAK 23(16Q23.3) MUTATED
  KIDNEY CHROMOPHOBE                                               6
  KIDNEY CLEAR CELL RENAL CARCINOMA                               20
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                           11
                                       clus
vv                                      DEL PEAK 23(16Q23.3) WILD-TYPE
  KIDNEY CHROMOPHOBE                                                60
  KIDNEY CLEAR CELL RENAL CARCINOMA                                508
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                            276
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D36V11, continuous
D36V12, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 23(16Q23.3) MUTATED                                  0     1
  DEL PEAK 23(16Q23.3) WILD-TYPE                                2    14
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 23(16Q23.3) MUTATED                           6    28
  DEL PEAK 23(16Q23.3) WILD-TYPE                       115   691
D36V13, multiclass
                                  clus
vv                                 DEL PEAK 23(16Q23.3) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                       1
  BLACK OR AFRICAN AMERICAN                                   6
  WHITE                                                      28
                                  clus
vv                                 DEL PEAK 23(16Q23.3) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              2
  ASIAN                                                        14
  BLACK OR AFRICAN AMERICAN                                   115
  WHITE                                                       691
[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"
D36V14, binary
                                cls
clus                               0   1
  DEL PEAK 23(16Q23.3) MUTATED     1  24
  DEL PEAK 23(16Q23.3) WILD-TYPE  41 597
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 23(16Q23.3) MUTATED      1   24
  DEL PEAK 23(16Q23.3) WILD-TYPE   41  597
                        clus
vv                       DEL PEAK 23(16Q23.3) MUTATED
  HISPANIC OR LATINO                                1
  NOT HISPANIC OR LATINO                           24
                        clus
vv                       DEL PEAK 23(16Q23.3) WILD-TYPE
  HISPANIC OR LATINO                                 41
  NOT HISPANIC OR LATINO                            597
[1] 2 2
[1] FALSE

Clustering(37) Variable = DEL PEAK 24(18Q22.2) MUTATION ANALYSIS
D37V1, survival
                                sevent
clus2                              0   1
  DEL PEAK 24(18Q22.2) MUTATED    89  63
  DEL PEAK 24(18Q22.2) WILD-TYPE 556 165
  DEL PEAK 24(18Q22.2) MUTATED DEL PEAK 24(18Q22.2) WILD-TYPE 
                           152                            721 
  DEL PEAK 24(18Q22.2) MUTATED DEL PEAK 24(18Q22.2) WILD-TYPE 
                            63                            165 
$`DEL PEAK 24(18Q22.2) MUTATED`
TCGA-KL-8328 TCGA-KL-8329 TCGA-KL-8331 TCGA-KL-8336 TCGA-KN-8424 TCGA-KN-8427 
      102.81        90.48        98.96        30.25        65.19         0.99 
TCGA-KN-8429 TCGA-KO-8414 TCGA-A3-3308 TCGA-A3-3313 TCGA-A3-3319 TCGA-A3-3346 
       87.12       105.60         0.53        24.16        37.15         4.50 
TCGA-A3-3347 TCGA-A3-3357 TCGA-A3-3372 TCGA-A3-3385 TCGA-A3-3387 TCGA-AK-3425 
       52.93        88.37        24.16        65.52        20.28       109.91 
TCGA-AK-3430 TCGA-AK-3436 TCGA-AK-3440 TCGA-AK-3465 TCGA-B0-4688 TCGA-B0-4690 
       15.78       109.51        94.19        12.13         3.32         1.41 
TCGA-B0-4696 TCGA-B0-4698 TCGA-B0-4699 TCGA-B0-4700 TCGA-B0-4703 TCGA-B0-4712 
       28.47         1.38         3.62        65.10         5.98        43.96 
TCGA-B0-4713 TCGA-B0-4813 TCGA-B0-4815 TCGA-B0-4819 TCGA-B0-4821 TCGA-B0-4822 
        6.64         0.59        52.21         6.02        40.44        36.53 
TCGA-B0-4827 TCGA-B0-4836 TCGA-B0-4844 TCGA-B0-4845 TCGA-B0-4848 TCGA-B0-4945 
       29.10        40.70        10.29        65.29        29.03        70.52 
TCGA-B0-5092 TCGA-B0-5094 TCGA-B0-5097 TCGA-B0-5121 TCGA-B2-4098 TCGA-B2-5641 
       15.09        10.95        21.86        48.82         1.68        21.57 
TCGA-B4-5832 TCGA-B4-5835 TCGA-B8-4620 TCGA-B8-4621 TCGA-B8-5163 TCGA-B8-5549 
        5.10         0.53        25.55        25.91        27.02         6.38 
TCGA-B8-5550 TCGA-BP-4164 TCGA-BP-4166 TCGA-BP-4338 TCGA-BP-4343 TCGA-BP-4352 
       48.53        32.61         0.43        93.99        62.86        11.31 
TCGA-BP-4353 TCGA-BP-4756 TCGA-BP-4761 TCGA-BP-4781 TCGA-BP-4797 TCGA-BP-4803 
       12.33        12.30         5.98        68.38        36.39         6.71 
TCGA-BP-4962 TCGA-BP-4977 TCGA-BP-4985 TCGA-BP-4994 TCGA-BP-5000 TCGA-BP-5169 
       58.68        14.93        31.30        43.00        18.51         6.35 
TCGA-BP-5178 TCGA-BP-5181 TCGA-BP-5182 TCGA-BP-5191 TCGA-BP-5196 TCGA-BP-5198 
       62.86        49.15        38.30        31.79        33.47        19.82 
TCGA-BP-5200 TCGA-BP-5201 TCGA-CJ-4636 TCGA-CJ-4637 TCGA-CJ-4872 TCGA-CJ-4873 
       34.95        31.27        63.25        73.22        10.72        74.27 
TCGA-CJ-4881 TCGA-CJ-4888 TCGA-CJ-4891 TCGA-CJ-4901 TCGA-CJ-4907 TCGA-CJ-4920 
       66.21        51.52        26.93        47.67        49.28         4.57 
TCGA-CJ-5677 TCGA-CJ-5679 TCGA-CJ-6027 TCGA-CJ-6028 TCGA-CJ-6032 TCGA-CW-5588 
       25.71        22.32       118.85        53.42       119.64        66.31 
TCGA-CZ-4854 TCGA-CZ-4857 TCGA-CZ-4858 TCGA-CZ-4860 TCGA-CZ-4863 TCGA-CZ-4866 
       46.16        47.08        69.21         6.77        63.39        61.41 
TCGA-CZ-5456 TCGA-CZ-5468 TCGA-CZ-5984 TCGA-CZ-5985 TCGA-CZ-5988 TCGA-MM-A84U 
       79.63         1.94        67.96        65.65        22.78        23.01 
TCGA-2Z-A9JG TCGA-2Z-A9JI TCGA-2Z-A9JJ TCGA-2Z-A9JP TCGA-4A-A93X TCGA-5P-A9JW 
       54.64        51.52        39.88        29.36        12.82       106.55 
TCGA-5P-A9K3 TCGA-5P-A9K9 TCGA-A4-7286 TCGA-A4-8310 TCGA-A4-A57E TCGA-A4-A5Y1 
       15.48        19.36        18.21        25.64         8.48        12.99 
TCGA-AL-A5DJ TCGA-B1-7332 TCGA-B1-A656 TCGA-B3-3926 TCGA-B9-4116 TCGA-B9-A44B 
       49.25        37.51        20.32        10.09        20.61         2.10 
TCGA-BQ-5877 TCGA-BQ-5879 TCGA-BQ-5882 TCGA-BQ-5887 TCGA-BQ-5894 TCGA-BQ-7044 
        8.88        22.92        21.63        25.35         2.76       123.62 
TCGA-BQ-7048 TCGA-BQ-7058 TCGA-BQ-7059 TCGA-DW-7840 TCGA-EV-5903 TCGA-F9-A4JJ 
       93.34        11.28         7.63         3.75        24.89        10.68 
TCGA-F9-A7Q0 TCGA-F9-A97G TCGA-G7-6789 TCGA-G7-A8LD TCGA-GL-7773 TCGA-GL-7966 
       13.08         0.43         4.01        16.90        12.92         3.68 
TCGA-IA-A40Y TCGA-J7-8537 TCGA-P4-A5EA TCGA-Q2-A5QZ TCGA-SX-A7SM TCGA-SX-A7SO 
        2.04        10.55         6.61        14.07        11.93        41.33 
TCGA-UZ-A9PQ TCGA-Y8-A8S1 
       86.27        13.28 

$`DEL PEAK 24(18Q22.2) WILD-TYPE`
TCGA-KL-8323 TCGA-KL-8324 TCGA-KL-8325 TCGA-KL-8326 TCGA-KL-8327 TCGA-KL-8330 
       38.07       141.73        23.84       109.22       137.06       108.62 
TCGA-KL-8332 TCGA-KL-8333 TCGA-KL-8334 TCGA-KL-8335 TCGA-KL-8337 TCGA-KL-8338 
       84.89        98.33        96.95        92.55        44.84        86.56 
TCGA-KL-8339 TCGA-KL-8340 TCGA-KL-8341 TCGA-KL-8342 TCGA-KL-8343 TCGA-KL-8344 
       28.11        66.54        24.79        73.91        71.41        28.80 
TCGA-KL-8345 TCGA-KL-8346 TCGA-KM-8438 TCGA-KM-8439 TCGA-KM-8440 TCGA-KM-8441 
       54.74        62.37       151.96        23.28        44.91        28.80 
TCGA-KM-8442 TCGA-KM-8443 TCGA-KM-8476 TCGA-KM-8477 TCGA-KM-8639 TCGA-KN-8418 
       47.24        49.97       123.12        51.06        31.33       129.37 
TCGA-KN-8419 TCGA-KN-8421 TCGA-KN-8422 TCGA-KN-8423 TCGA-KN-8425 TCGA-KN-8426 
       23.47        87.91        25.48        25.91       104.52         3.55 
TCGA-KN-8428 TCGA-KN-8431 TCGA-KN-8432 TCGA-KN-8433 TCGA-KN-8434 TCGA-KN-8435 
       52.27        19.33         2.50        11.21        59.08       115.00 
TCGA-KN-8436 TCGA-KN-8437 TCGA-KO-8403 TCGA-KO-8404 TCGA-KO-8405 TCGA-KO-8406 
       42.35       100.87       105.47        10.68       100.47       103.40 
TCGA-KO-8407 TCGA-KO-8408 TCGA-KO-8409 TCGA-KO-8410 TCGA-KO-8411 TCGA-KO-8413 
       92.71        16.67       104.55       103.10       130.13        99.88 
TCGA-KO-8415 TCGA-KO-8416 TCGA-KO-8417 TCGA-3Z-A93Z TCGA-6D-AA2E TCGA-A3-3306 
       96.62        90.48        92.55        12.66        11.90        36.82 
TCGA-A3-3307 TCGA-A3-3311 TCGA-A3-3316 TCGA-A3-3317 TCGA-A3-3320 TCGA-A3-3322 
       47.21        39.16        49.08        49.02        49.58        48.59 
TCGA-A3-3323 TCGA-A3-3324 TCGA-A3-3325 TCGA-A3-3326 TCGA-A3-3331 TCGA-A3-3335 
       36.36        38.99        38.47        37.38        48.82        62.01 
TCGA-A3-3336 TCGA-A3-3343 TCGA-A3-3349 TCGA-A3-3351 TCGA-A3-3352 TCGA-A3-3358 
       34.29        31.07        45.53        29.92        18.44        42.97 
TCGA-A3-3359 TCGA-A3-3362 TCGA-A3-3363 TCGA-A3-3365 TCGA-A3-3367 TCGA-A3-3370 
       82.32        51.25        10.49        28.70        74.63        74.76 
TCGA-A3-3373 TCGA-A3-3374 TCGA-A3-3376 TCGA-A3-3378 TCGA-A3-3380 TCGA-A3-3382 
       53.29        43.20        55.76        20.71        18.64        18.87 
TCGA-A3-3383 TCGA-A3-A6NI TCGA-A3-A6NJ TCGA-A3-A6NL TCGA-A3-A6NN TCGA-A3-A8CQ 
       28.31        33.47        15.39        22.65         0.10         0.10 
TCGA-A3-A8OV TCGA-A3-A8OW TCGA-AK-3426 TCGA-AK-3427 TCGA-AK-3428 TCGA-AK-3429 
       11.18        10.62        29.10       117.80        73.08       109.41 
TCGA-AK-3431 TCGA-AK-3433 TCGA-AK-3434 TCGA-AK-3443 TCGA-AK-3444 TCGA-AK-3445 
       73.68       112.08        68.61        46.78        48.36        78.64 
TCGA-AK-3447 TCGA-AK-3450 TCGA-AK-3451 TCGA-AK-3453 TCGA-AK-3454 TCGA-AK-3455 
       40.01        49.28        94.29        83.21        28.73        22.45 
TCGA-AK-3456 TCGA-AK-3458 TCGA-AK-3460 TCGA-AK-3461 TCGA-AS-3777 TCGA-AS-3778 
       37.58        38.40        82.45        72.89        40.70         1.41 
TCGA-B0-4691 TCGA-B0-4693 TCGA-B0-4694 TCGA-B0-4697 TCGA-B0-4701 TCGA-B0-4706 
        4.57         2.53         3.48        19.00         7.82         2.14 
TCGA-B0-4707 TCGA-B0-4710 TCGA-B0-4714 TCGA-B0-4718 TCGA-B0-4810 TCGA-B0-4811 
       19.73        57.70         3.25        58.45        15.72        46.59 
TCGA-B0-4814 TCGA-B0-4816 TCGA-B0-4817 TCGA-B0-4818 TCGA-B0-4823 TCGA-B0-4824 
        5.52        45.07        33.50        16.77        14.93        54.48 
TCGA-B0-4828 TCGA-B0-4833 TCGA-B0-4834 TCGA-B0-4837 TCGA-B0-4838 TCGA-B0-4839 
       10.09        78.44        68.71        45.30        27.42        53.88 
TCGA-B0-4841 TCGA-B0-4842 TCGA-B0-4843 TCGA-B0-4846 TCGA-B0-4847 TCGA-B0-4849 
        6.71        56.68        10.52        39.45        26.07         2.27 
TCGA-B0-4852 TCGA-B0-5075 TCGA-B0-5077 TCGA-B0-5080 TCGA-B0-5081 TCGA-B0-5084 
       36.85        20.94        43.30        11.24        11.90         7.30 
TCGA-B0-5085 TCGA-B0-5088 TCGA-B0-5095 TCGA-B0-5096 TCGA-B0-5098 TCGA-B0-5099 
       25.32        18.51         8.05         2.24        52.08        15.95 
TCGA-B0-5100 TCGA-B0-5102 TCGA-B0-5104 TCGA-B0-5106 TCGA-B0-5107 TCGA-B0-5108 
       62.89        90.87        90.48        52.54        30.48        58.59 
TCGA-B0-5109 TCGA-B0-5110 TCGA-B0-5113 TCGA-B0-5115 TCGA-B0-5116 TCGA-B0-5117 
       19.30        66.05        38.63        52.73        41.88        52.87 
TCGA-B0-5119 TCGA-B0-5120 TCGA-B0-5399 TCGA-B0-5400 TCGA-B0-5402 TCGA-B0-5690 
       51.02        38.43        46.39        56.98        42.41       111.52 
TCGA-B0-5691 TCGA-B0-5692 TCGA-B0-5693 TCGA-B0-5694 TCGA-B0-5695 TCGA-B0-5696 
      112.80       129.67       133.94        15.78        70.68        85.78 
TCGA-B0-5697 TCGA-B0-5698 TCGA-B0-5699 TCGA-B0-5701 TCGA-B0-5702 TCGA-B0-5703 
       86.47       119.38       126.28        80.91        71.41        73.84 
TCGA-B0-5705 TCGA-B0-5706 TCGA-B0-5709 TCGA-B0-5710 TCGA-B0-5711 TCGA-B0-5712 
      149.16       105.37       130.65        79.89       131.15        89.49 
TCGA-B0-5713 TCGA-B0-5812 TCGA-B2-3923 TCGA-B2-3924 TCGA-B2-4099 TCGA-B2-4101 
       91.46       126.05        32.61        35.90        31.96        21.30 
TCGA-B2-4102 TCGA-B2-5633 TCGA-B2-5635 TCGA-B2-5639 TCGA-B2-A4SR TCGA-B4-5377 
       31.30        31.66        24.82        32.98        16.67        12.00 
TCGA-B4-5378 TCGA-B4-5834 TCGA-B4-5836 TCGA-B4-5838 TCGA-B4-5843 TCGA-B4-5844 
        5.75         0.85         4.64         5.46         0.36         0.23 
TCGA-B8-4143 TCGA-B8-4146 TCGA-B8-4148 TCGA-B8-4151 TCGA-B8-4153 TCGA-B8-4154 
       23.31        16.80        27.16        42.71        25.05        45.37 
TCGA-B8-4619 TCGA-B8-4622 TCGA-B8-5158 TCGA-B8-5159 TCGA-B8-5162 TCGA-B8-5164 
       17.19        50.14        20.91        23.74         1.18         0.85 
TCGA-B8-5165 TCGA-B8-5545 TCGA-B8-5546 TCGA-B8-5551 TCGA-B8-5552 TCGA-B8-5553 
       24.23        50.14        16.60         0.53        34.39        14.30 
TCGA-B8-A54D TCGA-B8-A54E TCGA-B8-A54F TCGA-B8-A54G TCGA-B8-A54H TCGA-B8-A54I 
       27.29        29.88        17.06         1.74         8.42         4.93 
TCGA-B8-A54J TCGA-B8-A54K TCGA-B8-A7U6 TCGA-B8-A8YJ TCGA-BP-4158 TCGA-BP-4159 
       17.36        15.42        16.27        14.17       111.02        85.51 
TCGA-BP-4160 TCGA-BP-4161 TCGA-BP-4162 TCGA-BP-4163 TCGA-BP-4165 TCGA-BP-4167 
       94.72        90.28       101.06        93.34        99.85        89.36 
TCGA-BP-4169 TCGA-BP-4170 TCGA-BP-4173 TCGA-BP-4174 TCGA-BP-4176 TCGA-BP-4177 
       23.05        77.03        62.24        61.78        64.27        54.90 
TCGA-BP-4325 TCGA-BP-4326 TCGA-BP-4327 TCGA-BP-4329 TCGA-BP-4330 TCGA-BP-4331 
       97.45        53.42         3.58        27.78        62.07        80.68 
TCGA-BP-4332 TCGA-BP-4334 TCGA-BP-4335 TCGA-BP-4337 TCGA-BP-4340 TCGA-BP-4341 
       37.25        21.21        15.16         0.07        18.48        52.24 
TCGA-BP-4342 TCGA-BP-4344 TCGA-BP-4346 TCGA-BP-4347 TCGA-BP-4349 TCGA-BP-4351 
       74.17        54.77        49.08        44.94        12.23        31.89 
TCGA-BP-4354 TCGA-BP-4355 TCGA-BP-4758 TCGA-BP-4759 TCGA-BP-4760 TCGA-BP-4762 
       33.99        31.33        72.59        77.98        77.62        44.15 
TCGA-BP-4763 TCGA-BP-4765 TCGA-BP-4766 TCGA-BP-4768 TCGA-BP-4769 TCGA-BP-4770 
       41.75        71.80        48.07        13.15        61.68        10.82 
TCGA-BP-4771 TCGA-BP-4774 TCGA-BP-4775 TCGA-BP-4776 TCGA-BP-4777 TCGA-BP-4782 
        5.33        61.97        60.59        13.51        56.91        11.64 
TCGA-BP-4784 TCGA-BP-4787 TCGA-BP-4789 TCGA-BP-4790 TCGA-BP-4795 TCGA-BP-4798 
       60.95        15.78        48.95        36.53        20.38        10.98 
TCGA-BP-4799 TCGA-BP-4801 TCGA-BP-4804 TCGA-BP-4807 TCGA-BP-4959 TCGA-BP-4960 
       37.25        36.95        47.97         6.94        87.45        71.41 
TCGA-BP-4961 TCGA-BP-4963 TCGA-BP-4964 TCGA-BP-4965 TCGA-BP-4967 TCGA-BP-4968 
       63.62        60.30        61.22        61.51         6.74        57.40 
TCGA-BP-4969 TCGA-BP-4970 TCGA-BP-4971 TCGA-BP-4972 TCGA-BP-4973 TCGA-BP-4974 
       58.98        14.24        48.89        49.38        45.50         6.90 
TCGA-BP-4975 TCGA-BP-4976 TCGA-BP-4981 TCGA-BP-4982 TCGA-BP-4983 TCGA-BP-4986 
       47.11        53.65        36.07        33.34        46.45        25.81 
TCGA-BP-4987 TCGA-BP-4988 TCGA-BP-4989 TCGA-BP-4991 TCGA-BP-4992 TCGA-BP-4993 
       36.95        27.22         3.88        46.45        16.47         5.82 
TCGA-BP-4995 TCGA-BP-4998 TCGA-BP-4999 TCGA-BP-5001 TCGA-BP-5004 TCGA-BP-5006 
       45.07        30.64        41.62        38.70        37.02        27.62 
TCGA-BP-5007 TCGA-BP-5008 TCGA-BP-5009 TCGA-BP-5010 TCGA-BP-5168 TCGA-BP-5170 
       37.48        35.21        36.23        28.87        48.10        79.30 
TCGA-BP-5173 TCGA-BP-5174 TCGA-BP-5175 TCGA-BP-5176 TCGA-BP-5177 TCGA-BP-5180 
        1.74        74.20        30.64        52.27         9.63        74.40 
TCGA-BP-5183 TCGA-BP-5184 TCGA-BP-5185 TCGA-BP-5186 TCGA-BP-5187 TCGA-BP-5189 
       42.44        37.25        37.22        22.78        13.35        27.02 
TCGA-BP-5190 TCGA-BP-5192 TCGA-BP-5194 TCGA-BP-5195 TCGA-BP-5199 TCGA-BP-5202 
       33.24        23.47        13.41        24.62        44.55         0.95 
TCGA-CJ-4634 TCGA-CJ-4635 TCGA-CJ-4638 TCGA-CJ-4639 TCGA-CJ-4640 TCGA-CJ-4641 
      115.00        46.55        14.17       106.16       114.41        54.61 
TCGA-CJ-4642 TCGA-CJ-4643 TCGA-CJ-4644 TCGA-CJ-4868 TCGA-CJ-4869 TCGA-CJ-4870 
      105.37        58.95        11.05        21.24        83.97        49.25 
TCGA-CJ-4871 TCGA-CJ-4874 TCGA-CJ-4875 TCGA-CJ-4876 TCGA-CJ-4878 TCGA-CJ-4882 
       79.66        75.06       116.84        64.27        71.87        61.91 
TCGA-CJ-4884 TCGA-CJ-4885 TCGA-CJ-4886 TCGA-CJ-4887 TCGA-CJ-4889 TCGA-CJ-4890 
       57.83       113.46        64.18        30.64        63.98       115.69 
TCGA-CJ-4892 TCGA-CJ-4893 TCGA-CJ-4894 TCGA-CJ-4895 TCGA-CJ-4897 TCGA-CJ-4899 
       50.01        24.66        27.65        39.45       109.84        50.24 
TCGA-CJ-4900 TCGA-CJ-4902 TCGA-CJ-4903 TCGA-CJ-4904 TCGA-CJ-4905 TCGA-CJ-4908 
       56.35        49.97        51.25       108.56        49.18        50.33 
TCGA-CJ-4912 TCGA-CJ-4913 TCGA-CJ-4916 TCGA-CJ-4918 TCGA-CJ-4923 TCGA-CJ-5671 
       54.48        38.56        45.14         3.06        18.81       131.08 
TCGA-CJ-5672 TCGA-CJ-5675 TCGA-CJ-5676 TCGA-CJ-5678 TCGA-CJ-5680 TCGA-CJ-5681 
       72.00       129.40       133.71        18.87        25.25        18.15 
TCGA-CJ-5682 TCGA-CJ-5683 TCGA-CJ-5684 TCGA-CJ-5686 TCGA-CJ-5689 TCGA-CJ-6030 
      122.83        62.10        73.35        67.00        53.26        75.58 
TCGA-CJ-6031 TCGA-CJ-6033 TCGA-CW-5580 TCGA-CW-5581 TCGA-CW-5583 TCGA-CW-5584 
       62.66         7.36        64.57        92.02        81.83         5.39 
TCGA-CW-5585 TCGA-CW-5587 TCGA-CW-5589 TCGA-CW-5591 TCGA-CW-6087 TCGA-CW-6088 
       85.78        73.18        78.18        74.66         1.35       105.93 
TCGA-CW-6090 TCGA-CW-6093 TCGA-CW-6097 TCGA-CZ-4853 TCGA-CZ-4856 TCGA-CZ-4859 
       83.90       103.43        18.77        25.45         0.59        58.75 
TCGA-CZ-4861 TCGA-CZ-4862 TCGA-CZ-4864 TCGA-CZ-4865 TCGA-CZ-5451 TCGA-CZ-5452 
       14.66       107.54        93.04         5.46        63.42        58.82 
TCGA-CZ-5453 TCGA-CZ-5454 TCGA-CZ-5455 TCGA-CZ-5457 TCGA-CZ-5458 TCGA-CZ-5459 
       79.53        23.74        18.44        90.54        91.69        55.33 
TCGA-CZ-5460 TCGA-CZ-5461 TCGA-CZ-5462 TCGA-CZ-5463 TCGA-CZ-5464 TCGA-CZ-5465 
       94.45        10.85        10.22        21.76        69.96        84.30 
TCGA-CZ-5466 TCGA-CZ-5467 TCGA-CZ-5469 TCGA-CZ-5470 TCGA-CZ-5982 TCGA-CZ-5986 
       22.52         2.40        31.10        12.69        80.19        12.26 
TCGA-CZ-5987 TCGA-CZ-5989 TCGA-DV-5565 TCGA-DV-5566 TCGA-DV-5567 TCGA-DV-5568 
       14.63        62.63        13.28        45.96        65.88        12.16 
TCGA-DV-5569 TCGA-DV-5573 TCGA-DV-5574 TCGA-DV-5575 TCGA-DV-5576 TCGA-DV-A4VX 
       11.67        37.15        66.28        56.84        23.90        53.46 
TCGA-DV-A4VZ TCGA-DV-A4W0 TCGA-EU-5904 TCGA-EU-5905 TCGA-EU-5906 TCGA-EU-5907 
       12.00        81.21        18.12         3.91         6.77         4.18 
TCGA-G6-A5PC TCGA-G6-A8L6 TCGA-G6-A8L7 TCGA-G6-A8L8 TCGA-GK-A6C7 TCGA-MM-A563 
        7.96        10.29        70.13        35.87         2.01        19.43 
TCGA-MM-A564 TCGA-MW-A4EC TCGA-T7-A92I TCGA-2K-A9WE TCGA-2Z-A9J1 TCGA-2Z-A9J2 
       19.96        16.37        11.70         7.04        75.55        59.01 
TCGA-2Z-A9J3 TCGA-2Z-A9J5 TCGA-2Z-A9J6 TCGA-2Z-A9J7 TCGA-2Z-A9J8 TCGA-2Z-A9J9 
       58.22       100.27        56.91         4.57        91.73        75.42 
TCGA-2Z-A9JD TCGA-2Z-A9JE TCGA-2Z-A9JK TCGA-2Z-A9JL TCGA-2Z-A9JM TCGA-2Z-A9JN 
       34.85        56.81        38.99        33.07        30.71        24.33 
TCGA-2Z-A9JO TCGA-2Z-A9JQ TCGA-2Z-A9JR TCGA-2Z-A9JS TCGA-2Z-A9JT TCGA-4A-A93W 
       31.20        25.58         5.29        16.18        22.49         0.13 
TCGA-4A-A93Y TCGA-5P-A9JU TCGA-5P-A9JV TCGA-5P-A9JY TCGA-5P-A9JZ TCGA-5P-A9K0 
       11.57        12.26        67.17        49.58        90.21        22.26 
TCGA-5P-A9K2 TCGA-5P-A9K4 TCGA-5P-A9K6 TCGA-5P-A9K8 TCGA-5P-A9KA TCGA-5P-A9KC 
       78.64        71.80        62.93        43.04        12.99        12.39 
TCGA-5P-A9KE TCGA-5P-A9KH TCGA-A4-7287 TCGA-A4-7288 TCGA-A4-7583 TCGA-A4-7584 
       27.09        67.43        19.63        61.05         0.10        21.37 
TCGA-A4-7585 TCGA-A4-7732 TCGA-A4-7734 TCGA-A4-7828 TCGA-A4-7915 TCGA-A4-7996 
       35.18        19.13         0.89         7.82         0.23        16.64 
TCGA-A4-7997 TCGA-A4-8098 TCGA-A4-8311 TCGA-A4-8312 TCGA-A4-8515 TCGA-A4-8516 
       30.48        29.46        23.97        23.28        23.31         0.76 
TCGA-A4-8517 TCGA-A4-8518 TCGA-A4-8630 TCGA-A4-A48D TCGA-A4-A4ZT TCGA-A4-A5DU 
       19.63        19.73        14.33        12.46        16.96        16.31 
TCGA-A4-A5XZ TCGA-A4-A5Y0 TCGA-A4-A6HP TCGA-AL-3466 TCGA-AL-3467 TCGA-AL-3468 
       15.75         8.28        12.46         9.63        70.19        76.64 
TCGA-AL-3471 TCGA-AL-3472 TCGA-AL-3473 TCGA-AL-7173 TCGA-AT-A5NU TCGA-B1-5398 
       49.32        66.71        62.66        67.73         2.20        19.56 
TCGA-B1-A47M TCGA-B1-A47N TCGA-B1-A47O TCGA-B1-A654 TCGA-B1-A655 TCGA-B1-A657 
       21.67        24.56        16.87        20.25        16.77        21.07 
TCGA-B3-3925 TCGA-B3-4103 TCGA-B3-4104 TCGA-B3-8121 TCGA-B3-A6W5 TCGA-B9-4113 
       33.83        30.58        34.49        12.46        10.16        50.50 
TCGA-B9-4114 TCGA-B9-4115 TCGA-B9-4117 TCGA-B9-4617 TCGA-B9-5155 TCGA-B9-5156 
       28.18        26.40         0.46         1.15        15.12        43.99 
TCGA-B9-7268 TCGA-B9-A5W7 TCGA-B9-A5W8 TCGA-B9-A5W9 TCGA-B9-A69E TCGA-B9-A8YH 
       22.06        19.23        17.23         0.16        14.86        17.49 
TCGA-B9-A8YI TCGA-BQ-5875 TCGA-BQ-5876 TCGA-BQ-5878 TCGA-BQ-5880 TCGA-BQ-5881 
       12.30        86.76        19.27        63.72        43.20        47.80 
TCGA-BQ-5883 TCGA-BQ-5884 TCGA-BQ-5885 TCGA-BQ-5886 TCGA-BQ-5888 TCGA-BQ-5889 
       40.83        26.04        30.28        26.04        13.25        10.82 
TCGA-BQ-5890 TCGA-BQ-5891 TCGA-BQ-5892 TCGA-BQ-5893 TCGA-BQ-7045 TCGA-BQ-7046 
        7.66         0.95        11.97         7.92        48.26        96.92 
TCGA-BQ-7049 TCGA-BQ-7050 TCGA-BQ-7051 TCGA-BQ-7053 TCGA-BQ-7055 TCGA-BQ-7056 
       44.84        61.28        50.40        49.84        26.27        20.12 
TCGA-BQ-7060 TCGA-BQ-7061 TCGA-BQ-7062 TCGA-DW-5560 TCGA-DW-5561 TCGA-DW-7834 
        7.04         7.17         3.81        48.85        13.61       129.86 
TCGA-DW-7836 TCGA-DW-7837 TCGA-DW-7838 TCGA-DW-7839 TCGA-DW-7841 TCGA-DW-7842 
       35.93        37.55        24.46        13.78        14.63         3.02 
TCGA-DW-7963 TCGA-DZ-6131 TCGA-DZ-6132 TCGA-DZ-6133 TCGA-DZ-6134 TCGA-DZ-6135 
       40.77        79.86        80.88        51.19        61.02        74.60 
TCGA-EV-5901 TCGA-EV-5902 TCGA-F9-A7VF TCGA-F9-A8NY TCGA-G7-6790 TCGA-G7-6792 
       34.19        19.00         2.40         1.18        51.78        90.90 
TCGA-G7-6793 TCGA-G7-6795 TCGA-G7-6796 TCGA-G7-6797 TCGA-G7-7501 TCGA-G7-7502 
       11.05        39.25        71.44        25.15        20.52        25.84 
TCGA-G7-A4TM TCGA-G7-A8LB TCGA-G7-A8LC TCGA-G7-A8LE TCGA-GL-6846 TCGA-GL-8500 
        6.38        17.98        23.08        80.65       194.79        27.65 
TCGA-GL-A4EM TCGA-GL-A59R TCGA-GL-A59T TCGA-GL-A9DC TCGA-GL-A9DD TCGA-GL-A9DE 
        1.05        12.43        17.95        12.89        11.21        16.31 
TCGA-HE-A5NF TCGA-HE-A5NH TCGA-HE-A5NI TCGA-HE-A5NJ TCGA-HE-A5NK TCGA-HE-A5NL 
       84.89        26.01        11.84        56.75        73.25        25.22 
TCGA-IA-A40U TCGA-IA-A40X TCGA-IA-A83S TCGA-IA-A83T TCGA-IA-A83V TCGA-IA-A83W 
       16.80        19.99        85.78        88.24        96.69        67.17 
TCGA-IZ-8195 TCGA-IZ-8196 TCGA-IZ-A6M8 TCGA-IZ-A6M9 TCGA-J7-6720 TCGA-KV-A6GD 
       22.26        21.34        16.34        12.36        12.76        18.41 
TCGA-KV-A6GE TCGA-KV-A74V TCGA-MH-A55W TCGA-MH-A55Z TCGA-MH-A560 TCGA-MH-A561 
       29.10        11.41        34.29        27.78        30.38        27.65 
TCGA-MH-A562 TCGA-MH-A854 TCGA-MH-A855 TCGA-MH-A856 TCGA-MH-A857 TCGA-O9-A75Z 
       20.25        17.62        12.13        31.13        29.26        15.48 
TCGA-P4-A5E6 TCGA-P4-A5E7 TCGA-P4-A5E8 TCGA-P4-A5EB TCGA-P4-A5ED TCGA-P4-AAVK 
       99.78        87.09        42.94        99.12        92.58        52.27 
TCGA-P4-AAVL TCGA-P4-AAVM TCGA-P4-AAVO TCGA-PJ-A5Z8 TCGA-PJ-A5Z9 TCGA-SX-A71R 
       16.01        50.60        78.90        19.73        17.75        47.90 
TCGA-SX-A71S TCGA-SX-A71U TCGA-SX-A71V TCGA-SX-A7SL TCGA-SX-A7SN TCGA-SX-A7SP 
       49.45        44.61        28.80        27.06        19.00        16.31 
TCGA-SX-A7SQ TCGA-SX-A7SR TCGA-SX-A7SS TCGA-SX-A7SU TCGA-UN-AAZ9 TCGA-UZ-A9PJ 
       41.62        26.47        53.10        43.76        18.02        26.20 
TCGA-UZ-A9PK TCGA-UZ-A9PL TCGA-UZ-A9PM TCGA-UZ-A9PN TCGA-UZ-A9PO TCGA-UZ-A9PP 
      117.40       103.63       125.29        37.35        62.83        98.96 
TCGA-UZ-A9PR TCGA-UZ-A9PS TCGA-UZ-A9PU TCGA-UZ-A9PV TCGA-UZ-A9PX TCGA-UZ-A9PZ 
       86.37        71.24        30.67        47.47        65.13        21.60 
TCGA-UZ-A9Q0 TCGA-UZ-A9Q1 TCGA-V9-A7HT TCGA-WN-A9G9 TCGA-WN-AB4C TCGA-Y8-A894 
      110.73        51.35        31.73        26.01        39.06        18.64 
TCGA-Y8-A895 TCGA-Y8-A896 TCGA-Y8-A897 TCGA-Y8-A898 TCGA-Y8-A8RY TCGA-Y8-A8RZ 
       15.91        18.64        18.05        15.62        25.28         3.68 
TCGA-Y8-A8S0 
        6.02 

  DEL PEAK 24(18Q22.2) MUTATED DEL PEAK 24(18Q22.2) WILD-TYPE 
                          0.43                           0.07 
  DEL PEAK 24(18Q22.2) MUTATED DEL PEAK 24(18Q22.2) WILD-TYPE 
                        123.62                         194.79 
  DEL PEAK 24(18Q22.2) MUTATED DEL PEAK 24(18Q22.2) WILD-TYPE 
                        25.675                         36.950 
[1] "0.4 - 123.6 (25.7)" "0.1 - 194.8 (37.0)"
[1] "hr=" "2.2"
D37V2, continuous
                                vv
clus                             STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK 24(18Q22.2) MUTATED        51       12        55       32
  DEL PEAK 24(18Q22.2) WILD-TYPE     404       92       136       72
D37V3, multiclass
           clus
vv          DEL PEAK 24(18Q22.2) MUTATED DEL PEAK 24(18Q22.2) WILD-TYPE
  STAGE I                             51                            404
  STAGE II                            12                             92
  STAGE III                           55                            136
  STAGE IV                            32                             72
[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                              T1  T2  T3  T4
  DEL PEAK 24(18Q22.2) MUTATED    55  18  75   7
  DEL PEAK 24(18Q22.2) WILD-TYPE 424 109 183   8
D37V4, multiclass
    clus
vv   DEL PEAK 24(18Q22.2) MUTATED DEL PEAK 24(18Q22.2) WILD-TYPE
  T1                           55                            424
  T2                           18                            109
  T3                           75                            183
  T4                            7                              8
[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                              N0  N1  N2
  DEL PEAK 24(18Q22.2) MUTATED    64  16   4
  DEL PEAK 24(18Q22.2) WILD-TYPE 258  28   3
D37V5, multiclass
    clus
vv   DEL PEAK 24(18Q22.2) MUTATED DEL PEAK 24(18Q22.2) WILD-TYPE
  N0                           64                            258
  N1                           16                             28
  N2                            4                              3
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D37V6, binary
                                cls
clus                               0   1
  DEL PEAK 24(18Q22.2) MUTATED    97  27
  DEL PEAK 24(18Q22.2) WILD-TYPE 448  62
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 24(18Q22.2) MUTATED     97   27
  DEL PEAK 24(18Q22.2) WILD-TYPE  448   62
   clus
vv  DEL PEAK 24(18Q22.2) MUTATED DEL PEAK 24(18Q22.2) WILD-TYPE
  0                           97                            448
  1                           27                             62
[1] 2 2
[1] FALSE
D37V7, binary
                                cls
clus                               0   1
  DEL PEAK 24(18Q22.2) MUTATED    52 103
  DEL PEAK 24(18Q22.2) WILD-TYPE 240 486
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 24(18Q22.2) MUTATED     52  103
  DEL PEAK 24(18Q22.2) WILD-TYPE  240  486
        clus
vv       DEL PEAK 24(18Q22.2) MUTATED DEL PEAK 24(18Q22.2) WILD-TYPE
  FEMALE                           52                            240
  MALE                            103                            486
[1] 2 2
[1] FALSE
D37V8, binary
                                cls
clus                               0   1
  DEL PEAK 24(18Q22.2) MUTATED    52   0
  DEL PEAK 24(18Q22.2) WILD-TYPE 348   3
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 24(18Q22.2) MUTATED     52    0
  DEL PEAK 24(18Q22.2) WILD-TYPE  348    3
     clus
vv    DEL PEAK 24(18Q22.2) MUTATED DEL PEAK 24(18Q22.2) WILD-TYPE
  NO                            52                            348
  YES                            0                              3
[1] 2 2
[1] FALSE
D37V9, continuous
                                vv
clus                             KIDNEY CHROMOPHOBE
  DEL PEAK 24(18Q22.2) MUTATED                    9
  DEL PEAK 24(18Q22.2) WILD-TYPE                 57
                                vv
clus                             KIDNEY CLEAR CELL RENAL CARCINOMA
  DEL PEAK 24(18Q22.2) MUTATED                                 101
  DEL PEAK 24(18Q22.2) WILD-TYPE                               427
                                vv
clus                             KIDNEY PAPILLARY RENAL CELL CARCINOMA
  DEL PEAK 24(18Q22.2) MUTATED                                      45
  DEL PEAK 24(18Q22.2) WILD-TYPE                                   242
D37V10, multiclass
                                       clus
vv                                      DEL PEAK 24(18Q22.2) MUTATED
  KIDNEY CHROMOPHOBE                                               9
  KIDNEY CLEAR CELL RENAL CARCINOMA                              101
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                           45
                                       clus
vv                                      DEL PEAK 24(18Q22.2) WILD-TYPE
  KIDNEY CHROMOPHOBE                                                57
  KIDNEY CLEAR CELL RENAL CARCINOMA                                427
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                            242
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D37V11, continuous
D37V12, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 24(18Q22.2) MUTATED                                  0     6
  DEL PEAK 24(18Q22.2) WILD-TYPE                                2     9
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 24(18Q22.2) MUTATED                          15   131
  DEL PEAK 24(18Q22.2) WILD-TYPE                       106   588
D37V13, multiclass
                                  clus
vv                                 DEL PEAK 24(18Q22.2) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                       6
  BLACK OR AFRICAN AMERICAN                                  15
  WHITE                                                     131
                                  clus
vv                                 DEL PEAK 24(18Q22.2) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              2
  ASIAN                                                         9
  BLACK OR AFRICAN AMERICAN                                   106
  WHITE                                                       588
[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"
D37V14, binary
                                cls
clus                               0   1
  DEL PEAK 24(18Q22.2) MUTATED     3 109
  DEL PEAK 24(18Q22.2) WILD-TYPE  39 512
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 24(18Q22.2) MUTATED      3  109
  DEL PEAK 24(18Q22.2) WILD-TYPE   39  512
                        clus
vv                       DEL PEAK 24(18Q22.2) MUTATED
  HISPANIC OR LATINO                                3
  NOT HISPANIC OR LATINO                          109
                        clus
vv                       DEL PEAK 24(18Q22.2) WILD-TYPE
  HISPANIC OR LATINO                                 39
  NOT HISPANIC OR LATINO                            512
[1] 2 2
[1] FALSE

Clustering(38) Variable = DEL PEAK 25(19P13.3) MUTATION ANALYSIS
D38V1, survival
                                sevent
clus2                              0   1
  DEL PEAK 25(19P13.3) MUTATED    19  24
  DEL PEAK 25(19P13.3) WILD-TYPE 626 204
  DEL PEAK 25(19P13.3) MUTATED DEL PEAK 25(19P13.3) WILD-TYPE 
                            43                            830 
  DEL PEAK 25(19P13.3) MUTATED DEL PEAK 25(19P13.3) WILD-TYPE 
                            24                            204 
$`DEL PEAK 25(19P13.3) MUTATED`
TCGA-KL-8336 TCGA-KO-8404 TCGA-KO-8415 TCGA-A3-3319 TCGA-AK-3425 TCGA-B0-4690 
       30.25        10.68        96.62        37.15       109.91         1.41 
TCGA-B0-4694 TCGA-B0-4696 TCGA-B0-4707 TCGA-B0-4821 TCGA-B0-4828 TCGA-B0-5084 
        3.48        28.47        19.73        40.44        10.09         7.30 
TCGA-B0-5098 TCGA-B0-5109 TCGA-BP-4164 TCGA-BP-4352 TCGA-BP-4770 TCGA-BP-4985 
       52.08        19.30        32.61        11.31        10.82        31.30 
TCGA-CJ-5681 TCGA-CZ-4860 TCGA-2Z-A9JG TCGA-5P-A9JU TCGA-5P-A9K9 TCGA-5P-A9KC 
       18.15         6.77        54.64        12.26        19.36        12.39 
TCGA-A4-7286 TCGA-A4-8310 TCGA-A4-8517 TCGA-A4-A5Y1 TCGA-AL-3466 TCGA-B1-7332 
       18.21        25.64        19.63        12.99         9.63        37.51 
TCGA-B9-A44B TCGA-B9-A5W7 TCGA-BQ-5876 TCGA-BQ-5890 TCGA-BQ-5891 TCGA-G7-6789 
        2.10        19.23        19.27         7.66         0.95         4.01 
TCGA-G7-7502 TCGA-G7-A8LD TCGA-IA-A40Y TCGA-J7-8537 TCGA-Q2-A5QZ TCGA-UZ-A9PN 
       25.84        16.90         2.04        10.55        14.07        37.35 
TCGA-UZ-A9PP 
       98.96 

$`DEL PEAK 25(19P13.3) WILD-TYPE`
TCGA-KL-8323 TCGA-KL-8324 TCGA-KL-8325 TCGA-KL-8326 TCGA-KL-8327 TCGA-KL-8328 
       38.07       141.73        23.84       109.22       137.06       102.81 
TCGA-KL-8329 TCGA-KL-8330 TCGA-KL-8331 TCGA-KL-8332 TCGA-KL-8333 TCGA-KL-8334 
       90.48       108.62        98.96        84.89        98.33        96.95 
TCGA-KL-8335 TCGA-KL-8337 TCGA-KL-8338 TCGA-KL-8339 TCGA-KL-8340 TCGA-KL-8341 
       92.55        44.84        86.56        28.11        66.54        24.79 
TCGA-KL-8342 TCGA-KL-8343 TCGA-KL-8344 TCGA-KL-8345 TCGA-KL-8346 TCGA-KM-8438 
       73.91        71.41        28.80        54.74        62.37       151.96 
TCGA-KM-8439 TCGA-KM-8440 TCGA-KM-8441 TCGA-KM-8442 TCGA-KM-8443 TCGA-KM-8476 
       23.28        44.91        28.80        47.24        49.97       123.12 
TCGA-KM-8477 TCGA-KM-8639 TCGA-KN-8418 TCGA-KN-8419 TCGA-KN-8421 TCGA-KN-8422 
       51.06        31.33       129.37        23.47        87.91        25.48 
TCGA-KN-8423 TCGA-KN-8424 TCGA-KN-8425 TCGA-KN-8426 TCGA-KN-8427 TCGA-KN-8428 
       25.91        65.19       104.52         3.55         0.99        52.27 
TCGA-KN-8429 TCGA-KN-8431 TCGA-KN-8432 TCGA-KN-8433 TCGA-KN-8434 TCGA-KN-8435 
       87.12        19.33         2.50        11.21        59.08       115.00 
TCGA-KN-8436 TCGA-KN-8437 TCGA-KO-8403 TCGA-KO-8405 TCGA-KO-8406 TCGA-KO-8407 
       42.35       100.87       105.47       100.47       103.40        92.71 
TCGA-KO-8408 TCGA-KO-8409 TCGA-KO-8410 TCGA-KO-8411 TCGA-KO-8413 TCGA-KO-8414 
       16.67       104.55       103.10       130.13        99.88       105.60 
TCGA-KO-8416 TCGA-KO-8417 TCGA-3Z-A93Z TCGA-6D-AA2E TCGA-A3-3306 TCGA-A3-3307 
       90.48        92.55        12.66        11.90        36.82        47.21 
TCGA-A3-3308 TCGA-A3-3311 TCGA-A3-3313 TCGA-A3-3316 TCGA-A3-3317 TCGA-A3-3320 
        0.53        39.16        24.16        49.08        49.02        49.58 
TCGA-A3-3322 TCGA-A3-3323 TCGA-A3-3324 TCGA-A3-3325 TCGA-A3-3326 TCGA-A3-3331 
       48.59        36.36        38.99        38.47        37.38        48.82 
TCGA-A3-3335 TCGA-A3-3336 TCGA-A3-3343 TCGA-A3-3346 TCGA-A3-3347 TCGA-A3-3349 
       62.01        34.29        31.07         4.50        52.93        45.53 
TCGA-A3-3351 TCGA-A3-3352 TCGA-A3-3357 TCGA-A3-3358 TCGA-A3-3359 TCGA-A3-3362 
       29.92        18.44        88.37        42.97        82.32        51.25 
TCGA-A3-3363 TCGA-A3-3365 TCGA-A3-3367 TCGA-A3-3370 TCGA-A3-3372 TCGA-A3-3373 
       10.49        28.70        74.63        74.76        24.16        53.29 
TCGA-A3-3374 TCGA-A3-3376 TCGA-A3-3378 TCGA-A3-3380 TCGA-A3-3382 TCGA-A3-3383 
       43.20        55.76        20.71        18.64        18.87        28.31 
TCGA-A3-3385 TCGA-A3-3387 TCGA-A3-A6NI TCGA-A3-A6NJ TCGA-A3-A6NL TCGA-A3-A6NN 
       65.52        20.28        33.47        15.39        22.65         0.10 
TCGA-A3-A8CQ TCGA-A3-A8OV TCGA-A3-A8OW TCGA-AK-3426 TCGA-AK-3427 TCGA-AK-3428 
        0.10        11.18        10.62        29.10       117.80        73.08 
TCGA-AK-3429 TCGA-AK-3430 TCGA-AK-3431 TCGA-AK-3433 TCGA-AK-3434 TCGA-AK-3436 
      109.41        15.78        73.68       112.08        68.61       109.51 
TCGA-AK-3440 TCGA-AK-3443 TCGA-AK-3444 TCGA-AK-3445 TCGA-AK-3447 TCGA-AK-3450 
       94.19        46.78        48.36        78.64        40.01        49.28 
TCGA-AK-3451 TCGA-AK-3453 TCGA-AK-3454 TCGA-AK-3455 TCGA-AK-3456 TCGA-AK-3458 
       94.29        83.21        28.73        22.45        37.58        38.40 
TCGA-AK-3460 TCGA-AK-3461 TCGA-AK-3465 TCGA-AS-3777 TCGA-AS-3778 TCGA-B0-4688 
       82.45        72.89        12.13        40.70         1.41         3.32 
TCGA-B0-4691 TCGA-B0-4693 TCGA-B0-4697 TCGA-B0-4698 TCGA-B0-4699 TCGA-B0-4700 
        4.57         2.53        19.00         1.38         3.62        65.10 
TCGA-B0-4701 TCGA-B0-4703 TCGA-B0-4706 TCGA-B0-4710 TCGA-B0-4712 TCGA-B0-4713 
        7.82         5.98         2.14        57.70        43.96         6.64 
TCGA-B0-4714 TCGA-B0-4718 TCGA-B0-4810 TCGA-B0-4811 TCGA-B0-4813 TCGA-B0-4814 
        3.25        58.45        15.72        46.59         0.59         5.52 
TCGA-B0-4815 TCGA-B0-4816 TCGA-B0-4817 TCGA-B0-4818 TCGA-B0-4819 TCGA-B0-4822 
       52.21        45.07        33.50        16.77         6.02        36.53 
TCGA-B0-4823 TCGA-B0-4824 TCGA-B0-4827 TCGA-B0-4833 TCGA-B0-4834 TCGA-B0-4836 
       14.93        54.48        29.10        78.44        68.71        40.70 
TCGA-B0-4837 TCGA-B0-4838 TCGA-B0-4839 TCGA-B0-4841 TCGA-B0-4842 TCGA-B0-4843 
       45.30        27.42        53.88         6.71        56.68        10.52 
TCGA-B0-4844 TCGA-B0-4845 TCGA-B0-4846 TCGA-B0-4847 TCGA-B0-4848 TCGA-B0-4849 
       10.29        65.29        39.45        26.07        29.03         2.27 
TCGA-B0-4852 TCGA-B0-4945 TCGA-B0-5075 TCGA-B0-5077 TCGA-B0-5080 TCGA-B0-5081 
       36.85        70.52        20.94        43.30        11.24        11.90 
TCGA-B0-5085 TCGA-B0-5088 TCGA-B0-5092 TCGA-B0-5094 TCGA-B0-5095 TCGA-B0-5096 
       25.32        18.51        15.09        10.95         8.05         2.24 
TCGA-B0-5097 TCGA-B0-5099 TCGA-B0-5100 TCGA-B0-5102 TCGA-B0-5104 TCGA-B0-5106 
       21.86        15.95        62.89        90.87        90.48        52.54 
TCGA-B0-5107 TCGA-B0-5108 TCGA-B0-5110 TCGA-B0-5113 TCGA-B0-5115 TCGA-B0-5116 
       30.48        58.59        66.05        38.63        52.73        41.88 
TCGA-B0-5117 TCGA-B0-5119 TCGA-B0-5120 TCGA-B0-5121 TCGA-B0-5399 TCGA-B0-5400 
       52.87        51.02        38.43        48.82        46.39        56.98 
TCGA-B0-5402 TCGA-B0-5690 TCGA-B0-5691 TCGA-B0-5692 TCGA-B0-5693 TCGA-B0-5694 
       42.41       111.52       112.80       129.67       133.94        15.78 
TCGA-B0-5695 TCGA-B0-5696 TCGA-B0-5697 TCGA-B0-5698 TCGA-B0-5699 TCGA-B0-5701 
       70.68        85.78        86.47       119.38       126.28        80.91 
TCGA-B0-5702 TCGA-B0-5703 TCGA-B0-5705 TCGA-B0-5706 TCGA-B0-5709 TCGA-B0-5710 
       71.41        73.84       149.16       105.37       130.65        79.89 
TCGA-B0-5711 TCGA-B0-5712 TCGA-B0-5713 TCGA-B0-5812 TCGA-B2-3923 TCGA-B2-3924 
      131.15        89.49        91.46       126.05        32.61        35.90 
TCGA-B2-4098 TCGA-B2-4099 TCGA-B2-4101 TCGA-B2-4102 TCGA-B2-5633 TCGA-B2-5635 
        1.68        31.96        21.30        31.30        31.66        24.82 
TCGA-B2-5639 TCGA-B2-5641 TCGA-B2-A4SR TCGA-B4-5377 TCGA-B4-5378 TCGA-B4-5832 
       32.98        21.57        16.67        12.00         5.75         5.10 
TCGA-B4-5834 TCGA-B4-5835 TCGA-B4-5836 TCGA-B4-5838 TCGA-B4-5843 TCGA-B4-5844 
        0.85         0.53         4.64         5.46         0.36         0.23 
TCGA-B8-4143 TCGA-B8-4146 TCGA-B8-4148 TCGA-B8-4151 TCGA-B8-4153 TCGA-B8-4154 
       23.31        16.80        27.16        42.71        25.05        45.37 
TCGA-B8-4619 TCGA-B8-4620 TCGA-B8-4621 TCGA-B8-4622 TCGA-B8-5158 TCGA-B8-5159 
       17.19        25.55        25.91        50.14        20.91        23.74 
TCGA-B8-5162 TCGA-B8-5163 TCGA-B8-5164 TCGA-B8-5165 TCGA-B8-5545 TCGA-B8-5546 
        1.18        27.02         0.85        24.23        50.14        16.60 
TCGA-B8-5549 TCGA-B8-5550 TCGA-B8-5551 TCGA-B8-5552 TCGA-B8-5553 TCGA-B8-A54D 
        6.38        48.53         0.53        34.39        14.30        27.29 
TCGA-B8-A54E TCGA-B8-A54F TCGA-B8-A54G TCGA-B8-A54H TCGA-B8-A54I TCGA-B8-A54J 
       29.88        17.06         1.74         8.42         4.93        17.36 
TCGA-B8-A54K TCGA-B8-A7U6 TCGA-B8-A8YJ TCGA-BP-4158 TCGA-BP-4159 TCGA-BP-4160 
       15.42        16.27        14.17       111.02        85.51        94.72 
TCGA-BP-4161 TCGA-BP-4162 TCGA-BP-4163 TCGA-BP-4165 TCGA-BP-4166 TCGA-BP-4167 
       90.28       101.06        93.34        99.85         0.43        89.36 
TCGA-BP-4169 TCGA-BP-4170 TCGA-BP-4173 TCGA-BP-4174 TCGA-BP-4176 TCGA-BP-4177 
       23.05        77.03        62.24        61.78        64.27        54.90 
TCGA-BP-4325 TCGA-BP-4326 TCGA-BP-4327 TCGA-BP-4329 TCGA-BP-4330 TCGA-BP-4331 
       97.45        53.42         3.58        27.78        62.07        80.68 
TCGA-BP-4332 TCGA-BP-4334 TCGA-BP-4335 TCGA-BP-4337 TCGA-BP-4338 TCGA-BP-4340 
       37.25        21.21        15.16         0.07        93.99        18.48 
TCGA-BP-4341 TCGA-BP-4342 TCGA-BP-4343 TCGA-BP-4344 TCGA-BP-4346 TCGA-BP-4347 
       52.24        74.17        62.86        54.77        49.08        44.94 
TCGA-BP-4349 TCGA-BP-4351 TCGA-BP-4353 TCGA-BP-4354 TCGA-BP-4355 TCGA-BP-4756 
       12.23        31.89        12.33        33.99        31.33        12.30 
TCGA-BP-4758 TCGA-BP-4759 TCGA-BP-4760 TCGA-BP-4761 TCGA-BP-4762 TCGA-BP-4763 
       72.59        77.98        77.62         5.98        44.15        41.75 
TCGA-BP-4765 TCGA-BP-4766 TCGA-BP-4768 TCGA-BP-4769 TCGA-BP-4771 TCGA-BP-4774 
       71.80        48.07        13.15        61.68         5.33        61.97 
TCGA-BP-4775 TCGA-BP-4776 TCGA-BP-4777 TCGA-BP-4781 TCGA-BP-4782 TCGA-BP-4784 
       60.59        13.51        56.91        68.38        11.64        60.95 
TCGA-BP-4787 TCGA-BP-4789 TCGA-BP-4790 TCGA-BP-4795 TCGA-BP-4797 TCGA-BP-4798 
       15.78        48.95        36.53        20.38        36.39        10.98 
TCGA-BP-4799 TCGA-BP-4801 TCGA-BP-4803 TCGA-BP-4804 TCGA-BP-4807 TCGA-BP-4959 
       37.25        36.95         6.71        47.97         6.94        87.45 
TCGA-BP-4960 TCGA-BP-4961 TCGA-BP-4962 TCGA-BP-4963 TCGA-BP-4964 TCGA-BP-4965 
       71.41        63.62        58.68        60.30        61.22        61.51 
TCGA-BP-4967 TCGA-BP-4968 TCGA-BP-4969 TCGA-BP-4970 TCGA-BP-4971 TCGA-BP-4972 
        6.74        57.40        58.98        14.24        48.89        49.38 
TCGA-BP-4973 TCGA-BP-4974 TCGA-BP-4975 TCGA-BP-4976 TCGA-BP-4977 TCGA-BP-4981 
       45.50         6.90        47.11        53.65        14.93        36.07 
TCGA-BP-4982 TCGA-BP-4983 TCGA-BP-4986 TCGA-BP-4987 TCGA-BP-4988 TCGA-BP-4989 
       33.34        46.45        25.81        36.95        27.22         3.88 
TCGA-BP-4991 TCGA-BP-4992 TCGA-BP-4993 TCGA-BP-4994 TCGA-BP-4995 TCGA-BP-4998 
       46.45        16.47         5.82        43.00        45.07        30.64 
TCGA-BP-4999 TCGA-BP-5000 TCGA-BP-5001 TCGA-BP-5004 TCGA-BP-5006 TCGA-BP-5007 
       41.62        18.51        38.70        37.02        27.62        37.48 
TCGA-BP-5008 TCGA-BP-5009 TCGA-BP-5010 TCGA-BP-5168 TCGA-BP-5169 TCGA-BP-5170 
       35.21        36.23        28.87        48.10         6.35        79.30 
TCGA-BP-5173 TCGA-BP-5174 TCGA-BP-5175 TCGA-BP-5176 TCGA-BP-5177 TCGA-BP-5178 
        1.74        74.20        30.64        52.27         9.63        62.86 
TCGA-BP-5180 TCGA-BP-5181 TCGA-BP-5182 TCGA-BP-5183 TCGA-BP-5184 TCGA-BP-5185 
       74.40        49.15        38.30        42.44        37.25        37.22 
TCGA-BP-5186 TCGA-BP-5187 TCGA-BP-5189 TCGA-BP-5190 TCGA-BP-5191 TCGA-BP-5192 
       22.78        13.35        27.02        33.24        31.79        23.47 
TCGA-BP-5194 TCGA-BP-5195 TCGA-BP-5196 TCGA-BP-5198 TCGA-BP-5199 TCGA-BP-5200 
       13.41        24.62        33.47        19.82        44.55        34.95 
TCGA-BP-5201 TCGA-BP-5202 TCGA-CJ-4634 TCGA-CJ-4635 TCGA-CJ-4636 TCGA-CJ-4637 
       31.27         0.95       115.00        46.55        63.25        73.22 
TCGA-CJ-4638 TCGA-CJ-4639 TCGA-CJ-4640 TCGA-CJ-4641 TCGA-CJ-4642 TCGA-CJ-4643 
       14.17       106.16       114.41        54.61       105.37        58.95 
TCGA-CJ-4644 TCGA-CJ-4868 TCGA-CJ-4869 TCGA-CJ-4870 TCGA-CJ-4871 TCGA-CJ-4872 
       11.05        21.24        83.97        49.25        79.66        10.72 
TCGA-CJ-4873 TCGA-CJ-4874 TCGA-CJ-4875 TCGA-CJ-4876 TCGA-CJ-4878 TCGA-CJ-4881 
       74.27        75.06       116.84        64.27        71.87        66.21 
TCGA-CJ-4882 TCGA-CJ-4884 TCGA-CJ-4885 TCGA-CJ-4886 TCGA-CJ-4887 TCGA-CJ-4888 
       61.91        57.83       113.46        64.18        30.64        51.52 
TCGA-CJ-4889 TCGA-CJ-4890 TCGA-CJ-4891 TCGA-CJ-4892 TCGA-CJ-4893 TCGA-CJ-4894 
       63.98       115.69        26.93        50.01        24.66        27.65 
TCGA-CJ-4895 TCGA-CJ-4897 TCGA-CJ-4899 TCGA-CJ-4900 TCGA-CJ-4901 TCGA-CJ-4902 
       39.45       109.84        50.24        56.35        47.67        49.97 
TCGA-CJ-4903 TCGA-CJ-4904 TCGA-CJ-4905 TCGA-CJ-4907 TCGA-CJ-4908 TCGA-CJ-4912 
       51.25       108.56        49.18        49.28        50.33        54.48 
TCGA-CJ-4913 TCGA-CJ-4916 TCGA-CJ-4918 TCGA-CJ-4920 TCGA-CJ-4923 TCGA-CJ-5671 
       38.56        45.14         3.06         4.57        18.81       131.08 
TCGA-CJ-5672 TCGA-CJ-5675 TCGA-CJ-5676 TCGA-CJ-5677 TCGA-CJ-5678 TCGA-CJ-5679 
       72.00       129.40       133.71        25.71        18.87        22.32 
TCGA-CJ-5680 TCGA-CJ-5682 TCGA-CJ-5683 TCGA-CJ-5684 TCGA-CJ-5686 TCGA-CJ-5689 
       25.25       122.83        62.10        73.35        67.00        53.26 
TCGA-CJ-6027 TCGA-CJ-6028 TCGA-CJ-6030 TCGA-CJ-6031 TCGA-CJ-6032 TCGA-CJ-6033 
      118.85        53.42        75.58        62.66       119.64         7.36 
TCGA-CW-5580 TCGA-CW-5581 TCGA-CW-5583 TCGA-CW-5584 TCGA-CW-5585 TCGA-CW-5587 
       64.57        92.02        81.83         5.39        85.78        73.18 
TCGA-CW-5588 TCGA-CW-5589 TCGA-CW-5591 TCGA-CW-6087 TCGA-CW-6088 TCGA-CW-6090 
       66.31        78.18        74.66         1.35       105.93        83.90 
TCGA-CW-6093 TCGA-CW-6097 TCGA-CZ-4853 TCGA-CZ-4854 TCGA-CZ-4856 TCGA-CZ-4857 
      103.43        18.77        25.45        46.16         0.59        47.08 
TCGA-CZ-4858 TCGA-CZ-4859 TCGA-CZ-4861 TCGA-CZ-4862 TCGA-CZ-4863 TCGA-CZ-4864 
       69.21        58.75        14.66       107.54        63.39        93.04 
TCGA-CZ-4865 TCGA-CZ-4866 TCGA-CZ-5451 TCGA-CZ-5452 TCGA-CZ-5453 TCGA-CZ-5454 
        5.46        61.41        63.42        58.82        79.53        23.74 
TCGA-CZ-5455 TCGA-CZ-5456 TCGA-CZ-5457 TCGA-CZ-5458 TCGA-CZ-5459 TCGA-CZ-5460 
       18.44        79.63        90.54        91.69        55.33        94.45 
TCGA-CZ-5461 TCGA-CZ-5462 TCGA-CZ-5463 TCGA-CZ-5464 TCGA-CZ-5465 TCGA-CZ-5466 
       10.85        10.22        21.76        69.96        84.30        22.52 
TCGA-CZ-5467 TCGA-CZ-5468 TCGA-CZ-5469 TCGA-CZ-5470 TCGA-CZ-5982 TCGA-CZ-5984 
        2.40         1.94        31.10        12.69        80.19        67.96 
TCGA-CZ-5985 TCGA-CZ-5986 TCGA-CZ-5987 TCGA-CZ-5988 TCGA-CZ-5989 TCGA-DV-5565 
       65.65        12.26        14.63        22.78        62.63        13.28 
TCGA-DV-5566 TCGA-DV-5567 TCGA-DV-5568 TCGA-DV-5569 TCGA-DV-5573 TCGA-DV-5574 
       45.96        65.88        12.16        11.67        37.15        66.28 
TCGA-DV-5575 TCGA-DV-5576 TCGA-DV-A4VX TCGA-DV-A4VZ TCGA-DV-A4W0 TCGA-EU-5904 
       56.84        23.90        53.46        12.00        81.21        18.12 
TCGA-EU-5905 TCGA-EU-5906 TCGA-EU-5907 TCGA-G6-A5PC TCGA-G6-A8L6 TCGA-G6-A8L7 
        3.91         6.77         4.18         7.96        10.29        70.13 
TCGA-G6-A8L8 TCGA-GK-A6C7 TCGA-MM-A563 TCGA-MM-A564 TCGA-MM-A84U TCGA-MW-A4EC 
       35.87         2.01        19.43        19.96        23.01        16.37 
TCGA-T7-A92I TCGA-2K-A9WE TCGA-2Z-A9J1 TCGA-2Z-A9J2 TCGA-2Z-A9J3 TCGA-2Z-A9J5 
       11.70         7.04        75.55        59.01        58.22       100.27 
TCGA-2Z-A9J6 TCGA-2Z-A9J7 TCGA-2Z-A9J8 TCGA-2Z-A9J9 TCGA-2Z-A9JD TCGA-2Z-A9JE 
       56.91         4.57        91.73        75.42        34.85        56.81 
TCGA-2Z-A9JI TCGA-2Z-A9JJ TCGA-2Z-A9JK TCGA-2Z-A9JL TCGA-2Z-A9JM TCGA-2Z-A9JN 
       51.52        39.88        38.99        33.07        30.71        24.33 
TCGA-2Z-A9JO TCGA-2Z-A9JP TCGA-2Z-A9JQ TCGA-2Z-A9JR TCGA-2Z-A9JS TCGA-2Z-A9JT 
       31.20        29.36        25.58         5.29        16.18        22.49 
TCGA-4A-A93W TCGA-4A-A93X TCGA-4A-A93Y TCGA-5P-A9JV TCGA-5P-A9JW TCGA-5P-A9JY 
        0.13        12.82        11.57        67.17       106.55        49.58 
TCGA-5P-A9JZ TCGA-5P-A9K0 TCGA-5P-A9K2 TCGA-5P-A9K3 TCGA-5P-A9K4 TCGA-5P-A9K6 
       90.21        22.26        78.64        15.48        71.80        62.93 
TCGA-5P-A9K8 TCGA-5P-A9KA TCGA-5P-A9KE TCGA-5P-A9KH TCGA-A4-7287 TCGA-A4-7288 
       43.04        12.99        27.09        67.43        19.63        61.05 
TCGA-A4-7583 TCGA-A4-7584 TCGA-A4-7585 TCGA-A4-7732 TCGA-A4-7734 TCGA-A4-7828 
        0.10        21.37        35.18        19.13         0.89         7.82 
TCGA-A4-7915 TCGA-A4-7996 TCGA-A4-7997 TCGA-A4-8098 TCGA-A4-8311 TCGA-A4-8312 
        0.23        16.64        30.48        29.46        23.97        23.28 
TCGA-A4-8515 TCGA-A4-8516 TCGA-A4-8518 TCGA-A4-8630 TCGA-A4-A48D TCGA-A4-A4ZT 
       23.31         0.76        19.73        14.33        12.46        16.96 
TCGA-A4-A57E TCGA-A4-A5DU TCGA-A4-A5XZ TCGA-A4-A5Y0 TCGA-A4-A6HP TCGA-AL-3467 
        8.48        16.31        15.75         8.28        12.46        70.19 
TCGA-AL-3468 TCGA-AL-3471 TCGA-AL-3472 TCGA-AL-3473 TCGA-AL-7173 TCGA-AL-A5DJ 
       76.64        49.32        66.71        62.66        67.73        49.25 
TCGA-AT-A5NU TCGA-B1-5398 TCGA-B1-A47M TCGA-B1-A47N TCGA-B1-A47O TCGA-B1-A654 
        2.20        19.56        21.67        24.56        16.87        20.25 
TCGA-B1-A655 TCGA-B1-A656 TCGA-B1-A657 TCGA-B3-3925 TCGA-B3-3926 TCGA-B3-4103 
       16.77        20.32        21.07        33.83        10.09        30.58 
TCGA-B3-4104 TCGA-B3-8121 TCGA-B3-A6W5 TCGA-B9-4113 TCGA-B9-4114 TCGA-B9-4115 
       34.49        12.46        10.16        50.50        28.18        26.40 
TCGA-B9-4116 TCGA-B9-4117 TCGA-B9-4617 TCGA-B9-5155 TCGA-B9-5156 TCGA-B9-7268 
       20.61         0.46         1.15        15.12        43.99        22.06 
TCGA-B9-A5W8 TCGA-B9-A5W9 TCGA-B9-A69E TCGA-B9-A8YH TCGA-B9-A8YI TCGA-BQ-5875 
       17.23         0.16        14.86        17.49        12.30        86.76 
TCGA-BQ-5877 TCGA-BQ-5878 TCGA-BQ-5879 TCGA-BQ-5880 TCGA-BQ-5881 TCGA-BQ-5882 
        8.88        63.72        22.92        43.20        47.80        21.63 
TCGA-BQ-5883 TCGA-BQ-5884 TCGA-BQ-5885 TCGA-BQ-5886 TCGA-BQ-5887 TCGA-BQ-5888 
       40.83        26.04        30.28        26.04        25.35        13.25 
TCGA-BQ-5889 TCGA-BQ-5892 TCGA-BQ-5893 TCGA-BQ-5894 TCGA-BQ-7044 TCGA-BQ-7045 
       10.82        11.97         7.92         2.76       123.62        48.26 
TCGA-BQ-7046 TCGA-BQ-7048 TCGA-BQ-7049 TCGA-BQ-7050 TCGA-BQ-7051 TCGA-BQ-7053 
       96.92        93.34        44.84        61.28        50.40        49.84 
TCGA-BQ-7055 TCGA-BQ-7056 TCGA-BQ-7058 TCGA-BQ-7059 TCGA-BQ-7060 TCGA-BQ-7061 
       26.27        20.12        11.28         7.63         7.04         7.17 
TCGA-BQ-7062 TCGA-DW-5560 TCGA-DW-5561 TCGA-DW-7834 TCGA-DW-7836 TCGA-DW-7837 
        3.81        48.85        13.61       129.86        35.93        37.55 
TCGA-DW-7838 TCGA-DW-7839 TCGA-DW-7840 TCGA-DW-7841 TCGA-DW-7842 TCGA-DW-7963 
       24.46        13.78         3.75        14.63         3.02        40.77 
TCGA-DZ-6131 TCGA-DZ-6132 TCGA-DZ-6133 TCGA-DZ-6134 TCGA-DZ-6135 TCGA-EV-5901 
       79.86        80.88        51.19        61.02        74.60        34.19 
TCGA-EV-5902 TCGA-EV-5903 TCGA-F9-A4JJ TCGA-F9-A7Q0 TCGA-F9-A7VF TCGA-F9-A8NY 
       19.00        24.89        10.68        13.08         2.40         1.18 
TCGA-F9-A97G TCGA-G7-6790 TCGA-G7-6792 TCGA-G7-6793 TCGA-G7-6795 TCGA-G7-6796 
        0.43        51.78        90.90        11.05        39.25        71.44 
TCGA-G7-6797 TCGA-G7-7501 TCGA-G7-A4TM TCGA-G7-A8LB TCGA-G7-A8LC TCGA-G7-A8LE 
       25.15        20.52         6.38        17.98        23.08        80.65 
TCGA-GL-6846 TCGA-GL-7773 TCGA-GL-7966 TCGA-GL-8500 TCGA-GL-A4EM TCGA-GL-A59R 
      194.79        12.92         3.68        27.65         1.05        12.43 
TCGA-GL-A59T TCGA-GL-A9DC TCGA-GL-A9DD TCGA-GL-A9DE TCGA-HE-A5NF TCGA-HE-A5NH 
       17.95        12.89        11.21        16.31        84.89        26.01 
TCGA-HE-A5NI TCGA-HE-A5NJ TCGA-HE-A5NK TCGA-HE-A5NL TCGA-IA-A40U TCGA-IA-A40X 
       11.84        56.75        73.25        25.22        16.80        19.99 
TCGA-IA-A83S TCGA-IA-A83T TCGA-IA-A83V TCGA-IA-A83W TCGA-IZ-8195 TCGA-IZ-8196 
       85.78        88.24        96.69        67.17        22.26        21.34 
TCGA-IZ-A6M8 TCGA-IZ-A6M9 TCGA-J7-6720 TCGA-KV-A6GD TCGA-KV-A6GE TCGA-KV-A74V 
       16.34        12.36        12.76        18.41        29.10        11.41 
TCGA-MH-A55W TCGA-MH-A55Z TCGA-MH-A560 TCGA-MH-A561 TCGA-MH-A562 TCGA-MH-A854 
       34.29        27.78        30.38        27.65        20.25        17.62 
TCGA-MH-A855 TCGA-MH-A856 TCGA-MH-A857 TCGA-O9-A75Z TCGA-P4-A5E6 TCGA-P4-A5E7 
       12.13        31.13        29.26        15.48        99.78        87.09 
TCGA-P4-A5E8 TCGA-P4-A5EA TCGA-P4-A5EB TCGA-P4-A5ED TCGA-P4-AAVK TCGA-P4-AAVL 
       42.94         6.61        99.12        92.58        52.27        16.01 
TCGA-P4-AAVM TCGA-P4-AAVO TCGA-PJ-A5Z8 TCGA-PJ-A5Z9 TCGA-SX-A71R TCGA-SX-A71S 
       50.60        78.90        19.73        17.75        47.90        49.45 
TCGA-SX-A71U TCGA-SX-A71V TCGA-SX-A7SL TCGA-SX-A7SM TCGA-SX-A7SN TCGA-SX-A7SO 
       44.61        28.80        27.06        11.93        19.00        41.33 
TCGA-SX-A7SP TCGA-SX-A7SQ TCGA-SX-A7SR TCGA-SX-A7SS TCGA-SX-A7SU TCGA-UN-AAZ9 
       16.31        41.62        26.47        53.10        43.76        18.02 
TCGA-UZ-A9PJ TCGA-UZ-A9PK TCGA-UZ-A9PL TCGA-UZ-A9PM TCGA-UZ-A9PO TCGA-UZ-A9PQ 
       26.20       117.40       103.63       125.29        62.83        86.27 
TCGA-UZ-A9PR TCGA-UZ-A9PS TCGA-UZ-A9PU TCGA-UZ-A9PV TCGA-UZ-A9PX TCGA-UZ-A9PZ 
       86.37        71.24        30.67        47.47        65.13        21.60 
TCGA-UZ-A9Q0 TCGA-UZ-A9Q1 TCGA-V9-A7HT TCGA-WN-A9G9 TCGA-WN-AB4C TCGA-Y8-A894 
      110.73        51.35        31.73        26.01        39.06        18.64 
TCGA-Y8-A895 TCGA-Y8-A896 TCGA-Y8-A897 TCGA-Y8-A898 TCGA-Y8-A8RY TCGA-Y8-A8RZ 
       15.91        18.64        18.05        15.62        25.28         3.68 
TCGA-Y8-A8S0 TCGA-Y8-A8S1 
        6.02        13.28 

  DEL PEAK 25(19P13.3) MUTATED DEL PEAK 25(19P13.3) WILD-TYPE 
                          0.95                           0.07 
  DEL PEAK 25(19P13.3) MUTATED DEL PEAK 25(19P13.3) WILD-TYPE 
                        109.91                         194.79 
  DEL PEAK 25(19P13.3) MUTATED DEL PEAK 25(19P13.3) WILD-TYPE 
                         18.21                          36.53 
[1] "0.9 - 109.9 (18.2)" "0.1 - 194.8 (36.5)"
[1] "hr=" "4"  
D38V2, continuous
                                vv
clus                             STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK 25(19P13.3) MUTATED        10        1        18       11
  DEL PEAK 25(19P13.3) WILD-TYPE     445      103       173       93
D38V3, multiclass
           clus
vv          DEL PEAK 25(19P13.3) MUTATED DEL PEAK 25(19P13.3) WILD-TYPE
  STAGE I                             10                            445
  STAGE II                             1                            103
  STAGE III                           18                            173
  STAGE IV                            11                             93
[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                              T1  T2  T3  T4
  DEL PEAK 25(19P13.3) MUTATED    12   2  25   4
  DEL PEAK 25(19P13.3) WILD-TYPE 467 125 233  11
D38V4, multiclass
    clus
vv   DEL PEAK 25(19P13.3) MUTATED DEL PEAK 25(19P13.3) WILD-TYPE
  T1                           12                            467
  T2                            2                            125
  T3                           25                            233
  T4                            4                             11
[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                              N0  N1  N2
  DEL PEAK 25(19P13.3) MUTATED    11   7   3
  DEL PEAK 25(19P13.3) WILD-TYPE 311  37   4
D38V5, multiclass
    clus
vv   DEL PEAK 25(19P13.3) MUTATED DEL PEAK 25(19P13.3) WILD-TYPE
  N0                           11                            311
  N1                            7                             37
  N2                            3                              4
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D38V6, binary
                                cls
clus                               0   1
  DEL PEAK 25(19P13.3) MUTATED    18   7
  DEL PEAK 25(19P13.3) WILD-TYPE 527  82
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 25(19P13.3) MUTATED     18    7
  DEL PEAK 25(19P13.3) WILD-TYPE  527   82
   clus
vv  DEL PEAK 25(19P13.3) MUTATED DEL PEAK 25(19P13.3) WILD-TYPE
  0                           18                            527
  1                            7                             82
[1] 2 2
[1] FALSE
D38V7, binary
                                cls
clus                               0   1
  DEL PEAK 25(19P13.3) MUTATED    16  27
  DEL PEAK 25(19P13.3) WILD-TYPE 276 562
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 25(19P13.3) MUTATED     16   27
  DEL PEAK 25(19P13.3) WILD-TYPE  276  562
        clus
vv       DEL PEAK 25(19P13.3) MUTATED DEL PEAK 25(19P13.3) WILD-TYPE
  FEMALE                           16                            276
  MALE                             27                            562
[1] 2 2
[1] FALSE
D38V8, binary
                                cls
clus                               0   1
  DEL PEAK 25(19P13.3) MUTATED    21   0
  DEL PEAK 25(19P13.3) WILD-TYPE 379   3
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 25(19P13.3) MUTATED     21    0
  DEL PEAK 25(19P13.3) WILD-TYPE  379    3
     clus
vv    DEL PEAK 25(19P13.3) MUTATED DEL PEAK 25(19P13.3) WILD-TYPE
  NO                            21                            379
  YES                            0                              3
[1] 2 2
[1] FALSE
D38V9, continuous
                                vv
clus                             KIDNEY CHROMOPHOBE
  DEL PEAK 25(19P13.3) MUTATED                    3
  DEL PEAK 25(19P13.3) WILD-TYPE                 63
                                vv
clus                             KIDNEY CLEAR CELL RENAL CARCINOMA
  DEL PEAK 25(19P13.3) MUTATED                                  17
  DEL PEAK 25(19P13.3) WILD-TYPE                               511
                                vv
clus                             KIDNEY PAPILLARY RENAL CELL CARCINOMA
  DEL PEAK 25(19P13.3) MUTATED                                      23
  DEL PEAK 25(19P13.3) WILD-TYPE                                   264
D38V10, multiclass
                                       clus
vv                                      DEL PEAK 25(19P13.3) MUTATED
  KIDNEY CHROMOPHOBE                                               3
  KIDNEY CLEAR CELL RENAL CARCINOMA                               17
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                           23
                                       clus
vv                                      DEL PEAK 25(19P13.3) WILD-TYPE
  KIDNEY CHROMOPHOBE                                                63
  KIDNEY CLEAR CELL RENAL CARCINOMA                                511
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                            264
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D38V11, continuous
D38V12, continuous
[1] "Remove cluster labels:"       "DEL PEAK 25(19P13.3) MUTATED"
clus
  DEL PEAK 25(19P13.3) MUTATED DEL PEAK 25(19P13.3) WILD-TYPE 
                             2                             72 
                    TCGA-KL-8330                     TCGA-KL-8335 
"DEL PEAK 25(19P13.3) WILD-TYPE" "DEL PEAK 25(19P13.3) WILD-TYPE" 
                    TCGA-KL-8341                     TCGA-KL-8345 
"DEL PEAK 25(19P13.3) WILD-TYPE" "DEL PEAK 25(19P13.3) WILD-TYPE" 
                    TCGA-KM-8639                     TCGA-KN-8433 
"DEL PEAK 25(19P13.3) WILD-TYPE" "DEL PEAK 25(19P13.3) WILD-TYPE" 
                    TCGA-KO-8408                     TCGA-KO-8409 
"DEL PEAK 25(19P13.3) WILD-TYPE" "DEL PEAK 25(19P13.3) WILD-TYPE" 
                    TCGA-A3-A8OV                     TCGA-A3-A8OW 
"DEL PEAK 25(19P13.3) WILD-TYPE" "DEL PEAK 25(19P13.3) WILD-TYPE" 
                    TCGA-AK-3445                     TCGA-AK-3451 
"DEL PEAK 25(19P13.3) WILD-TYPE" "DEL PEAK 25(19P13.3) WILD-TYPE" 
                    TCGA-B2-A4SR                     TCGA-B8-5158 
"DEL PEAK 25(19P13.3) WILD-TYPE" "DEL PEAK 25(19P13.3) WILD-TYPE" 
                    TCGA-B8-5550                     TCGA-DV-A4W0 
"DEL PEAK 25(19P13.3) WILD-TYPE" "DEL PEAK 25(19P13.3) WILD-TYPE" 
                    TCGA-G6-A8L7                     TCGA-MM-A563 
"DEL PEAK 25(19P13.3) WILD-TYPE" "DEL PEAK 25(19P13.3) WILD-TYPE" 
                    TCGA-MM-A84U                     TCGA-T7-A92I 
"DEL PEAK 25(19P13.3) WILD-TYPE" "DEL PEAK 25(19P13.3) WILD-TYPE" 
                    TCGA-2Z-A9J3                     TCGA-2Z-A9J7 
"DEL PEAK 25(19P13.3) WILD-TYPE" "DEL PEAK 25(19P13.3) WILD-TYPE" 
                    TCGA-2Z-A9J8                     TCGA-2Z-A9JD 
"DEL PEAK 25(19P13.3) WILD-TYPE" "DEL PEAK 25(19P13.3) WILD-TYPE" 
                    TCGA-2Z-A9JI                     TCGA-2Z-A9JN 
"DEL PEAK 25(19P13.3) WILD-TYPE" "DEL PEAK 25(19P13.3) WILD-TYPE" 
                    TCGA-2Z-A9JO                     TCGA-4A-A93W 
"DEL PEAK 25(19P13.3) WILD-TYPE" "DEL PEAK 25(19P13.3) WILD-TYPE" 
                    TCGA-4A-A93Y                     TCGA-A4-A48D 
"DEL PEAK 25(19P13.3) WILD-TYPE" "DEL PEAK 25(19P13.3) WILD-TYPE" 
                    TCGA-A4-A57E                     TCGA-A4-A5Y0 
"DEL PEAK 25(19P13.3) WILD-TYPE" "DEL PEAK 25(19P13.3) WILD-TYPE" 
                    TCGA-AL-3472                     TCGA-AL-7173 
"DEL PEAK 25(19P13.3) WILD-TYPE" "DEL PEAK 25(19P13.3) WILD-TYPE" 
                    TCGA-B1-A654                     TCGA-B9-4114 
"DEL PEAK 25(19P13.3) WILD-TYPE" "DEL PEAK 25(19P13.3) WILD-TYPE" 
                    TCGA-B9-4117                     TCGA-B9-A69E 
"DEL PEAK 25(19P13.3) WILD-TYPE" "DEL PEAK 25(19P13.3) WILD-TYPE" 
                    TCGA-DW-5561                     TCGA-DW-7963 
"DEL PEAK 25(19P13.3) WILD-TYPE" "DEL PEAK 25(19P13.3) WILD-TYPE" 
                    TCGA-F9-A97G                     TCGA-G7-6793 
"DEL PEAK 25(19P13.3) WILD-TYPE" "DEL PEAK 25(19P13.3) WILD-TYPE" 
                    TCGA-G7-6795                     TCGA-G7-7501 
"DEL PEAK 25(19P13.3) WILD-TYPE" "DEL PEAK 25(19P13.3) WILD-TYPE" 
                    TCGA-G7-A8LB                     TCGA-G7-A8LE 
"DEL PEAK 25(19P13.3) WILD-TYPE" "DEL PEAK 25(19P13.3) WILD-TYPE" 
                    TCGA-GL-7773                     TCGA-GL-A9DD 
"DEL PEAK 25(19P13.3) WILD-TYPE" "DEL PEAK 25(19P13.3) WILD-TYPE" 
                    TCGA-HE-A5NI                     TCGA-IA-A40U 
"DEL PEAK 25(19P13.3) WILD-TYPE" "DEL PEAK 25(19P13.3) WILD-TYPE" 
                    TCGA-MH-A854                     TCGA-MH-A856 
"DEL PEAK 25(19P13.3) WILD-TYPE" "DEL PEAK 25(19P13.3) WILD-TYPE" 
                    TCGA-P4-A5E6                     TCGA-P4-AAVK 
"DEL PEAK 25(19P13.3) WILD-TYPE" "DEL PEAK 25(19P13.3) WILD-TYPE" 
                    TCGA-PJ-A5Z9                     TCGA-SX-A71S 
"DEL PEAK 25(19P13.3) WILD-TYPE" "DEL PEAK 25(19P13.3) WILD-TYPE" 
                    TCGA-SX-A71U                     TCGA-SX-A7SL 
"DEL PEAK 25(19P13.3) WILD-TYPE" "DEL PEAK 25(19P13.3) WILD-TYPE" 
                    TCGA-SX-A7SM                     TCGA-SX-A7SR 
"DEL PEAK 25(19P13.3) WILD-TYPE" "DEL PEAK 25(19P13.3) WILD-TYPE" 
                    TCGA-SX-A7SS                     TCGA-UZ-A9PM 
"DEL PEAK 25(19P13.3) WILD-TYPE" "DEL PEAK 25(19P13.3) WILD-TYPE" 
                    TCGA-UZ-A9PO                     TCGA-UZ-A9PR 
"DEL PEAK 25(19P13.3) WILD-TYPE" "DEL PEAK 25(19P13.3) WILD-TYPE" 
                    TCGA-UZ-A9PS                     TCGA-UZ-A9PX 
"DEL PEAK 25(19P13.3) WILD-TYPE" "DEL PEAK 25(19P13.3) WILD-TYPE" 
                    TCGA-WN-A9G9                     TCGA-WN-AB4C 
"DEL PEAK 25(19P13.3) WILD-TYPE" "DEL PEAK 25(19P13.3) WILD-TYPE" 
                    TCGA-Y8-A894                     TCGA-Y8-A896 
"DEL PEAK 25(19P13.3) WILD-TYPE" "DEL PEAK 25(19P13.3) WILD-TYPE" 
                    TCGA-Y8-A8RY                     TCGA-Y8-A8RZ 
"DEL PEAK 25(19P13.3) WILD-TYPE" "DEL PEAK 25(19P13.3) WILD-TYPE" 
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 25(19P13.3) MUTATED                                  0     2
  DEL PEAK 25(19P13.3) WILD-TYPE                                2    13
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 25(19P13.3) MUTATED                           5    36
  DEL PEAK 25(19P13.3) WILD-TYPE                       116   683
D38V13, multiclass
                                  clus
vv                                 DEL PEAK 25(19P13.3) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                       2
  BLACK OR AFRICAN AMERICAN                                   5
  WHITE                                                      36
                                  clus
vv                                 DEL PEAK 25(19P13.3) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              2
  ASIAN                                                        13
  BLACK OR AFRICAN AMERICAN                                   116
  WHITE                                                       683
[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"
D38V14, binary
                                cls
clus                               0   1
  DEL PEAK 25(19P13.3) MUTATED     1  35
  DEL PEAK 25(19P13.3) WILD-TYPE  41 586
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 25(19P13.3) MUTATED      1   35
  DEL PEAK 25(19P13.3) WILD-TYPE   41  586
                        clus
vv                       DEL PEAK 25(19P13.3) MUTATED
  HISPANIC OR LATINO                                1
  NOT HISPANIC OR LATINO                           35
                        clus
vv                       DEL PEAK 25(19P13.3) WILD-TYPE
  HISPANIC OR LATINO                                 41
  NOT HISPANIC OR LATINO                            586
[1] 2 2
[1] FALSE

Clustering(39) Variable = DEL PEAK 26(XP22.2) MUTATION ANALYSIS
D39V1, survival
                               sevent
clus2                             0   1
  DEL PEAK 26(XP22.2) MUTATED    87  40
  DEL PEAK 26(XP22.2) WILD-TYPE 558 188
  DEL PEAK 26(XP22.2) MUTATED DEL PEAK 26(XP22.2) WILD-TYPE 
                          127                           746 
  DEL PEAK 26(XP22.2) MUTATED DEL PEAK 26(XP22.2) WILD-TYPE 
                           40                           188 
$`DEL PEAK 26(XP22.2) MUTATED`
TCGA-KL-8323 TCGA-KL-8325 TCGA-KL-8328 TCGA-KL-8329 TCGA-KL-8330 TCGA-KL-8331 
       38.07        23.84       102.81        90.48       108.62        98.96 
TCGA-KL-8332 TCGA-KL-8333 TCGA-KL-8334 TCGA-KL-8335 TCGA-KL-8336 TCGA-KL-8337 
       84.89        98.33        96.95        92.55        30.25        44.84 
TCGA-KL-8338 TCGA-KL-8339 TCGA-KL-8340 TCGA-KL-8342 TCGA-KL-8343 TCGA-KL-8345 
       86.56        28.11        66.54        73.91        71.41        54.74 
TCGA-KM-8440 TCGA-KM-8442 TCGA-KM-8476 TCGA-KN-8418 TCGA-KN-8421 TCGA-KN-8422 
       44.91        47.24       123.12       129.37        87.91        25.48 
TCGA-KN-8424 TCGA-KN-8425 TCGA-KN-8429 TCGA-KN-8431 TCGA-KN-8432 TCGA-KN-8434 
       65.19       104.52        87.12        19.33         2.50        59.08 
TCGA-KN-8435 TCGA-KO-8403 TCGA-KO-8406 TCGA-KO-8407 TCGA-KO-8408 TCGA-KO-8411 
      115.00       105.47       103.40        92.71        16.67       130.13 
TCGA-KO-8415 TCGA-KO-8416 TCGA-KO-8417 TCGA-A3-3306 TCGA-A3-3317 TCGA-A3-3319 
       96.62        90.48        92.55        36.82        49.02        37.15 
TCGA-A3-3322 TCGA-A3-3363 TCGA-A3-3383 TCGA-AK-3428 TCGA-AK-3440 TCGA-AK-3447 
       48.59        10.49        28.31        73.08        94.19        40.01 
TCGA-AK-3465 TCGA-AS-3777 TCGA-B0-4688 TCGA-B0-4696 TCGA-B0-4699 TCGA-B0-4718 
       12.13        40.70         3.32        28.47         3.62        58.45 
TCGA-B0-4813 TCGA-B0-4827 TCGA-B0-4834 TCGA-B0-4836 TCGA-B0-4844 TCGA-B0-4845 
        0.59        29.10        68.71        40.70        10.29        65.29 
TCGA-B0-5080 TCGA-B0-5084 TCGA-B0-5098 TCGA-B0-5117 TCGA-B0-5402 TCGA-B0-5705 
       11.24         7.30        52.08        52.87        42.41       149.16 
TCGA-B2-3923 TCGA-B8-5159 TCGA-B8-5549 TCGA-B8-A54D TCGA-BP-4164 TCGA-BP-4327 
       32.61        23.74         6.38        27.29        32.61         3.58 
TCGA-BP-4334 TCGA-BP-4761 TCGA-BP-4959 TCGA-BP-5004 TCGA-BP-5176 TCGA-BP-5180 
       21.21         5.98        87.45        37.02        52.27        74.40 
TCGA-BP-5183 TCGA-BP-5196 TCGA-CJ-4894 TCGA-CJ-5680 TCGA-CJ-6027 TCGA-CW-6090 
       42.44        33.47        27.65        25.25       118.85        83.90 
TCGA-CZ-5458 TCGA-CZ-5463 TCGA-CZ-5465 TCGA-CZ-5985 TCGA-CZ-5986 TCGA-CZ-5987 
       91.69        21.76        84.30        65.65        12.26        14.63 
TCGA-EU-5907 TCGA-G6-A8L8 TCGA-MM-A563 TCGA-MM-A84U TCGA-2Z-A9J2 TCGA-2Z-A9J8 
        4.18        35.87        19.43        23.01        59.01        91.73 
TCGA-2Z-A9JG TCGA-2Z-A9JI TCGA-4A-A93X TCGA-5P-A9K3 TCGA-5P-A9K4 TCGA-5P-A9K8 
       54.64        51.52        12.82        15.48        71.80        43.04 
TCGA-5P-A9KH TCGA-A4-7286 TCGA-A4-7287 TCGA-A4-A5Y1 TCGA-B1-7332 TCGA-B3-3926 
       67.43        18.21        19.63        12.99        37.51        10.09 
TCGA-B9-4116 TCGA-B9-A44B TCGA-BQ-5876 TCGA-BQ-5877 TCGA-BQ-5879 TCGA-BQ-5882 
       20.61         2.10        19.27         8.88        22.92        21.63 
TCGA-BQ-5887 TCGA-DZ-6131 TCGA-F9-A4JJ TCGA-F9-A7Q0 TCGA-F9-A97G TCGA-G7-6793 
       25.35        79.86        10.68        13.08         0.43        11.05 
TCGA-G7-6797 TCGA-G7-7501 TCGA-G7-A8LD TCGA-J7-8537 TCGA-Q2-A5QZ TCGA-UN-AAZ9 
       25.15        20.52        16.90        10.55        14.07        18.02 
TCGA-UZ-A9PQ 
       86.27 

$`DEL PEAK 26(XP22.2) WILD-TYPE`
TCGA-KL-8324 TCGA-KL-8326 TCGA-KL-8327 TCGA-KL-8341 TCGA-KL-8344 TCGA-KL-8346 
      141.73       109.22       137.06        24.79        28.80        62.37 
TCGA-KM-8438 TCGA-KM-8439 TCGA-KM-8441 TCGA-KM-8443 TCGA-KM-8477 TCGA-KM-8639 
      151.96        23.28        28.80        49.97        51.06        31.33 
TCGA-KN-8419 TCGA-KN-8423 TCGA-KN-8426 TCGA-KN-8427 TCGA-KN-8428 TCGA-KN-8433 
       23.47        25.91         3.55         0.99        52.27        11.21 
TCGA-KN-8436 TCGA-KN-8437 TCGA-KO-8404 TCGA-KO-8405 TCGA-KO-8409 TCGA-KO-8410 
       42.35       100.87        10.68       100.47       104.55       103.10 
TCGA-KO-8413 TCGA-KO-8414 TCGA-3Z-A93Z TCGA-6D-AA2E TCGA-A3-3307 TCGA-A3-3308 
       99.88       105.60        12.66        11.90        47.21         0.53 
TCGA-A3-3311 TCGA-A3-3313 TCGA-A3-3316 TCGA-A3-3320 TCGA-A3-3323 TCGA-A3-3324 
       39.16        24.16        49.08        49.58        36.36        38.99 
TCGA-A3-3325 TCGA-A3-3326 TCGA-A3-3331 TCGA-A3-3335 TCGA-A3-3336 TCGA-A3-3343 
       38.47        37.38        48.82        62.01        34.29        31.07 
TCGA-A3-3346 TCGA-A3-3347 TCGA-A3-3349 TCGA-A3-3351 TCGA-A3-3352 TCGA-A3-3357 
        4.50        52.93        45.53        29.92        18.44        88.37 
TCGA-A3-3358 TCGA-A3-3359 TCGA-A3-3362 TCGA-A3-3365 TCGA-A3-3367 TCGA-A3-3370 
       42.97        82.32        51.25        28.70        74.63        74.76 
TCGA-A3-3372 TCGA-A3-3373 TCGA-A3-3374 TCGA-A3-3376 TCGA-A3-3378 TCGA-A3-3380 
       24.16        53.29        43.20        55.76        20.71        18.64 
TCGA-A3-3382 TCGA-A3-3385 TCGA-A3-3387 TCGA-A3-A6NI TCGA-A3-A6NJ TCGA-A3-A6NL 
       18.87        65.52        20.28        33.47        15.39        22.65 
TCGA-A3-A6NN TCGA-A3-A8CQ TCGA-A3-A8OV TCGA-A3-A8OW TCGA-AK-3425 TCGA-AK-3426 
        0.10         0.10        11.18        10.62       109.91        29.10 
TCGA-AK-3427 TCGA-AK-3429 TCGA-AK-3430 TCGA-AK-3431 TCGA-AK-3433 TCGA-AK-3434 
      117.80       109.41        15.78        73.68       112.08        68.61 
TCGA-AK-3436 TCGA-AK-3443 TCGA-AK-3444 TCGA-AK-3445 TCGA-AK-3450 TCGA-AK-3451 
      109.51        46.78        48.36        78.64        49.28        94.29 
TCGA-AK-3453 TCGA-AK-3454 TCGA-AK-3455 TCGA-AK-3456 TCGA-AK-3458 TCGA-AK-3460 
       83.21        28.73        22.45        37.58        38.40        82.45 
TCGA-AK-3461 TCGA-AS-3778 TCGA-B0-4690 TCGA-B0-4691 TCGA-B0-4693 TCGA-B0-4694 
       72.89         1.41         1.41         4.57         2.53         3.48 
TCGA-B0-4697 TCGA-B0-4698 TCGA-B0-4700 TCGA-B0-4701 TCGA-B0-4703 TCGA-B0-4706 
       19.00         1.38        65.10         7.82         5.98         2.14 
TCGA-B0-4707 TCGA-B0-4710 TCGA-B0-4712 TCGA-B0-4713 TCGA-B0-4714 TCGA-B0-4810 
       19.73        57.70        43.96         6.64         3.25        15.72 
TCGA-B0-4811 TCGA-B0-4814 TCGA-B0-4815 TCGA-B0-4816 TCGA-B0-4817 TCGA-B0-4818 
       46.59         5.52        52.21        45.07        33.50        16.77 
TCGA-B0-4819 TCGA-B0-4821 TCGA-B0-4822 TCGA-B0-4823 TCGA-B0-4824 TCGA-B0-4828 
        6.02        40.44        36.53        14.93        54.48        10.09 
TCGA-B0-4833 TCGA-B0-4837 TCGA-B0-4838 TCGA-B0-4839 TCGA-B0-4841 TCGA-B0-4842 
       78.44        45.30        27.42        53.88         6.71        56.68 
TCGA-B0-4843 TCGA-B0-4846 TCGA-B0-4847 TCGA-B0-4848 TCGA-B0-4849 TCGA-B0-4852 
       10.52        39.45        26.07        29.03         2.27        36.85 
TCGA-B0-4945 TCGA-B0-5075 TCGA-B0-5077 TCGA-B0-5081 TCGA-B0-5085 TCGA-B0-5088 
       70.52        20.94        43.30        11.90        25.32        18.51 
TCGA-B0-5092 TCGA-B0-5094 TCGA-B0-5095 TCGA-B0-5096 TCGA-B0-5097 TCGA-B0-5099 
       15.09        10.95         8.05         2.24        21.86        15.95 
TCGA-B0-5100 TCGA-B0-5102 TCGA-B0-5104 TCGA-B0-5106 TCGA-B0-5107 TCGA-B0-5108 
       62.89        90.87        90.48        52.54        30.48        58.59 
TCGA-B0-5109 TCGA-B0-5110 TCGA-B0-5113 TCGA-B0-5115 TCGA-B0-5116 TCGA-B0-5119 
       19.30        66.05        38.63        52.73        41.88        51.02 
TCGA-B0-5120 TCGA-B0-5121 TCGA-B0-5399 TCGA-B0-5400 TCGA-B0-5690 TCGA-B0-5691 
       38.43        48.82        46.39        56.98       111.52       112.80 
TCGA-B0-5692 TCGA-B0-5693 TCGA-B0-5694 TCGA-B0-5695 TCGA-B0-5696 TCGA-B0-5697 
      129.67       133.94        15.78        70.68        85.78        86.47 
TCGA-B0-5698 TCGA-B0-5699 TCGA-B0-5701 TCGA-B0-5702 TCGA-B0-5703 TCGA-B0-5706 
      119.38       126.28        80.91        71.41        73.84       105.37 
TCGA-B0-5709 TCGA-B0-5710 TCGA-B0-5711 TCGA-B0-5712 TCGA-B0-5713 TCGA-B0-5812 
      130.65        79.89       131.15        89.49        91.46       126.05 
TCGA-B2-3924 TCGA-B2-4098 TCGA-B2-4099 TCGA-B2-4101 TCGA-B2-4102 TCGA-B2-5633 
       35.90         1.68        31.96        21.30        31.30        31.66 
TCGA-B2-5635 TCGA-B2-5639 TCGA-B2-5641 TCGA-B2-A4SR TCGA-B4-5377 TCGA-B4-5378 
       24.82        32.98        21.57        16.67        12.00         5.75 
TCGA-B4-5832 TCGA-B4-5834 TCGA-B4-5835 TCGA-B4-5836 TCGA-B4-5838 TCGA-B4-5843 
        5.10         0.85         0.53         4.64         5.46         0.36 
TCGA-B4-5844 TCGA-B8-4143 TCGA-B8-4146 TCGA-B8-4148 TCGA-B8-4151 TCGA-B8-4153 
        0.23        23.31        16.80        27.16        42.71        25.05 
TCGA-B8-4154 TCGA-B8-4619 TCGA-B8-4620 TCGA-B8-4621 TCGA-B8-4622 TCGA-B8-5158 
       45.37        17.19        25.55        25.91        50.14        20.91 
TCGA-B8-5162 TCGA-B8-5163 TCGA-B8-5164 TCGA-B8-5165 TCGA-B8-5545 TCGA-B8-5546 
        1.18        27.02         0.85        24.23        50.14        16.60 
TCGA-B8-5550 TCGA-B8-5551 TCGA-B8-5552 TCGA-B8-5553 TCGA-B8-A54E TCGA-B8-A54F 
       48.53         0.53        34.39        14.30        29.88        17.06 
TCGA-B8-A54G TCGA-B8-A54H TCGA-B8-A54I TCGA-B8-A54J TCGA-B8-A54K TCGA-B8-A7U6 
        1.74         8.42         4.93        17.36        15.42        16.27 
TCGA-B8-A8YJ TCGA-BP-4158 TCGA-BP-4159 TCGA-BP-4160 TCGA-BP-4161 TCGA-BP-4162 
       14.17       111.02        85.51        94.72        90.28       101.06 
TCGA-BP-4163 TCGA-BP-4165 TCGA-BP-4166 TCGA-BP-4167 TCGA-BP-4169 TCGA-BP-4170 
       93.34        99.85         0.43        89.36        23.05        77.03 
TCGA-BP-4173 TCGA-BP-4174 TCGA-BP-4176 TCGA-BP-4177 TCGA-BP-4325 TCGA-BP-4326 
       62.24        61.78        64.27        54.90        97.45        53.42 
TCGA-BP-4329 TCGA-BP-4330 TCGA-BP-4331 TCGA-BP-4332 TCGA-BP-4335 TCGA-BP-4337 
       27.78        62.07        80.68        37.25        15.16         0.07 
TCGA-BP-4338 TCGA-BP-4340 TCGA-BP-4341 TCGA-BP-4342 TCGA-BP-4343 TCGA-BP-4344 
       93.99        18.48        52.24        74.17        62.86        54.77 
TCGA-BP-4346 TCGA-BP-4347 TCGA-BP-4349 TCGA-BP-4351 TCGA-BP-4352 TCGA-BP-4353 
       49.08        44.94        12.23        31.89        11.31        12.33 
TCGA-BP-4354 TCGA-BP-4355 TCGA-BP-4756 TCGA-BP-4758 TCGA-BP-4759 TCGA-BP-4760 
       33.99        31.33        12.30        72.59        77.98        77.62 
TCGA-BP-4762 TCGA-BP-4763 TCGA-BP-4765 TCGA-BP-4766 TCGA-BP-4768 TCGA-BP-4769 
       44.15        41.75        71.80        48.07        13.15        61.68 
TCGA-BP-4770 TCGA-BP-4771 TCGA-BP-4774 TCGA-BP-4775 TCGA-BP-4776 TCGA-BP-4777 
       10.82         5.33        61.97        60.59        13.51        56.91 
TCGA-BP-4781 TCGA-BP-4782 TCGA-BP-4784 TCGA-BP-4787 TCGA-BP-4789 TCGA-BP-4790 
       68.38        11.64        60.95        15.78        48.95        36.53 
TCGA-BP-4795 TCGA-BP-4797 TCGA-BP-4798 TCGA-BP-4799 TCGA-BP-4801 TCGA-BP-4803 
       20.38        36.39        10.98        37.25        36.95         6.71 
TCGA-BP-4804 TCGA-BP-4807 TCGA-BP-4960 TCGA-BP-4961 TCGA-BP-4962 TCGA-BP-4963 
       47.97         6.94        71.41        63.62        58.68        60.30 
TCGA-BP-4964 TCGA-BP-4965 TCGA-BP-4967 TCGA-BP-4968 TCGA-BP-4969 TCGA-BP-4970 
       61.22        61.51         6.74        57.40        58.98        14.24 
TCGA-BP-4971 TCGA-BP-4972 TCGA-BP-4973 TCGA-BP-4974 TCGA-BP-4975 TCGA-BP-4976 
       48.89        49.38        45.50         6.90        47.11        53.65 
TCGA-BP-4977 TCGA-BP-4981 TCGA-BP-4982 TCGA-BP-4983 TCGA-BP-4985 TCGA-BP-4986 
       14.93        36.07        33.34        46.45        31.30        25.81 
TCGA-BP-4987 TCGA-BP-4988 TCGA-BP-4989 TCGA-BP-4991 TCGA-BP-4992 TCGA-BP-4993 
       36.95        27.22         3.88        46.45        16.47         5.82 
TCGA-BP-4994 TCGA-BP-4995 TCGA-BP-4998 TCGA-BP-4999 TCGA-BP-5000 TCGA-BP-5001 
       43.00        45.07        30.64        41.62        18.51        38.70 
TCGA-BP-5006 TCGA-BP-5007 TCGA-BP-5008 TCGA-BP-5009 TCGA-BP-5010 TCGA-BP-5168 
       27.62        37.48        35.21        36.23        28.87        48.10 
TCGA-BP-5169 TCGA-BP-5170 TCGA-BP-5173 TCGA-BP-5174 TCGA-BP-5175 TCGA-BP-5177 
        6.35        79.30         1.74        74.20        30.64         9.63 
TCGA-BP-5178 TCGA-BP-5181 TCGA-BP-5182 TCGA-BP-5184 TCGA-BP-5185 TCGA-BP-5186 
       62.86        49.15        38.30        37.25        37.22        22.78 
TCGA-BP-5187 TCGA-BP-5189 TCGA-BP-5190 TCGA-BP-5191 TCGA-BP-5192 TCGA-BP-5194 
       13.35        27.02        33.24        31.79        23.47        13.41 
TCGA-BP-5195 TCGA-BP-5198 TCGA-BP-5199 TCGA-BP-5200 TCGA-BP-5201 TCGA-BP-5202 
       24.62        19.82        44.55        34.95        31.27         0.95 
TCGA-CJ-4634 TCGA-CJ-4635 TCGA-CJ-4636 TCGA-CJ-4637 TCGA-CJ-4638 TCGA-CJ-4639 
      115.00        46.55        63.25        73.22        14.17       106.16 
TCGA-CJ-4640 TCGA-CJ-4641 TCGA-CJ-4642 TCGA-CJ-4643 TCGA-CJ-4644 TCGA-CJ-4868 
      114.41        54.61       105.37        58.95        11.05        21.24 
TCGA-CJ-4869 TCGA-CJ-4870 TCGA-CJ-4871 TCGA-CJ-4872 TCGA-CJ-4873 TCGA-CJ-4874 
       83.97        49.25        79.66        10.72        74.27        75.06 
TCGA-CJ-4875 TCGA-CJ-4876 TCGA-CJ-4878 TCGA-CJ-4881 TCGA-CJ-4882 TCGA-CJ-4884 
      116.84        64.27        71.87        66.21        61.91        57.83 
TCGA-CJ-4885 TCGA-CJ-4886 TCGA-CJ-4887 TCGA-CJ-4888 TCGA-CJ-4889 TCGA-CJ-4890 
      113.46        64.18        30.64        51.52        63.98       115.69 
TCGA-CJ-4891 TCGA-CJ-4892 TCGA-CJ-4893 TCGA-CJ-4895 TCGA-CJ-4897 TCGA-CJ-4899 
       26.93        50.01        24.66        39.45       109.84        50.24 
TCGA-CJ-4900 TCGA-CJ-4901 TCGA-CJ-4902 TCGA-CJ-4903 TCGA-CJ-4904 TCGA-CJ-4905 
       56.35        47.67        49.97        51.25       108.56        49.18 
TCGA-CJ-4907 TCGA-CJ-4908 TCGA-CJ-4912 TCGA-CJ-4913 TCGA-CJ-4916 TCGA-CJ-4918 
       49.28        50.33        54.48        38.56        45.14         3.06 
TCGA-CJ-4920 TCGA-CJ-4923 TCGA-CJ-5671 TCGA-CJ-5672 TCGA-CJ-5675 TCGA-CJ-5676 
        4.57        18.81       131.08        72.00       129.40       133.71 
TCGA-CJ-5677 TCGA-CJ-5678 TCGA-CJ-5679 TCGA-CJ-5681 TCGA-CJ-5682 TCGA-CJ-5683 
       25.71        18.87        22.32        18.15       122.83        62.10 
TCGA-CJ-5684 TCGA-CJ-5686 TCGA-CJ-5689 TCGA-CJ-6028 TCGA-CJ-6030 TCGA-CJ-6031 
       73.35        67.00        53.26        53.42        75.58        62.66 
TCGA-CJ-6032 TCGA-CJ-6033 TCGA-CW-5580 TCGA-CW-5581 TCGA-CW-5583 TCGA-CW-5584 
      119.64         7.36        64.57        92.02        81.83         5.39 
TCGA-CW-5585 TCGA-CW-5587 TCGA-CW-5588 TCGA-CW-5589 TCGA-CW-5591 TCGA-CW-6087 
       85.78        73.18        66.31        78.18        74.66         1.35 
TCGA-CW-6088 TCGA-CW-6093 TCGA-CW-6097 TCGA-CZ-4853 TCGA-CZ-4854 TCGA-CZ-4856 
      105.93       103.43        18.77        25.45        46.16         0.59 
TCGA-CZ-4857 TCGA-CZ-4858 TCGA-CZ-4859 TCGA-CZ-4860 TCGA-CZ-4861 TCGA-CZ-4862 
       47.08        69.21        58.75         6.77        14.66       107.54 
TCGA-CZ-4863 TCGA-CZ-4864 TCGA-CZ-4865 TCGA-CZ-4866 TCGA-CZ-5451 TCGA-CZ-5452 
       63.39        93.04         5.46        61.41        63.42        58.82 
TCGA-CZ-5453 TCGA-CZ-5454 TCGA-CZ-5455 TCGA-CZ-5456 TCGA-CZ-5457 TCGA-CZ-5459 
       79.53        23.74        18.44        79.63        90.54        55.33 
TCGA-CZ-5460 TCGA-CZ-5461 TCGA-CZ-5462 TCGA-CZ-5464 TCGA-CZ-5466 TCGA-CZ-5467 
       94.45        10.85        10.22        69.96        22.52         2.40 
TCGA-CZ-5468 TCGA-CZ-5469 TCGA-CZ-5470 TCGA-CZ-5982 TCGA-CZ-5984 TCGA-CZ-5988 
        1.94        31.10        12.69        80.19        67.96        22.78 
TCGA-CZ-5989 TCGA-DV-5565 TCGA-DV-5566 TCGA-DV-5567 TCGA-DV-5568 TCGA-DV-5569 
       62.63        13.28        45.96        65.88        12.16        11.67 
TCGA-DV-5573 TCGA-DV-5574 TCGA-DV-5575 TCGA-DV-5576 TCGA-DV-A4VX TCGA-DV-A4VZ 
       37.15        66.28        56.84        23.90        53.46        12.00 
TCGA-DV-A4W0 TCGA-EU-5904 TCGA-EU-5905 TCGA-EU-5906 TCGA-G6-A5PC TCGA-G6-A8L6 
       81.21        18.12         3.91         6.77         7.96        10.29 
TCGA-G6-A8L7 TCGA-GK-A6C7 TCGA-MM-A564 TCGA-MW-A4EC TCGA-T7-A92I TCGA-2K-A9WE 
       70.13         2.01        19.96        16.37        11.70         7.04 
TCGA-2Z-A9J1 TCGA-2Z-A9J3 TCGA-2Z-A9J5 TCGA-2Z-A9J6 TCGA-2Z-A9J7 TCGA-2Z-A9J9 
       75.55        58.22       100.27        56.91         4.57        75.42 
TCGA-2Z-A9JD TCGA-2Z-A9JE TCGA-2Z-A9JJ TCGA-2Z-A9JK TCGA-2Z-A9JL TCGA-2Z-A9JM 
       34.85        56.81        39.88        38.99        33.07        30.71 
TCGA-2Z-A9JN TCGA-2Z-A9JO TCGA-2Z-A9JP TCGA-2Z-A9JQ TCGA-2Z-A9JR TCGA-2Z-A9JS 
       24.33        31.20        29.36        25.58         5.29        16.18 
TCGA-2Z-A9JT TCGA-4A-A93W TCGA-4A-A93Y TCGA-5P-A9JU TCGA-5P-A9JV TCGA-5P-A9JW 
       22.49         0.13        11.57        12.26        67.17       106.55 
TCGA-5P-A9JY TCGA-5P-A9JZ TCGA-5P-A9K0 TCGA-5P-A9K2 TCGA-5P-A9K6 TCGA-5P-A9K9 
       49.58        90.21        22.26        78.64        62.93        19.36 
TCGA-5P-A9KA TCGA-5P-A9KC TCGA-5P-A9KE TCGA-A4-7288 TCGA-A4-7583 TCGA-A4-7584 
       12.99        12.39        27.09        61.05         0.10        21.37 
TCGA-A4-7585 TCGA-A4-7732 TCGA-A4-7734 TCGA-A4-7828 TCGA-A4-7915 TCGA-A4-7996 
       35.18        19.13         0.89         7.82         0.23        16.64 
TCGA-A4-7997 TCGA-A4-8098 TCGA-A4-8310 TCGA-A4-8311 TCGA-A4-8312 TCGA-A4-8515 
       30.48        29.46        25.64        23.97        23.28        23.31 
TCGA-A4-8516 TCGA-A4-8517 TCGA-A4-8518 TCGA-A4-8630 TCGA-A4-A48D TCGA-A4-A4ZT 
        0.76        19.63        19.73        14.33        12.46        16.96 
TCGA-A4-A57E TCGA-A4-A5DU TCGA-A4-A5XZ TCGA-A4-A5Y0 TCGA-A4-A6HP TCGA-AL-3466 
        8.48        16.31        15.75         8.28        12.46         9.63 
TCGA-AL-3467 TCGA-AL-3468 TCGA-AL-3471 TCGA-AL-3472 TCGA-AL-3473 TCGA-AL-7173 
       70.19        76.64        49.32        66.71        62.66        67.73 
TCGA-AL-A5DJ TCGA-AT-A5NU TCGA-B1-5398 TCGA-B1-A47M TCGA-B1-A47N TCGA-B1-A47O 
       49.25         2.20        19.56        21.67        24.56        16.87 
TCGA-B1-A654 TCGA-B1-A655 TCGA-B1-A656 TCGA-B1-A657 TCGA-B3-3925 TCGA-B3-4103 
       20.25        16.77        20.32        21.07        33.83        30.58 
TCGA-B3-4104 TCGA-B3-8121 TCGA-B3-A6W5 TCGA-B9-4113 TCGA-B9-4114 TCGA-B9-4115 
       34.49        12.46        10.16        50.50        28.18        26.40 
TCGA-B9-4117 TCGA-B9-4617 TCGA-B9-5155 TCGA-B9-5156 TCGA-B9-7268 TCGA-B9-A5W7 
        0.46         1.15        15.12        43.99        22.06        19.23 
TCGA-B9-A5W8 TCGA-B9-A5W9 TCGA-B9-A69E TCGA-B9-A8YH TCGA-B9-A8YI TCGA-BQ-5875 
       17.23         0.16        14.86        17.49        12.30        86.76 
TCGA-BQ-5878 TCGA-BQ-5880 TCGA-BQ-5881 TCGA-BQ-5883 TCGA-BQ-5884 TCGA-BQ-5885 
       63.72        43.20        47.80        40.83        26.04        30.28 
TCGA-BQ-5886 TCGA-BQ-5888 TCGA-BQ-5889 TCGA-BQ-5890 TCGA-BQ-5891 TCGA-BQ-5892 
       26.04        13.25        10.82         7.66         0.95        11.97 
TCGA-BQ-5893 TCGA-BQ-5894 TCGA-BQ-7044 TCGA-BQ-7045 TCGA-BQ-7046 TCGA-BQ-7048 
        7.92         2.76       123.62        48.26        96.92        93.34 
TCGA-BQ-7049 TCGA-BQ-7050 TCGA-BQ-7051 TCGA-BQ-7053 TCGA-BQ-7055 TCGA-BQ-7056 
       44.84        61.28        50.40        49.84        26.27        20.12 
TCGA-BQ-7058 TCGA-BQ-7059 TCGA-BQ-7060 TCGA-BQ-7061 TCGA-BQ-7062 TCGA-DW-5560 
       11.28         7.63         7.04         7.17         3.81        48.85 
TCGA-DW-5561 TCGA-DW-7834 TCGA-DW-7836 TCGA-DW-7837 TCGA-DW-7838 TCGA-DW-7839 
       13.61       129.86        35.93        37.55        24.46        13.78 
TCGA-DW-7840 TCGA-DW-7841 TCGA-DW-7842 TCGA-DW-7963 TCGA-DZ-6132 TCGA-DZ-6133 
        3.75        14.63         3.02        40.77        80.88        51.19 
TCGA-DZ-6134 TCGA-DZ-6135 TCGA-EV-5901 TCGA-EV-5902 TCGA-EV-5903 TCGA-F9-A7VF 
       61.02        74.60        34.19        19.00        24.89         2.40 
TCGA-F9-A8NY TCGA-G7-6789 TCGA-G7-6790 TCGA-G7-6792 TCGA-G7-6795 TCGA-G7-6796 
        1.18         4.01        51.78        90.90        39.25        71.44 
TCGA-G7-7502 TCGA-G7-A4TM TCGA-G7-A8LB TCGA-G7-A8LC TCGA-G7-A8LE TCGA-GL-6846 
       25.84         6.38        17.98        23.08        80.65       194.79 
TCGA-GL-7773 TCGA-GL-7966 TCGA-GL-8500 TCGA-GL-A4EM TCGA-GL-A59R TCGA-GL-A59T 
       12.92         3.68        27.65         1.05        12.43        17.95 
TCGA-GL-A9DC TCGA-GL-A9DD TCGA-GL-A9DE TCGA-HE-A5NF TCGA-HE-A5NH TCGA-HE-A5NI 
       12.89        11.21        16.31        84.89        26.01        11.84 
TCGA-HE-A5NJ TCGA-HE-A5NK TCGA-HE-A5NL TCGA-IA-A40U TCGA-IA-A40X TCGA-IA-A40Y 
       56.75        73.25        25.22        16.80        19.99         2.04 
TCGA-IA-A83S TCGA-IA-A83T TCGA-IA-A83V TCGA-IA-A83W TCGA-IZ-8195 TCGA-IZ-8196 
       85.78        88.24        96.69        67.17        22.26        21.34 
TCGA-IZ-A6M8 TCGA-IZ-A6M9 TCGA-J7-6720 TCGA-KV-A6GD TCGA-KV-A6GE TCGA-KV-A74V 
       16.34        12.36        12.76        18.41        29.10        11.41 
TCGA-MH-A55W TCGA-MH-A55Z TCGA-MH-A560 TCGA-MH-A561 TCGA-MH-A562 TCGA-MH-A854 
       34.29        27.78        30.38        27.65        20.25        17.62 
TCGA-MH-A855 TCGA-MH-A856 TCGA-MH-A857 TCGA-O9-A75Z TCGA-P4-A5E6 TCGA-P4-A5E7 
       12.13        31.13        29.26        15.48        99.78        87.09 
TCGA-P4-A5E8 TCGA-P4-A5EA TCGA-P4-A5EB TCGA-P4-A5ED TCGA-P4-AAVK TCGA-P4-AAVL 
       42.94         6.61        99.12        92.58        52.27        16.01 
TCGA-P4-AAVM TCGA-P4-AAVO TCGA-PJ-A5Z8 TCGA-PJ-A5Z9 TCGA-SX-A71R TCGA-SX-A71S 
       50.60        78.90        19.73        17.75        47.90        49.45 
TCGA-SX-A71U TCGA-SX-A71V TCGA-SX-A7SL TCGA-SX-A7SM TCGA-SX-A7SN TCGA-SX-A7SO 
       44.61        28.80        27.06        11.93        19.00        41.33 
TCGA-SX-A7SP TCGA-SX-A7SQ TCGA-SX-A7SR TCGA-SX-A7SS TCGA-SX-A7SU TCGA-UZ-A9PJ 
       16.31        41.62        26.47        53.10        43.76        26.20 
TCGA-UZ-A9PK TCGA-UZ-A9PL TCGA-UZ-A9PM TCGA-UZ-A9PN TCGA-UZ-A9PO TCGA-UZ-A9PP 
      117.40       103.63       125.29        37.35        62.83        98.96 
TCGA-UZ-A9PR TCGA-UZ-A9PS TCGA-UZ-A9PU TCGA-UZ-A9PV TCGA-UZ-A9PX TCGA-UZ-A9PZ 
       86.37        71.24        30.67        47.47        65.13        21.60 
TCGA-UZ-A9Q0 TCGA-UZ-A9Q1 TCGA-V9-A7HT TCGA-WN-A9G9 TCGA-WN-AB4C TCGA-Y8-A894 
      110.73        51.35        31.73        26.01        39.06        18.64 
TCGA-Y8-A895 TCGA-Y8-A896 TCGA-Y8-A897 TCGA-Y8-A898 TCGA-Y8-A8RY TCGA-Y8-A8RZ 
       15.91        18.64        18.05        15.62        25.28         3.68 
TCGA-Y8-A8S0 TCGA-Y8-A8S1 
        6.02        13.28 

  DEL PEAK 26(XP22.2) MUTATED DEL PEAK 26(XP22.2) WILD-TYPE 
                         0.43                          0.07 
  DEL PEAK 26(XP22.2) MUTATED DEL PEAK 26(XP22.2) WILD-TYPE 
                       149.16                        194.79 
  DEL PEAK 26(XP22.2) MUTATED DEL PEAK 26(XP22.2) WILD-TYPE 
                        38.07                         33.91 
[1] "0.4 - 149.2 (38.1)" "0.1 - 194.8 (33.9)"
[1] "hr=" "1.1"
D39V2, continuous
                               vv
clus                            STAGE I STAGE II STAGE III STAGE IV
  DEL PEAK 26(XP22.2) MUTATED        43       24        39       15
  DEL PEAK 26(XP22.2) WILD-TYPE     412       80       152       89
D39V3, multiclass
           clus
vv          DEL PEAK 26(XP22.2) MUTATED DEL PEAK 26(XP22.2) WILD-TYPE
  STAGE I                            43                           412
  STAGE II                           24                            80
  STAGE III                          39                           152
  STAGE IV                           15                            89
[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                             T1  T2  T3  T4
  DEL PEAK 26(XP22.2) MUTATED    46  27  51   3
  DEL PEAK 26(XP22.2) WILD-TYPE 433 100 207  12
D39V4, multiclass
    clus
vv   DEL PEAK 26(XP22.2) MUTATED DEL PEAK 26(XP22.2) WILD-TYPE
  T1                          46                           433
  T2                          27                           100
  T3                          51                           207
  T4                           3                            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"
                               vv
clus                             N0  N1  N2
  DEL PEAK 26(XP22.2) MUTATED    48  12   2
  DEL PEAK 26(XP22.2) WILD-TYPE 274  32   5
D39V5, multiclass
    clus
vv   DEL PEAK 26(XP22.2) MUTATED DEL PEAK 26(XP22.2) WILD-TYPE
  N0                          48                           274
  N1                          12                            32
  N2                           2                             5
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D39V6, binary
                               cls
clus                              0   1
  DEL PEAK 26(XP22.2) MUTATED    73  11
  DEL PEAK 26(XP22.2) WILD-TYPE 472  78
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 26(XP22.2) MUTATED     73   11
  DEL PEAK 26(XP22.2) WILD-TYPE  472   78
   clus
vv  DEL PEAK 26(XP22.2) MUTATED DEL PEAK 26(XP22.2) WILD-TYPE
  0                          73                           472
  1                          11                            78
[1] 2 2
[1] FALSE
D39V7, binary
                               cls
clus                              0   1
  DEL PEAK 26(XP22.2) MUTATED    45  82
  DEL PEAK 26(XP22.2) WILD-TYPE 247 507
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 26(XP22.2) MUTATED     45   82
  DEL PEAK 26(XP22.2) WILD-TYPE  247  507
        clus
vv       DEL PEAK 26(XP22.2) MUTATED DEL PEAK 26(XP22.2) WILD-TYPE
  FEMALE                          45                           247
  MALE                            82                           507
[1] 2 2
[1] FALSE
D39V8, binary
                               cls
clus                              0   1
  DEL PEAK 26(XP22.2) MUTATED    72   0
  DEL PEAK 26(XP22.2) WILD-TYPE 328   3
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 26(XP22.2) MUTATED     72    0
  DEL PEAK 26(XP22.2) WILD-TYPE  328    3
     clus
vv    DEL PEAK 26(XP22.2) MUTATED DEL PEAK 26(XP22.2) WILD-TYPE
  NO                           72                           328
  YES                           0                             3
[1] 2 2
[1] FALSE
D39V9, continuous
                               vv
clus                            KIDNEY CHROMOPHOBE
  DEL PEAK 26(XP22.2) MUTATED                   39
  DEL PEAK 26(XP22.2) WILD-TYPE                 27
                               vv
clus                            KIDNEY CLEAR CELL RENAL CARCINOMA
  DEL PEAK 26(XP22.2) MUTATED                                  55
  DEL PEAK 26(XP22.2) WILD-TYPE                               473
                               vv
clus                            KIDNEY PAPILLARY RENAL CELL CARCINOMA
  DEL PEAK 26(XP22.2) MUTATED                                      33
  DEL PEAK 26(XP22.2) WILD-TYPE                                   254
D39V10, multiclass
                                       clus
vv                                      DEL PEAK 26(XP22.2) MUTATED
  KIDNEY CHROMOPHOBE                                             39
  KIDNEY CLEAR CELL RENAL CARCINOMA                              55
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                          33
                                       clus
vv                                      DEL PEAK 26(XP22.2) WILD-TYPE
  KIDNEY CHROMOPHOBE                                               27
  KIDNEY CLEAR CELL RENAL CARCINOMA                               473
  KIDNEY PAPILLARY RENAL CELL CARCINOMA                           254
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D39V11, continuous
D39V12, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 26(XP22.2) MUTATED                                  0     5
  DEL PEAK 26(XP22.2) WILD-TYPE                                2    10
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 26(XP22.2) MUTATED                          18    99
  DEL PEAK 26(XP22.2) WILD-TYPE                       103   620
D39V13, multiclass
                                  clus
vv                                 DEL PEAK 26(XP22.2) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                      5
  BLACK OR AFRICAN AMERICAN                                 18
  WHITE                                                     99
                                  clus
vv                                 DEL PEAK 26(XP22.2) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             2
  ASIAN                                                       10
  BLACK OR AFRICAN AMERICAN                                  103
  WHITE                                                      620
[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"
D39V14, binary
                               cls
clus                              0   1
  DEL PEAK 26(XP22.2) MUTATED     3  77
  DEL PEAK 26(XP22.2) WILD-TYPE  39 544
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 26(XP22.2) MUTATED      3   77
  DEL PEAK 26(XP22.2) WILD-TYPE   39  544
                        clus
vv                       DEL PEAK 26(XP22.2) MUTATED
  HISPANIC OR LATINO                               3
  NOT HISPANIC OR LATINO                          77
                        clus
vv                       DEL PEAK 26(XP22.2) WILD-TYPE
  HISPANIC OR LATINO                                39
  NOT HISPANIC OR LATINO                           544
[1] 2 2
[1] FALSE
